Reconstructing sequence evolution over a tree by annealing V.1.0.7 (C)L.Rubanov, 2008 -b0 -c0.01 -d100 -e10 -f1000 -i0 -l0.2 -m250216(0x3D168) -n1000 -o98(0x62) -p1.5 -q1 -r5 -minh9 -minl3 -maxl40 -maxb4 -maxi2 -minp2 -s18(0x12) -t0 -v0.01 -w14 -x0 -z1259606984 -ymhc2 -yovl5 -ytlp20 -ytol30 -ytug6 -yugp3 -yura3 -yutl20 -j0 -ch0 #1860: Htotal=1154.3 Iter=7713935 Time=769595 Paths Best N01 (-)Hpar=0(0,0) L=75 hel=2 Ura=68(4) T=1 AT=1 Pair=1 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc (2-13,42-54)L12 G=-12.3 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc (40-50,58-71)L11 G=-14.5 N02 (N01)Hpar=36.9(40.11,-15.84) L=75 hel=4 Ura=67(9) T=2 AT=2 Pair=4 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt (2-14,41-54)L13 G=-15.3 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt (8-19,38-47)L10 G=-10.4 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt (34-50,58-74)L16 G=-20.9 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt (40-52,60-68)L9 G=-7.8 N03 (N02)Hpar=58.0(63.87,-29.52) L=74 hel=3 Ura=66(8) T=2 AT=1 Pair=2 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaagatgcgggctttttttta (1-14,41-55)L14 G=-16.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaagatgcgggctttttttta (34-50,57-73)L17 G=-26.4 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaagatgcgggctttttttta (34-52,59-73)L15 G=-17.9 N04 (N03)Hpar=34.3(42.58,-41.20) L=74 hel=3 Ura=66(8) T=2 AT=1 Pair=2 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaaaatgcgggctttttttta (1-14,41-52)L12 G=-14.8 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaaaatgcgggctttttttta (34-48,59-73)L15 G=-20.4 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaaaatgcgggctttttttta (34-52,59-73)L15 G=-17.4 N05 (N04)Hpar=69.2(76.65,-37.10) L=72 hel=3 Ura=64(8) T=2 AT=1 Pair=2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggctttttttta (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggctttttttta (33-48,56-71)L16 G=-23.8 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggctttttttta (33-50,55-71)L17 G=-20.9 N06 (N05)Hpar=-2.0(8.10,-50.30) L=72 hel=3 Ura=64(9) T=2 AT=1 Pair=2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttt (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttt (33-48,56-71)L16 G=-23.8 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttt (33-50,55-71)L17 G=-20.9 N07 (N06)Hpar=-4.2(5.83,-50.30) L=72 hel=3 Ura=64(8) T=2 AT=1 Pair=2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttc (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttc (33-48,56-71)L16 G=-23.8 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttc (33-50,55-71)L17 G=-20.9 N08 (N06)Hpar=-4.2(5.83,-50.30) L=72 hel=3 Ura=64(9) T=2 AT=1 Pair=2 taacggtgcgggctgacgcgtacaggaaatacagaaaaaagcccgcacctgaacagtgcgggcttttttttt (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaatacagaaaaaagcccgcacctgaacagtgcgggcttttttttt (33-48,56-71)L16 G=-23.8 taacggtgcgggctgacgcgtacaggaaatacagaaaaaagcccgcacctgaacagtgcgggcttttttttt (33-50,55-71)L17 G=-20.9 N09 (N04)Hpar=57.0(60.92,-19.69) L=74 hel=4 Ura=65(8) T=2 AT=2 Pair=4 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgcactcaacaaaaagcgggtttttttata (5-14,39-50)L10 G=-8.7 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgcactcaacaaaaagcgggtttttttata (2-14,41-51)L11 G=-12.0 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgcactcaacaaaaagcgggtttttttata (31-47,60-73)L14 G=-14.6 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgcactcaacaaaaagcgggtttttttata (37-50,59-70)L12 G=-13.2 N10 (N09)Hpar=49.8(55.51,-28.54) L=74 hel=3 Ura=65(8) T=2 AT=1 Pair=2 aatggtgcgggttagtactggcaaaaaaaatgaacaaaaaacccgcaactcaactaaaagcgggtttttttata (3-13,40-52)L11 G=-10.1 aatggtgcgggttagtactggcaaaaaaaatgaacaaaaaacccgcaactcaactaaaagcgggtttttttata (30-46,60-73)L14 G=-14.5 aatggtgcgggttagtactggcaaaaaaaatgaacaaaaaacccgcaactcaactaaaagcgggtttttttata (36-50,59-70)L12 G=-12.8 N11 (N10)Hpar=27.9(35.51,-38.29) L=73 hel=3 Ura=64(8) T=2 AT=1 Pair=2 aatggtgcgggttagtacggcaaaaaaaagaaacaaaaaacccgcaactcaactgaaagcgggtttttttata (3-13,39-51)L11 G=-10.1 aatggtgcgggttagtacggcaaaaaaaagaaacaaaaaacccgcaactcaactgaaagcgggtttttttata (35-45,59-69)L11 G=-14.2 aatggtgcgggttagtacggcaaaaaaaagaaacaaaaaacccgcaactcaactgaaagcgggtttttttata (35-49,58-69)L12 G=-12.8 N12 (N03)Hpar=35.9(44.06,-41.06) L=74 hel=2 Ura=67(7) T=1 AT=1 Pair=1 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaacaagatacaggccttttttta (1-14,41-55)L14 G=-13.5 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaacaagatacaggccttttttta (34-50,57-73)L17 G=-25.5 N13 (N12)Hpar=-4.9(7.34,-61.26) L=74 hel=2 Ura=67(7) T=1 AT=1 Pair=1 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaataagatacaggccttttttta (1-14,41-55)L14 G=-12.1 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaataagatacaggccttttttta (34-50,57-73)L17 G=-25.5 AB (N11)Hpar=102.6(103.87,-6.24) L=71 hel=2 Ura=62(8) T=1 AT=1 Pair=1 aatggggcgggctagtgcgttgaagaatagaattcatgaacccgcatttcccgagagcgggtttttttatg (3-11,41-53)L9 G=-8.5 aatggggcgggctagtgcgttgaagaatagaattcatgaacccgcatttcccgagagcgggtttttttatg (38-49,53-64)L11 G=-11.2 EC (N07)Hpar=15.9(25.80,-49.55) L=71 hel=2 Ura=63(9) T=1 AT=1 Pair=1 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgacagtgcgggcttttttttt (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgacagtgcgggcttttttttt (33-48,55-70)L16 G=-24.4 EO (N08)Hpar=60.9(68.77,-39.54) L=70 hel=2 Ura=62(9) T=1 AT=1 Pair=1 taacggtgcgggctgacgcatacaaagattccagaaaaagcccgcaccgaacagtgcgggcttttttttt (4-14,39-49)L11 G=-16.7 taacggtgcgggctgacgcatacaaagattccagaaaaagcccgcaccgaacagtgcgggcttttttttt (33-47,54-68)L15 G=-22.9 HI (N11)Hpar=46.2(52.54,-31.84) L=74 hel=2 Ura=65(8) T=1 AT=1 Pair=1 aatggtgcgggttagtgcagcaaaaacaagatacagaaaacccgcgattcaactgaatagcgggtttttttata (3-13,39-51)L11 G=-9.6 aatggtgcgggttagtgcagcaaaaacaagatacagaaaacccgcgattcaactgaatagcgggtttttttata (35-50,55-70)L15 G=-19.4 KP (N05)Hpar=9.5(17.76,-41.35) L=72 hel=2 Ura=62(9) T=1 AT=1 Pair=1 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcggtttttttttga (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcggtttttttttga (32-48,56-71)L16 G=-18.6 PQ (N10)Hpar=103.9(105.59,-8.65) L=74 hel=2 Ura=65(8) T=1 AT=1 Pair=1 catagtgcgggttttaattggctgaaataatgaaagaataaaccgaaaacccgctacaagcgggtttttttgta (7-21,43-54)L12 G=-13.3 catagtgcgggttttaattggctgaaataatgaaagaataaaccgaaaacccgctacaagcgggtttttttgta (38-55,59-73)L15 G=-16.9 SON (N02)Hpar=55.6(60.73,-25.78) L=75 hel=2 Ura=67(8) T=1 AT=1 Pair=1 agtgggggcgggctgatacaccctaaagaatttaacgacgagcccgcttcccacaaagaagcgggcttttttgtt (2-14,41-54)L13 G=-16.2 agtgggggcgggctgatacaccctaaagaatttaacgacgagcccgcttcccacaaagaagcgggcttttttgtt (37-50,58-75)L14 G=-17.1 TY (N07)Hpar=-7.8(2.14,-49.55) L=72 hel=2 Ura=64(8) T=1 AT=1 Pair=1 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttc (5-14,40-49)L10 G=-14.2 taacggtgcgggctgacgcgtacaggaaacacagaaaaaagcccgcacctgaacagtgcgggcttttttttc (33-48,56-71)L16 G=-23.8 VC (N13)Hpar=54.4(63.93,-47.46) L=73 hel=2 Ura=66(7) T=1 AT=1 Pair=1 tgttggggcaggctgctgagcgcaaaatttcacaaaaaaggcctgtatcccaaccgatacaggccttttttta (2-14,40-54)L13 G=-14.9 tgttggggcaggctgctgagcgcaaaatttcacaaaaaaggcctgtatcccaaccgatacaggccttttttta (34-49,56-71)L16 G=-24.0 VK (N09)Hpar=147.9(150.13,-11.33) L=80 hel=2 Ura=71(8) T=1 AT=1 Pair=1 atagtgtgcgggttagtgcgtaacaaaaagatcgaattccacaaaacccgtactgaataaaaagtgcgggtttttttatg (6-14,45-53)L9 G=-9.3 atagtgtgcgggttagtgcgtaacaaaaagatcgaattccacaaaacccgtactgaataaaaagtgcgggtttttttatg (43-54,63-74)L12 G=-16.0 VP (N12)Hpar=-1.8(9.60,-57.06) L=74 hel=2 Ura=67(7) T=1 AT=1 Pair=1 tgttggggcaggctgctgagcgaaagaaattcacaaaaaaggcctgtatccaacaagatacaggccttttttta (1-14,41-55)L14 G=-13.5 tgttggggcaggctgctgagcgaaagaaattcacaaaaaaggcctgtatccaacaagatacaggccttttttta (35-50,57-72)L16 G=-24.0 VV (N13)Hpar=43.3(55.54,-61.26) L=77 hel=2 Ura=70(7) T=1 AT=1 Pair=1 tgttggggcaggctgctgagcgaaagaacaaatttcaaaaaaaggcctgtatccaacaagatacaggccttttttta (1-14,44-58)L14 G=-13.4 tgttggggcaggctgctgagcgaaagaacaaatttcaaaaaaaggcctgtatccaacaagatacaggccttttttta (37-53,60-76)L17 G=-25.5 XCA (N01)Hpar=140.4(140.64,-1.43) L=80 hel=2 Ura=73(3) T=1 AT=1 Pair=1 gcccggtgcggtccgtcgtcttcgcgtaacttccgaaaacaacggccccgcacccggatcaggatgcgggggtctccctc (5-13,44-54)L9 G=-8.8 gcccggtgcggtccgtcgtcttcgcgtaacttccgaaaacaacggccccgcacccggatcaggatgcgggggtctccctc (46-54,62-71)L9 G=-10.9 YP (N08)Hpar=39.4(48.83,-47.35) L=73 hel=2 Ura=65(9) T=1 AT=1 Pair=1 ttacggggcgggctgacgcgtacaggaaacaatagaaaaaagcccgcacctagacagtgcgggcttttttttt (5-14,41-50)L9 G=-10.8 ttacggggcgggctgacgcgtacaggaaacaatagaaaaaagcccgcacctagacagtgcgggcttttttttt (34-49,57-72)L16 G=-23.8 Overall H=1154.262 H1=1352.179 H3=-989.581 λ=0.2 Path from leaves over similar helices: Top Best ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgca-tccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgca-tccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgca-tccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgca-cccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-24.6 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgca-ctcaacaa-aaagcgggtttttttata N09:(2-14,41-51)L11;(37-50,59-70)L12 H3=-39.0 a-atggtgcgggttagtactggcaaaaaaaatgaacaaaaaacccgcaactcaacta-aaagcgggtttttttata N10:(3-13,40-52)L11;(36-50,59-70)L12 H3=-51.0 a-atggtgcgggttagtac-ggcaaaaaaaagaaacaaaaaacccgcaactcaactg-aaagcgggtttttttata N11:(3-13,39-51)L11;(35-49,58-69)L12 H3=-6.2 a-atggggcgggctagtgc-gttgaagaatagaattcatgaacccgcatttc--ccg-agagcgggtttttttatg AB:(3-11,41-53)L9;(38-49,53-64)L11 Σ=-240.5 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-38.2 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggctttttttta N05:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttt N06:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttc N07:(5-14,40-49)L10;(33-50,55-71)L17 H3=-47.0 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga--c-agtgcgggcttttttttt EC:(5-14,40-49)L10;(33-48,55-70)L16 Σ=-315.0 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-38.2 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggctttttttta N05:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttt N06:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaata-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttt N08:(5-14,40-49)L10;(33-50,55-71)L17 H3=-37.0 taacggtgcgggctgacgcatacaaagattc-cagaaaaa-gcccgcacc-ga-ac-agtgcgggcttttttttt EO:(4-14,39-49)L11;(33-47,54-68)L15 Σ=-305.0 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgca-tccaataaaga-tgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgca-tccaacaaaga-tgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgca-tccaacaa-ga-tgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgca-cccaacaa-aa-tgcgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-24.6 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgca-ctcaacaa-aa-agcgggtttttttata N09:(2-14,41-51)L11;(37-50,59-70)L12 H3=-39.0 a-atggtgcgggttagtactggcaaaaaaaatgaacaaaaaacccgcaactcaacta-aa-agcgggtttttttata N10:(3-13,40-52)L11;(36-50,59-70)L12 H3=-51.0 a-atggtgcgggttagtac-ggcaaaaaaaagaaacaaaaaacccgcaactcaactg-aa-agcgggtttttttata N11:(3-13,39-51)L11;(35-49,58-69)L12 H3=-35.0 a-atggtgcgggttagtgc-agcaaaaacaagatacagaaaacccgcgattcaactg-aatagcgggtttttttata HI:(3-13,39-51)L11;(35-50,55-70)L15 Σ=-269.3 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-38.8 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-48,59-73)L15 H3=-38.0 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggctttttttta N05:(5-14,40-49)L10;(33-48,56-71)L16 H3=-43.8 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcggtttttttttga KP:(5-14,40-49)L10;(32-48,56-71)L16 Σ=-201.2 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgca-tccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgca-tccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgca-tccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-38.8 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgca-cccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-48,59-73)L15 H3=-27.8 agatggtgcgggttagtgctgacaaaaaaaatgaacaaaaaacccgca-ctcaacaa-aaagcgggtttttttata N09:(2-14,41-51)L11;(31-47,60-73)L14 H3=-46.0 a-atggtgcgggttagtactggcaaaaaaaatgaacaaaaaacccgcaactcaacta-aaagcgggtttttttata N10:(3-13,40-52)L11;(30-46,60-73)L14 H3=-8.6 c-atagtgcgggttttaattggctgaaataatgaaagaataaaccgaaaacccgcta-caagcgggtttttttgta PQ:(7-21,43-54)L12;(38-55,59-73)L15 Σ=-201.9 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-41.1 agtgggggcgggctgatacaccctaaagaatttaacgacgagcccgcttcccacaaagaagcgggcttttttgtt SON:(2-14,41-54)L13;(37-50,58-75)L14 Σ=-70.3 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-38.2 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggctttttttta N05:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttt N06:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttc N07:(5-14,40-49)L10;(33-50,55-71)L17 H3=-47.0 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttc TY:(5-14,40-49)L10;(33-48,56-71)L16 Σ=-315.0 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-45.1 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaacaa-gatacaggccttttttta N12:(1-14,41-55)L14;(34-50,57-73)L17 H3=-61.3 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaataa-gatacaggccttttttta N13:(1-14,41-55)L14;(34-50,57-73)L17 H3=-47.5 tgttggggcaggctgctgagcgcaa-aatttcacaaaaaaggcctgtatcccaacc-gatacaggccttttttta VC:(2-14,40-54)L13;(34-49,56-71)L16 Σ=-234.3 ggttggggcgggccgctgt-cttcgaaaaattttaa---tgacgagcccgcatccaataaagatg--cgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgt-actcaaaaaattttaa---agacgagcccgcatccaacaaagatg--cgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgc-gcacaagaaattccaa---aaaaaagcccgcatccaacaa-gatg--cgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgc-gcacaagaaaaatcag---aaaaaagcccgcacccaacaa-aatg--cgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-24.6 agatggtgcgggttagtgc-tgacaaaaaaaatgaa---caaaaaacccgcactcaacaa-aaag--cgggtttttttata N09:(2-14,41-51)L11;(37-50,59-70)L12 H3=-19.4 atagtgtgcgggttagtgcgtaacaaaaagatcgaattccacaaaacccgtactgaataa-aaagtgcgggtttttttatg VK:(6-14,45-53)L9;(43-54,63-74)L12 Σ=-163.6 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-45.1 tgttggggcaggctgctgagcgaaagaaattcaaaaaaaaggcctgtatccaacaa-gatacaggccttttttta N12:(1-14,41-55)L14;(34-50,57-73)L17 H3=-57.1 tgttggggcaggctgctgagcgaaagaaattcacaaaaaaggcctgtatccaacaa-gatacaggccttttttta VP:(1-14,41-55)L14;(35-50,57-72)L16 Σ=-182.6 ggttggggcgggccgctgtcttcgaaaa---attttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaa---attttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaa---attccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-45.1 tgttggggcaggctgctgagcgaaagaa---attcaaaaaaaaggcctgtatccaacaa-gatacaggccttttttta N12:(1-14,41-55)L14;(34-50,57-73)L17 H3=-61.3 tgttggggcaggctgctgagcgaaagaa---attcaaaaaaaaggcctgtatccaataa-gatacaggccttttttta N13:(1-14,41-55)L14;(34-50,57-73)L17 H3=-61.3 tgttggggcaggctgctgagcgaaagaacaaatttcaaaaaaaggcctgtatccaacaa-gatacaggccttttttta VV:(1-14,44-58)L14;(37-53,60-76)L17 Σ=-248.1 ggttggggcgggccgctgtcttcgaaaaatttt----aatgacgagcccgcatcca-ataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-1.4 gcccggtgcggtccgtcgtcttcgcgtaacttccgaaaacaacggccccgcacccggatcaggatgcgggggtctccctc XCA:(5-13,44-54)L9;(46-54,62-71)L9 Σ=-1.4 ggttggggcgggccgctgtcttcgaaaaattttaatgacgagcccgcatccaataaagatgcgggcatttccctc N01:(2-13,42-54)L12;(40-50,58-71)L11 H3=-29.2 ggttggggcgggctgctgtactcaaaaaattttaaagacgagcccgcatccaacaaagatgcgggcttttttttt N02:(2-14,41-54)L13;(34-50,58-74)L16 H3=-51.3 tgttggggcgggctgctgcgcacaagaaattccaaaaaaaagcccgcatccaacaa-gatgcgggctttttttta N03:(1-14,41-55)L14;(34-50,57-73)L17 H3=-39.1 tgatggtgcgggctgatgcgcacaagaaaaatcagaaaaaagcccgcacccaacaa-aatgcgggctttttttta N04:(1-14,41-52)L12;(34-52,59-73)L15 H3=-38.2 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggctttttttta N05:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaaca-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttt N06:(5-14,40-49)L10;(33-50,55-71)L17 H3=-55.1 taacggtgcgggctgacgcgtacaggaaata-cagaaaaaagcccgcacctga-ac-agtgcgggcttttttttt N08:(5-14,40-49)L10;(33-50,55-71)L17 H3=-44.8 ttacggggcgggctgacgcgtacaggaaacaatagaaaaaagcccgcacctag-ac-agtgcgggcttttttttt YP:(5-14,41-50)L9;(34-49,57-72)L16 Σ=-312.8 Total H3 over all paths: -3060.954 Path total/root: 14/14 Top Best Multiple alignment: a-atggggcgggctagtgc--gttgaaga---ataga----at---tcatgaacccgcatttc---ccg-ag-ag--cgggtttttttatg AB taacggtgcgggctgacgc-gtacaggaa---aca-c----ag---aaaaaagcccgca-cctg-a--c-ag-tg--cgggcttttttttt EC taacggtgcgggctgacgc-atacaaaga---ttc-c----ag---aaaaa-gcccgca-cc-g-a-ac-ag-tg--cgggcttttttttt EO a-atggtgcgggttagtgc--agcaaaaa---caaga----ta---cagaaaacccgcgattca-actg-aatag--cgggtttttttata HI taacggtgcgggctgacgc-gtacaggaa---aca-c----ag---aaaaaagcccgca-cctg-a-ac-ag-tg--cggtttttttttga KP c-atagtgcgggttttaat-tggctgaaa---taatg----aa---agaataaaccgaaaaccc-gcta-ca-ag--cgggtttttttgta PQ agtgggggcgggctgatac-accctaaag---aattt----aa---cgacgagcccgct-tccc-acaaaga-ag--cgggcttttttgtt SON taacggtgcgggctgacgc-gtacaggaa---aca-c----ag---aaaaaagcccgca-cctg-a-ac-ag-tg--cgggcttttttttc TY tgttggggcaggctgctga-gcgcaa-aa---tttca----ca---aaaaaggcctgta-tccc-aacc-ga-ta--caggccttttttta VC atagtgtgcgggttagtgcgtaacaaaaa---gatcg----aattccacaaaacccgta-ctga-ataa-aa-agtgcgggtttttttatg VK tgttggggcaggctgctga-gcgaaagaa---attca----ca---aaaaaggcctgta-tcca-acaa-ga-ta--caggccttttttta VP tgttggggcaggctgctga-gcgaaagaacaaatttc----aa---aaaaaggcctgta-tcca-acaa-ga-ta--caggccttttttta VV gcccggtgcggtccgtcgt-cttcgcgta---acttccgaaaa---caacggccccgca-cccggatcagga-tg--cgggggtctccctc XCA ttacggggcgggctgacgc-gtacaggaa---acaat----ag---aaaaaagcccgca-ccta-g-ac-ag-tg--cgggcttttttttt YP