Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 303 of 325
Found at i:96233699 original size:5 final size:5
Alignment explanation
Indices: 96233689--96233720 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96233679 TTGTGTGTTC
96233689 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
96233721 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:96233703 original size:9 final size:9
Alignment explanation
Indices: 96233689--96233719 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
96233679 TTGTGTGTTC
96233689 TTTATTTTA
1 TTTATTTTA
96233698 TTTATTTTA
1 TTTATTTTA
96233707 TTTTATTTTA
1 -TTTATTTTA
96233717 TTT
1 TTT
96233720 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:96239887 original size:35 final size:35
Alignment explanation
Indices: 96239848--96239920 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
96239838 GGTATGTGAT
96239848 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
96239883 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
96239918 ATA
1 ATA
96239921 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:96241767 original size:5 final size:5
Alignment explanation
Indices: 96241757--96241793 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
96241747 TTGTCTGTTC
96241757 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
96241794 TCACAGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:96247726 original size:117 final size:117
Alignment explanation
Indices: 96247540--96247773 Score: 452
Period size: 117 Copynumber: 2.0 Consensus size: 117
96247530 CTAGTGGACT
96247540 TAGATGATAATTAAAACATATATTAAGATAGTGGATTGTGATGGAAAGGTTCTTTTTGTGATTTA
1 TAGATGATAATTAAAACATATATTAAGATAGTGGATTGTGATGGAAAGGTTCTTTTTGTGATTTA
96247605 ATAGATTTTAAAGGTTAGTTTAGTAATTAAATAAATTAAGTTCAAATTAATA
66 ATAGATTTTAAAGGTTAGTTTAGTAATTAAATAAATTAAGTTCAAATTAATA
96247657 TAGATGATAATTAAAACATATATTAAGATAGTGGATTGTGATGGAAAGGTTC-TTTTGTGATTTT
1 TAGATGATAATTAAAACATATATTAAGATAGTGGATTGTGATGGAAAGGTTCTTTTTGTGA-TTT
96247721 AATAGATTTTAAAGGTTAGTTTAGTAATTAAATAAATTAAGTTCAAATTAATA
65 AATAGATTTTAAAGGTTAGTTTAGTAATTAAATAAATTAAGTTCAAATTAATA
96247774 AAATAAAGAT
Statistics
Matches: 116, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
116 8 0.07
117 108 0.93
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (117 bp):
TAGATGATAATTAAAACATATATTAAGATAGTGGATTGTGATGGAAAGGTTCTTTTTGTGATTTA
ATAGATTTTAAAGGTTAGTTTAGTAATTAAATAAATTAAGTTCAAATTAATA
Found at i:96250948 original size:30 final size:31
Alignment explanation
Indices: 96250900--96250957 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
96250890 TATGATTTGC
96250900 CTTATTATTTTAATATGATTTGGATGGACGG
1 CTTATTATTTTAATATGATTTGGATGGACGG
*
96250931 CTTATTATTTT-ATATGATTTGGTTGGA
1 CTTATTATTTTAATATGATTTGGATGGA
96250958 AATTGATACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (31 bp):
CTTATTATTTTAATATGATTTGGATGGACGG
Found at i:96252543 original size:6 final size:6
Alignment explanation
Indices: 96252528--96252590 Score: 119
Period size: 6 Copynumber: 10.7 Consensus size: 6
96252518 TGGAAAATGA
96252528 ATTG-G ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG
1 ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG
96252575 ATTGTG ATTGTG ATTG
1 ATTGTG ATTGTG ATTG
96252591 AGAGTTGTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 4 0.07
6 53 0.93
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.49
Consensus pattern (6 bp):
ATTGTG
Found at i:96253390 original size:51 final size:51
Alignment explanation
Indices: 96253330--96253430 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
96253320 AATGACTTGA
96253330 ATTGATTTTACCATTGATATTATATACCTTGTGCCAATTTAATAATGCATT
1 ATTGATTTTACCATTGATATTATATACCTTGTGCCAATTTAATAATGCATT
96253381 ATTGATTTTACCATTGATATTATATACCTTGTGCCAATTTAATAATGCAT
1 ATTGATTTTACCATTGATATTATATACCTTGTGCCAATTTAATAATGCAT
96253431 CTCATTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (51 bp):
ATTGATTTTACCATTGATATTATATACCTTGTGCCAATTTAATAATGCATT
Found at i:96261917 original size:18 final size:17
Alignment explanation
Indices: 96261896--96261938 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
96261886 GTATCTATTT
96261896 TTTATAATTTTTTTATAA
1 TTTATAATTTTTTTA-AA
*
96261914 TTTATCTATTTTTTTAAA
1 TTTAT-AATTTTTTTAAA
*
96261932 TGTATAA
1 TTTATAA
96261939 ATTTCAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 11 0.52
19 9 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTATAATTTTTTTAAA
Found at i:96264248 original size:37 final size:37
Alignment explanation
Indices: 96264198--96264276 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
96264188 TTATTACGAA
* * *
96264198 GTCTTACCCGGACATAATCTCCACACGAAGTTATAGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
* *
96264235 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
96264272 GTCTT
1 GTCTT
96264277 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATAGG
Found at i:96264473 original size:47 final size:47
Alignment explanation
Indices: 96264398--96264856 Score: 758
Period size: 47 Copynumber: 9.7 Consensus size: 47
96264388 TTCGGGACTA
* * * * * * *
96264398 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
96264445 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGACCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
96264492 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
96264539 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
96264586 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
96264635 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
96264684 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
96264731 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
96264778 ATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
96264825 ATCACATATATGCA-TGTTCACATCCATCACAT
1 ATCACATATATACACT-TTCACATTCATCACAT
96264857 AGAATCCTAA
Statistics
Matches: 395, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 298 0.75
49 96 0.24
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:96264825 original size:239 final size:237
Alignment explanation
Indices: 96264398--96264835 Score: 777
Period size: 239 Copynumber: 1.8 Consensus size: 237
96264388 TTCGGGACTA
* * * *
96264398 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTT
1 ATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTT
96264463 CACATTCATCACATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGC
96264528 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
131 CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
96264593 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
196 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* * *
96264635 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACT
*
96264700 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
64 TTCACATTCATCACATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCG
*
96264765 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCAC
129 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
96264830 ATATAT
194 ATATAT
96264836 GCATGTTCAC
Statistics
Matches: 190, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
237 7 0.04
238 1 0.01
239 182 0.96
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (237 bp):
ATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:96271493 original size:25 final size:24
Alignment explanation
Indices: 96271464--96271511 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
96271454 TTATTCCATA
96271464 CTTTTTGTTTAAAAATTTTCTTTAG
1 CTTTTTGTTTAAAAA-TTTCTTTAG
96271489 CTTTTTGTTTAAAAATTTCTTTA
1 CTTTTTGTTTAAAAATTTCTTTA
96271512 TATTTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.60
Consensus pattern (24 bp):
CTTTTTGTTTAAAAATTTCTTTAG
Found at i:96271502 original size:24 final size:25
Alignment explanation
Indices: 96271464--96271511 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
96271454 TTATTCCATA
*
96271464 CTTTTTGTTTAAAAATTTTCTTTAG
1 CTTTTTGTTTAAAAAATTTCTTTAG
96271489 CTTTTTGTTT-AAAAATTTCTTTA
1 CTTTTTGTTTAAAAAATTTCTTTA
96271512 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.60
Consensus pattern (25 bp):
CTTTTTGTTTAAAAAATTTCTTTAG
Found at i:96271517 original size:24 final size:25
Alignment explanation
Indices: 96271465--96271518 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
96271455 TATTCCATAC
*
96271465 TTTTTGTTTAAAAATTTTCTTTAGC
1 TTTTTGTTTAAAAATTTTCTTTAGA
*
96271490 TTTTTGTTTAAAAA-TTTCTTTATA
1 TTTTTGTTTAAAAATTTTCTTTAGA
96271514 TTTTT
1 TTTTT
96271519 AATGTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (25 bp):
TTTTTGTTTAAAAATTTTCTTTAGA
Found at i:96271549 original size:36 final size:36
Alignment explanation
Indices: 96271508--96271603 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 36
96271498 TAAAAATTTC
96271508 TTTATATTTTTAATGTTATAATATTGTT-TTAAATAA
1 TTTATATTTTTAATGTTATAATATT-TTATTAAATAA
* * *
96271544 TTTATATCTTTT--TGTTTTAAGATTTTACTTAATTAA
1 TTTATAT-TTTTAATGTTATAATATTTTA-TTAAATAA
* *
96271580 ATTA-ACTTTTAATGTTATAATATT
1 TTTATATTTTTAATGTTATAATATT
96271604 AAAATTAATG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
34 6 0.12
35 11 0.23
36 27 0.56
37 4 0.08
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (36 bp):
TTTATATTTTTAATGTTATAATATTTTATTAAATAA
Found at i:96286523 original size:5 final size:5
Alignment explanation
Indices: 96286513--96286545 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
96286503 TCAAGAAACC
96286513 CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT CTC
1 CTCAT CTCAT CTCAT CTCAT CTCAT CTCAT CTC
96286546 CCCTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (5 bp):
CTCAT
Found at i:96298824 original size:24 final size:24
Alignment explanation
Indices: 96298796--96298843 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
96298786 AATATGAAAG
96298796 AAAGAAAATTTGAAAACATCACTA
1 AAAGAAAATTTGAAAACATCACTA
*
96298820 AAAGAAAATTTGAAAACATGACTA
1 AAAGAAAATTTGAAAACATCACTA
96298844 TACAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.21
Consensus pattern (24 bp):
AAAGAAAATTTGAAAACATCACTA
Found at i:96298912 original size:26 final size:25
Alignment explanation
Indices: 96298854--96298912 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
96298844 TACAAACAAT
* *
96298854 ATAAAAATTTTAAAACAAGTAATAG
1 ATAAAAAGTTTAAAACAAGTAAAAG
* *
96298879 ATATAAAAGTTTAAAATAGGTAAAAAG
1 ATA-AAAAGTTTAAAACAAGT-AAAAG
96298906 ATAAAAA
1 ATAAAAA
96298913 TAAATAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.11
26 18 0.64
27 7 0.25
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (25 bp):
ATAAAAAGTTTAAAACAAGTAAAAG
Found at i:96299826 original size:22 final size:24
Alignment explanation
Indices: 96299777--96299822 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
96299767 CTTTTTTTGT
96299777 TATTATTATATT-TTTTAATATTA
1 TATTATTATATTCTTTTAATATTA
96299800 TATTATATATATTCTTTTAATAT
1 TATTAT-TATATTCTTTTAATAT
96299823 ATTAGGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATATTCTTTTAATATTA
Found at i:96299868 original size:23 final size:24
Alignment explanation
Indices: 96299777--96299908 Score: 94
Period size: 23 Copynumber: 5.7 Consensus size: 24
96299767 CTTTTTTTGT
* * *
96299777 TATTAT-TATATTTTTTAATATTA
1 TATTATGTATATATATTAATACTA
* * * *
96299800 TATTATATATAT-TCTT-TTAATA
1 TATTATGTATATATATTAATACTA
* * * *
96299822 TATTAGGTATAT-TCTAAATTCTA
1 TATTATGTATATATATTAATACTA
96299845 TATTATGTATATATATT-ATACTA
1 TATTATGTATATATATTAATACTA
* *
96299868 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATAT-ATTAATACTA
*
96299893 TATTATTTATATATAT
1 TATTATGTATATATAT
96299909 ATTTTTTTTC
Statistics
Matches: 86, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
22 17 0.20
23 41 0.48
24 10 0.12
25 18 0.21
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
TATTATGTATATATATTAATACTA
Found at i:96299902 original size:29 final size:27
Alignment explanation
Indices: 96299869--96299980 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 27
96299859 ATTATACTAT
96299869 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAAT-CTATATTA
* ** *
96299898 TTTATATATATATTTTTTTTCTACATGTTA
1 TTTATGTATATA-TTTTAATCT--ATATTA
96299928 TCTTATGTATATATTTTAAT-TATATTA
1 T-TTATGTATATATTTTAATCTATATTA
*
96299955 TGTATGTAT-T-TTTTACA-CTATATTA
1 TTTATGTATATATTTTA-ATCTATATTA
96299980 T
1 T
96299981 GTACATATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.07
25 10 0.15
26 7 0.10
27 6 0.09
28 2 0.03
29 16 0.24
30 12 0.18
31 10 0.15
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTATGTATATATTTTAATCTATATTA
Found at i:96299955 original size:22 final size:23
Alignment explanation
Indices: 96299925--96299991 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
96299915 TTTCTACATG
*
96299925 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
96299947 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
96299972 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
96299992 TTTTCATACA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:96311165 original size:12 final size:13
Alignment explanation
Indices: 96311147--96311179 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
96311137 GGCATCTTAA
96311147 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
96311160 -AAAAGA-AAAAG
1 AAAAAGAGAAAAG
96311171 AAAAAGAGA
1 AAAAAGAGA
96311180 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.28
12 12 0.67
13 1 0.06
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:96312214 original size:13 final size:13
Alignment explanation
Indices: 96312193--96312236 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
96312183 CGCCGAGGTA
96312193 TTTTTAATTT-TG
1 TTTTTAATTTCTG
96312205 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
96312219 CTTTTAATTTCTG
1 TTTTTAATTTCTG
96312232 TTTTT
1 TTTTT
96312237 CAAAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 5 0.18
13 17 0.61
14 6 0.21
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:96312306 original size:99 final size:100
Alignment explanation
Indices: 96312105--96312499 Score: 453
Period size: 99 Copynumber: 4.1 Consensus size: 100
96312095 CGCTGAGGTA
* ** *
96312105 TTTTCAATTTCCGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCT
1 TTTTCAATTTCTGCCTTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * *
96312170 GAGCCTCGGGGCACGCCGAGGTATTTTTAATTTTGT
65 GAGCCTCAGGACACGCTGAGGTATTTTCAATTTTGT
* *
96312206 TTTTCAATTTCTG-CTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGCCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
96312270 AGCCTCAGG-CACGCTGAGGTATTTTCAATTTCTGT
66 AGCCTCAGGACACGCTGAGGTATTTTCAATTT-TGT
* ** * *
96312305 TTTTCAATTTTTGCCTTACAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGCCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
96312368 AGCCTCAGGACACGCTGAGGTATTTTCAA------
66 AGCCTCAGGACACGCTGAGGTATTTTCAATTTTGT
* ** *
96312397 TTTTC-A-TT-T---TTTTAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTT
1 TTTTCAATTTCTGCCTTTTAATTTATGCTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
96312456 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
65 GAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTTGT
*
96312493 TTGTCAA
1 TTTTCAA
96312500 AACTCAACTC
Statistics
Matches: 257, Mismatches: 23, Indels: 32
0.82 0.07 0.10
Matches are distributed among these distances:
86 10 0.04
87 1 0.00
89 58 0.23
90 2 0.01
91 1 0.00
92 5 0.02
96 4 0.02
97 1 0.00
98 59 0.23
99 85 0.33
100 19 0.07
101 12 0.05
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (100 bp):
TTTTCAATTTCTGCCTTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGGTATTTTCAATTTTGT
Found at i:96312526 original size:73 final size:72
Alignment explanation
Indices: 96312425--96312975 Score: 742
Period size: 73 Copynumber: 7.6 Consensus size: 72
96312415 ATGTTTCTAA
* * * *
96312425 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
96312490 TGTTTGTC
66 TGTTT-TC
* * *
96312498 AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
96312563 TGTTTTTC
66 TG-TTTTC
* * * *
96312571 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
96312636 TTTG-TTT-
64 TTTGTTTTC
*
96312643 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
96312708 TGTTTTAA
66 TGTTTT-C
* *
96312716 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
96312781 T-TTTTC
66 TGTTTTC
* *
96312787 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTA-TTTCAA-T
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
96312848 TTT-TTTTC
64 TTTGTTTTC
96312856 AAAAAAATC-ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
*
96312920 TCTGTCTTTC
64 TTTGT-TTTC
* *
96312930 AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
96312976 GCTGAGTGTT
Statistics
Matches: 432, Mismatches: 30, Indels: 29
0.88 0.06 0.06
Matches are distributed among these distances:
68 32 0.07
69 18 0.04
70 78 0.18
71 19 0.04
72 7 0.02
73 169 0.39
74 7 0.02
75 69 0.16
76 33 0.08
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
TGTTTTC
Found at i:96313111 original size:15 final size:14
Alignment explanation
Indices: 96313075--96313107 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
96313065 CGCTGAGGTA
96313075 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
96313089 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
96313103 TTTTC
1 TTTTC
96313108 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:96313218 original size:180 final size:175
Alignment explanation
Indices: 96312911--96313450 Score: 574
Period size: 180 Copynumber: 3.0 Consensus size: 175
96312901 CGTTGAGGTA
* * * * *
96312911 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGA
1 TTTTCAATTTATG-CTTTC-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* * * *
96312975 CGCTGAGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGA
64 CGCTGAGTATTTTCAATTTCTGTTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTGCGA
*
96313040 GTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
127 GAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
* *
96313089 TTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGACA
1 TTTTC-AATTTATG-CTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
*
96313153 CGCTGAGATATTTTCAATTTCTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGC
64 CGCTGAG-TATTTTCAATTTC-TGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGC
* * *
96313218 GAGAGGTGAGTTGAGCCTCAGA-TCACACGCCGAGGTATTTTCAATTGATT-TTT
125 GAGAGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCAA---ATTCTGT
* * *
96313271 TTTTCAATTTATGCTTTGC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTTATGCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG--AC
** * ** *
96313335 ATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGCG
63 ACGCTGA-GTATTTTCAATTTCTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCG
* * ** * *
96313397 AGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGT
126 AGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
96313447 TTTT
1 TTTT
96313451 AATGTTTAGT
Statistics
Matches: 308, Mismatches: 37, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
175 2 0.01
176 6 0.02
177 38 0.12
178 75 0.24
179 18 0.06
180 110 0.36
181 13 0.04
182 20 0.06
183 25 0.08
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (175 bp):
TTTTCAATTTATGCTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACG
CTGAGTATTTTCAATTTCTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
Found at i:96313220 original size:89 final size:87
Alignment explanation
Indices: 96312911--96313487 Score: 505
Period size: 91 Copynumber: 6.5 Consensus size: 87
96312901 CGTTGAGGTA
* * * *
96312911 TTTTCAATTTCTGTCTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGA
1 TTTTCAATTTATGT-TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* *
96312975 CGCTGA-GTGTTTTCCATTTCTGT
64 CGCTGAGGTATTTTCAATTTCTGT
* * * * **
96312998 TCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAGA
*
96313063 CACGCTGAGGTATTTTCAAATTCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* *
96313089 TTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGACA
1 TTTTC-AATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
* *
96313153 CGCTGAGATATTTTCAATTTCTTTT
64 CGCTGAGGTATTTTCAATTTC-TGT
96313178 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG---A
* * *
96313243 CACGCCGAGGTATTTTCAATTGATTTTT
62 CACGCTGAGGTATTTTCAATT--TCTGT
* * *
96313271 TTTTCAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG--A
** * **
96313334 CATACCGAGGTATTTTCAAAATCTGT
62 CACGCTGAGGTATTTTCAATTTCTGT
* * ** *
96313360 TTTACAAATTT-TGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCA
1 TTTTC-AATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACA
*
96313421 CGTGCTGAGCTATTTTCAATTTCTGT
64 C--GCTGAGGTATTTTCAATTTCTGT
* * *
96313447 TTTT-AATGTT-TAGTTTT--AAAGAGTCAATTCATATTGCGAGA
1 TTTTCAAT-TTAT-GTTTTCAAAAAAATCAACTCATATTGCGAGA
96313488 AATGAGTTAA
Statistics
Matches: 418, Mismatches: 49, Indels: 45
0.82 0.10 0.09
Matches are distributed among these distances:
85 6 0.01
86 41 0.10
87 79 0.19
88 54 0.13
89 61 0.15
90 14 0.03
91 115 0.28
92 27 0.06
93 17 0.04
94 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACG
CTGAGGTATTTTCAATTTCTGT
Found at i:96314166 original size:30 final size:30
Alignment explanation
Indices: 96314130--96314228 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
96314120 CTAGCCTTTG
96314130 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
** *
96314160 CCACCACTTACTCCACTAGCCACACTTGTT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
96314190 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
96314220 CCACCACCA
1 CCACCACCA
96314229 CTTGTACCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.20
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:96314734 original size:23 final size:23
Alignment explanation
Indices: 96314700--96314831 Score: 67
Period size: 22 Copynumber: 5.7 Consensus size: 23
96314690 CTTTTTTTGT
96314700 TATTAT-TATATTTTTAATATTA
1 TATTATATATATTTTTAATATTA
*
96314722 TATTATATATATTCTTT--TAATA
1 TATTATATATATT-TTTAATATTA
** * *
96314744 TATTAGGTATATTCTAAAT-TCTA
1 TATTATATATATTTTTAATAT-TA
* * *
96314767 TATTACGTATATATATTATACTATTT
1 TATTA--TATATAT-TTTTAATATTA
* * *
96314793 TA-TGTATATATCTTTAATACTA
1 TATTATATATATTTTTAATATTA
*
96314815 TATTATTTATTATTTTT
1 TATTATATA-TATTTTT
96314832 TTTCTACATG
Statistics
Matches: 77, Mismatches: 22, Indels: 20
0.65 0.18 0.17
Matches are distributed among these distances:
21 1 0.01
22 29 0.38
23 25 0.32
24 9 0.12
25 6 0.08
26 6 0.08
27 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTTTTAATATTA
Found at i:96314867 original size:22 final size:22
Alignment explanation
Indices: 96314842--96314907 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
96314832 TTTCTACATG
*
96314842 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
96314864 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
96314889 CTATATTATGTACATATTT
1 TTATATTATGTATATATTT
96314908 ATTTTTCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 11 0.31
23 5 0.14
24 8 0.22
25 12 0.33
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:96314897 original size:77 final size:81
Alignment explanation
Indices: 96314773--96314920 Score: 187
Period size: 77 Copynumber: 1.9 Consensus size: 81
96314763 TCTATATTAC
* * * *
96314773 GTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTA-TTATTT-TTTTTC
1 GTATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTATTTTTC
96314836 -TACATGTTATCTTAT
66 ATACATGTTATCTTAT
* * * * *
96314851 GTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTATTTTTC
1 GTATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTATTTTTC
96314915 ATACAT
66 ATACAT
96314921 ATGTATATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
77 31 0.53
78 16 0.28
79 6 0.10
80 5 0.09
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (81 bp):
GTATATATATTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTATTTTTC
ATACATGTTATCTTAT
Found at i:96314898 original size:25 final size:25
Alignment explanation
Indices: 96314786--96314900 Score: 74
Period size: 25 Copynumber: 4.5 Consensus size: 25
96314776 TATATATTAT
* * * * *
96314786 ACTATTTTATGTATATATCTTTAAT
1 ACTATATTATGTATGTATTTTTTAC
* *
96314811 ACTATATTATTTAT-TATTTTTTTTC
1 ACTATATTATGTATGTA-TTTTTTAC
* *
96314836 TAC-ATGTTATCTTATGTATATATTTTA-
1 -ACTATATTAT-GTATGTAT-T-TTTTAC
*
96314863 ATTATATTATGTATGTATTTTTTAC
1 ACTATATTATGTATGTATTTTTTAC
96314888 ACTATATTATGTA
1 ACTATATTATGTA
96314901 CATATTTATT
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
24 7 0.10
25 35 0.50
26 15 0.21
27 9 0.13
28 4 0.06
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (25 bp):
ACTATATTATGTATGTATTTTTTAC
Found at i:96314991 original size:25 final size:24
Alignment explanation
Indices: 96314963--96315018 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
96314953 GTTATATTTT
*
96314963 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
96314988 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
96315011 CACTATTA
1 CACTATTA
96315019 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:96316639 original size:5 final size:5
Alignment explanation
Indices: 96316631--96316657 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
96316621 CTAATTTAAT
96316631 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
96316658 ATCTAATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:96318678 original size:16 final size:16
Alignment explanation
Indices: 96318653--96318685 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96318643 TTATTTATAT
*
96318653 TTATTCATATAATAAA
1 TTATTAATATAATAAA
96318669 TTATTAATATAATAAA
1 TTATTAATATAATAAA
96318685 T
1 T
96318686 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:96318689 original size:22 final size:22
Alignment explanation
Indices: 96318664--96318707 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96318654 TATTCATATA
96318664 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
96318686 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
96318708 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:96318755 original size:16 final size:16
Alignment explanation
Indices: 96318734--96318767 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
96318724 TTTATTTTAG
96318734 TAATAAATTTTAAA-AA
1 TAAT-AATTTTAAATAA
96318750 TAATAATTTTAAATAA
1 TAATAATTTTAAATAA
96318766 TA
1 TA
96318768 TTATTCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATTTTAAATAA
Found at i:96318820 original size:15 final size:15
Alignment explanation
Indices: 96318800--96318856 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
96318790 ATTCAATATT
96318800 AATATTTTAATAATA
1 AATATTTTAATAATA
*
96318815 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
96318834 AATATATTAATAATA
1 AATATTTTAATAATA
*
96318849 AATGTTTT
1 AATATTTT
96318857 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:96318829 original size:19 final size:19
Alignment explanation
Indices: 96318802--96318838 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96318792 TCAATATTAA
*
96318802 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
96318821 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
96318839 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:96321646 original size:2 final size:2
Alignment explanation
Indices: 96321641--96321671 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
96321631 AGCTTGCTTT
*
96321641 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
96321672 TTTCTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:96326535 original size:40 final size:41
Alignment explanation
Indices: 96326464--96326540 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
96326454 CTATTTTATT
*
96326464 ATTTAAAAAAATTATTGAATAAATATATATTTATAAGTAAA
1 ATTTAAAAAAATGATTGAATAAATATATATTTATAAGTAAA
96326505 ATTTAATAAAAATGATT-AA-AAAT-TCATATTTATAAG
1 ATTTAA-AAAAATGATTGAATAAATAT-ATATTTATAAG
96326541 AAGACAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
39 1 0.03
40 15 0.45
41 8 0.24
42 9 0.27
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (41 bp):
ATTTAAAAAAATGATTGAATAAATATATATTTATAAGTAAA
Found at i:96327746 original size:24 final size:25
Alignment explanation
Indices: 96327719--96327767 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
96327709 TGCTTCGATT
*
96327719 CTTCATT-ATTTTTCATAAA-ATATA
1 CTTCATTCATTTATC-TAAAGATATA
96327743 CTTCATTCATTTATCTAAAGATATA
1 CTTCATTCATTTATCTAAAGATATA
96327768 TATTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (25 bp):
CTTCATTCATTTATCTAAAGATATA
Found at i:96329019 original size:14 final size:14
Alignment explanation
Indices: 96328981--96329023 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
96328971 TAAAATGTAC
96328981 AATATAATTAAA-T
1 AATATAATTAAATT
96328994 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
96329009 AA-ATAATTTAATT
1 AATATAATTAAATT
96329022 AA
1 AA
96329024 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:96332624 original size:16 final size:16
Alignment explanation
Indices: 96332603--96332637 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
96332593 ATTTCAAGTC
96332603 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
96332619 TTACAGCCTATTAATT
1 TTACAGCCTATTAATT
96332635 TTA
1 TTA
96332638 GTCAAAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (16 bp):
TTACAGCCTATTAATT
Found at i:96333695 original size:31 final size:31
Alignment explanation
Indices: 96333657--96333717 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
96333647 TCCAACAAAT
96333657 ATTAAATTATTTAAATATAATGTATTATTAC
1 ATTAAATTATTTAAATATAATGTATTATTAC
* *
96333688 ATTAAATTATTTAAATATCATTTATTATTA
1 ATTAAATTATTTAAATATAATGTATTATTA
96333718 TATTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (31 bp):
ATTAAATTATTTAAATATAATGTATTATTAC
Found at i:96337252 original size:21 final size:21
Alignment explanation
Indices: 96337228--96337270 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
96337218 CGAGCAAAAG
96337228 TAAGCCTCTCTGCCTAATGAA
1 TAAGCCTCTCTGCCTAATGAA
96337249 TAAGCCTCTCTGCCTAATGAA
1 TAAGCCTCTCTGCCTAATGAA
96337270 T
1 T
96337271 TTCAACTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (21 bp):
TAAGCCTCTCTGCCTAATGAA
Found at i:96351096 original size:145 final size:145
Alignment explanation
Indices: 96350833--96351099 Score: 347
Period size: 145 Copynumber: 1.8 Consensus size: 145
96350823 TCCTACTTAA
* *
96350833 ATATTCTACTATGAATTTCGAACATCATAAACTTATAATTTGATTATTTGAATTTAATAAATCAT
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTAATTGAATTTAATAAATCAT
* * * * * * *
96350898 GATAAATTGATTTATTTATTTTGATAACTCATAAAAATTAATTGAGCCTGTTAGATTTATGATCA
66 GATAAATTAAATAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATTTATGATCA
96350963 ATCACGTGTAAGAAT
131 ATCACGTGTAAGAAT
* * * *
96350978 ATATTTTACTATGAATTTGGGACATCATAAACTTATAAATTGATTAATTGAGTTTAATAACA-CA
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTAATTGAATTTAATAA-ATCA
* * *** *
96351042 TTATTAATTAAATAATTTAATTTGATAACCCATATTGATTAATTAAACTTGTTAGATT
65 TGATAAATTAAATAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATT
96351100 AATAATCCTC
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
145 101 0.99
146 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (145 bp):
ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTAATTGAATTTAATAAATCAT
GATAAATTAAATAATTTAATTTGATAACCCATAAAAATTAATTAAACCTGTTAGATTTATGATCA
ATCACGTGTAAGAAT
Found at i:96351358 original size:17 final size:16
Alignment explanation
Indices: 96351338--96351371 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
96351328 ACCTCTCTAT
96351338 AACAATTAATGCTATTA
1 AACAATTAATGC-ATTA
96351355 AACAATTAATGCATTA
1 AACAATTAATGCATTA
96351371 A
1 A
96351372 GCTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
AACAATTAATGCATTA
Found at i:96353973 original size:29 final size:31
Alignment explanation
Indices: 96353933--96353996 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
96353923 ATAGTTTATG
*
96353933 TTTTTATAATTTTTAAAAAGTTAA-ATCAAA
1 TTTTTATAATTTTTAAAAAGTTAATATAAAA
*
96353963 TTTTTAT-ATTTTTAAAGAGTTAATATAAAA
1 TTTTTATAATTTTTAAAAAGTTAATATAAAA
96353993 TTTT
1 TTTT
96353997 ATTATTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTTAAAAAGTTAATATAAAA
Found at i:96353997 original size:29 final size:29
Alignment explanation
Indices: 96353934--96354007 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
96353924 TAGTTTATGT
*
96353934 TTTTATAATTTTTAAAAAGTTAAATCAAAT
1 TTTTAT-ATTTTTAAAAAGTTAAATCAAAA
*
96353964 TTTTATATTTTTAAAGAGTTAATAT-AAAA
1 TTTTATATTTTTAAAAAGTTAA-ATCAAAA
*
96353993 TTTTATTATTATTAA
1 TTTTA-TATTTTTAA
96354008 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTTATATTTTTAAAAAGTTAAATCAAAA
Found at i:96361638 original size:21 final size:21
Alignment explanation
Indices: 96361608--96361697 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
96361598 CAAGATAAAT
96361608 ATTAGATTAAATTTAATATTAA
1 ATTA-ATTAAATTTAATATTAA
96361630 ATTAATTAAATTTAATATTAA
1 ATTAATTAAATTTAATATTAA
* *
96361651 GA-TAA-TCACTTTAATATT--
1 -ATTAATTAAATTTAATATTAA
96361669 A--AATTAAATTTAATATTAA
1 ATTAATTAAATTTAATATTAA
96361688 ATCT-ATTAAA
1 AT-TAATTAAA
96361698 ATAATAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
16 2 0.04
17 12 0.21
19 1 0.02
20 11 0.19
21 26 0.46
22 5 0.09
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAATTAAATTTAATATTAA
Found at i:96361687 original size:17 final size:17
Alignment explanation
Indices: 96361605--96361689 Score: 82
Period size: 17 Copynumber: 4.6 Consensus size: 17
96361595 TATCAAGATA
*
96361605 AATATTAGATTAAATTT
1 AATATTAAATTAAATTT
96361622 AATATTAAATTAATTAAATTT
1 AATATT--A--AATTAAATTT
96361643 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAA--A-TTT
96361663 AATATTAAATTAAATTT
1 AATATTAAATTAAATTT
96361680 AATATTAAAT
1 AATATTAAAT
96361690 CTATTAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 18
0.75 0.01 0.23
Matches are distributed among these distances:
17 23 0.40
18 2 0.03
19 4 0.07
20 14 0.24
21 15 0.26
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:96364309 original size:8 final size:8
Alignment explanation
Indices: 96364296--96364322 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
96364286 CCACTGAACT
96364296 AATAATAA
1 AATAATAA
96364304 AATAATAA
1 AATAATAA
96364312 AATAATAA
1 AATAATAA
96364320 AAT
1 AAT
96364323 TGTCAATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:96365102 original size:19 final size:19
Alignment explanation
Indices: 96365059--96365116 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
96365049 TTTTATTCCA
96365059 TTTTCTTCTT-TGTCACTT-T
1 TTTTCTTCTTCT-TCA-TTAT
*
96365078 TGTTCTTCTTCTTCATTAT
1 TTTTCTTCTTCTTCATTAT
96365097 TTTTCTT-TTCTT--TTAT
1 TTTTCTTCTTCTTCATTAT
96365113 TTTT
1 TTTT
96365117 GCTAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 8 0.23
18 7 0.20
19 19 0.54
20 1 0.03
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTCTTCTTCTTCATTAT
Found at i:96379176 original size:23 final size:21
Alignment explanation
Indices: 96379148--96379191 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
96379138 AATCATTTTT
*
96379148 TTTATTTTTATATATTCTTTAAA
1 TTTATTATTATAT-TT-TTTAAA
96379171 TTTATTATTATATTTTTTAAA
1 TTTATTATTATATTTTTTAAA
96379192 AATATTTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTATTATTATATTTTTTAAA
Found at i:96379184 original size:21 final size:19
Alignment explanation
Indices: 96379151--96379191 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
96379141 CATTTTTTTT
96379151 ATTTTTATATATTCTTTAA
1 ATTTTTATATATTCTTTAA
*
96379170 ATTTATTATTATATTTTTTAA
1 ATTT-TTA-TATATTCTTTAA
96379191 A
1 A
96379192 AATATTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTATATATTCTTTAA
Found at i:96379197 original size:21 final size:21
Alignment explanation
Indices: 96379158--96379197 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96379148 TTTATTTTTA
**
96379158 TATATTCTTTAAATTTATTAT
1 TATATTCTTTAAAAATATTAT
*
96379179 TATATTTTTTAAAAATATT
1 TATATTCTTTAAAAATATT
96379198 TAAGTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATTCTTTAAAAATATTAT
Found at i:96379200 original size:31 final size:29
Alignment explanation
Indices: 96379165--96379232 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 29
96379155 TTATATATTC
96379165 TTTAAATTTATTATTATATTT-TTTAAAAAT
1 TTTAAATTT-TTA-TATATTTATTTAAAAAT
*
96379195 ATTTAAGTATTTTTATATATTTATTTTAAAAT
1 -TTTAA--ATTTTTATATATTTATTTAAAAAT
96379227 TTTAAA
1 TTTAAA
96379233 ATTAGGATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 1 0.03
31 17 0.52
32 11 0.33
33 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTAAATTTTTATATATTTATTTAAAAAT
Found at i:96382305 original size:12 final size:12
Alignment explanation
Indices: 96382290--96382334 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
96382280 TTCCAAAGGC
96382290 AGATACAAATGT
1 AGATACAAATGT
* *
96382302 AGATACAGATTT
1 AGATACAAATGT
* *
96382314 AGTTACAGATGT
1 AGATACAAATGT
96382326 AGATACAAA
1 AGATACAAA
96382335 CTCAGATACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (12 bp):
AGATACAAATGT
Found at i:96382330 original size:36 final size:36
Alignment explanation
Indices: 96382253--96382347 Score: 113
Period size: 36 Copynumber: 2.6 Consensus size: 36
96382243 ACAAACAAAA
*
96382253 TAGATACAAATGCA-AGTACAGATTTAGTTCCAAAGG
1 TAGATACAAATGCAGA-TACAGATTTAGTTACAAAGG
* * * *
96382289 CAGATACAAATGTAGATACAGATTTAGTTACAGATG
1 TAGATACAAATGCAGATACAGATTTAGTTACAAAGG
96382325 TAGATACAAACT-CAGATACAGAT
1 TAGATACAAA-TGCAGATACAGAT
96382348 GCTGACACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 48 0.96
37 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (36 bp):
TAGATACAAATGCAGATACAGATTTAGTTACAAAGG
Found at i:96382344 original size:24 final size:24
Alignment explanation
Indices: 96382289--96382348 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
96382279 GTTCCAAAGG
* * *
96382289 CAGATACAAATGTAGATACAGATT
1 CAGATACAGATGTAGATACAAACT
* *
96382313 TAGTTACAGATGTAGATACAAACT
1 CAGATACAGATGTAGATACAAACT
96382337 CAGATACAGATG
1 CAGATACAGATG
96382349 CTGACACAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (24 bp):
CAGATACAGATGTAGATACAAACT
Found at i:96382357 original size:24 final size:25
Alignment explanation
Indices: 96382317--96382373 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
96382307 CAGATTTAGT
*
96382317 TACAGATG-TAGATACAAACT-CAGA
1 TACAGATGCTAGACACAAA-TGCAGA
*
96382341 TACAGATGCT-GACACAAATGCGGA
1 TACAGATGCTAGACACAAATGCAGA
96382365 TACAGATGC
1 TACAGATGC
96382374 AAACACTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (25 bp):
TACAGATGCTAGACACAAATGCAGA
Found at i:96382390 original size:24 final size:24
Alignment explanation
Indices: 96382330--96382407 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
96382320 AGATGTAGAT
* **
96382330 ACAAACTCAGATACAGATGCTGAC
1 ACAAATTCAGATACAGATGCAAAC
* *
96382354 ACAAATGCGGATACAGATGCAAAC
1 ACAAATTCAGATACAGATGCAAAC
** *
96382378 ACTGATTCAGATACA-ATTACAAAC
1 ACAAATTCAGATACAGA-TGCAAAC
96382402 ACAAAT
1 ACAAAT
96382408 CCTACCCTCA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.46, C:0.22, G:0.14, T:0.18
Consensus pattern (24 bp):
ACAAATTCAGATACAGATGCAAAC
Found at i:96383770 original size:3 final size:3
Alignment explanation
Indices: 96383762--96383787 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
96383752 GGGGAGAGTG
96383762 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
96383788 CTATATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:96387710 original size:45 final size:46
Alignment explanation
Indices: 96387638--96387761 Score: 153
Period size: 45 Copynumber: 2.7 Consensus size: 46
96387628 CTGCAAACTT
* * * *
96387638 TTTATCT-AAAAATAATGATGGTTTACCCACAATTTTTACTAGTAG
1 TTTATCTGCAAAATAATGGTGGTTTACCCACAATTTTTACTAGAAA
* *
96387683 TTTGTCTG-AAAATAATGGTGGTTTACCCACAATTTTTACTGGAAA
1 TTTATCTGCAAAATAATGGTGGTTTACCCACAATTTTTACTAGAAA
* * *
96387728 TTTATCTGCAAATTATTGGTGGTTTATCCACAAT
1 TTTATCTGCAAAATAATGGTGGTTTACCCACAAT
96387762 GCGGTGTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 46 0.68
46 22 0.32
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTATCTGCAAAATAATGGTGGTTTACCCACAATTTTTACTAGAAA
Found at i:96391795 original size:26 final size:26
Alignment explanation
Indices: 96391766--96391854 Score: 96
Period size: 25 Copynumber: 3.5 Consensus size: 26
96391756 CCACATTATA
*
96391766 AAAATATAAATTTTTATAAATTCATT
1 AAAATATATATTTTTATAAATTCATT
* **
96391792 AAAATATATA-TTTTA-AATTTTTTT
1 AAAATATATATTTTTATAAATTCATT
*
96391816 ATAAGT-TATATTTTTATAAATTCATT
1 A-AAATATATATTTTTATAAATTCATT
96391842 AAAA-ATATATTTT
1 AAAATATATATTTT
96391855 CAAAAATATA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
24 11 0.22
25 23 0.46
26 16 0.32
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (26 bp):
AAAATATATATTTTTATAAATTCATT
Found at i:96400806 original size:15 final size:15
Alignment explanation
Indices: 96400786--96400816 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96400776 TTTTTATCAC
*
96400786 ATATTATGAGCCCAT
1 ATATTATGAGCACAT
96400801 ATATTATGAGCACAT
1 ATATTATGAGCACAT
96400816 A
1 A
96400817 CACAGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (15 bp):
ATATTATGAGCACAT
Found at i:96415579 original size:25 final size:26
Alignment explanation
Indices: 96415537--96415585 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
96415527 ATTATTATTA
*
96415537 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
96415562 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
96415586 CAAAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:96417120 original size:23 final size:23
Alignment explanation
Indices: 96417102--96417199 Score: 141
Period size: 21 Copynumber: 4.4 Consensus size: 23
96417092 AGGCACTTTA
96417102 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
96417125 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
96417148 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
96417169 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
96417190 TGTGTCGTAT
1 TGTGTCGTAT
96417200 ACTGATCAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
21 35 0.51
22 2 0.03
23 32 0.46
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:96417174 original size:44 final size:42
Alignment explanation
Indices: 96417092--96417199 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 42
96417082 TTTACTGATC
* *
96417092 AGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGTATTT
1 AGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT-TTT
*
96417137 CAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGTTTT
1 -AGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGTTTT
* *
96417180 AGGCACTTTATGTGTCGTAT
1 AGGCACCTCATGTGTCGTAT
96417200 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 17 0.30
43 3 0.05
44 20 0.36
46 16 0.29
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (42 bp):
AGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGTTTT
Found at i:96423416 original size:25 final size:26
Alignment explanation
Indices: 96423374--96423422 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
96423364 ATTATTATTA
*
96423374 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
96423399 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
96423423 CAAAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:96424993 original size:21 final size:21
Alignment explanation
Indices: 96424943--96425016 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
96424933 AGGCACTTTA
96424943 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
96424966 T-TGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
96424986 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
96425007 TGTGTCGTAT
1 TGTGTCGTAT
96425017 ACTATCAGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.30
21 23 0.52
22 7 0.16
23 1 0.02
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.39
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:96430044 original size:8 final size:8
Alignment explanation
Indices: 96430031--96430156 Score: 55
Period size: 8 Copynumber: 15.4 Consensus size: 8
96430021 TTTTAGTTCT
96430031 TTTATATA
1 TTTATATA
*
96430039 TTTATATTT
1 TTTATA-TA
* *
96430048 TTTACAAAA
1 TTTA-TATA
*
96430057 TTTATAAA
1 TTTATATA
* *
96430065 TTTTTAGTT
1 TTTATA-TA
96430074 TTTATATA
1 TTTATATA
96430082 TTTATATA
1 TTTATATA
*
96430090 TTTTCATAAA
1 -TTT-ATATA
*
96430100 TTTATAAA
1 TTTATATA
96430108 TTT-TA-A
1 TTTATATA
*
96430114 CTTT-TTTA
1 -TTTATATA
96430122 TTTATATA
1 TTTATATA
96430130 -TTATATA
1 TTTATATA
*
96430137 TTGTA-ATTT
1 TT-TATA-TA
96430146 TTTATATA
1 TTTATATA
96430154 TTT
1 TTT
96430157 TTTCAAATTA
Statistics
Matches: 91, Mismatches: 15, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
6 1 0.01
7 16 0.18
8 43 0.47
9 26 0.29
10 5 0.05
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:96430079 original size:17 final size:18
Alignment explanation
Indices: 96430057--96430111 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
96430047 TTTTACAAAA
96430057 TTTATAAATTT-T-TAGTT
1 TTTATAAATTTATATA-TT
*
96430074 TTTATATATTTATATATT
1 TTTATAAATTTATATATT
* *
96430092 TTCATAAATTTATAAATT
1 TTTATAAATTTATATATT
96430110 TT
1 TT
96430112 AACTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 10 0.31
18 20 0.62
19 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTATAAATTTATATATT
Found at i:96430082 original size:43 final size:45
Alignment explanation
Indices: 96430019--96430138 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 45
96430009 TATATATGAG
*
96430019 ATTTTTAGTTCTTTTATATATTTATATTTTTTACA-AAATTTATAA
1 ATTTTTAGTTCTTTTATATATTTATATATTTT-CATAAATTTATAA
96430064 ATTTTTAG-T-TTTTATATATTTATATATTTTCATAAATTTATAA
1 ATTTTTAGTTCTTTTATATATTTATATATTTTCATAAATTTATAA
* *
96430107 ATTTTAACTT-TTTTATTTATATATTATATATT
1 ATTTTTAGTTCTTTTA--TATAT-TTATATATT
96430139 GTAATTTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
42 2 0.03
43 36 0.54
44 7 0.10
45 8 0.12
46 5 0.07
47 9 0.13
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (45 bp):
ATTTTTAGTTCTTTTATATATTTATATATTTTCATAAATTTATAA
Found at i:96430153 original size:26 final size:24
Alignment explanation
Indices: 96430074--96430156 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 24
96430064 ATTTTTAGTT
* *
96430074 TTTATATATTTATATATTTTCATAAA
1 TTTATATATTTA-AT-TTTTTATATA
*
96430100 TTTATAAATTTTAACTTTTTTATTTATA
1 TTTATATA-TTTAA-TTTTTTA--TATA
96430128 TATTATATATTGTAATTTTTTATATA
1 T-TTATATATT-TAATTTTTTATATA
96430154 TTT
1 TTT
96430157 TTTCAAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
25 2 0.04
26 18 0.38
27 5 0.11
28 13 0.28
29 9 0.19
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (24 bp):
TTTATATATTTAATTTTTTATATA
Found at i:96430238 original size:16 final size:15
Alignment explanation
Indices: 96430195--96430242 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
96430185 GATAAGGCTT
*
96430195 TTATATATTTTTAAT
1 TTATATATTTTTAAA
*
96430210 TGTAGATATTTTTATAAA
1 T-TATATA-TTTT-TAAA
96430228 TTATATATTTTTAAA
1 TTATATATTTTTAAA
96430243 AACAATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
17 9 0.33
18 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TTATATATTTTTAAA
Found at i:96437620 original size:22 final size:21
Alignment explanation
Indices: 96437570--96437629 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
96437560 ATACATGCAT
*
96437570 ATTTAATTATTTATATTTATTA
1 ATTTAATTAATTAT-TTTATTA
*
96437592 ATATAATTAATATATTTTATTA
1 ATTTAATTAAT-TATTTTATTA
* *
96437614 TTTTAATAAATTATTT
1 ATTTAATTAATTATTT
96437630 AATATTACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 5 0.16
22 24 0.75
23 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAATTAATTATTTTATTA
Found at i:96437716 original size:27 final size:27
Alignment explanation
Indices: 96437684--96437737 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
96437674 TTGAATTTTG
*
96437684 AATAATATATTATTGAA-AAATATTTAT
1 AATAATATATTAAT-AATAAATATTTAT
*
96437711 AATAATATTTTAATAATAAATATTTAT
1 AATAATATATTAATAATAAATATTTAT
96437738 TACAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
AATAATATATTAATAATAAATATTTAT
Found at i:96437956 original size:28 final size:26
Alignment explanation
Indices: 96437891--96437957 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 26
96437881 AATATATGTA
96437891 ATTTAAATTAAGTTTTAATTAAGTATT
1 ATTTAAATTAAGTTTTAATT-AGTATT
*
96437918 ATTTATTATTAAGTTTATATATT-GTATT
1 ATTTA-AATTAAGTTT-TA-ATTAGTATT
96437946 ATATTAAATTAA
1 AT-TTAAATTAA
96437958 TTATTACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.15
28 21 0.62
29 5 0.15
30 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
ATTTAAATTAAGTTTTAATTAGTATT
Found at i:96441010 original size:46 final size:47
Alignment explanation
Indices: 96440945--96441084 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 47
96440935 TTATCTTTAA
* * * * *
96440945 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
**
96440991 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* *
96441037 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
96441083 CA
1 CA
96441085 GAGAGAACAC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 4 0.05
46 78 0.95
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:96444537 original size:42 final size:42
Alignment explanation
Indices: 96444478--96444606 Score: 204
Period size: 42 Copynumber: 3.0 Consensus size: 42
96444468 TAGGGTTAGT
*
96444478 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGGTA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
* *
96444520 TGAGATTTCATGTAAGACCATAGCTGGGATATTGGCATTGATA
1 TGAGATTTCATGTAAGACCATATCTGGGATA-TGGCATTGGTA
**
96444563 TGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGTA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
96444605 TG
1 TG
96444607 GTACTATGTG
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 42 0.53
43 37 0.47
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
TGAGATTTCATGTAAGACCATATCTGGGATATGGCATTGGTA
Found at i:96444575 original size:43 final size:42
Alignment explanation
Indices: 96444486--96444606 Score: 188
Period size: 43 Copynumber: 2.9 Consensus size: 42
96444476 GTTGAGATTT
* **
96444486 CATGTAAGACCATATCTGGGATATGGCATCGGTATGAGATTT
1 CATGTAAGACCATATCTGGGATATGGCATTGGTATGAGATCC
* *
96444528 CATGTAAGACCATAGCTGGGATATTGGCATTGATATGAGATCC
1 CATGTAAGACCATATCTGGGATA-TGGCATTGGTATGAGATCC
96444571 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
1 CATGTAAGACCATATCTGGGATATGGCATTGGTATG
96444607 GTACTATGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 34 0.48
43 37 0.52
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATTGGTATGAGATCC
Found at i:96444800 original size:11 final size:11
Alignment explanation
Indices: 96444784--96444808 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96444774 TCACTATGGG
96444784 GATGACCTTGT
1 GATGACCTTGT
96444795 GATGACCTTGT
1 GATGACCTTGT
96444806 GAT
1 GAT
96444809 TATTGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (11 bp):
GATGACCTTGT
Found at i:96446695 original size:23 final size:23
Alignment explanation
Indices: 96446634--96446699 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
96446624 CCTGATCAGT
*
96446634 ATACGACACATAAAATGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
96446656 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
96446678 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
96446700 TCAGTAAAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 14 0.40
22 4 0.11
23 17 0.49
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:96451894 original size:26 final size:26
Alignment explanation
Indices: 96451857--96451940 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
96451847 TGATACAAAT
* *
96451857 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96451883 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96451909 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96451935 TGATAA
1 TGATAA
96451941 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:96457668 original size:25 final size:25
Alignment explanation
Indices: 96457610--96457692 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 25
96457600 TGATACAAAT
*
96457610 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
96457636 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
96457661 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
96457687 TGATAA
1 TGATAA
96457693 GAATTTCAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
25 23 0.42
26 32 0.58
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:96461474 original size:16 final size:16
Alignment explanation
Indices: 96461443--96461479 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
96461433 TTCAAAAGAA
96461443 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
96461459 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
96461475 TATTA
1 TATTA
96461480 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:96461513 original size:20 final size:20
Alignment explanation
Indices: 96461490--96461548 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
96461480 AAAATAAAAA
96461490 TAAAATATTAAATAATTTAT
1 TAAAATATTAAATAATTTAT
*
96461510 TAAAATAATAAAT-A--TAT
1 TAAAATATTAAATAATTTAT
*
96461527 TAAGTATATT-AATAATTTAT
1 TAA-AATATTAAATAATTTAT
96461547 TA
1 TA
96461549 TATGACTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 9 0.28
18 5 0.16
19 1 0.03
20 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAAATATTAAATAATTTAT
Found at i:96469566 original size:24 final size:24
Alignment explanation
Indices: 96469538--96469752 Score: 304
Period size: 24 Copynumber: 9.0 Consensus size: 24
96469528 AGGAGTAGTT
96469538 GGACTGCCACCTCCATATGATGGG
1 GGACTGCCACCTCCATATGATGGG
*
96469562 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
96469586 GGTCTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCATATGATGGG
*
96469610 GGACTGCCACCTCCGTATGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
96469634 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
96469658 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
96469682 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
96469706 GGACTGCCTCCTCCATACGATGGG
1 GGACTGCCACCTCCATATGATGGG
* *
96469730 GGACTACCACCTCCAGATGATGG
1 GGACTGCCACCTCCATATGATGG
96469753 TGGAGTACCA
Statistics
Matches: 181, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 181 1.00
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.21
Consensus pattern (24 bp):
GGACTGCCACCTCCATATGATGGG
Found at i:96473156 original size:25 final size:25
Alignment explanation
Indices: 96473128--96473176 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
96473118 CATTTATGTT
**
96473128 TATTTACTGTATACAAAAATAATTA
1 TATTTACTAAATACAAAAATAATTA
* *
96473153 TATTTATTAAATATAAAAATAATT
1 TATTTACTAAATACAAAAATAATT
96473177 TTATATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
TATTTACTAAATACAAAAATAATTA
Found at i:96490626 original size:16 final size:16
Alignment explanation
Indices: 96490605--96490659 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
96490595 GTTTAGTTTA
*
96490605 CTGTAATGGAATAAGG
1 CTGTAATGGAATAAAG
96490621 CTGTAATGGAATAAAG
1 CTGTAATGGAATAAAG
*
96490637 TTGTAATGGAATAGAA-
1 CTGTAATGGAATA-AAG
96490653 CTGTAAT
1 CTGTAAT
96490660 TAGTAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
16 33 0.94
17 2 0.06
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAAAG
Found at i:96490727 original size:44 final size:46
Alignment explanation
Indices: 96490641--96490733 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
96490631 ATAAAGTTGT
96490641 AATGGAATAGAACTGTAATTAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATTAGTAATTCAATTGTTTGGTTGAATGG
* *
96490687 AATGGAATAGAGCTGTAA-TAG-AATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATTAGTAATTCAAT-TGTTTGGTTGAATGG
96490731 AAT
1 AAT
96490734 AGATGTTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 3 0.07
46 17 0.39
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATTAGTAATTCAATTGTTTGGTTGAATGG
Found at i:96493919 original size:10 final size:10
Alignment explanation
Indices: 96493843--96493922 Score: 90
Period size: 10 Copynumber: 7.8 Consensus size: 10
96493833 TTAAATTCTA
96493843 AAAGATAAAT
1 AAAGATAAAT
96493853 ACAA-ATAAAT
1 A-AAGATAAAT
* *
96493863 AAAAATAATT
1 AAAGATAAAT
96493873 AAAGATAAAT
1 AAAGATAAAT
*
96493883 AAGGATAAAT
1 AAAGATAAAT
*
96493893 AAAGATAAAA
1 AAAGATAAAT
96493903 ACTAAGATAAAT
1 A--AAGATAAAT
96493915 AAAGATAA
1 AAAGATAA
96493923 GAGCTAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 2 0.03
10 46 0.78
11 2 0.03
12 9 0.15
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:96494558 original size:8 final size:8
Alignment explanation
Indices: 96494545--96494577 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
96494535 AATACATCAT
96494545 TTTTTTTC
1 TTTTTTTC
96494553 -TTTTTTC
1 TTTTTTTC
96494560 TTTTTTTTC
1 -TTTTTTTC
96494569 TTTTTTTC
1 TTTTTTTC
96494577 T
1 T
96494578 CCTCTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 9 0.39
9 7 0.30
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:96494577 original size:17 final size:16
Alignment explanation
Indices: 96494544--96494574 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
96494534 TAATACATCA
96494544 TTTTTTTTCTTTTTTC
1 TTTTTTTTCTTTTTTC
96494560 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
96494575 TCTCCTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTTTCTTTTTTC
Found at i:96494600 original size:17 final size:17
Alignment explanation
Indices: 96494548--96494600 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
96494538 ACATCATTTT
*
96494548 TTTTCTTTTTTCTT-TTT
1 TTTT-TTTTTTCTTCTTC
*
96494565 TTTCTTTTTTTC-TCCTC
1 TTT-TTTTTTTCTTCTTC
96494582 TTTTTTTTTTCTTCTTC
1 TTTTTTTTTTCTTCTTC
96494599 TT
1 TT
96494601 CTTATTGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.30
17 20 0.67
18 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTCTTCTTC
Found at i:96496237 original size:26 final size:25
Alignment explanation
Indices: 96496208--96496287 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
96496198 ACTCTTTTAC
*
96496208 ATATTATCTATATTGAATTTTTATAT
1 ATATTATCTAT-TTTAATTTTTATAT
* *
96496234 ATATTGTTTATTTTTTTAATTTTTAT-T
1 ATATTATCTA---TTTTAATTTTTATAT
*
96496261 -TATTATCTATTTTAATTTTTTTAT
1 ATATTATCTATTTTAATTTTTATAT
96496285 ATA
1 ATA
96496288 ATGTTTGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
23 12 0.28
24 1 0.02
25 2 0.05
26 15 0.35
27 1 0.02
28 11 0.26
29 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (25 bp):
ATATTATCTATTTTAATTTTTATAT
Found at i:96496935 original size:2 final size:2
Alignment explanation
Indices: 96496928--96496955 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
96496918 AATTCATTCG
96496928 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
96496956 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:96497232 original size:39 final size:38
Alignment explanation
Indices: 96497189--96497276 Score: 113
Period size: 39 Copynumber: 2.3 Consensus size: 38
96497179 GGTCTTTAAC
*
96497189 CCGGATATTTTCCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTT-CCAGCACATAGCCTGCGGACCTCAAGT
* * * *
96497228 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATAT-TTTCCAGCACATAGCCTGCGGACCTCAAGT
96497267 CCGGATATTT
1 CCGGATATTT
96497277 CCAATCTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.05
39 38 0.88
40 3 0.07
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (38 bp):
CCGGATATTTTCCAGCACATAGCCTGCGGACCTCAAGT
Found at i:96499768 original size:27 final size:26
Alignment explanation
Indices: 96499694--96500074 Score: 204
Period size: 26 Copynumber: 14.3 Consensus size: 26
96499684 CACAATGTTC
* *
96499694 ATTTTAAACTCTTTTTATATATCATTT
1 ATTTTAAA-TTTTTTTATATATTATTT
** *
96499721 GCTTTAAA-TTTTTTATGTATTATTT
1 ATTTTAAATTTTTTTATATATTATTT
*
96499746 ATTTTAAATTATTTTTACATATTATTT
1 ATTTTAAATT-TTTTTATATATTATTT
*
96499773 ATTTTAAATTTTTTCCCATATATTATTT
1 ATTTTAAATTTTTT--TATATATTATTT
* * *
96499801 ATTTTAAATCTTTGTGTATATTATTT
1 ATTTTAAATTTTTTTATATATTATTT
* * * *
96499827 ATTTTAAAGTTTTATATATATTACTC
1 ATTTTAAATTTTTTTATATATTATTT
** * * *
96499853 GGTTTAAATTATTTTATATGTTGTTT
1 ATTTTAAATTTTTTTATATATTATTT
* *
96499879 ACTTTAAATTTCTTTTACATTATTA-TT
1 ATTTTAAATTT-TTTTATA-TATTATTT
* * * *
96499906 -TTTAAAACTGTTTTATAT-TTTTTT
1 ATTTTAAATTTTTTTATATATTATTT
* * *
96499930 ATGTT--ATGTATTTTAAAT-TTATTT
1 ATTTTAAAT-TTTTTTATATATTATTT
* *
96499954 -TTTTACATATTATTTAGTTTAAAATTTTATATGT
1 ATTTTA-A-A-T-TTT--TTT-ATATATTAT-T-T
* * *
96499988 CATTTTAAATTGTTTTATAAATTAGTT
1 -ATTTTAAATTTTTTTATATATTATTT
*
96500015 ATTTTAAATTGTTTTATATATTATTTT
1 ATTTTAAATTTTTTTATATATTA-TTT
* *
96500042 ATTTTAAATTGTTTTACATATTAATTT
1 ATTTTAAATTTTTTTATATATT-ATTT
96500069 -TTTTAA
1 ATTTTAA
96500075 TTATTATTTA
Statistics
Matches: 271, Mismatches: 59, Indels: 49
0.72 0.16 0.13
Matches are distributed among these distances:
23 6 0.02
24 16 0.06
25 28 0.10
26 94 0.35
27 66 0.24
28 30 0.11
29 5 0.02
30 6 0.02
31 4 0.01
32 6 0.02
33 2 0.01
34 2 0.01
35 1 0.00
36 5 0.02
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
ATTTTAAATTTTTTTATATATTATTT
Found at i:96500169 original size:22 final size:25
Alignment explanation
Indices: 96500130--96500187 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 25
96500120 GTTTTTTATG
* *
96500130 TATTATTT-GTTTAGAATT-GTCT-
1 TATTATTTATTTTAGAATTACTCTA
*
96500152 TATTATTTATTTTA-AATTACTTTA
1 TATTATTTATTTTAGAATTACTCTA
96500176 TATTATTTATTT
1 TATTATTTATTT
96500188 CATTTCTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 12 0.40
23 6 0.20
24 12 0.40
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTATTTATTTTAGAATTACTCTA
Found at i:96502683 original size:39 final size:39
Alignment explanation
Indices: 96502639--96502770 Score: 201
Period size: 39 Copynumber: 3.4 Consensus size: 39
96502629 TAATAATCTG
*
96502639 TTATTCAGTACAGTAATTTAGTCATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
* ** * *
96502678 ATATTCAGTGTAGTAGTTTAGTTATTCAATAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
*
96502717 TTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAA
1 TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
96502756 TTATTCAGTACAGTA
1 TTATTCAGTACAGTA
96502771 GTTGACCCTA
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (39 bp):
TTATTCAGTACAGTAATTTAGTTATTCAGTAACTATCAA
Found at i:96502722 original size:18 final size:18
Alignment explanation
Indices: 96502699--96502762 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
96502689 AGTAGTTTAG
96502699 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
* * *
96502717 TTATTCAATACAGTAATTTAG
1 TTATTCAATA-ACT-A-TCAA
*
96502738 TTATTCAGTAACTATCAA
1 TTATTCAATAACTATCAA
96502756 TTATTCA
1 TTATTCA
96502763 GTACAGTAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 3 0.08
21 11 0.31
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Found at i:96502763 original size:18 final size:18
Alignment explanation
Indices: 96502662--96502765 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
96502652 TAATTTAGTC
*
96502662 ATTCAGTAACTATCAAAT
1 ATTCAGTAACTATCAATT
* * * *
96502680 ATTCAGTGTAGTAGTTTAGTT
1 ATTCAGT-AACTA--TCAATT
*
96502701 ATTCAATAACTATCAATT
1 ATTCAGTAACTATCAATT
* * * *
96502719 ATTCAATACAGTAATTTAGTT
1 ATTCAGTA-ACT-A-TCAATT
96502740 ATTCAGTAACTATCAATT
1 ATTCAGTAACTATCAATT
96502758 ATTCAGTA
1 ATTCAGTA
96502766 CAGTAGTTGA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
18 31 0.49
19 6 0.10
20 6 0.10
21 20 0.32
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
ATTCAGTAACTATCAATT
Found at i:96502985 original size:44 final size:44
Alignment explanation
Indices: 96502917--96503008 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
96502907 CCGAAGCAAC
*
96502917 AGTAATAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
1 AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
** * *
96502961 AGTAACAGTACGACACTTATAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
96503005 AGTA
1 AGTA
96503009 TCCCTGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAAAGTGCCTCATCGACTCAAAGTCGA
Found at i:96503812 original size:13 final size:13
Alignment explanation
Indices: 96503796--96503821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96503786 CTATTTCTCC
96503796 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
96503809 TTTTTCTTTCTTT
1 TTTTTCTTTCTTT
96503822 CTTCTTTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTCTTT
Found at i:96504318 original size:26 final size:23
Alignment explanation
Indices: 96504258--96504309 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
96504248 AATCTTATAA
*
96504258 TATTATATAATTATAATAAATATC
1 TATT-TATAATAATAATAAATATC
96504282 TATTTA-AATAATAATAAATATC
1 TATTTATAATAATAATAAATATC
96504304 TATTTA
1 TATTTA
96504310 CTTTAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 2 0.07
24 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTATAATAATAATAAATATC
Found at i:96504424 original size:3 final size:3
Alignment explanation
Indices: 96504416--96504472 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
96504406 ATTTTATTTC
* *
96504416 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATTCA AT- TTA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA
96504461 ATA AT- ATA ATA A
1 ATA ATA ATA ATA A
96504473 GATATGCTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 5 0.11
3 36 0.80
4 2 0.04
5 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:96505062 original size:8 final size:7
Alignment explanation
Indices: 96505049--96505101 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 7
96505039 ATCCAAACAA
96505049 AATAAAGT
1 AATAAA-T
96505057 AATAAAT
1 AATAAAT
96505064 AATAAAAT
1 AAT-AAAT
96505072 AAT-AA-
1 AATAAAT
96505077 AATAAA-
1 AATAAAT
96505083 AATAAAT
1 AATAAAT
96505090 AA-AAAT
1 AATAAAT
96505096 AA-AAAT
1 AATAAAT
96505102 TGGGTTGCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 3 0.07
6 20 0.48
7 6 0.14
8 13 0.31
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:96505090 original size:23 final size:23
Alignment explanation
Indices: 96505049--96505093 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
96505039 ATCCAAACAA
*
96505049 AATAAAGTAATAAATAATAAAAT
1 AATAAAATAATAAATAATAAAAT
96505072 AATAAAATAA-AAATAAATAAAA
1 AATAAAATAATAAAT-AATAAAA
96505094 ATAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (23 bp):
AATAAAATAATAAATAATAAAAT
Found at i:96505094 original size:16 final size:16
Alignment explanation
Indices: 96505047--96505101 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
96505037 ATATCCAAAC
96505047 AAAATAAAGTAATAAATA
1 AAAATAAA-TAA-AAATA
96505065 ATAAA-ATAAT-AAAATA
1 A-AAATA-AATAAAAATA
96505081 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
96505097 AAAAT
1 AAAAT
96505102 TGGGTTGCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.18
16 18 0.55
17 1 0.03
18 3 0.09
19 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:96509239 original size:23 final size:21
Alignment explanation
Indices: 96509201--96509282 Score: 128
Period size: 21 Copynumber: 3.8 Consensus size: 21
96509191 GACACATAAA
* *
96509201 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
96509222 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
96509243 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
96509264 GTGCCTGAAATACGACACA
1 GTGCCTG--ATACGACACA
96509283 TAAAGTGCCT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
21 47 0.82
23 10 0.18
ACGTcount: A:0.33, C:0.28, G:0.26, T:0.13
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:96509691 original size:15 final size:15
Alignment explanation
Indices: 96509666--96509723 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
96509656 TCATATATAT
96509666 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
96509682 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
96509697 AATAATTTTAATCAA
1 TATAAATTCAATCAA
96509712 TATAAATTCAAT
1 TATAAATTCAAT
96509724 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:96511001 original size:5 final size:5
Alignment explanation
Indices: 96510993--96511019 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
96510983 TCTTTAGTTT
96510993 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
96511020 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:96511077 original size:51 final size:51
Alignment explanation
Indices: 96510983--96511082 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
96510973 TTCATTTGCT
*
96510983 TCTTTAGTTTATATAATATAATATAATATAATATAATTAAAACATAAAATA
1 TCTTTAGTTTATATAATATAATATAATATAATATAACTAAAACATAAAATA
96511034 TCTTTA-TTATATAATAATATAATAATAGA-ATAATAT-ACT-AAACATAAAA
1 TCTTTAGTT-TAT-ATAATATAAT-ATA-ATATAATATAACTAAAACATAAAA
96511083 AAAAATCTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
50 2 0.05
51 19 0.43
52 12 0.27
53 10 0.23
54 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (51 bp):
TCTTTAGTTTATATAATATAATATAATATAATATAACTAAAACATAAAATA
Found at i:96516243 original size:18 final size:18
Alignment explanation
Indices: 96516222--96516260 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
96516212 GATTGAGAGT
* *
96516222 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
96516240 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
96516258 GAA
1 GAA
96516261 TTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Done.