Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008925.1 Hibiscus syriacus cultivar Beakdansim tig00112230_pilon, whole genome shotgun sequence
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: 2702387
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2167092 original size:3 final size:3
Alignment explanation
Indices: 2167084--2167152 Score: 111
Period size: 3 Copynumber: 23.0 Consensus size: 3
2167074 ATTGATTTAT
* * *
2167084 TTA TTA TTA TTA TTA TTA TAA TAA TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2167132 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
2167153 AATATATTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2178024 original size:23 final size:26
Alignment explanation
Indices: 2177989--2178041 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
2177979 TATATTATTT
2177989 TTATTATTTTA-T-TAAGAAAATACC
1 TTATTATTTTATTATAAGAAAATACC
2178013 TTATT-TTTTATTAATAAGAAAATACC
1 TTATTATTTTATT-ATAAGAAAATACC
2178039 TTA
1 TTA
2178042 AATACAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
26 15 0.58
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
TTATTATTTTATTATAAGAAAATACC
Found at i:2179306 original size:7 final size:7
Alignment explanation
Indices: 2179294--2179344 Score: 93
Period size: 7 Copynumber: 7.1 Consensus size: 7
2179284 TTGTATAGGG
2179294 TTGTTGT
1 TTGTTGT
2179301 TTGTTGT
1 TTGTTGT
2179308 TTGTTGT
1 TTGTTGT
2179315 TTGTTGT
1 TTGTTGT
2179322 TTGTTGT
1 TTGTTGT
2179329 TTGTTGT
1 TTGTTGT
2179336 TCTGTTGT
1 T-TGTTGT
2179344 T
1 T
2179345 GGGTTGAGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 36 0.84
8 7 0.16
ACGTcount: A:0.00, C:0.02, G:0.27, T:0.71
Consensus pattern (7 bp):
TTGTTGT
Found at i:2181892 original size:35 final size:35
Alignment explanation
Indices: 2181848--2181914 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
2181838 TGATACCTTT
* *
2181848 TTAAAGATATAAAGATGTGGCAACATAAGATTTTA
1 TTAAAGATATAAAGACGTGACAACATAAGATTTTA
* * *
2181883 TTAATGATATTAAGACGTGACAGCATAAGATT
1 TTAAAGATATAAAGACGTGACAACATAAGATT
2181915 ATACGGCGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.31
Consensus pattern (35 bp):
TTAAAGATATAAAGACGTGACAACATAAGATTTTA
Found at i:2182398 original size:33 final size:33
Alignment explanation
Indices: 2182356--2182419 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
2182346 TGACAATGTA
*
2182356 TACACACTCTACATACACAAATGCTCGAACCTG
1 TACACACTCTAAATACACAAATGCTCGAACCTG
2182389 TACACACTCTAAATACACAAATGCTCGAACC
1 TACACACTCTAAATACACAAATGCTCGAACC
2182420 CGAAACCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.33, G:0.08, T:0.20
Consensus pattern (33 bp):
TACACACTCTAAATACACAAATGCTCGAACCTG
Found at i:2185130 original size:7 final size:7
Alignment explanation
Indices: 2185120--2185145 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2185110 ATAAAATATA
2185120 AAATTCT
1 AAATTCT
2185127 AAATTCT
1 AAATTCT
2185134 AAATTCT
1 AAATTCT
2185141 AAATT
1 AAATT
2185146 ATTAGACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTCT
Found at i:2187925 original size:23 final size:21
Alignment explanation
Indices: 2187887--2187937 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
2187877 GCACTTGATG
2187887 AACATATATATGTATATAATC
1 AACATATATATGTATATAATC
2187908 AACATATATATGTATATAATC
1 AACATATATATGTATATAATC
*
2187929 AACAGATAT
1 AACATATAT
2187938 TACACCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (21 bp):
AACATATATATGTATATAATC
Found at i:2194498 original size:20 final size:20
Alignment explanation
Indices: 2194469--2194509 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2194459 ACATTCTCTC
*
2194469 TCTTTGAGACCATGAAACAT
1 TCTTTAAGACCATGAAACAT
*
2194489 TCTTTAAGACCTTGAAACAT
1 TCTTTAAGACCATGAAACAT
2194509 T
1 T
2194510 GCCTTTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (20 bp):
TCTTTAAGACCATGAAACAT
Found at i:2195163 original size:35 final size:36
Alignment explanation
Indices: 2195123--2195207 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 36
2195113 ACAACAAAGA
* *
2195123 AAACAAAGAG-TAAAGTGAAAAAATAAAAGAAAAAT
1 AAACAAAGAGAAAAAGAGAAAAAATAAAAGAAAAAT
*
2195158 AAACAAAGAGAAAAAGAGAAAAAATCAAAGAAAAA-
1 AAACAAAGAGAAAAAGAGAAAAAATAAAAGAAAAAT
*
2195193 GAACAAA-AGAAAAAG
1 AAACAAAGAGAAAAAG
2195208 CAAAGAACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
34 8 0.18
35 16 0.36
36 21 0.47
ACGTcount: A:0.74, C:0.05, G:0.15, T:0.06
Consensus pattern (36 bp):
AAACAAAGAGAAAAAGAGAAAAAATAAAAGAAAAAT
Found at i:2195173 original size:22 final size:21
Alignment explanation
Indices: 2195147--2195192 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
2195137 GTGAAAAAAT
2195147 AAAAGA-AAAATAAACAAAGAGA
1 AAAAGAGAAAA-AAACAAAGA-A
*
2195169 AAAAGAGAAAAAATCAAAGAA
1 AAAAGAGAAAAAAACAAAGAA
2195190 AAA
1 AAA
2195193 GAACAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 14 0.64
23 4 0.18
ACGTcount: A:0.78, C:0.04, G:0.13, T:0.04
Consensus pattern (21 bp):
AAAAGAGAAAAAAACAAAGAA
Found at i:2195181 original size:26 final size:26
Alignment explanation
Indices: 2195147--2195206 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
2195137 GTGAAAAAAT
*
2195147 AAAAG-AAAAAT-AAACAAAGAGAA-
1 AAAAGAAAAAATCAAACAAAAAGAAC
*
2195170 AAAGAGAAAAAATCAAAGAAAAAGAAC
1 AAA-AGAAAAAATCAAACAAAAAGAAC
2195197 AAAAGAAAAA
1 AAAAGAAAAA
2195207 GCAAAGAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 3 0.10
24 2 0.06
25 6 0.19
26 17 0.55
27 3 0.10
ACGTcount: A:0.78, C:0.05, G:0.13, T:0.03
Consensus pattern (26 bp):
AAAAGAAAAAATCAAACAAAAAGAAC
Found at i:2196839 original size:63 final size:64
Alignment explanation
Indices: 2196764--2196902 Score: 190
Period size: 65 Copynumber: 2.2 Consensus size: 64
2196754 ATTTTCTGAA
*
2196764 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTT-GAAAAATCATTGAATATGTTTCTTTGG
1 AAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTAGAAAAATCATTGAATATGTTTCTTTGG
* * * * * * *
2196827 AAACAAAATTTTGTCTCTTTTTAGATAGTTTCTTTTAAGAAAAATCTTTGAGTCTGTTTCTTTGG
1 AAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTT-AGAAAAATCATTGAATATGTTTCTTTGG
2196892 AAACAAAATTT
1 AAACAAAATTT
2196903 ATCATCTTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
63 31 0.47
65 35 0.53
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.44
Consensus pattern (64 bp):
AAACAAAATTTTGTCTCTCTTGAGACAATTTCTTTTAGAAAAATCATTGAATATGTTTCTTTGG
Found at i:2197457 original size:134 final size:134
Alignment explanation
Indices: 2197217--2197667 Score: 582
Period size: 134 Copynumber: 3.4 Consensus size: 134
2197207 AACCATTATC
* * * * *
2197217 CCTAAAGATGGCCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCCCTTGACCAGATCTCCTCA
1 CCTAAAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCCTCA
* * * * * * * * *
2197281 TCATGTAGGAGTCGTGTCACCCCTTGATAACCAGTCGCCCTCATCACATAGGAATCGTGTTATCG
65 TCACGTAGGAGTCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCA
2197346 CCCTT
130 CCCTT
2197351 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCCTCAT
* * * ** *
2197416 CACGTATGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCGTGTGGGAACCGAGTTATCAC
66 CACGTAGGAGTCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
2197481 CCTT
131 CCTT
*
2197485 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGTCGTGTCAT-CCCTCGACCAGATCTCCTC
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCCCT-GACCAGATCTCCTC
* ** *
2197549 ATCACGTAGGAGTCATGTCACCCATAGATAACCAGCAATCCTCATCACGTAGGAACCAAGTTATC
64 ATCACGTAGGAGTCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATC
2197614 ACCCTT
129 ACCCTT
* * * * * *
2197620 CCTAAAGATGACCAGACCTCTTCATCGCGGATGAGCTGTGTCGTCCCC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCC
2197668 AACAACCACA
Statistics
Matches: 275, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
134 154 0.56
135 121 0.44
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGATCTCCTCAT
CACGTAGGAGTCGTGTCACCCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
CCTT
Found at i:2197834 original size:3 final size:3
Alignment explanation
Indices: 2197826--2197886 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
2197816 AATTTTAATT
*
2197826 TTA TTA TTA TTA TTA TTA TTA GTT- TTGT TTA TTAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TT-A TTA TTA TTA TTA
*
2197873 TT- TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA
2197887 CATTTACATA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
2 4 0.08
3 39 0.78
4 7 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2199792 original size:6 final size:6
Alignment explanation
Indices: 2199776--2199823 Score: 87
Period size: 6 Copynumber: 7.8 Consensus size: 6
2199766 ATAGATGTAT
2199776 TATTATA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
1 TATT-TA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
2199824 CTTTTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 37 0.90
7 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:2199792 original size:16 final size:16
Alignment explanation
Indices: 2199755--2199810 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
2199745 TTTGTGTATA
**
2199755 TATATTATTATATAGA
1 TATATTATTATATATT
*
2199771 TGTATTATTATATATT
1 TATATTATTATATATT
*
2199787 TATATTTATATTTATATT
1 TATA-TTAT-TATATATT
2199805 TATATT
1 TATATT
2199811 TATATTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 16 0.48
17 6 0.18
18 11 0.33
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (16 bp):
TATATTATTATATATT
Found at i:2200461 original size:16 final size:17
Alignment explanation
Indices: 2200423--2200461 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
2200413 ATACATACCC
2200423 GTTTTTGTCTTAAAAAT
1 GTTTTTGTCTTAAAAAT
* *
2200440 GATTTT-TCTTAAAATT
1 GTTTTTGTCTTAAAAAT
2200456 GTTTTT
1 GTTTTT
2200462 AAAAGACGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.59
Consensus pattern (17 bp):
GTTTTTGTCTTAAAAAT
Found at i:2202350 original size:19 final size:19
Alignment explanation
Indices: 2202326--2202370 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
2202316 GCGGAATTAT
2202326 TGCCCATGTCCATGGTTCC
1 TGCCCATGTCCATGGTTCC
2202345 TGCCCATGTCCATGGTTCC
1 TGCCCATGTCCATGGTTCC
2202364 TGCCCAT
1 TGCCCAT
2202371 CCAAACCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.38, G:0.20, T:0.31
Consensus pattern (19 bp):
TGCCCATGTCCATGGTTCC
Found at i:2203448 original size:34 final size:34
Alignment explanation
Indices: 2203331--2203564 Score: 209
Period size: 35 Copynumber: 6.5 Consensus size: 34
2203321 TATAAATATG
* *
2203331 TAATATATAGTTTCTGAAAACTTAATTTTAAGAAACGTA
1 TAATATATAGTTT-T-AAAA--TAGTTTTGA-AAACGTA
* * *
2203370 TAATATACATTTTTTAAAATAGTTTTAAAAAAACGTA
1 TAATATATA-GTTTTAAAATAGTTTT--GAAAACGTA
* *
2203407 TAATATATAGTTTTAAAATGGTTTTGAAAACATA
1 TAATATATAGTTTTAAAATAGTTTTGAAAACGTA
* *
2203441 TAGTATATACTTTTTCAAAATAG-TTTGAAAAACGTA
1 TAATATATA-GTTTT-AAAATAGTTTTG-AAAACGTA
** *
2203477 TAATATATAGTTTTAAAACGGTTTTGAAAACATA
1 TAATATATAGTTTTAAAATAGTTTTGAAAACGTA
* *
2203511 TAGTATATAGTTTTTAAAATAGTTTGGAAAACGTA
1 TAATATATAG-TTTTAAAATAGTTTTGAAAACGTA
*
2203546 TAATATATATTTTTTAAAA
1 TAATATATA-GTTTTAAAA
2203565 AATTGTTTTT
Statistics
Matches: 162, Mismatches: 24, Indels: 22
0.78 0.12 0.11
Matches are distributed among these distances:
34 36 0.22
35 52 0.32
36 41 0.25
37 15 0.09
38 6 0.04
39 9 0.06
40 3 0.02
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (34 bp):
TAATATATAGTTTTAAAATAGTTTTGAAAACGTA
Found at i:2203492 original size:70 final size:69
Alignment explanation
Indices: 2203380--2203564 Score: 289
Period size: 70 Copynumber: 2.6 Consensus size: 69
2203370 TAATATACAT
* *
2203380 TTTTTAAAATAGTTTTAAAAAAACGTATAATATATAGTTTTAAAATGGTTTTGAAAACATATAGT
1 TTTTTAAAATAG-TTT-GAAAAACGTATAATATATAGTTTTAAAACGGTTTTGAAAACATATAGT
2203445 ATATAC
64 ATATAC
2203451 TTTTTCAAAATAGTTTGAAAAACGTATAATATATAGTTTTAAAACGGTTTTGAAAACATATAGTA
1 TTTTT-AAAATAGTTTGAAAAACGTATAATATATAGTTTTAAAACGGTTTTGAAAACATATAGTA
*
2203516 TATAG
65 TATAC
* *
2203521 TTTTTAAAATAGTTTGGAAAACGTATAATATATATTTTTTAAAA
1 TTTTTAAAATAGTTTGAAAAACGTATAATATATA-GTTTTAAAA
2203565 AATTGTTTTT
Statistics
Matches: 107, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
69 28 0.26
70 64 0.60
71 8 0.07
72 7 0.07
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (69 bp):
TTTTTAAAATAGTTTGAAAAACGTATAATATATAGTTTTAAAACGGTTTTGAAAACATATAGTAT
ATAC
Found at i:2203586 original size:27 final size:27
Alignment explanation
Indices: 2203548--2203599 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2203538 AAAACGTATA
* *
2203548 ATATATATTTTTTAAAAAATTGTTTTT
1 ATATATAGTTTTTAAAAAATAGTTTTT
2203575 ATATATAGTTTTTAAAAAATAGTTT
1 ATATATAGTTTTTAAAAAATAGTTT
2203600 GAAAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (27 bp):
ATATATAGTTTTTAAAAAATAGTTTTT
Found at i:2203607 original size:29 final size:27
Alignment explanation
Indices: 2203547--2203614 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
2203537 GAAAACGTAT
* * *
2203547 AATATATATTTTTTAAAAAATTGTTTT
1 AATATATAGTTTTTAAAAAATAGTTTA
*
2203574 TATATATAGTTTTTAAAAAATAGTTTGAA
1 AATATATAGTTTTTAAAAAATAGTTT--A
2203603 AATATATAGTTT
1 AATATATAGTTT
2203615 CGAAATGGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.68
29 11 0.32
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (27 bp):
AATATATAGTTTTTAAAAAATAGTTTA
Found at i:2203780 original size:21 final size:21
Alignment explanation
Indices: 2203734--2203791 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
2203724 TATTATTACA
* *
2203734 TATTATTATTTACTTATTTTATT
1 TATTATTATTT--TTAATTAATT
2203757 TATTATTATTTTTAATTAATT
1 TATTATTATTTTTAATTAATT
*
2203778 TATTTTTATTTTTA
1 TATTATTATTTTTA
2203792 TTTTCGGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 21 0.66
23 11 0.34
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTATTATTTTTAATTAATT
Found at i:2203794 original size:16 final size:16
Alignment explanation
Indices: 2203736--2203794 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
2203726 TTATTACATA
*
2203736 TTATTATTTACTTA-TT
1 TTATT-TTTATTTATTT
2203752 TTATTTATTA-TTATTT
1 TTATTT-TTATTTATTT
* *
2203768 TTA-ATTAATTTATTT
1 TTATTTTTATTTATTT
2203783 TTATTTTTATTT
1 TTATTTTTATTT
2203795 TCGGTCAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 2 0.06
15 14 0.40
16 19 0.54
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TTATTTTTATTTATTT
Found at i:2211667 original size:45 final size:46
Alignment explanation
Indices: 2211580--2211671 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
2211570 TGAAAAAGCC
* * *
2211580 TGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCAT
1 TGAGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCAT
2211626 TGAGTGCATCGATGCATGAT-ATGTGCATCGATGCATAAAATGCAT
1 TGAGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCAT
2211671 T
1 T
2211672 CGATGTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 24 0.56
46 19 0.44
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (46 bp):
TGAGTGCATCGATGCATGATCATGTGCATCGATGCATAAAATGCAT
Found at i:2214462 original size:44 final size:43
Alignment explanation
Indices: 2214342--2214442 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
2214332 AACTCGACGG
* * *
2214342 ATGCATCGATGCATGACCCTGTGCATCGATGCACATTCAAGGC
1 ATGCATCGATGCATAAACATGTGCATCGATGCACATTCAAGGC
* * *
2214385 ATGCATCGGTGCATAAACATGATGAATCGATGCACATTCAAAGGG
1 ATGCATCGATGCATAAACATG-TGCATCGATGCACATTC-AAGGC
2214430 ATGCATCGATGCA
1 ATGCATCGATGCA
2214443 CTGTTAAGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
43 17 0.35
44 16 0.33
45 16 0.33
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (43 bp):
ATGCATCGATGCATAAACATGTGCATCGATGCACATTCAAGGC
Found at i:2218299 original size:19 final size:20
Alignment explanation
Indices: 2218272--2218310 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
2218262 AGTTTATTTT
*
2218272 CATTTTTTTAAT-TTTTAAA
1 CATTATTTTAATATTTTAAA
*
2218291 CATTATTTTTATATTTTAAA
1 CATTATTTTAATATTTTAAA
2218311 AAATAATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
CATTATTTTAATATTTTAAA
Found at i:2218319 original size:21 final size:20
Alignment explanation
Indices: 2218276--2218319 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2218266 TATTTTCATT
* * *
2218276 TTTTTAATTTTTAAACATTA
1 TTTTTAATTTTAAAAAATAA
2218296 TTTTTATATTTTAAAAAATAA
1 TTTTTA-ATTTTAAAAAATAA
2218317 TTT
1 TTT
2218320 CTCATAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAATTTTAAAAAATAA
Found at i:2220337 original size:45 final size:46
Alignment explanation
Indices: 2220250--2220341 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 46
2220240 TAAAAAAGCC
*
2220250 TGAGTGCATCAATGCATGGTCTTGTGCATCGATGCATCAAATGCAT
1 TGAGTGCATCAATGCATGGTCATGTGCATCGATGCATCAAATGCAT
* *
2220296 TGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATTAAATGCAT
1 TGAGTGCATCAATGCATGGTCATGTGCATCGATGCATCAAATGCAT
2220341 T
1 T
2220342 CAATGTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
45 24 0.56
46 19 0.44
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (46 bp):
TGAGTGCATCAATGCATGGTCATGTGCATCGATGCATCAAATGCAT
Found at i:2220384 original size:20 final size:20
Alignment explanation
Indices: 2220359--2220396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2220349 TGAAAAATTA
* *
2220359 ATTGGTTCATCGTTGCATGG
1 ATTGGTGCATCGGTGCATGG
2220379 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGGTGCAT
2220397 CACTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.37
Consensus pattern (20 bp):
ATTGGTGCATCGGTGCATGG
Found at i:2223746 original size:15 final size:15
Alignment explanation
Indices: 2223726--2223755 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2223716 GATTGCATAA
2223726 ACTATGCTAGAAGAT
1 ACTATGCTAGAAGAT
2223741 ACTATGCTAGAAGAT
1 ACTATGCTAGAAGAT
2223756 GTCATAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
ACTATGCTAGAAGAT
Found at i:2227543 original size:19 final size:19
Alignment explanation
Indices: 2227515--2227557 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2227505 AATGGTAAGT
* *
2227515 AGTTTGAATTGAATTTTTA
1 AGTTTTAATTGAACTTTTA
*
2227534 AGTTTTAATTTAACTTTTA
1 AGTTTTAATTGAACTTTTA
2227553 A-TTTT
1 AGTTTT
2227558 CACAATTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (19 bp):
AGTTTTAATTGAACTTTTA
Found at i:2234193 original size:25 final size:26
Alignment explanation
Indices: 2234125--2234186 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
2234115 GAATATAAAT
2234125 TAAGATAATA-ATAAAATATTTTTAA
1 TAAGATAATATATAAAATATTTTTAA
*
2234150 TAAGTTAATATA-AAAATATTTTT-A
1 TAAGATAATATATAAAATATTTTTAA
2234174 -AAGATAATATATA
1 TAAGATAATATATA
2234187 TATATATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 10 0.30
24 2 0.06
25 20 0.61
26 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
TAAGATAATATATAAAATATTTTTAA
Found at i:2235258 original size:20 final size:20
Alignment explanation
Indices: 2235233--2235270 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2235223 ATAAAAGGTT
*
2235233 GTTAGGGATGTTAGAAATCA
1 GTTAGGGAAGTTAGAAATCA
2235253 GTTAGGGAAGTTAGAAAT
1 GTTAGGGAAGTTAGAAAT
2235271 TGTTAGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.29
Consensus pattern (20 bp):
GTTAGGGAAGTTAGAAATCA
Found at i:2240686 original size:17 final size:17
Alignment explanation
Indices: 2240673--2240723 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
2240663 TAATATATGG
2240673 TTTTTGAAAATATATAA
1 TTTTTGAAAATATATAA
2240690 TTTTTGAAAATATATATA
1 TTTTTGAAAATATATA-A
* *
2240708 ATTTTGAAAATGTATA
1 TTTTTGAAAATATATA
2240724 TTCCTTTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 16 0.52
18 15 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (17 bp):
TTTTTGAAAATATATAA
Found at i:2240712 original size:18 final size:18
Alignment explanation
Indices: 2240674--2240724 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
2240664 AATATATGGT
*
2240674 TTTTGAAAATATATA-AT
1 TTTTGAAAATATATATAA
2240691 TTTTGAAAATATATATAA
1 TTTTGAAAATATATATAA
*
2240709 TTTTGAAAATGTATAT
1 TTTTGAAAATATATAT
2240725 TCCTTTGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
TTTTGAAAATATATATAA
Found at i:2240840 original size:18 final size:20
Alignment explanation
Indices: 2240775--2240837 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
2240765 TTTTTAAAAG
*
2240775 AAAACATA-TATAATTTTTT
1 AAAACATATTATAGTTTTTT
2240794 AAAACATATTATAGTTTTTT
1 AAAACATATTATAGTTTTTT
*
2240814 AAAACATATTATAGTTTTTG
1 AAAACATATTATAGTTTTTT
2240834 AAAA
1 AAAA
2240838 TATAATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 8 0.20
20 33 0.80
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAACATATTATAGTTTTTT
Found at i:2240846 original size:20 final size:20
Alignment explanation
Indices: 2240775--2240846 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
2240765 TTTTTAAAAG
*
2240775 AAAACAT-ATATAATTTTTT
1 AAAACATAATATAGTTTTTT
*
2240794 AAAACATATTATAGTTTTTT
1 AAAACATAATATAGTTTTTT
* *
2240814 AAAACATATTATAGTTTTTG
1 AAAACATAATATAGTTTTTT
*
2240834 AAAATATAATATA
1 AAAACATAATATA
2240847 TATTATATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 7 0.15
20 40 0.85
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (20 bp):
AAAACATAATATAGTTTTTT
Found at i:2240917 original size:16 final size:16
Alignment explanation
Indices: 2240888--2240939 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
2240878 TACGTATTAC
2240888 ATATTATATATTAT-TT
1 ATATTAT-TATTATATT
*
2240904 ATCATTTTTATTATATT
1 AT-ATTATTATTATATT
2240921 ATATTATTATTAATATT
1 ATATTATTATT-ATATT
2240938 AT
1 AT
2240940 TTTTCGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTATTATTATATT
Found at i:2248815 original size:2 final size:2
Alignment explanation
Indices: 2248808--2248899 Score: 184
Period size: 2 Copynumber: 46.0 Consensus size: 2
2248798 ATATTTTCCT
2248808 CA CA CA CA CA CA CA 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 CA CA CA CA CA CA CA
2248850 CA CA CA CA CA CA CA 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 CA CA CA CA CA CA CA
2248892 CA CA CA CA
1 CA CA CA CA
2248900 TATATATATA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 90 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2254206 original size:17 final size:18
Alignment explanation
Indices: 2254185--2254243 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
2254175 AATGTATATA
*
2254185 ATATATGGTTTTTGAAA-
1 ATATATAGTTTTTGAAAC
* *
2254202 ATATAAAATTTTTGAAAAC
1 ATATATAGTTTTTG-AAAC
*
2254221 ATATATAGTTTTGGAAAC
1 ATATATAGTTTTTGAAAC
2254239 ATATA
1 ATATA
2254244 ATATATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 11 0.32
18 12 0.35
19 11 0.32
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (18 bp):
ATATATAGTTTTTGAAAC
Found at i:2254336 original size:27 final size:25
Alignment explanation
Indices: 2254306--2254363 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 25
2254296 AATTTTTTAA
2254306 ATATAT-TATAGTTTTTGAAAATATAAT
1 ATATATATATAGTTTTT--AAATA-AAT
*
2254333 ATATGTTATATAGTTTTTAAATAAAT
1 ATAT-ATATATAGTTTTTAAATAAAT
2254359 ATATA
1 ATATA
2254364 GTGTACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
26 7 0.26
27 9 0.33
28 1 0.04
29 10 0.37
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (25 bp):
ATATATATATAGTTTTTAAATAAAT
Found at i:2254392 original size:16 final size:17
Alignment explanation
Indices: 2254373--2254418 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
2254363 AGTGTACATA
2254373 TTATATTATATATTATT
1 TTATATTATATATTATT
2254390 TATAGTATTATATATTATT
1 T-TA-TATTATATATTATT
2254409 TT-TATTATAT
1 TTATATTATAT
2254419 TACAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.30
17 1 0.04
18 3 0.11
19 15 0.56
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATTATATATTATT
Found at i:2257462 original size:23 final size:24
Alignment explanation
Indices: 2257416--2257462 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
2257406 GAATAATTAT
2257416 ACTTGTGTTGCACGTTTATATCTGC
1 ACTTGTGTTGCAC-TTTATATCTGC
* *
2257441 ACTTGTGTTTCA-TTTATCTCTG
1 ACTTGTGTTGCACTTTATATCTG
2257463 TCTTTGAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
25 11 0.55
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (24 bp):
ACTTGTGTTGCACTTTATATCTGC
Found at i:2261703 original size:40 final size:39
Alignment explanation
Indices: 2261564--2261738 Score: 128
Period size: 40 Copynumber: 4.6 Consensus size: 39
2261554 GCTAGATGAA
* *
2261564 TCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAAATT
1 TCTTGTTTTAAGAAAAACAATCTTGAGTGAAATTAAATG
** * ** ** * * *
2261603 TCTTGTTTCGAGTAAATATTATCTCAAGTGAGA-T-GAGG
1 TCTTGTTTTAAG-AAAAACAATCTTGAGTGAAATTAAATG
2261641 T-TTGTTTTAAGAAAAACAATCTTGAGTGAAATTAAATG
1 TCTTGTTTTAAGAAAAACAATCTTGAGTGAAATTAAATG
* * * * *
2261679 TCTTGTTTTGAGTAAAAACCATCTTAAGAGAAACT-AA-G
1 TCTTGTTTTAAG-AAAAACAATCTTGAGTGAAATTAAATG
*
2261717 T-TTTTTTTAAGAAAAACAATCT
1 TCTTGTTTTAAGAAAAACAATCT
2261739 CAAGTAAGAT
Statistics
Matches: 101, Mismatches: 30, Indels: 13
0.70 0.21 0.09
Matches are distributed among these distances:
36 24 0.24
37 17 0.17
38 7 0.07
39 21 0.21
40 32 0.32
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (39 bp):
TCTTGTTTTAAGAAAAACAATCTTGAGTGAAATTAAATG
Found at i:2261777 original size:38 final size:38
Alignment explanation
Indices: 2261730--2262604 Score: 245
Period size: 38 Copynumber: 23.8 Consensus size: 38
2261720 TTTTTAAGAA
*
2261730 AAACAATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * * **
2261768 GAACTATCTCAAGTGAGAT--AA-TCTTGTTTTGAGAA
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * *
2261803 AAACAATCTCAAGTTAGTTAAAATTTATGTTTCGAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * *
2261841 AAACTATCTTAAGCT-AGAT-GAA-TCTTGTTT-TAG-G
1 AAACTATCTCAAG-TAAGATAAAATTTTTGTTTCGAGTG
* * * *
2261875 AAAACAATCTCAAGTGAGAT-AAATCTTCTATTTCGAGTG
1 -AAACTATCTCAAGTAAGATAAAAT-TTTTGTTTCGAGTG
** * * *
2261914 AAACTATCTCAAGCGAGAT-GAA-TCTTGTTT-TAG-G
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* *
2261948 AAAACAATCTCAAGTGAGAT-AAATCATTTT-TTTCGAGTG
1 -AAACTATCTCAAGTAAGATAAAAT--TTTTGTTTCGAGTG
* * * * * * *
2261987 AAACTGTCTCAAGCAAGCT-GAA-TCTTGTTT-TA-AG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * *
2262021 AAAATAATCTCAAGTGAGAT-AAATCTTCTATTTCGAGTG
1 AAACT-ATCTCAAGTAAGATAAAAT-TTTTGTTTCGAGTG
** * * *
2262060 AAACTATCTCAAGCGAGAT-GAA-TCTTGTTT-TAG-G
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * * *
2262094 AAAACAATCTCTAGTGAGAT-AAATCTTCTGTTTCAAGTG
1 -AAACTATCTCAAGTAAGATAAAAT-TTTTGTTTCGAGTG
* * ** * *
2262133 AACCCATCTCAAGCGAGAT-GAA-TCTTGCTTT--AG-G
1 AAACTATCTCAAGTAAGATAAAATTTTTG-TTTCGAGTG
* * * *
2262167 AAAACAATCTCAAGTGAGAT-AAATCTTCTATTTCGAGTG
1 -AAACTATCTCAAGTAAGATAAAAT-TTTTGTTTCGAGTG
** * * ** **
2262206 AAACTATCTCAAGCGAGAT-GAA-TCTTGTTTTAAGAA
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * *
2262242 AAACAATCTCAAGTGAGATAAAACTTCTGTTTCGAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
** * * ** **
2262280 AAACTATCTCAAGCGAGAT-GAA-TCTTGTTTTAAGAA
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * *
2262316 AAACAATCTCAAGTGAGATAAAACTTCTGTTTCGAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* ** * **
2262354 AAACTATCTAAAGCGAGATAAAATCTTTACTTCGAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
** * * * **
2262392 AAACTATCTCAAGCGAGAT-GAA-TCTTGATTTAG-GAA
1 AAACTATCTCAAGTAAGATAAAATTTTTG-TTTCGAGTG
* * * *
2262428 AAACAATCTCAAGTGAGAT-AAATTTTCGTATT-AAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGT-TTCGAGTG
* ** * *
2262465 AAACTAACTCAAGCGAGATAAATTTTTTGCTTCGAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * ** **
2262503 AAACTATCTCAAGTGAGAT-GAA-TCTTGTTTTAAGAA
1 AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
* * * *
2262539 AAACAATATCAAGTGAGAT-AAATTTTTGTATT-AAGTG
1 AAACTATCTCAAGTAAGATAAAATTTTTGT-TTCGAGTG
** *
2262576 AAACTATCTCAAGCGAGATAAAAGTTTTG
1 AAACTATCTCAAGTAAGATAAAATTTTTG
2262605 CTTAAAAAAT
Statistics
Matches: 611, Mismatches: 179, Indels: 94
0.69 0.20 0.11
Matches are distributed among these distances:
34 10 0.02
35 121 0.20
36 126 0.21
37 88 0.14
38 256 0.42
39 10 0.02
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (38 bp):
AAACTATCTCAAGTAAGATAAAATTTTTGTTTCGAGTG
Found at i:2261814 original size:73 final size:73
Alignment explanation
Indices: 2261541--2262594 Score: 1058
Period size: 73 Copynumber: 14.3 Consensus size: 73
2261531 TATTTCAAAG
* * ** *
2261541 GAAACTTTCTCAAGCTAGATGAATCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAAATTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTT-T
2261606 TGTTTCGAGT
64 TGTTTCGAGT
* * * * ** *
2261616 AAATATTATCTCAAGTGAGATGAGGT-TTGTTTTAAGAAAAACAATCTTGAGTGAAATTAAATGT
1 GAA-ACTATCTCAAGCGAGATGA-ATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA-TAAAT-T
* *
2261680 CTTGTTTTGAGT
62 TTTGTTTCGAGT
* * * * * * *
2261692 AAAAACCATCTTAAGAGAAACT-AAGT-TTTTTTTAAGAAAAACAATCTCAAGTAAGATAAAATT
1 -GAAACTATCTCAAGCGAGA-TGAA-TCTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATT
2261755 TTTGTTTCGAGT
62 TTTGTTTCGAGT
* * * * * *
2261767 GGAACTATCTCAAGTGAGAT-AATCTTGTTTTGAGAAAAACAATCTCAAGTTAGTTAAAATTTAT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTTT
2261831 GTTTCGAGT
65 GTTTCGAGT
* * * *
2261840 GAAACTATCTTAAGCTAGATGAATCTTGTTTT-AGGAAAACAATCTCAAGTGAGATAAATCTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTTT
*
2261904 ATTTCGAGT
65 GTTTCGAGT
*
2261913 GAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACAATCTCAAGTGAGATAAATCATTT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT--TTT
2261977 T-TTTCGAGT
64 TGTTTCGAGT
* * * * *
2261986 GAAACTGTCTCAAGCAAGCTGAATCTTGTTTTAAG-AAAATAATCTCAAGTGAGATAAATCTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTTT
*
2262050 ATTTCGAGT
65 GTTTCGAGT
* * *
2262059 GAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACAATCTCTAGTGAGATAAATCTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTTT
*
2262123 GTTTCAAGT
65 GTTTCGAGT
* * * * *
2262132 GAACCCATCTCAAGCGAGATGAATCTTGCTTT-AGGAAAACAATCTCAAGTGAGATAAATCTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAT-TTTT
*
2262196 ATTTCGAGT
65 GTTTCGAGT
* *
2262205 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAACTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTTT
2262270 GTTTCGAGT
65 GTTTCGAGT
* *
2262279 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAACTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTTT
2262344 GTTTCGAGT
65 GTTTCGAGT
* * ** ** * * * *
2262353 GAAACTATCTAAAGCGAGATAAAATCTT-TACTTCGAGTGAAACTATCTCAAGCGAGATGAA-TC
1 GAAACTATCTCAAGCGAGAT-GAATCTTGT--TTTAAGAAAAACAATCTCAAGTGAGATAAATTT
* *
2262416 TTGATTTAG-GA
63 TTG-TTTCGAGT
* * * * * * ** *
2262427 AAAACAATCTCAAGTGAGATAAATTTTCGTATTAAGTGAAACTAA-CTCAAGCGAGATAAATTTT
1 GAAACTATCTCAAGCGAGATGAATCTT-GTTTTAAGAAAAAC-AATCTCAAGTGAGATAAA-TTT
*
2262491 TTGCTTCGAGT
63 TTGTTTCGAGT
* *
2262502 GAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACAATATCAAGTGAGATAAATTTTTG
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTG
*
2262567 TATT-AAGT
66 T-TTCGAGT
2262575 GAAACTATCTCAAGCGAGAT
1 GAAACTATCTCAAGCGAGAT
2262595 AAAAGTTTTG
Statistics
Matches: 841, Mismatches: 109, Indels: 60
0.83 0.11 0.06
Matches are distributed among these distances:
72 10 0.01
73 437 0.52
74 207 0.25
75 58 0.07
76 122 0.15
77 7 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (73 bp):
GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTG
TTTCGAGT
Found at i:2262540 original size:111 final size:111
Alignment explanation
Indices: 2261773--2262607 Score: 704
Period size: 111 Copynumber: 7.6 Consensus size: 111
2261763 GAGTGGAACT
* * ** * ** * * *
2261773 ATCTCAAGTGAGAT-AATCTT-GTTTTGAGAAAAACAATCTCAAGTTAGTTAAAATTTATGTTTC
1 ATCTCAAGTGAGATAAATCTTCGTATTAAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTC
* *
2261836 GAGTGAAACTATCTTAAGCT-AGATGAATCTTGTTTT-AGGAAAACA
66 GAGTGAAACTATCTCAAG-TGAGATGAATCTTGTTTTAAGAAAAACA
* * *
2261881 ATCTCAAGTGAGATAAATCTTC-TATTTCGAGTGAAACTATCTCAAGCGAGAT-GAA-TCTTG-T
1 ATCTCAAGTGAGATAAATCTTCGTA-TT-AAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCT
** * * * * ** *
2261942 TTTAG-GAAAACAATCTCAAGTGAGATAAATCATTTTTTTCGAGTGAAACT
64 TCGAGTG-AAACTATCTCAAGTGAGATGAATC-TTGTTTT-AAGAAAAACA
* ** * * * * * * **
2261992 GTCTCAAGCAAGCTGAATCTT-GTTTTAA--GAAAATAATCTCAAGTGAGAT-AAATCTTCTATT
1 ATCTCAAGTGAGATAAATCTTCGTATTAAGTGAAACT-ATCTCAAGCGAGATAAAAT-TTTTGCT
* *
2262053 TCGAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACA
64 TCGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACA
* * * * *
2262100 ATCTCTAGTGAGATAAATCTTCTGT-TTCAAGTGAACCCATCTCAAGCGAGAT-GAA-TCTTGCT
1 ATCTCAAGTGAGATAAATCTTC-GTATT-AAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCT
* * * * * ** *
2262162 T-TAG-GAAAACAATCTCAAGTGAGATAAATCTTCTATTTCGAGTGAAACT
64 TCGAGTG-AAACTATCTCAAGTGAGATGAATCTTGT-TTT-AAGAAAAACA
* * * ** * * * * *
2262211 ATCTCAAGCGAGATGAATCTT-GTTTTAAGAAAAACAATCTCAAGTGAGATAAAACTTCTGTTTC
1 ATCTCAAGTGAGATAAATCTTCGTATTAAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTC
*
2262275 GAGTGAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACA
66 GAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACA
* * * * *
2262321 ATCTCAAGTGAGATAAAACTTCTGT-TTCGAGTGAAACTATCTAAAGCGAGATAAAATCTTTACT
1 ATCTCAAGTGAGATAAATCTTC-GTATT-AAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCT
* * *
2262385 TCGAGTGAAACTATCTCAAGCGAGATGAATCTTGATTTAGGAAAAACA
64 TCGAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACA
* * *
2262433 ATCTCAAGTGAGATAAATTTTCGTATTAAGTGAAACTAACTCAAGCGAGATAAATTTTTTGCTTC
1 ATCTCAAGTGAGATAAATCTTCGTATTAAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTC
2262498 GAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACA
66 GAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACA
* * * *
2262544 ATATCAAGTGAGATAAATTTTTGTATTAAGTGAAACTATCTCAAGCGAGATAAAAGTTTTGCTT
1 ATCTCAAGTGAGATAAATCTTCGTATTAAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTT
2262608 AAAAAATGTT
Statistics
Matches: 577, Mismatches: 117, Indels: 63
0.76 0.15 0.08
Matches are distributed among these distances:
107 8 0.01
108 99 0.17
109 47 0.08
110 46 0.08
111 251 0.44
112 125 0.22
113 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (111 bp):
ATCTCAAGTGAGATAAATCTTCGTATTAAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTC
GAGTGAAACTATCTCAAGTGAGATGAATCTTGTTTTAAGAAAAACA
Found at i:2263032 original size:11 final size:12
Alignment explanation
Indices: 2263004--2263031 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2262994 TTTCCTTTCA
2263004 TTTTTGGGTTGG
1 TTTTTGGGTTGG
2263016 TTTTTGGGTTGG
1 TTTTTGGGTTGG
2263028 TTTT
1 TTTT
2263032 GAAGCCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (12 bp):
TTTTTGGGTTGG
Found at i:2264345 original size:138 final size:136
Alignment explanation
Indices: 2264146--2264429 Score: 356
Period size: 138 Copynumber: 2.1 Consensus size: 136
2264136 GTCAAAGGTG
* * ** *
2264146 CATTTCGACATAAATTGTTTATAAAAGTTATCAATCGTTTTTGTTTAATGCATAACAGTGCATTT
1 CATTTCGACATAAATTATGTATAAAAGTTATCAATCAATTTTGTTTAATGCATAACAGTGCATTA
* * * * ** * *
2264211 TTGTATCGGTATTGTGTGTACTTTTGGCACTA-GATGTGGAAT-CATGGTATTCATAATGAGTTT
66 TCGTATCAGTACTATGTGTA-TTTCAGCACTATG-TGT-GAATCCATGGAATTCATAATAAGTTT
2264274 GTGAATTAC
128 GTGAATTAC
* * *
2264283 CATTTCGATATACAATTATGTATAAAAGTTATCGATCAATTTTGTTTAATGCATAACGGTGCATT
1 CATTTCGACATA-AATTATGTATAAAAGTTATCAATCAATTTTGTTTAATGCATAACAGTGCATT
*
2264348 ATCGTATCAGTACTATGTGTATTTCAGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTGT
65 ATCGTATCAGTACTATGTGTATTTCAGCACTATGTGTGAATCCATGGAATTCATAATAAGTTTGT
*
2264413 GAATTTC
130 GAATTAC
2264420 CATTTCGACA
1 CATTTCGACA
2264430 CTTCGGTGCA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
136 3 0.02
137 59 0.47
138 63 0.50
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (136 bp):
CATTTCGACATAAATTATGTATAAAAGTTATCAATCAATTTTGTTTAATGCATAACAGTGCATTA
TCGTATCAGTACTATGTGTATTTCAGCACTATGTGTGAATCCATGGAATTCATAATAAGTTTGTG
AATTAC
Found at i:2268414 original size:20 final size:20
Alignment explanation
Indices: 2268389--2268434 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2268379 GTATCAGTAC
*
2268389 TGTGTGTACTTTCGGTACTG
1 TGTGTGTACTTTCGGTACTA
2268409 TGTGTGTACTTTCGGTACTA
1 TGTGTGTACTTTCGGTACTA
2268429 TGTGTG
1 TGTGTG
2268435 CATCCATGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.11, C:0.13, G:0.30, T:0.46
Consensus pattern (20 bp):
TGTGTGTACTTTCGGTACTA
Found at i:2271540 original size:14 final size:15
Alignment explanation
Indices: 2271520--2271556 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
2271510 GCAAATGAAA
2271520 AGATGCAAAAATGGG
1 AGATGCAAAAATGGG
*
2271535 AG-TGC-AAAATGTG
1 AGATGCAAAAATGGG
2271548 AGATGCAAA
1 AGATGCAAA
2271557 TGCAATAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.16
Consensus pattern (15 bp):
AGATGCAAAAATGGG
Found at i:2279491 original size:23 final size:23
Alignment explanation
Indices: 2279465--2279518 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
2279455 GTATAAATGA
2279465 ACCGAAGTGCCACGTAGAATTGC
1 ACCGAAGTGCCACGTAGAATTGC
* *
2279488 ACCGAATTGCCGCGTAGAATTGC
1 ACCGAAGTGCCACGTAGAATTGC
2279511 ACCGAAGT
1 ACCGAAGT
2279519 TCCATATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
ACCGAAGTGCCACGTAGAATTGC
Found at i:2286352 original size:23 final size:23
Alignment explanation
Indices: 2286322--2286380 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2286312 CGGATAAATG
*
2286322 CACCGAAGTGCCACGTAGAATTA
1 CACCGAAGTGCCACATAGAATTA
* *
2286345 CACCGAAGTGCCGCATAGAATTG
1 CACCGAAGTGCCACATAGAATTA
*
2286368 CACCAAAGTGCCA
1 CACCGAAGTGCCA
2286381 TATAATATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (23 bp):
CACCGAAGTGCCACATAGAATTA
Found at i:2290225 original size:12 final size:12
Alignment explanation
Indices: 2290208--2290263 Score: 67
Period size: 12 Copynumber: 4.5 Consensus size: 12
2290198 GCATACTAAA
2290208 ATTTATGAGAAT
1 ATTTATGAGAAT
2290220 ATTTATGAGAAT
1 ATTTATGAGAAT
* * *
2290232 ATTTAATCAAAAAA
1 ATTT-AT-GAGAAT
2290246 ATTTATGAGAAT
1 ATTTATGAGAAT
2290258 ATTTAT
1 ATTTAT
2290264 TACGTGCAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 25 0.69
13 4 0.11
14 7 0.19
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (12 bp):
ATTTATGAGAAT
Found at i:2291130 original size:16 final size:16
Alignment explanation
Indices: 2291109--2291178 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
2291099 AAAAACGTTC
2291109 AAAATGAAATATATAA
1 AAAATGAAATATATAA
* *
2291125 AAAATGAAGAAAATGTAA
1 AAAATG-A-AATATATAA
* * *
2291143 AAATTGAAAGAGAATAA
1 AAAATGAAATA-TATAA
*
2291160 AAAA-GAAATAGATAA
1 AAAATGAAATATATAA
2291175 AAAA
1 AAAA
2291179 ATTAAAAGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
15 8 0.19
16 14 0.33
17 8 0.19
18 12 0.29
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
AAAATGAAATATATAA
Found at i:2304035 original size:15 final size:16
Alignment explanation
Indices: 2304017--2304049 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2304007 AAAATAATAA
2304017 ATAATATGTATA-TAT
1 ATAATATGTATACTAT
2304032 ATAATATGTATACTAT
1 ATAATATGTATACTAT
2304048 AT
1 AT
2304050 TTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
ATAATATGTATACTAT
Found at i:2304143 original size:23 final size:23
Alignment explanation
Indices: 2304117--2304230 Score: 82
Period size: 23 Copynumber: 5.2 Consensus size: 23
2304107 TATTTAAAAA
2304117 AAAACTATATATTATATGTTTTC
1 AAAACTATATATTATATGTTTTC
* *
2304140 AAAAC-A-GTGTTATATGTTTTC
1 AAAACTATATATTATATGTTTTC
* *
2304161 TAAAAC---CTATT-T-T-TTTTA
1 -AAAACTATATATTATATGTTTTC
2304179 AAAACTATATATTATATATGTTTTC
1 AAAACTATATA-T-TATATGTTTTC
* * *
2304204 AAAATTATATATTATACGTTCTC
1 AAAACTATATATTATATGTTTTC
2304227 AAAA
1 AAAA
2304231 ACGTGTTTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.07
18 4 0.06
19 1 0.01
20 3 0.04
21 17 0.24
22 7 0.10
23 19 0.26
24 2 0.03
25 14 0.19
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (23 bp):
AAAACTATATATTATATGTTTTC
Found at i:2311100 original size:18 final size:18
Alignment explanation
Indices: 2311070--2311116 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
2311060 GTCAAAATTG
2311070 AAAGA-AAATAAAAAA-GA
1 AAAGATAAA-AAAAAATGA
*
2311087 AATAGATAAAAAAAAATTA
1 AA-AGATAAAAAAAAATGA
2311106 AAAGATAAAAA
1 AAAGATAAAAA
2311117 TTGGGGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 18 0.69
19 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (18 bp):
AAAGATAAAAAAAAATGA
Found at i:2312191 original size:2 final size:2
Alignment explanation
Indices: 2312184--2312221 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
2312174 AAATAAAATA
*
2312184 AT AT AT AT AT AT AT AT AT AT AT A- AT AT GT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
2312222 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2312287 original size:14 final size:14
Alignment explanation
Indices: 2312268--2312294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2312258 TATATTATAT
2312268 GTTTTCAAAAATAC
1 GTTTTCAAAAATAC
2312282 GTTTTCAAAAATA
1 GTTTTCAAAAATA
2312295 TTTTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (14 bp):
GTTTTCAAAAATAC
Found at i:2312350 original size:37 final size:37
Alignment explanation
Indices: 2312282--2312549 Score: 195
Period size: 37 Copynumber: 7.0 Consensus size: 37
2312272 TCAAAAATAC
*
2312282 GTTTTC-AAAA-ATATTTTAAAAACTATATATTATAT
1 GTTTTCAAAAATATATTTTCAAAACTATATATTATAT
* * * *
2312317 GTTTTCAAAAATGTTTTTTCAAAACTATGTATTAAAT
1 GTTTTCAAAAATATATTTTCAAAACTATATATTATAT
* * *
2312354 GTTTTCCAAAACCTATTTTTTAAAAAACTATATATTATATAT
1 GTTTT-CAAAA-ATATATTTT-CAAAACTATATA-T-TATAT
*
2312396 GTTTTCAAAAATATATTTTCAAAACTATATATTATAC
1 GTTTTCAAAAATATATTTTCAAAACTATATATTATAT
** * *
2312433 GTTTTCAAAAACGTGTTTTCAATACCATATTATATATATAT
1 GTTTTCAAAAATATATTTTCAA-AAC-TA-TATAT-TATAT
* * * *
2312474 ATATATACAAAAATAAACTTTTTAAAAACTATATATTATAT
1 GT-T-TTCAAAAATATA--TTTTCAAAACTATATATTATAT
***
2312515 GTTTTTTTAAA-ATATTTTC-AAAC-ATTATATTATAT
1 GTTTTCAAAAATATATTTTCAAAACTA-TATATTATAT
2312550 TAATATATAA
Statistics
Matches: 183, Mismatches: 34, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
34 1 0.01
35 20 0.11
36 8 0.04
37 48 0.26
38 10 0.05
39 24 0.13
40 23 0.13
41 17 0.09
42 15 0.08
43 9 0.05
44 2 0.01
45 6 0.03
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (37 bp):
GTTTTCAAAAATATATTTTCAAAACTATATATTATAT
Found at i:2312415 original size:79 final size:76
Alignment explanation
Indices: 2312280--2312444 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 76
2312270 TTTCAAAAAT
* *
2312280 ACGTTTTCAAAAA--TA--TTTTAAAAACTATATATTATATGTTTTCAAAAATGTTTTTTCAAAA
1 ACGTTTTCAAAAACCTATTTTTTAAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAA
*
2312341 CTATGTATTAA
66 CTATATATTAA
* *
2312352 ATGTTTTCCAAAACCTATTTTTTAAAAAACTATATATTATATATGTTTTCAAAAATATATTTTCA
1 ACGTTTTCAAAAACCTATTTTTT-AAAAACTATATA-T-TATATGTTTTCAAAAATATATTTTCA
*
2312417 AAACTATATATTAT
63 AAACTATATATTAA
2312431 ACGTTTTCAAAAAC
1 ACGTTTTCAAAAAC
2312445 GTGTTTTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
72 11 0.14
74 2 0.03
76 4 0.05
77 12 0.15
78 1 0.01
79 48 0.62
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (76 bp):
ACGTTTTCAAAAACCTATTTTTTAAAAACTATATATTATATGTTTTCAAAAATATATTTTCAAAA
CTATATATTAA
Found at i:2312426 original size:16 final size:15
Alignment explanation
Indices: 2312390--2312428 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
2312380 ACTATATATT
*
2312390 ATATATGTTTTCAAA
1 ATATATATTTTCAAA
2312405 A-ATATATTTTCAAA
1 ATATATATTTTCAAA
2312419 ACTATATATT
1 A-TATATATT
2312429 ATACGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 13 0.62
15 1 0.05
16 7 0.33
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (15 bp):
ATATATATTTTCAAA
Found at i:2312467 original size:79 final size:80
Alignment explanation
Indices: 2312305--2312519 Score: 222
Period size: 79 Copynumber: 2.7 Consensus size: 80
2312295 TTTTAAAAAC
* * * * *
2312305 TATATAT-TATATGTTTTCAAAAATGTTTTTTCAAAACTATGTATTAAATGTTTTCCAAAACCTA
1 TATATATATATATGTTTTCAAAAATATATTTTCAAAACTATATATTATATGTTTTCAAAAACCTA
* *
2312369 TTTTTTAAAAAACTA
66 GTTTTCAAAAAACTA
* *
2312384 TATAT-TATATATGTTTTCAAAAATATATTTTCAAAACTATATATTATACGTTTTCAAAAACGT-
1 TATATATATATATGTTTTCAAAAATATATTTTCAAAACTATATATTATATGTTTTCAAAAACCTA
* *
2312447 GTTTTC-AATACCATA
66 GTTTTCAAAAAAC-TA
* * * * *
2312462 TTATATATATATATATATACAAAAATAAACTTTTTAAAAACTATATATTATATGTTTT
1 -TATATATATATATGTTTTCAAAAATATA--TTTTCAAAACTATATATTATATGTTTT
2312520 TTTAAAATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
77 4 0.04
78 7 0.06
79 59 0.52
80 18 0.16
82 25 0.22
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.45
Consensus pattern (80 bp):
TATATATATATATGTTTTCAAAAATATATTTTCAAAACTATATATTATATGTTTTCAAAAACCTA
GTTTTCAAAAAACTA
Found at i:2313418 original size:23 final size:23
Alignment explanation
Indices: 2313388--2313436 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
2313378 GGGTTATAGC
2313388 TTGGGGAGTGC-ATGTTTTAGGGT
1 TTGGGGAGT-CTATGTTTTAGGGT
2313411 TTGGGGAGTCTATGTTTTAGGGT
1 TTGGGGAGTCTATGTTTTAGGGT
2313434 TTG
1 TTG
2313437 TCAATTAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.43
Consensus pattern (23 bp):
TTGGGGAGTCTATGTTTTAGGGT
Found at i:2315719 original size:12 final size:13
Alignment explanation
Indices: 2315696--2315724 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2315686 TTTAATAACA
2315696 TGATTAATTAATT
1 TGATTAATTAATT
2315709 TGATTAA-TAATT
1 TGATTAATTAATT
2315721 TGAT
1 TGAT
2315725 CATGATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (13 bp):
TGATTAATTAATT
Found at i:2317525 original size:29 final size:29
Alignment explanation
Indices: 2317492--2317550 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2317482 ACAGACTCTA
2317492 ACTGTCCCTTCTAACCACAATGGAAAGGT
1 ACTGTCCCTTCTAACCACAATGGAAAGGT
2317521 ACTGTCCCTTCTAACCACAATGGAAAGGT
1 ACTGTCCCTTCTAACCACAATGGAAAGGT
2317550 A
1 A
2317551 AACTAGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (29 bp):
ACTGTCCCTTCTAACCACAATGGAAAGGT
Found at i:2320889 original size:20 final size:21
Alignment explanation
Indices: 2320846--2320889 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2320836 AATGTTCTGA
**
2320846 TTTCTTGAATGATTTTGAGGT
1 TTTCTTGAATGAAATTGAGGT
*
2320867 TTTCTT-AATGAAATTGAGTT
1 TTTCTTGAATGAAATTGAGGT
2320887 TTT
1 TTT
2320890 TTTGGAGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.55
Consensus pattern (21 bp):
TTTCTTGAATGAAATTGAGGT
Found at i:2325567 original size:16 final size:16
Alignment explanation
Indices: 2325543--2325573 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2325533 GTTGTTGGAT
2325543 CGAGGATTTCTCCGTC
1 CGAGGATTTCTCCGTC
*
2325559 CGAGTATTTCTCCGT
1 CGAGGATTTCTCCGT
2325574 GGGGTGCTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.29, G:0.23, T:0.35
Consensus pattern (16 bp):
CGAGGATTTCTCCGTC
Found at i:2329059 original size:22 final size:23
Alignment explanation
Indices: 2329029--2329088 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
2329019 AAAACCCCAT
2329029 GGGGTATCGATTCCCCTAC-AGG
1 GGGGTATCGATTCCCCTACAAGG
* ** *
2329051 GGGGAATCGGCTCCCCTTCAAGG
1 GGGGTATCGATTCCCCTACAAGG
2329074 GGGGTATCGATTCCC
1 GGGGTATCGATTCCC
2329089 TCTGCACTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (23 bp):
GGGGTATCGATTCCCCTACAAGG
Found at i:2329089 original size:22 final size:22
Alignment explanation
Indices: 2329029--2329089 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
2329019 AAAACCCCAT
*
2329029 GGGGTATCGATTCCCCTACAGG
1 GGGGTATCGATTCCCTTACAGG
* * *
2329051 GGGGAATCGGCTCCCCTT-CAAGG
1 GGGGTATC-GATTCCCTTAC-AGG
2329074 GGGGTATCGATTCCCT
1 GGGGTATCGATTCCCT
2329090 CTGCACTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.23
Consensus pattern (22 bp):
GGGGTATCGATTCCCTTACAGG
Found at i:2332938 original size:22 final size:21
Alignment explanation
Indices: 2332896--2332935 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2332886 GAGTTTGTTT
*
2332896 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2332917 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2332936 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2341874 original size:21 final size:20
Alignment explanation
Indices: 2341801--2341878 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
2341791 TATATTTTGC
*
2341801 AAAGAATCGATCCCTTTTC-A
1 AAAGTATCGATCCC-TTTCAA
* *
2341821 AAAGTATCGATACCCTGTGAA
1 AAAGTATCGAT-CCCTTTCAA
* * *
2341842 AATGGATTGATCCCTTTCAA
1 AAAGTATCGATCCCTTTCAA
2341862 GAAAGTATCGATCCCTT
1 -AAAGTATCGATCCCTT
2341879 CGCTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
20 19 0.43
21 25 0.57
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.29
Consensus pattern (20 bp):
AAAGTATCGATCCCTTTCAA
Found at i:2342715 original size:38 final size:38
Alignment explanation
Indices: 2342664--2342740 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
2342654 TTCAAAGTAA
2342664 TCCTCCACAAATATATTACCTTGTTATAATCTTTAAAT
1 TCCTCCACAAATATATTACCTTGTTATAATCTTTAAAT
2342702 TCCTCCACAAATATATTACCTTGTTATAATCTTTAAAT
1 TCCTCCACAAATATATTACCTTGTTATAATCTTTAAAT
2342740 T
1 T
2342741 TTTTCATTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.43
Consensus pattern (38 bp):
TCCTCCACAAATATATTACCTTGTTATAATCTTTAAAT
Found at i:2345957 original size:32 final size:32
Alignment explanation
Indices: 2345921--2346095 Score: 217
Period size: 32 Copynumber: 5.5 Consensus size: 32
2345911 ACTATTGGGG
***
2345921 ATTATCTGAATATGACACTGACATTGTTGTGC
1 ATTATCTGAATGCAACACTGACATTGTTGTGC
* * *
2345953 ATTATCTGAATGCAATATTGACACTT-TTGTGT
1 ATTATCTGAATGCAACACTGACA-TTGTTGTGC
* * *
2345985 ATTATCTAAATACAACACTGACACTGTTGTGC
1 ATTATCTGAATGCAACACTGACATTGTTGTGC
* * *
2346017 ATTATCAGAATGCAACAATGACATTGATGTGC
1 ATTATCTGAATGCAACACTGACATTGTTGTGC
*
2346049 ATTATCTGAATGCAACACTAACATTGTTGTGC
1 ATTATCTGAATGCAACACTGACATTGTTGTGC
2346081 ATTATCTGAATGCAA
1 ATTATCTGAATGCAA
2346096 TGCACTACTA
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
31 1 0.01
32 116 0.97
33 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (32 bp):
ATTATCTGAATGCAACACTGACATTGTTGTGC
Found at i:2352686 original size:18 final size:18
Alignment explanation
Indices: 2352663--2352697 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2352653 TTTTAAAAAA
* *
2352663 TTATTTTTAAATAATATT
1 TTATTTTAAAAAAATATT
2352681 TTATTTTAAAAAAATAT
1 TTATTTTAAAAAAATAT
2352698 AAACTGACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTTAAAAAAATATT
Found at i:2354470 original size:18 final size:18
Alignment explanation
Indices: 2354447--2354490 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
2354437 TCAATTTGTG
2354447 ATGGTCGATCTGGAGGAC
1 ATGGTCGATCTGGAGGAC
2354465 ATGGTCGATCTGGAGGAC
1 ATGGTCGATCTGGAGGAC
2354483 ATGGTCGA
1 ATGGTCGA
2354491 GGTCGTGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.23
Consensus pattern (18 bp):
ATGGTCGATCTGGAGGAC
Found at i:2357980 original size:29 final size:29
Alignment explanation
Indices: 2357947--2358024 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
2357937 TGGTATTTTT
*
2357947 GTAAATATTGTTAAAAAAATGTTAGTTTC
1 GTAAATATTGTTAAAAAAATGTTAATTTC
* **
2357976 GTAAATATTGTTAAGAATGTGTTAATTTC
1 GTAAATATTGTTAAAAAAATGTTAATTTC
*
2358005 GTAAATATT-TTGAAAAAATG
1 GTAAATATTGTTAAAAAAATG
2358025 ATATTTTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 7 0.17
29 34 0.83
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (29 bp):
GTAAATATTGTTAAAAAAATGTTAATTTC
Found at i:2358030 original size:16 final size:16
Alignment explanation
Indices: 2358009--2358061 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
2357999 AATTTCGTAA
2358009 ATATTTTGAAAAAATG
1 ATATTTTGAAAAAATG
**
2358025 ATATTTTG--GTAAT-
1 ATATTTTGAAAAAATG
*
2358038 -TATTTTGAAAAAGTG
1 ATATTTTGAAAAAATG
2358053 ATATTTTGA
1 ATATTTTGA
2358062 TAATTATTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
12 7 0.25
14 5 0.18
16 16 0.57
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (16 bp):
ATATTTTGAAAAAATG
Found at i:2358133 original size:28 final size:28
Alignment explanation
Indices: 2358005--2358132 Score: 204
Period size: 28 Copynumber: 4.6 Consensus size: 28
2357995 TGTTAATTTC
* *
2358005 GTAAATATTTTGAAAAAATGATATTTTG
1 GTAATTATTTTGAAAAAGTGATATTTTG
2358033 GTAATTATTTTGAAAAAGTGATATTTTG
1 GTAATTATTTTGAAAAAGTGATATTTTG
* *
2358061 ATAATTATTTCGAAAAAGTGATATTTTG
1 GTAATTATTTTGAAAAAGTGATATTTTG
2358089 GTAATTATTTTGAAAAAGTGATA-TTTG
1 GTAATTATTTTGAAAAAGTGATATTTTG
*
2358116 GTAATTATTTTTAAAAA
1 GTAATTATTTTGAAAAA
2358133 AAAAGTGTTA
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 20 0.22
28 73 0.78
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.45
Consensus pattern (28 bp):
GTAATTATTTTGAAAAAGTGATATTTTG
Found at i:2362141 original size:69 final size:69
Alignment explanation
Indices: 2361982--2362161 Score: 175
Period size: 69 Copynumber: 2.6 Consensus size: 69
2361972 ATACTCTAAT
* * * * * *
2361982 CCTTCAAGGTTCCTGTGCGAGACACTCTAAATACAATTGATTAGGCGCTCTCGCATGAGTCGCTC
1 CCTTCGAGGCTCCTGTGCAAGACACTCGAAATACAATTGATTAGGCGCTCTCGCACGAGCCGCTC
2362047 TTAC
66 TTAC
* ** * * * * **
2362051 CCTTCGGGGCTCCCATACAAGACA-TCCGAAATACAATTGATTAGGTGCTTTGGTGCGAGCCGCT
1 CCTTCGAGGCTCCTGTGCAAGACACT-CGAAATACAATTGATTAGGCGCTCTCGCACGAGCCGCT
2362115 C-TATC
65 CTTA-C
* *
2362120 CCTTCGAGGCTCCTGTGCAAGACACTCGGAATACATTTGATT
1 CCTTCGAGGCTCCTGTGCAAGACACTCGAAATACAATTGATT
2362162 TTTCATAAGA
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
68 3 0.03
69 83 0.95
70 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (69 bp):
CCTTCGAGGCTCCTGTGCAAGACACTCGAAATACAATTGATTAGGCGCTCTCGCACGAGCCGCTC
TTAC
Found at i:2366369 original size:2 final size:2
Alignment explanation
Indices: 2366319--2366355 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2366309 TTTCAAAAAT
2366319 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2366356 TTTAAACTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2373512 original size:202 final size:201
Alignment explanation
Indices: 2373112--2373516 Score: 677
Period size: 202 Copynumber: 2.0 Consensus size: 201
2373102 GCCCTCATAC
* *
2373112 TTGGCTTATTGTGCCAACTTTTCCTTAGAGTCTACACCCTCTCACGACCTTAGCTTGTCGTTCCA
1 TTGGCTTATCGTGCCAACTTTTCCTTAGAGTCTACACCCTCTCACGACCTTAGCTTGTCGTGCCA
* *
2373177 ACTATCAAAATACCCTAGGCGGGTTTTCTGCCAACTGGGCATGGACATCGATAACAAGTTCCCTA
66 ACTATCAAAATACCCTAGGCGAGTTTACTGCCAACTGGGCATGGACATCGATAACAAGTTCCCTA
* *
2373242 AGGAACTTCTTACACATCAAGGACTCAGTCGTAACTAAATCTGGAAGGTAACGACTCAATCAAAA
131 AGGAACTTCTTACACATCAAGGACTCAGTCGCAACTAAATCTAGAAGGTAACGACTCAATCAAAA
2373307 AAAATCT
196 AAAA-CT
*
2373314 TTGGCTTATCGTGCCAACTTTTCCTTATAGTCTACACCCTCTCACGACCTTAGCTTGTCGTGCCA
1 TTGGCTTATCGTGCCAACTTTTCCTTAGAGTCTACACCCTCTCACGACCTTAGCTTGTCGTGCCA
* *
2373379 ACTATCAAAATACCCTAGGCGAGTTTACTGCCAATTGGGCATGGATATCGATAACAAGTTCCC-A
66 ACTATCAAAATACCCTAGGCGAGTTTACTGCCAACTGGGCATGGACATCGATAACAAGTTCCCTA
* * *
2373443 AGGAACTTCTTACACATCAAGGACTCAGTTGCAACTAAATCTAGAAGGTAACGACTTAATCGGAA
131 AGGAACTTCTTACACATCAAGGACTCAGTCGCAACTAAATCTAGAAGGTAACGACTCAATC-AAA
2373508 AAAAACT
195 AAAAACT
2373515 TT
1 TT
2373517 CTCATAATCG
Statistics
Matches: 190, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
201 62 0.33
202 128 0.67
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (201 bp):
TTGGCTTATCGTGCCAACTTTTCCTTAGAGTCTACACCCTCTCACGACCTTAGCTTGTCGTGCCA
ACTATCAAAATACCCTAGGCGAGTTTACTGCCAACTGGGCATGGACATCGATAACAAGTTCCCTA
AGGAACTTCTTACACATCAAGGACTCAGTCGCAACTAAATCTAGAAGGTAACGACTCAATCAAAA
AAAACT
Found at i:2374958 original size:32 final size:32
Alignment explanation
Indices: 2374922--2374990 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
2374912 AATACAAACA
*
2374922 TGACTCTATTGTGCATTATATGAATGA-AACCC
1 TGACTCTATTGTGCATTATATAAAT-ATAACCC
* * * *
2374954 TGACTTTGTTGTTCATTATCTAAATATAACCC
1 TGACTCTATTGTGCATTATATAAATATAACCC
2374986 TGACT
1 TGACT
2374991 AATATCTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.03
32 30 0.97
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (32 bp):
TGACTCTATTGTGCATTATATAAATATAACCC
Found at i:2377772 original size:10 final size:10
Alignment explanation
Indices: 2377757--2377817 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
2377747 AAAATAAAAA
2377757 TAAAATATAT
1 TAAAATATAT
2377767 TAAAATATAT
1 TAAAATATAT
2377777 TAAAATATA-
1 TAAAATATAT
*
2377786 TAAAACA-AT
1 TAAAATATAT
2377795 ATAAATTATATAT
1 -TAAA--ATATAT
*
2377808 TATAATATAT
1 TAAAATATAT
2377818 ATTTTCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.02
9 6 0.14
10 29 0.67
12 5 0.12
13 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAATATAT
Found at i:2377969 original size:34 final size:33
Alignment explanation
Indices: 2377892--2377972 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
2377882 AATATATATG
* * * *
2377892 TTATATAATACATATATATTATATTTTTAAAAA
1 TTATATTATATATATATATTATATATTCAAAAA
* * *
2377925 CTATAATATATATATATATATATATATTCAAACA
1 TTATATTATATATATATAT-TATATATTCAAAAA
2377959 TTATATTATATATA
1 TTATATTATATATA
2377973 CATACATACA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 15 0.39
34 23 0.61
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (33 bp):
TTATATTATATATATATATTATATATTCAAAAA
Found at i:2377977 original size:4 final size:4
Alignment explanation
Indices: 2377970--2378029 Score: 77
Period size: 4 Copynumber: 14.8 Consensus size: 4
2377960 TATATTATAT
* *
2377970 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC AATAC ACTAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC A-TAC
2378020 ATAC A-AC ATA
1 ATAC ATAC ATA
2378030 AATATTATAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
3 3 0.06
4 39 0.80
5 7 0.14
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2385005 original size:27 final size:28
Alignment explanation
Indices: 2384948--2385010 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
2384938 GTAAGAAGCC
2384948 TAAAACTCCCATGCATCAAAGAGTATAAG
1 TAAAACTCCCATGCATC-AAGAGTATAAG
*
2384977 TAAAACTCCCATGCATC-AGAGTATCAG
1 TAAAACTCCCATGCATCAAGAGTATAAG
*
2385004 TAGAACT
1 TAAAACT
2385011 GAGAGAGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 15 0.47
29 17 0.53
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (28 bp):
TAAAACTCCCATGCATCAAGAGTATAAG
Found at i:2385413 original size:20 final size:20
Alignment explanation
Indices: 2385388--2385427 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2385378 AGCAACAGAA
*
2385388 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
2385408 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
2385428 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:2385519 original size:20 final size:20
Alignment explanation
Indices: 2385494--2385532 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2385484 TAATAAAATA
*
2385494 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
2385514 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
2385533 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:2385523 original size:52 final size:52
Alignment explanation
Indices: 2385386--2385533 Score: 253
Period size: 52 Copynumber: 2.8 Consensus size: 52
2385376 TTAGCAACAG
*
2385386 AATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAG
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAA
*
2385437 AATAAAAAACCGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAA
1 AAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAA
*
2385490 AATAAAAACTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
2385534 TTTAATTTAG
Statistics
Matches: 91, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 3 0.03
52 44 0.48
53 44 0.48
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (52 bp):
AATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAATAA
Found at i:2389583 original size:21 final size:20
Alignment explanation
Indices: 2389536--2389580 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
2389526 TTTTCTCCTT
2389536 GTTTTAGCCTCCATAACCGA
1 GTTTTAGCCTCCATAACCGA
2389556 GTTTTAGCCTCCATAACCGA
1 GTTTTAGCCTCCATAACCGA
2389576 GTTTT
1 GTTTT
2389581 TAGTTCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (20 bp):
GTTTTAGCCTCCATAACCGA
Found at i:2390143 original size:20 final size:20
Alignment explanation
Indices: 2390118--2390157 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2390108 AGCAACAGAA
*
2390118 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
2390138 TAAAAATGATCCTATCTAAT
1 TAAAAATGATCCTATCTAAT
2390158 AACTAATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:2390200 original size:20 final size:21
Alignment explanation
Indices: 2390171--2390210 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2390161 TAATAGAATA
*
2390171 AAAAATTGATTCTATCTAATT
1 AAAAATTGATCCTATCTAATT
2390192 AAAAA-TGATCCTATCTAAT
1 AAAAATTGATCCTATCTAAT
2390211 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAAATTGATCCTATCTAATT
Found at i:2390252 original size:20 final size:20
Alignment explanation
Indices: 2390224--2390262 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2390214 TAATAGAATA
* *
2390224 AAAATTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
2390244 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
2390263 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:2390253 original size:52 final size:52
Alignment explanation
Indices: 2390114--2390263 Score: 275
Period size: 53 Copynumber: 2.9 Consensus size: 52
2390104 AATTAGCAAC
2390114 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAATAAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
2390165 AGAATAAAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
*
2390218 AGAATAAAAATTGATTCTATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATA
2390264 TTTAATTTAG
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 5 0.05
52 45 0.47
53 46 0.48
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (52 bp):
AGAATAAAAATTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:2392985 original size:21 final size:20
Alignment explanation
Indices: 2392967--2393011 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2392957 AACATATACG
*
2392967 TATAATA-TGTGATAATATA
1 TATAATACTGTAATAATATA
2392986 TATAATACCTGTAATAATATAA
1 TATAATA-CTGTAATAATAT-A
2393008 TATA
1 TATA
2393012 GATCATGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
21 10 0.45
22 5 0.23
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (20 bp):
TATAATACTGTAATAATATA
Found at i:2392991 original size:19 final size:17
Alignment explanation
Indices: 2392967--2393010 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
2392957 AACATATACG
*
2392967 TATAATATGTGATAATATA
1 TATAATATCTG-TAATA-A
*
2392986 TATAATACCTGTAATAA
1 TATAATATCTGTAATAA
2393003 TATAATAT
1 TATAATAT
2393011 AGATCATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 5 0.23
19 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (17 bp):
TATAATATCTGTAATAA
Found at i:2394128 original size:37 final size:38
Alignment explanation
Indices: 2394043--2394128 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 38
2394033 ATTAAACCTT
*
2394043 TTTTATATTTTTAATTTTGTAAACAAAATTATATAAATA
1 TTTTATA-ATTTAATTTTGTAAACAAAATTATATAAATA
* *
2394082 --TTATGAATTTAATTTTTTAAAGAAAA-TATATAAATA
1 TTTTAT-AATTTAATTTTGTAAACAAAATTATATAAATA
2394118 TTTTATAATTT
1 TTTTATAATTT
2394129 GAAATATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
36 10 0.24
37 26 0.63
38 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (38 bp):
TTTTATAATTTAATTTTGTAAACAAAATTATATAAATA
Found at i:2394433 original size:38 final size:36
Alignment explanation
Indices: 2394370--2394676 Score: 207
Period size: 37 Copynumber: 8.1 Consensus size: 36
2394360 TATATACATT
** **
2394370 TATATATATAGTTTACAAATGATTTTTGAAAATACGTA
1 TATATATATAGTTTTTAAAACATTTTTGAAAATA--TA
*
2394408 TATGATATATAG-TTTTAAAACATTTTTTTGAAACTATA
1 TAT-ATATATAGTTTTTAAAACA--TTTTTGAAAATATA
*
2394446 TATATTATATAGTTTTTAAAACATTTTCGAAAAT-TA
1 TATA-TATATAGTTTTTAAAACATTTTTGAAAATATA
*
2394482 TATAATATATAGTTTTTAAAACATTTTT-AAAAAATTA
1 TAT-ATATATAGTTTTTAAAACATTTTTGAAAATA-TA
* * *
2394519 TATATTATATAATTTTTGAAAATATTTTT-AAAAAATA
1 TATA-TATATAGTTTTT-AAAACATTTTTGAAAATATA
*
2394556 TATAATATATAGTTTTTTAAATCA-TTTTGAAAACT-TA
1 TAT-ATATATAG-TTTTTAAAACATTTTTGAAAA-TATA
* * *
2394593 TATAATATATTA-TTTTGGAAAAAATATTTTTGAAACA-ATTG
1 TAT-ATATA-TAGTTTT---TAAAACATTTTTGAAA-ATA-TA
* *
2394634 TATATTATATAGTTTTTCAAAAACATGTTAGAAAATATA
1 TATA-TATATAGTTTTT--AAAACATTTTTGAAAATATA
2394673 TATA
1 TATA
2394677 AATTTAAAAT
Statistics
Matches: 218, Mismatches: 24, Indels: 53
0.74 0.08 0.18
Matches are distributed among these distances:
35 4 0.02
36 36 0.17
37 57 0.26
38 45 0.21
39 28 0.13
40 35 0.16
41 13 0.06
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATATAGTTTTTAAAACATTTTTGAAAATATA
Found at i:2394528 original size:37 final size:37
Alignment explanation
Indices: 2394406--2394677 Score: 214
Period size: 37 Copynumber: 7.2 Consensus size: 37
2394396 TGAAAATACG
* ** *
2394406 TATATGATATATAG-TTTTAAAACATTTTTTTGAAACT
1 TATATAATATATAGTTTTTAAAACA-TTTTTAAAAAAT
* **
2394443 ATATATATTATATAGTTTTTAAAACA-TTTTCGAAAAT
1 -TATATAATATATAGTTTTTAAAACATTTTTAAAAAAT
2394480 TATATAATATATAGTTTTTAAAACATTTTTAAAAAAT
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAAT
* * *
2394517 TATATATTATATAATTTTTGAAAATATTTTTAAAAAA-
1 TATATAATATATAGTTTTT-AAAACATTTTTAAAAAAT
* * *
2394554 TATATAATATATAGTTTTTTAAATCA-TTTTGAAAACT
1 TATATAATATATAG-TTTTTAAAACATTTTTAAAAAAT
* * *
2394591 TATATAATATATTA-TTTTGGAAAAAATATTTTTGAAACAAT
1 TATATAATATA-TAGTTTT---TAAAACATTTTT-AAAAAAT
* * * *
2394632 TGTATATTATATAGTTTTTCAAAAACA-TGTTAGAAAAT
1 TATATAATATATAGTTTTT--AAAACATTTTTAAAAAAT
2394670 ATATATAA
1 -TATATAA
2394678 ATTTAAAATA
Statistics
Matches: 188, Mismatches: 31, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
36 36 0.19
37 62 0.33
38 40 0.21
39 22 0.12
40 11 0.06
41 17 0.09
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAACATTTTTAAAAAAT
Found at i:2394795 original size:12 final size:12
Alignment explanation
Indices: 2394768--2394829 Score: 65
Period size: 12 Copynumber: 5.1 Consensus size: 12
2394758 TTAAAAAATA
2394768 TATTTTTTTA--
1 TATTTTTTTATT
2394778 TATTTTTTTATT
1 TATTTTTTTATT
*
2394790 TCTTTTTTTATT
1 TATTTTTTTATT
2394802 TGATATTTATTTATT
1 T-AT-TTT-TTTATT
*
2394817 TATTTATTTATT
1 TATTTTTTTATT
2394829 T
1 T
2394830 CGTTTATCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
10 10 0.23
12 19 0.43
13 3 0.07
14 5 0.11
15 7 0.16
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TATTTTTTTATT
Found at i:2394814 original size:4 final size:4
Alignment explanation
Indices: 2394778--2394829 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
2394768 TATTTTTTTA
* * *
2394778 TATT TTTT TATT TCTT TTTT TATT TGA-- TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT T-ATT TATT TATT TATT TATT TATT
2394825 TATT T
1 TATT T
2394830 CGTTTATCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 1 0.03
3 1 0.03
4 37 0.93
5 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (4 bp):
TATT
Found at i:2398813 original size:17 final size:18
Alignment explanation
Indices: 2398791--2398832 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2398781 ACCTAGCTAT
*
2398791 CTAGTTACACTAC-CTAG
1 CTAGTTACACAACTCTAG
2398808 CTAGTT-CACAACTCTAG
1 CTAGTTACACAACTCTAG
*
2398825 CTTGTTAC
1 CTAGTTAC
2398833 CTAGGCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 15 0.71
18 1 0.05
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (18 bp):
CTAGTTACACAACTCTAG
Found at i:2402465 original size:20 final size:20
Alignment explanation
Indices: 2402428--2402466 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2402418 AGATTGAGTG
* * *
2402428 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
2402448 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
2402467 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:2414975 original size:40 final size:40
Alignment explanation
Indices: 2414900--2414977 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
2414890 TTGATAGCTC
* *
2414900 TTTCAATAATTTCTCCACACATGGCGGTGTCAGAGAAAGT
1 TTTCAATAATTTCTCCACACATGACGATGTCAGAGAAAGT
* *
2414940 TTTCAATAATTTCTCCACA-AGTGATGATGTTAGAGAAA
1 TTTCAATAATTTCTCCACACA-TGACGATGTCAGAGAAA
2414978 CTCTTAGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (40 bp):
TTTCAATAATTTCTCCACACATGACGATGTCAGAGAAAGT
Found at i:2420884 original size:16 final size:16
Alignment explanation
Indices: 2420856--2420893 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2420846 CATGTTGTGT
2420856 TTTCTTTTGTTTTCTC
1 TTTCTTTTGTTTTCTC
*
2420872 TTTCTCTTT-TTTTCTT
1 TTTCT-TTTGTTTTCTC
2420888 TTTCTT
1 TTTCTT
2420894 GTAGGGCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.80
17 3 0.15
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTCTTTTGTTTTCTC
Found at i:2425586 original size:27 final size:28
Alignment explanation
Indices: 2425521--2425707 Score: 122
Period size: 27 Copynumber: 6.7 Consensus size: 28
2425511 CCAGAATTTA
*
2425521 GATTGAAGCACAGAGGTGCTCAGTCAT-
1 GATTGAAGCACAGAGGTGCTCAGTCCTC
**
2425548 -ATTTGGCTGCACAGAGGTG-TCAGTCCTC
1 GA-TT-GAAGCACAGAGGTGCTCAGTCCTC
* *
2425576 GATTGAAGCACAGAGGTGCTCAATCGTC
1 GATTGAAGCACAGAGGTGCTCAGTCCTC
*
2425604 --TTAGCTA-CACAGAGGTG-TCAGCTCC-C
1 GATT-G-AAGCACAGAGGTGCTCAG-TCCTC
** * *
2425630 GGCTGAAGCACAGAGGTGCTCAGTCATT
1 GATTGAAGCACAGAGGTGCTCAGTCCTC
* * *
2425658 TATTTTAACTGCACAGAGGTG-TCAGTTCTC
1 GA-TTGAA--GCACAGAGGTGCTCAGTCCTC
2425688 GATTGAAGCACAGAGGTGCT
1 GATTGAAGCACAGAGGTGCT
2425708 ATGGATTCAG
Statistics
Matches: 120, Mismatches: 23, Indels: 33
0.68 0.13 0.19
Matches are distributed among these distances:
26 8 0.07
27 58 0.48
28 28 0.23
29 8 0.07
30 7 0.06
31 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (28 bp):
GATTGAAGCACAGAGGTGCTCAGTCCTC
Found at i:2425695 original size:58 final size:57
Alignment explanation
Indices: 2425499--2425707 Score: 232
Period size: 54 Copynumber: 3.7 Consensus size: 57
2425489 ATCATTCCAA
* * *
2425499 TGCACAGAGGTGCCAGAATT-TAGATTGAAGCACAGAGGTGCTCAGTCA-TA-TTTGGC
1 TGCACAGAGGTGTCAG--TTCTCGATTGAAGCACAGAGGTGCTCAGTCATTATTTTAGC
* ** *
2425555 TGCACAGAGGTGTCAGTCCTCGATTGAAGCACAGAGGTGCTCA---ATCGTCTTAGC
1 TGCACAGAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCTCAGTCATTATTTTAGC
* * * ** *
2425609 TACACAGAGGTGTCAGCTCCCGGCTGAAGCACAGAGGTGCTCAGTCATTTATTTTAAC
1 TGCACAGAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCTCAGTCA-TTATTTTAGC
2425667 TGCACAGAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCT
1 TGCACAGAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCT
2425708 ATGGATTCAG
Statistics
Matches: 124, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
54 42 0.34
55 23 0.19
56 15 0.12
57 1 0.01
58 42 0.34
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (57 bp):
TGCACAGAGGTGTCAGTTCTCGATTGAAGCACAGAGGTGCTCAGTCATTATTTTAGC
Found at i:2425936 original size:81 final size:81
Alignment explanation
Indices: 2425801--2425957 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
2425791 CGAGTTACAA
** * *
2425801 AGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCGTAGAGGTGTAGAGCAGGAAGTTAC
1 AGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAAAGGTGTAGAGCAGGAAGCTAC
* *
2425866 TGAGCCGGTTGCACCG
66 CGAGCCAGTTGCACCG
* *
2425882 AGAATGGTTCGCACACGAAATGGCGGATCGACAAGCTCTCACAAAGGTGTAGAGCAGGAAGCTAC
1 AGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAAAGGTGTAGAGCAGGAAGCTAC
2425947 CGAGCCAGTTG
66 CGAGCCAGTTG
2425958 TGCAAGAGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.30, C:0.22, G:0.32, T:0.17
Consensus pattern (81 bp):
AGAATGGTTCGCACACGAAATGGCGGAGCAACAAGCTCTCACAAAGGTGTAGAGCAGGAAGCTAC
CGAGCCAGTTGCACCG
Found at i:2433620 original size:61 final size:60
Alignment explanation
Indices: 2433543--2433664 Score: 138
Period size: 60 Copynumber: 2.0 Consensus size: 60
2433533 GTTGCGCTGC
* * * * * *
2433543 TGATTTGAAGTATTGTGTGAATTAAGCAA-ATGAAATGCTATCCCCTCTGGTGGGGCGTTGT
1 TGATTCGAAGTA-T-TGTGAATCAAGCAATAGGAAATGCTAACCCCTCTGGTAGGGCATTGT
* * *
2433604 TGATTCGAAGTGTTGTGAATCGAGCAATAGGAAATGTTAACCCCTCTGGTAGGGCATTGT
1 TGATTCGAAGTATTGTGAATCAAGCAATAGGAAATGCTAACCCCTCTGGTAGGGCATTGT
2433664 T
1 T
2433665 TGTTTTAAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 12 0.24
60 29 0.57
61 10 0.20
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (60 bp):
TGATTCGAAGTATTGTGAATCAAGCAATAGGAAATGCTAACCCCTCTGGTAGGGCATTGT
Found at i:2433747 original size:39 final size:39
Alignment explanation
Indices: 2433676--2433802 Score: 193
Period size: 39 Copynumber: 3.3 Consensus size: 39
2433666 GTTTTAAGAA
* * * *
2433676 AAACAATCTTAAGCGAGAT-AAATCTTCCGTTTCAAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
2433714 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
2433753 AAACTATCTCAAGCGAGATAAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
2433792 AAACCATCTCA
1 AAACTATCTCA
2433803 TGAGAGAAGT
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 17 0.21
39 65 0.79
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:2433891 original size:59 final size:59
Alignment explanation
Indices: 2433824--2433951 Score: 193
Period size: 59 Copynumber: 2.2 Consensus size: 59
2433814 GATACCTCAA
2433824 GTGGGGCGTTACTGATTTGAAATACCGTGAATCGAGCGAAGGAAAAGTTAACCCCTCCG
1 GTGGGGCGTTACTGATTTGAAATACCGTGAATCGAGCGAAGGAAAAGTTAACCCCTCCG
* ** * * *
2433883 GTGGGGCGTCACTGATTTGAAATTTCGTGAATCGAGTGAAGGAAATGTTAACCCCTCTG
1 GTGGGGCGTTACTGATTTGAAATACCGTGAATCGAGCGAAGGAAAAGTTAACCCCTCCG
*
2433942 GTCGGGCGTT
1 GTGGGGCGTT
2433952 GTTCGTTTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (59 bp):
GTGGGGCGTTACTGATTTGAAATACCGTGAATCGAGCGAAGGAAAAGTTAACCCCTCCG
Found at i:2434034 original size:39 final size:39
Alignment explanation
Indices: 2433969--2434258 Score: 422
Period size: 39 Copynumber: 7.5 Consensus size: 39
2433959 TTAAGAAAAA
* * *
2433969 ATCTCAAGTGAGTTAAATAT-TT-TGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAA-ATCTTCTGTTTCGAGGGAAACT
* *
2434007 ATCTCAAGTGAGATAAAATATTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
2434046 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGACATT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
2434085 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
2434124 AACTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* *
2434163 ATCTCAAGCAAGATAAAATCTTCTGTTTCGAGAGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
* * * *
2434202 ATCTCAAGCGAGACAAAATCTTATGTTTCAAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
2434241 ATCTCAAGCGAGATAAAA
1 ATCTCAAGCGAGATAAAA
2434259 CATGTTTTAA
Statistics
Matches: 230, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
37 2 0.01
38 18 0.08
39 210 0.91
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGGAAACT
Found at i:2434327 original size:76 final size:74
Alignment explanation
Indices: 2434227--2434429 Score: 237
Period size: 76 Copynumber: 2.7 Consensus size: 74
2434217 AAATCTTATG
* * *
2434227 TTTCAAGTGAAACTATCTCAAGCGAGATAAAACATGTTTTAAGAAAAGCAATCTTGAGTGAAATG
1 TTTCGAGTAAAACTATCTCAAGCGAGATAAAACATGTTTTAAGAAAA-CAATCTTGAGTCAAATG
*
2434292 AATAT-TCTTG
65 AA-ATGTCTTC
* * * *
2434302 TTTCGAGTAACAACTATCACAAGCGAGATAAATCTTGTTTTAAGAGAAATAATCTTGAGTCAAAT
1 TTTCGAGTAA-AACTATCTCAAGCGAGATAAAACATGTTTTAAGA-AAACAATCTTGAGTCAAAT
2434367 GAAATGTCTTC
64 GAAATGTCTTC
* * ** *
2434378 TTTCGAGTAAAATTATCTCAAGCGAGACAAAGTATGTTATAAGAAAAACAAT
1 TTTCGAGTAAAACTATCTCAAGCGAGATAAAACATGTTTTAAG-AAAACAAT
2434430 ATCAAGTGAG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
75 42 0.39
76 63 0.58
77 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (74 bp):
TTTCGAGTAAAACTATCTCAAGCGAGATAAAACATGTTTTAAGAAAACAATCTTGAGTCAAATGA
AATGTCTTC
Found at i:2444661 original size:12 final size:12
Alignment explanation
Indices: 2444644--2444677 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2444634 GGGAAGGATT
2444644 AGCACCCAAACA
1 AGCACCCAAACA
2444656 AGCACCCAAACA
1 AGCACCCAAACA
*
2444668 AGCGCCCAAA
1 AGCACCCAAA
2444678 AATTTATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.41, G:0.12, T:0.00
Consensus pattern (12 bp):
AGCACCCAAACA
Found at i:2447563 original size:24 final size:24
Alignment explanation
Indices: 2447531--2447577 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
2447521 AGTCTTCCTG
2447531 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
2447555 ATGATGTATAAAACATCTATGTA
1 ATGATGTATAAAACATCTATGTA
2447578 TAATGTCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:2459901 original size:20 final size:19
Alignment explanation
Indices: 2459855--2459906 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
2459845 TCCCTCCCAA
*
2459855 ATTTTTACTTTTCTCTTTC
1 ATTTTAACTTTTCTCTTTC
2459874 ATTATTAACTTTGTCTCTTTC
1 ATT-TTAACTTT-TCTCTTTC
2459895 ATTTTAACTTTT
1 ATTTTAACTTTT
2459907 ATTTTCTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 15 0.50
21 11 0.37
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTAACTTTTCTCTTTC
Found at i:2465030 original size:16 final size:16
Alignment explanation
Indices: 2464991--2465032 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2464981 TGAACCCACC
2464991 TTATTTTATTCTTTTTG
1 TTATTTT-TTCTTTTTG
*
2465008 TTCTTTTTTCTCTTTT-
1 TTATTTTTTCT-TTTTG
2465024 TTATTTTTT
1 TTATTTTTT
2465033 TAATTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81
Consensus pattern (16 bp):
TTATTTTTTCTTTTTG
Done.