Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 122 of 182
Found at i:37496479 original size:50 final size:50
Alignment explanation
Indices: 37496366--37496615 Score: 198
Period size: 50 Copynumber: 4.9 Consensus size: 50
37496356 TTTCTTGTAC
* * * * * ** * *
37496366 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * * * *
37496416 TACCCATGCCATGTCCCAGATATGGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
37496466 TGCCAACGTCATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * * * *
37496516 TGCCAACGCCATGTCCCAAACATGTTCTCACATGGGACCACTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGA-C-CTC-TCATCTC---GG
* *
37496572 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTCATC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATC
37496616 CTCTTAATGT
Statistics
Matches: 162, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
50 112 0.69
51 5 0.03
52 5 0.03
53 6 0.04
56 34 0.21
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:37516826 original size:20 final size:20
Alignment explanation
Indices: 37516803--37516873 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
37516793 CAACTAAAAC
*
37516803 AAAATTAAAA-AAAGATAAAT
1 AAAAATAAAATAAA-ATAAAT
37516823 AAAAATAAAATAAAATAAAAAT
1 AAAAATAAAATAAAAT--AAAT
**
37516845 AAAACGAAAATAATAAT-AAT
1 AAAAATAAAATAA-AATAAAT
*
37516865 AATAATAAA
1 AAAAATAAA
37516874 CTCAATGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
20 20 0.49
21 3 0.07
22 15 0.37
23 3 0.07
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (20 bp):
AAAAATAAAATAAAATAAAT
Found at i:37516827 original size:15 final size:16
Alignment explanation
Indices: 37516774--37516869 Score: 72
Period size: 16 Copynumber: 5.8 Consensus size: 16
37516764 AAGTTTGAGA
*
37516774 AAAAATTAAA-AAAAT
1 AAAAATAAAATAAAAT
*
37516789 AAAGCAACTAAAACAAAATT
1 AAA--AA-TAAAATAAAA-T
*
37516809 AAAAA-AAGAT-AAAT
1 AAAAATAAAATAAAAT
37516823 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
*
37516839 AAAAATAAAACGAAAAT
1 AAAAATAAAA-TAAAAT
*
37516856 AATAATAATAATAA
1 AAAAATAA-AATAA
37516870 TAAACTCAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.09
15 10 0.15
16 17 0.26
17 16 0.25
18 8 0.12
19 4 0.06
20 4 0.06
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:37516872 original size:6 final size:5
Alignment explanation
Indices: 37516797--37516869 Score: 51
Period size: 6 Copynumber: 13.6 Consensus size: 5
37516787 ATAAAGCAAC
*
37516797 TAAAA CAAAA TTAAAA -AAAGA T-AAA TAAAAA TAAAA TAAAA TAAAAA
1 TAAAA TAAAA -TAAAA TAAA-A TAAAA T-AAAA TAAAA TAAAA T-AAAA
*
37516844 TAAAA CGAAAA TAATAA TAATAA TAA
1 TAAAA -TAAAA TAA-AA TAA-AA TAA
37516870 TAAACTCAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
4 5 0.09
5 23 0.41
6 28 0.50
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:37520411 original size:33 final size:34
Alignment explanation
Indices: 37520374--37520440 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
37520364 GCATTTTTGA
*
37520374 CACTG-TACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGATACTGA-AAGGGCTAAGGCCCAAGACTGT
*
37520407 CACTGATACTGAAAGGGCTTAGGCCCAAGACTGT
1 CACTGATACTGAAAGGGCTAAGGCCCAAGACTGT
37520441 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 19 0.63
34 11 0.37
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (34 bp):
CACTGATACTGAAAGGGCTAAGGCCCAAGACTGT
Found at i:37524274 original size:30 final size:30
Alignment explanation
Indices: 37524191--37524278 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
37524181 CACAGGCTGG
* *
37524191 CACATGGGTGTGTGGCCAACCCGTATGGCT
1 CACATGGGTGTGTGGCCAACTCGTGTGGCT
* * *
37524221 CACAGGGGTATGTGGCCATCTCGTGTGGCT
1 CACATGGGTGTGTGGCCAACTCGTGTGGCT
*
37524251 CACATGGGTGTGTGGCCAGCTCGTGTGG
1 CACATGGGTGTGTGGCCAACTCGTGTGG
37524279 AAGTGCCCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.14, C:0.24, G:0.38, T:0.25
Consensus pattern (30 bp):
CACATGGGTGTGTGGCCAACTCGTGTGGCT
Found at i:37529137 original size:27 final size:27
Alignment explanation
Indices: 37529106--37529283 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37529096 TAAATTGTAC
37529106 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37529133 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37529159 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37529187 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37529215 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37529242 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37529269 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37529284 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37529220 original size:82 final size:81
Alignment explanation
Indices: 37529107--37529262 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37529097 AAATTGTACA
* *
37529107 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37529171 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37529188 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37529253 TGCGAGTTGA
65 TGCGAATTGA
37529263 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37529274 original size:82 final size:81
Alignment explanation
Indices: 37529103--37529283 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37529093 GATTAAATTG
* *
37529103 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37529168 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37529184 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37529248 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37529266 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37529284 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37529294 original size:27 final size:27
Alignment explanation
Indices: 37529188--37529294 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
37529178 TGACCATGCG
* * * *
37529188 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
37529216 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
37529243 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
37529270 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
37529295 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:37537326 original size:27 final size:27
Alignment explanation
Indices: 37537295--37537472 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37537285 TAAATTGTAC
37537295 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37537322 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37537348 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37537376 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37537404 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37537431 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37537458 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37537473 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37537409 original size:82 final size:81
Alignment explanation
Indices: 37537296--37537451 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37537286 AAATTGTACA
* *
37537296 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37537360 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37537377 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37537442 TGCGAGTTGA
65 TGCGAATTGA
37537452 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37537463 original size:82 final size:81
Alignment explanation
Indices: 37537292--37537472 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37537282 GATTAAATTG
* *
37537292 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37537357 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37537373 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37537437 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37537455 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37537473 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37542155 original size:145 final size:146
Alignment explanation
Indices: 37541878--37542138 Score: 368
Period size: 145 Copynumber: 1.8 Consensus size: 146
37541868 AAATCAAAGT
* *
37541878 TTTCTTTTAAAAAAATCACTACCTTTTTTAAAAACCAAAGTTTTATTTCGAAATTGTTCAAAAAG
1 TTTCTTTTAAAAAAATCACTACCTTTTTTAAAAACCAAAGCTTTATTTCGAAATAGTTCAAAAAG
* ** *
37541943 ATCAAAATTTTGTTTTAAAATTTTAAACTTTTCCTTTAAAATTACTAAAAAAAAATTATTTTTAA
66 ATCAAAACTTTGTTTTAAAATTTTAAACTTTTAATTTAAAATGACTAAAAAAAAATTATTTTTAA
37542008 AAATCTAAACTTTCTA
131 AAATCTAAACTTTCTA
* ** * *
37542024 TTTCTTTT-AAAAAATCACTA-TTTTTCTTAAAAATTAAAGCTTTATTTTGAAATAGTTGAAAAA
1 TTTCTTTTAAAAAAATCACTACCTTTT-TTAAAAACCAAAGCTTTATTTCGAAATAGTTCAAAAA
*
37542087 GATTAAAACTTTGTTTTACAAA-TTTAAACTTTTAATTT-AAATGACTAAAAAA
65 GATCAAAACTTTGTTTTA-AAATTTTAAACTTTTAATTTAAAATGACTAAAAAA
37542139 GATTTTTATT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
144 17 0.17
145 73 0.72
146 11 0.11
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (146 bp):
TTTCTTTTAAAAAAATCACTACCTTTTTTAAAAACCAAAGCTTTATTTCGAAATAGTTCAAAAAG
ATCAAAACTTTGTTTTAAAATTTTAAACTTTTAATTTAAAATGACTAAAAAAAAATTATTTTTAA
AAATCTAAACTTTCTA
Found at i:37542179 original size:145 final size:144
Alignment explanation
Indices: 37541878--37542183 Score: 343
Period size: 145 Copynumber: 2.1 Consensus size: 144
37541868 AAATCAAAGT
* *
37541878 TTTCTTTTAAAAAAATCACTACCTTTTTTAAAAACCAAAGTTTTATTTCGAAATTGTTCAAAAAG
1 TTTC-TTT-AAAAAATCACTACCTTTTTTAAAAACCAAAGCTTTATTTCGAAATAGTTCAAAAAG
* ** *
37541943 ATCAAAATTTTGTTTTAAAATTTTAAACTTTTCCTTTAAAATTACTAAAAAAAAATTATTTTTAA
64 ATCAAAACTTTGTTTTAAAATTTTAAACTTTTAATTTAAAATGACTAAAAAAAAATTATTTTTAA
*
37542008 AAATCTAAACTTTCTA
129 AAATCTAAACTCTCTA
* ** * *
37542024 TTTCTTTTAAAAAATCACTA-TTTTTCTTAAAAATTAAAGCTTTATTTTGAAATAGTTGAAAAAG
1 TTTC-TTTAAAAAATCACTACCTTTT-TTAAAAACCAAAGCTTTATTTCGAAATAGTTCAAAAAG
* * *
37542088 ATTAAAACTTTGTTTTACAAA-TTTAAACTTTTAATTT-AAATGACT-AAAAAAGATTTTTATTT
64 ATCAAAACTTTGTTTTA-AAATTTTAAACTTTTAATTTAAAATGACTAAAAAAAAATTATT-TTT
37542150 AAAAAAAAATCTAAACTCTCT-
127 ----AAAAATCTAAACTCTCTA
*
37542171 TTTCTTAAAAAAA
1 TTTCTTTAAAAAA
37542184 AATAAAAACT
Statistics
Matches: 137, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
143 11 0.08
144 14 0.10
145 73 0.53
146 19 0.14
147 4 0.03
148 16 0.12
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (144 bp):
TTTCTTTAAAAAATCACTACCTTTTTTAAAAACCAAAGCTTTATTTCGAAATAGTTCAAAAAGAT
CAAAACTTTGTTTTAAAATTTTAAACTTTTAATTTAAAATGACTAAAAAAAAATTATTTTTAAAA
ATCTAAACTCTCTA
Found at i:37542673 original size:3 final size:3
Alignment explanation
Indices: 37542667--37542691 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37542657 TGTTTGATAA
37542667 TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG T
37542692 GATAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:37543197 original size:42 final size:42
Alignment explanation
Indices: 37543140--37543315 Score: 246
Period size: 42 Copynumber: 4.2 Consensus size: 42
37543130 CTTTCATATA
* **
37543140 CAATGATAAAATAAATGGACCTCCATTCCTGAGCCTCTAAATG
1 CAATGA-AAAGTAAATGGACCTCCACACCTGAGCCTCTAAATG
* * * *
37543183 CAATGAAAAGTAAATGGTCTTCCACCCCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATG
* *
37543225 CAATGAAAGGTAAATGGACCTCCACACCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATG
37543267 CAATGAAAAGTAAATGGACCTCCACACCT-AGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGA-GCCTCTAAATG
37543309 CAATGAA
1 CAATGAA
37543316 TGCTTTCCTC
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 114 0.95
43 6 0.05
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGAGCCTCTAAATG
Found at i:37551484 original size:4 final size:4
Alignment explanation
Indices: 37551468--37551501 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
37551458 ACTAATGATC
* *
37551468 GAAT GAGT GAAT GAAT GGAT GAAT GAAT GAAT GA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GA
37551502 TTGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:37558665 original size:23 final size:23
Alignment explanation
Indices: 37558639--37558691 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
37558629 AACGTCTCTT
37558639 AAAATAATCTTCCTAAAATGATC
1 AAAATAATCTTCCTAAAATGATC
*
37558662 AAAATAATCTTCTTAAAATGATC
1 AAAATAATCTTCCTAAAATGATC
37558685 AAAATAA
1 AAAATAA
37558692 AGATGTACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATAATCTTCCTAAAATGATC
Found at i:37560633 original size:36 final size:36
Alignment explanation
Indices: 37560581--37560668 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
37560571 GGTCAGAGGC
* *
37560581 CAAAACGATGCCGTTTTGGTCTTTGAACCCAACTCT
1 CAAAACGACGCCGTTTTGGTCTCTGAACCCAACTCT
*
37560617 CAAAACGACGCTGTTTTGGTCTCTGAACCCAACTCT
1 CAAAACGACGCCGTTTTGGTCTCTGAACCCAACTCT
* *
37560653 CAAAATGACACCGTTT
1 CAAAACGACGCCGTTT
37560669 GATAGCTAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (36 bp):
CAAAACGACGCCGTTTTGGTCTCTGAACCCAACTCT
Found at i:37570437 original size:29 final size:29
Alignment explanation
Indices: 37570404--37570462 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37570394 TGAAATGGTA
37570404 AGCATGCAAATGGAATGAATCATGATCTT
1 AGCATGCAAATGGAATGAATCATGATCTT
37570433 AGCATGCAAATGGAATGAATCATGATCTT
1 AGCATGCAAATGGAATGAATCATGATCTT
37570462 A
1 A
37570463 TGACAACATT
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:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (29 bp):
AGCATGCAAATGGAATGAATCATGATCTT
Found at i:37582902 original size:46 final size:44
Alignment explanation
Indices: 37582852--37582941 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 44
37582842 AACTGATACA
*
37582852 CGGT-GGATTCAGCACACAGCAACCACCCTTTGTAATCAATGATATC
1 CGGTGGGA-TCAGCACACAGCAACCA-CC-TTATAATCAATGATATC
* *
37582898 CGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATC
1 CGGTGGGATCAGCACACAGCAACCACCTTATAATCAATGATATC
37582942 GGTTCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 15 0.38
45 2 0.05
46 20 0.50
47 3 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
CGGTGGGATCAGCACACAGCAACCACCTTATAATCAATGATATC
Found at i:37583007 original size:51 final size:52
Alignment explanation
Indices: 37582946--37583140 Score: 224
Period size: 51 Copynumber: 3.8 Consensus size: 52
37582936 GATATCGGTT
* *
37582946 CACATAGTAGCCTGCACATAGTACTACACATGTGATC-ATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCGATCACTATCCGATA
* *
37582997 CACATGGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCC-AGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCGATCA-CTATCCGA-TA
* * * * *
37583048 CACATAGTAGCCTACACATAGTACTACACATGTGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCGATCACTATCCGATA
* *
37583098 TACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCGATCACT
37583141 TTCACTTTCA
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
49 4 0.03
50 40 0.32
51 78 0.63
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCGATCACTATCCGATA
Found at i:37583076 original size:12 final size:13
Alignment explanation
Indices: 37583046--37583078 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
37583036 AGCTATCCAG
37583046 TACACATAGTAGCC
1 TACACATAGTA-CC
37583060 TACACATAGTA-C
1 TACACATAGTACC
37583072 TACACAT
1 TACACAT
37583079 GTGACCTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:37596245 original size:18 final size:18
Alignment explanation
Indices: 37596222--37596307 Score: 75
Period size: 18 Copynumber: 4.6 Consensus size: 18
37596212 GAATAAGGAT
37596222 ATATGAATGAAATGAAAA
1 ATATGAATGAAATGAAAA
37596240 ATATGAAATGAAA-GAAAA
1 ATATG-AATGAAATGAAAA
** * * *
37596258 ATGGGAATTGGAATGAGGAT
1 ATATGAA-TGAAATGA-AAA
*
37596278 ATATGACTGAAATGAAAA
1 ATATGAATGAAATGAAAA
37596296 ATATGAAATGAA
1 ATATG-AATGAA
37596308 GAAAAATGTG
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
17 2 0.04
18 23 0.45
19 21 0.41
20 5 0.10
ACGTcount: A:0.55, C:0.01, G:0.22, T:0.22
Consensus pattern (18 bp):
ATATGAATGAAATGAAAA
Found at i:37596289 original size:56 final size:55
Alignment explanation
Indices: 37596198--37596315 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 55
37596188 ATAGGCAAAT
37596198 AAAAATGAGAATTGGAATAAGGATATATGAATGAAATGAAAAATATGAAATGAAAG
1 AAAAATGAGAATTGGAATAAGGATATATGAATGAAATGAAAAATATGAAATG-AAG
* * *
37596254 AAAAATGGGAATTGGAATGAGGATATATGACTGAAATGAAAAATATGAAATGAAG
1 AAAAATGAGAATTGGAATAAGGATATATGAATGAAATGAAAAATATGAAATGAAG
37596309 AAAAATG
1 AAAAATG
37596316 TGACATGGAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
55 10 0.17
56 49 0.83
ACGTcount: A:0.55, C:0.01, G:0.23, T:0.21
Consensus pattern (55 bp):
AAAAATGAGAATTGGAATAAGGATATATGAATGAAATGAAAAATATGAAATGAAG
Found at i:37602558 original size:35 final size:35
Alignment explanation
Indices: 37602513--37602582 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
37602503 ATAGAGAAAA
37602513 AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
1 AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
* *
37602548 AAAAATGTGTTAGGATTAGCAATGTTTACTAGGGG
1 AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
37602583 TTAATACAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (35 bp):
AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
Found at i:37603696 original size:35 final size:35
Alignment explanation
Indices: 37603651--37603720 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
37603641 ATAGAGAAAA
37603651 AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
1 AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
* *
37603686 AAAAATGTGTTAGGATTAGCAATGTTTACTAGGGG
1 AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
37603721 TTAATACAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (35 bp):
AAAAATGTGTTAGGATCAACAATGTTTACTAGGGG
Found at i:37604415 original size:22 final size:23
Alignment explanation
Indices: 37604390--37604432 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37604380 CGAGCAAACT
37604390 AATAAGA-AAATAGACAAAAATG
1 AATAAGATAAATAGACAAAAATG
*
37604412 AATAAGATAAATAGATAAAAA
1 AATAAGATAAATAGACAAAAA
37604433 AACTAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (23 bp):
AATAAGATAAATAGACAAAAATG
Found at i:37606086 original size:27 final size:28
Alignment explanation
Indices: 37606056--37606129 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
37606046 TCCTAATACA
37606056 AAAAATAAAACTAATACTAAGC-AGAAT
1 AAAAATAAAACTAATACTAAGCAAGAAT
* *
37606083 AAAAATAGAACT-A-ACTATAGCAATAAT
1 AAAAATAAAACTAATACTA-AGCAAGAAT
*
37606110 AAAAATAAAACTAATCCTAA
1 AAAAATAAAACTAATACTAA
37606130 TAATGAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 4 0.10
26 4 0.10
27 26 0.67
28 2 0.05
29 3 0.08
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (28 bp):
AAAAATAAAACTAATACTAAGCAAGAAT
Found at i:37606171 original size:3 final size:3
Alignment explanation
Indices: 37606163--37606212 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
37606153 TAAAAACAAT
* *
37606163 ATA ATA ATA GTA ATA ATA A-A ACTA AT- ATA ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
37606207 A-A ATA A
1 ATA ATA A
37606213 ACTAGAAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.15
3 31 0.79
4 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:37606189 original size:26 final size:25
Alignment explanation
Indices: 37606155--37606209 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
37606145 AAATAATCTA
**
37606155 AAAACAATATAATAATAGTAATAAT
1 AAAACAATATAATAATAAAAATAAT
37606180 AAAACTAATATAATAATAAAAATAAT
1 AAAAC-AATATAATAATAAAAATAAT
37606206 AAAA
1 AAAA
37606210 TAAACTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 5 0.19
26 22 0.81
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAACAATATAATAATAAAAATAAT
Found at i:37606193 original size:17 final size:17
Alignment explanation
Indices: 37606165--37606212 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
37606155 AAAACAATAT
37606165 AATAATAGTAATAATAAA
1 AATAATA-TAATAATAAA
*
37606183 ACTAATATAATAATAAA
1 AATAATATAATAATAAA
*
37606200 AATAATAAAATAA
1 AATAATATAATAA
37606213 ACTAGAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AATAATATAATAATAAA
Found at i:37606203 original size:9 final size:9
Alignment explanation
Indices: 37606128--37606209 Score: 51
Period size: 9 Copynumber: 9.1 Consensus size: 9
37606118 AACTAATCCT
*
37606128 AATAATGAA
1 AATAATAAA
* *
37606137 AATAAGATA
1 AATAATAAA
37606146 AATAATCTAAA
1 AATAA--TAAA
* *
37606157 AACAAT-AT
1 AATAATAAA
**
37606165 AATAATAGT
1 AATAATAAA
37606174 AATAATAAA
1 AATAATAAA
* *
37606183 ACTAAT-AT
1 AATAATAAA
37606191 AATAATAAA
1 AATAATAAA
37606200 AATAATAAA
1 AATAATAAA
37606209 A
1 A
37606210 TAAACTAGAA
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
8 12 0.22
9 36 0.67
11 6 0.11
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (9 bp):
AATAATAAA
Found at i:37617136 original size:16 final size:15
Alignment explanation
Indices: 37617109--37617138 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37617099 ATTGAATGCA
37617109 TCTTTTTTTTTCTTT
1 TCTTTTTTTTTCTTT
37617124 TCTTTTCTTTTTCTT
1 TCTTTT-TTTTTCTT
37617139 AAAAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTTTTTTTTCTTT
Found at i:37620233 original size:17 final size:18
Alignment explanation
Indices: 37620202--37620235 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37620192 TAACTTAATT
37620202 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
37620220 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
37620236 TTATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:37622270 original size:23 final size:20
Alignment explanation
Indices: 37622242--37622282 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
37622232 TTTAGTCCCT
37622242 CTTAAAATAAATTAATCAATTTA
1 CTTAAAA-AAA-TAAT-AATTTA
37622265 CTTAAAAAAATAATAATT
1 CTTAAAAAAATAATAATT
37622283 ATTTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 3 0.17
23 7 0.39
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
CTTAAAAAAATAATAATTTA
Found at i:37631843 original size:92 final size:91
Alignment explanation
Indices: 37631686--37631894 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
37631676 TTGATTTTAG
** *
37631686 TAAATTCATATAAGAACAATTTATTATTGAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
37631751 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* *
37631778 TAAATTCATATAAGAAAATTTATTATCAAGTATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
*
37631842 TATGTAATAATTATTATTTTAGATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
37631870 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
37631895 GTTATAATTA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 70 0.69
93 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:37632058 original size:120 final size:120
Alignment explanation
Indices: 37631917--37632442 Score: 955
Period size: 120 Copynumber: 4.4 Consensus size: 120
37631907 TTAAATTATT
* * * * * *
37631917 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTATAGTA
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTA
*
37631981 TCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
65 TCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
* *
37632037 TTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
37632102 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
37632157 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
37632222 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
37632277 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
37632342 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
37632397 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
37632443 TAAATATGAT
Statistics
Matches: 394, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
120 392 0.99
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTA
Found at i:37632179 original size:18 final size:17
Alignment explanation
Indices: 37632151--37632185 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37632141 ATTATTAAGA
*
37632151 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37632168 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37632186 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37632299 original size:18 final size:17
Alignment explanation
Indices: 37632271--37632305 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37632261 ATTATTAAGA
*
37632271 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37632288 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37632306 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37632419 original size:18 final size:17
Alignment explanation
Indices: 37632391--37632425 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37632381 ATTATTAAGA
*
37632391 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37632408 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37632426 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37632639 original size:44 final size:45
Alignment explanation
Indices: 37632590--37632680 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
37632580 ACCTCTATTC
* * *
37632590 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
37632634 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
37632679 CA
1 CA
37632681 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:37632682 original size:16 final size:16
Alignment explanation
Indices: 37632661--37632729 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
37632651 GATTAGCTAT
37632661 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37632677 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
37632694 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
*
37632710 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
37632726 TACA
1 TACA
37632730 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 32 0.67
17 16 0.33
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37632703 original size:33 final size:32
Alignment explanation
Indices: 37632661--37632729 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
37632651 GATTAGCTAT
37632661 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
37632694 TACACCTCTAATTCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
37632726 TACA
1 TACA
37632730 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:37632814 original size:16 final size:16
Alignment explanation
Indices: 37632793--37632863 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
37632783 GTTTGGTTCA
37632793 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
37632809 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
37632825 CTGTAATAGAATAAAG
1 CTGTAATGGAATAGAG
*
37632841 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
37632857 CTGTAAT
1 CTGTAAT
37632864 AGTATTCTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:37637718 original size:21 final size:21
Alignment explanation
Indices: 37637679--37637718 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37637669 ATTTTCTTAC
* * *
37637679 CATCAACTTAACCAGCACAAA
1 CATCAAATTAACAACCACAAA
37637700 CATCAAATTAACAACCACA
1 CATCAAATTAACAACCACA
37637719 CAAAATACCA
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:0.50, C:0.33, G:0.03, T:0.15
Consensus pattern (21 bp):
CATCAAATTAACAACCACAAA
Found at i:37644424 original size:28 final size:28
Alignment explanation
Indices: 37644391--37644478 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
37644381 AATAGTACAG
* *
37644391 TGTGGGCCTTAGCCTGATATA-ATAACAA
1 TGTGGGCCTTAGCCTAATACAGA-AACAA
* *
37644419 TGTGGGCCTTAGCCCAATACAGAAACAG
1 TGTGGGCCTTAGCCTAATACAGAAACAA
* * *
37644447 TGTGGGCCTTAGCCTATTACAGTAACAG
1 TGTGGGCCTTAGCCTAATACAGAAACAA
37644475 TGTG
1 TGTG
37644479 ATAATGCAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 51 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (28 bp):
TGTGGGCCTTAGCCTAATACAGAAACAA
Found at i:37644847 original size:27 final size:28
Alignment explanation
Indices: 37644800--37645218 Score: 383
Period size: 27 Copynumber: 15.5 Consensus size: 28
37644790 GGTATAATGG
* * *
37644800 TCATTTTACCCTAT-AAAGGTATTTCGA
1 TCATTTTACCCTTTCGAGGGTATTTCGA
* * * *
37644827 TCATTTTACCCTGT-GGGGGTATTTTGG
1 TCATTTTACCCTTTCGAGGGTATTTCGA
*
37644854 TCATTTTA-CCTTTCGAGGGTATATTAG-
1 TCATTTTACCCTTTCGAGGGTAT-TTCGA
* * *
37644881 TCATTTTACCC-TCCGGGTGGTGTTTC-A
1 TCATTTTACCCTTTCGAG-GGTATTTCGA
*
37644908 GTCATTTTACCCTTT-GAGAGTATTTCGA
1 -TCATTTTACCCTTTCGAGGGTATTTCGA
*
37644936 TCATTTTACCC-TTCGAGGGTATTTCAA
1 TCATTTTACCCTTTCGAGGGTATTTCGA
* * * *
37644963 TTATTTTACCC-TTC-ATGGTTATTCCGG
1 TCATTTTACCCTTTCGA-GGGTATTTCGA
* *
37644990 TCATTTTA-CCTTTCGGGGGTATTTCGG
1 TCATTTTACCCTTTCGAGGGTATTTCGA
* * *
37645017 TCATTTTA-CCATTCTAGGGTATTTCGG
1 TCATTTTACCCTTTCGAGGGTATTTCGA
*
37645044 TCATTTTACCC-TTCGAGGGTATTT-TA
1 TCATTTTACCCTTTCGAGGGTATTTCGA
* *
37645070 GCTATTTTACCCTTT-AAGGGTATTTCGA
1 TC-ATTTTACCCTTTCGAGGGTATTTCGA
* *
37645098 TCGTTTTAACCTTT--AGGGATATTTCGA
1 TCATTTTACCCTTTCGAGGG-TATTTCGA
*
37645125 TTATTTTACCC-TTCGAGGGTATTTCGA
1 TCATTTTACCCTTTCGAGGGTATTTCGA
37645152 TCATTTTACCCTTTCG-GGGTATTTCGA
1 TCATTTTACCCTTTCGAGGGTATTTCGA
*
37645179 TCATTTTACCCTTT-GAGGATATTTCGA
1 TCATTTTACCCTTTCGAGGGTATTTCGA
37645206 TCATTTTACCCTT
1 TCATTTTACCCTT
37645219 CGAATCAAAA
Statistics
Matches: 326, Mismatches: 45, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
26 17 0.05
27 271 0.83
28 37 0.11
29 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (28 bp):
TCATTTTACCCTTTCGAGGGTATTTCGA
Found at i:37652588 original size:27 final size:27
Alignment explanation
Indices: 37652501--37652863 Score: 248
Period size: 27 Copynumber: 13.5 Consensus size: 27
37652491 GGTATAATGG
* *
37652501 TCATTTTACCCTAT-GAAGGTATTTC-A
1 TCATTTTACCCTTTAG-GGGTATTTCGA
** * *
37652527 GTCATTTTACCC-TGCGGGGTATTTTGG
1 -TCATTTTACCCTTTAGGGGTATTTCGA
*
37652554 TCAGTTTACCCTTTAGGGGTATTTCGA
1 TCATTTTACCCTTTAGGGGTATTTCGA
* *
37652581 TTATTTTACCCTTCGAGGGTGT-TTT-GA
1 TCATTTTACCCTT-TAGGG-GTATTTCGA
* ** * * *
37652608 TCATTTTTCCCTTCGGGGGTGTTTTGG
1 TCATTTTACCCTTTAGGGGTATTTCGA
* * * *
37652635 TGATTTTACCCTTCAAGGGTATTTTTG-
1 TCATTTTACCCTTTAGGGGTA-TTTCGA
* *
37652662 TCATTTTACCCTTCATGGGTATTTCGA
1 TCATTTTACCCTTTAGGGGTATTTCGA
* *
37652689 TCATTTTACCC-TTCGTGGGTATTT-TA
1 TCATTTTACCCTTTAG-GGGTATTTCGA
37652715 GTCATTTTACCCTTT-GAGGGTATTTCTG-
1 -TCATTTTACCCTTTAG-GGGTATTTC-GA
* *
37652743 TCATTTTACTCTTT-GAGGGTATTTCGG
1 TCATTTTACCCTTTAG-GGGTATTTCGA
* *
37652770 TTATTTTACCCTTT-GAGGGTATTTCAA
1 TCATTTTACCCTTTAG-GGGTATTTCGA
*
37652797 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTTTAGGGGTATTTCGA
* * *
37652824 TTATTTTA-GCTTTCGAGGGTATTTCGA
1 TCATTTTACCCTTTAG-GGGTATTTCGA
37652851 TCATTTTACCCTT
1 TCATTTTACCCTT
37652864 CAAATCGAAA
Statistics
Matches: 272, Mismatches: 46, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.01
26 34 0.12
27 216 0.79
28 18 0.07
29 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTTTAGGGGTATTTCGA
Found at i:37652641 original size:54 final size:54
Alignment explanation
Indices: 37652501--37652864 Score: 316
Period size: 54 Copynumber: 6.8 Consensus size: 54
37652491 GGTATAATGG
* * * *
37652501 TCATTTTACCCTATGA-AGGTATTTC-AGTCATTTTACCCTGCG-GGGTATTTTGG
1 TCATTTTACCCT-TCAGGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTTGA
* * * *
37652554 TCAGTTTACCCTTTAGGGGTATTTCGATTATTTTACCCTTCGAGGGTGTTTTGA
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGA
* * * * * * *
37652608 TCATTTTTCCCTTCGGGGGTGTTTTGGTGATTTTACCCTTCAAGGGTATTTTTG-
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTA-TTTTGA
* *
37652662 TCATTTTACCCTTCATGGGTATTTCGATCATTTTACCCTTCGTGGGTATTTT-A
1 TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGA
* * * * *
37652715 GTCATTTTACCCTT-TGAGGGTATTTCTG-TCATTTTACTCTTTGAGGGTATTTCGG
1 -TCATTTTACCCTTCAG-GGGTATTTC-GATCATTTTACCCTTCGAGGGTATTTTGA
* * * *
37652770 TTATTTTACCCTT-TGAGGGTATTTCAATCATTTTACCCTTC-AGGGGTATTTCGA
1 TCATTTTACCCTTCAG-GGGTATTTCGATCATTTTACCCTTCGA-GGGTATTTTGA
* * *
37652824 TTATTTTAGCTTTC-GAGGGTATTTCGATCATTTTACCCTTC
1 TCATTTTACCCTTCAG-GGGTATTTCGATCATTTTACCCTTC
37652865 AAATCGAAAG
Statistics
Matches: 258, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.01
53 37 0.14
54 213 0.83
55 6 0.02
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGA
Found at i:37652655 original size:81 final size:80
Alignment explanation
Indices: 37652500--37652864 Score: 378
Period size: 81 Copynumber: 4.5 Consensus size: 80
37652490 GGGTATAATG
* * * *
37652500 GTCATTTTACCCTAT-GAAGGTATTTC-AGTCATTTTACCCTGC-GGGGTATTTTGGTCAGTTTA
1 GTCATTTTACCCT-TCGAGGGTATTTCGA-TCATTTTACCCTTCGGGGGTATTTTAGTCATTTTA
* *
37652562 CCCTTTAGGGGTATTTC
64 CCCTTCAAGGGTATTTC
* * * * * * *
37652579 GATTATTTTACCCTTCGAGGGTGTTTTGATCATTTTTCCCTTCGGGGGTGTTTTGGTGATTTTAC
1 G-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTAGTCATTTTAC
*
37652644 CCTTCAAGGGTATTTTT
65 CCTTCAAGGGTA-TTTC
*
37652661 GTCATTTTACCCTTC-ATGGGTATTTCGATCATTTTACCCTTCGTGGGTATTTTAGTCATTTTAC
1 GTCATTTTACCCTTCGA-GGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTAGTCATTTTAC
**
37652725 CCTTTGAGGGTATTTC
65 CCTTCAAGGGTATTTC
* * * * * * * *
37652741 TGTCATTTTACTCTTTGAGGGTATTTCGGTTATTTTACCCTTTGAGGGTATTTCAATCATTTTAC
1 -GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTAGTCATTTTAC
*
37652806 CCTTCAGGGGTATTTC
65 CCTTCAAGGGTATTTC
* * *
37652822 GATTATTTTAGCTTTCGAGGGTATTTCGATCATTTTACCCTTC
1 G-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTC
37652865 AAATCGAAAG
Statistics
Matches: 235, Mismatches: 42, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
79 2 0.01
80 36 0.15
81 192 0.82
82 5 0.02
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (80 bp):
GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGGGGGTATTTTAGTCATTTTACC
CTTCAAGGGTATTTC
Found at i:37658896 original size:24 final size:24
Alignment explanation
Indices: 37658869--37658914 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
37658859 CTTATGCTGC
* *
37658869 CGAGAAGGCCACTCAAACTGCTTT
1 CGAGAAGCCCAATCAAACTGCTTT
* *
37658893 CGAGGAGCCCAATCTAACTGCT
1 CGAGAAGCCCAATCAAACTGCT
37658915 ACTGAAGAGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (24 bp):
CGAGAAGCCCAATCAAACTGCTTT
Found at i:37666125 original size:12 final size:12
Alignment explanation
Indices: 37666108--37666138 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37666098 TGCATGGTAG
*
37666108 AATAGGACTTCC
1 AATAGGACTTCA
37666120 AATAGGACTTCA
1 AATAGGACTTCA
37666132 AATAGGA
1 AATAGGA
37666139 TCCATCCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (12 bp):
AATAGGACTTCA
Found at i:37673560 original size:29 final size:29
Alignment explanation
Indices: 37673527--37673594 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
37673517 GTGGGTGTAA
37673527 CATTTAACATCAAAACAACTCAATAAAAT
1 CATTTAACATCAAAACAACTCAATAAAAT
*
37673556 TATTTAACATCAAAACAACTCAATAAAAT
1 CATTTAACATCAAAACAACTCAATAAAAT
37673585 CATTTAACAT
1 CATTTAACAT
37673595 TAATTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (29 bp):
CATTTAACATCAAAACAACTCAATAAAAT
Found at i:37677966 original size:6 final size:6
Alignment explanation
Indices: 37677955--37678016 Score: 106
Period size: 6 Copynumber: 10.0 Consensus size: 6
37677945 TTTAGTTTGG
37677955 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A-TTTTT
37678004 ATTTTT ATATTTT
1 ATTTTT AT-TTTT
37678017 TTATGGTCTG
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
6 44 0.81
7 10 0.19
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:37686452 original size:41 final size:44
Alignment explanation
Indices: 37686406--37686498 Score: 113
Period size: 46 Copynumber: 2.2 Consensus size: 44
37686396 CACAGATTAG
*
37686406 ATTTTTGTTACA-TTTATTTA-T-AT-TTTGAATTTAAATATAA
1 ATTTTTGTAACATTTTATTTATTAATATTTGAATTTAAATATAA
* *
37686446 ACTTTTTGTAACATTTTTATTTATTAATATTTTAATTTAAATATAG
1 A-TTTTTGTAACA-TTTTATTTATTAATATTTGAATTTAAATATAA
37686492 ATTTTTG
1 ATTTTTG
37686499 AATTAAAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 1 0.02
41 10 0.23
43 8 0.18
44 1 0.02
45 8 0.18
46 16 0.36
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.58
Consensus pattern (44 bp):
ATTTTTGTAACATTTTATTTATTAATATTTGAATTTAAATATAA
Found at i:37689569 original size:13 final size:13
Alignment explanation
Indices: 37689551--37689579 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37689541 CCTAATAGGA
37689551 TATTATGGGATAT
1 TATTATGGGATAT
37689564 TATTATGGGATAT
1 TATTATGGGATAT
37689577 TAT
1 TAT
37689580 CTTGAGGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (13 bp):
TATTATGGGATAT
Found at i:37696285 original size:49 final size:49
Alignment explanation
Indices: 37696232--37696391 Score: 182
Period size: 49 Copynumber: 3.2 Consensus size: 49
37696222 TGTCCCAGAC
37696232 ATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAAT
1 ATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAAT
* * * * * * * *
37696281 ATGGTCTTACATGGGA-GTTCTCATATCG--GTGCCCATGCCATGTCCCAGAC
1 ATGGTATTACATAGGATGTT-T-AT-T-GTACTGCCAATACCATATCCCAAAT
37696331 ATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAAT
1 ATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAAT
*
37696380 ATGGTCTTACAT
1 ATGGTATTACAT
37696392 GGGAGTTCTC
Statistics
Matches: 87, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
47 1 0.01
48 4 0.05
49 44 0.51
50 33 0.38
51 4 0.05
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (49 bp):
ATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAAT
Found at i:37696327 original size:99 final size:99
Alignment explanation
Indices: 37696218--37696446 Score: 440
Period size: 99 Copynumber: 2.3 Consensus size: 99
37696208 ACATGCCAAA
37696218 GCCATGTCCCAGACATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAATAT
1 GCCATGTCCCAGACATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAATAT
37696283 GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
66 GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
37696317 GCCATGTCCCAGACATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAATAT
1 GCCATGTCCCAGACATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAATAT
37696382 GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
66 GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
* *
37696416 GCCATGTCCCAGACATGGTCTTACATGGGAT
1 GCCATGTCCCAGACATGGTATTACATAGGAT
37696447 CTCTTTACCC
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 128 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTATTACATAGGATGTTTATTGTACTGCCAATACCATATCCCAAATAT
GGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
Found at i:37696335 original size:50 final size:50
Alignment explanation
Indices: 37696281--37696445 Score: 203
Period size: 50 Copynumber: 3.3 Consensus size: 50
37696271 TATCCCAAAT
37696281 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
* * * * * * * *
37696331 ATGGTATTACATAGGATGTT-T-AT-T-GTACTGCCAATACCATATCCCAAAT
1 ATGGTCTTACATGGGA-GTTCTCATATCG--GTGCCCATGCCATGTCCCAGAC
37696380 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
37696430 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
37696446 TCTCTTTACC
Statistics
Matches: 92, Mismatches: 16, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 33 0.36
50 49 0.53
51 4 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (50 bp):
ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
Found at i:37697969 original size:26 final size:26
Alignment explanation
Indices: 37697940--37697992 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
37697930 AGACACATAG
37697940 AATACATTATGAATCTTCTCTAACTC
1 AATACATTATGAATCTTCTCTAACTC
37697966 AATACATTATGAATCTTCTCTAACTC
1 AATACATTATGAATCTTCTCTAACTC
37697992 A
1 A
37697993 GTTGGCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.38
Consensus pattern (26 bp):
AATACATTATGAATCTTCTCTAACTC
Found at i:37703681 original size:49 final size:49
Alignment explanation
Indices: 37703622--37703798 Score: 161
Period size: 49 Copynumber: 3.6 Consensus size: 49
37703612 ACATGCCAAA
* * *
37703622 GCCATGTCCCAGACATGGTCTTACATTGGATGTT-TCTTGTAC-TGCTA-AT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGC-ACAT
*
37703671 GCCATATCCCAGA-ATGGTCTTACATGGGAGTTCTCATATCGGTGCACAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCACAT
* ** *
37703720 GCCATGTCCCAGACATGGTCTTAC--GAGAGACCCTCATCTCGGTGC-CAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAG-TTCTCATATC-GTGCAC-AT
*
37703769 GCCATGTCCCAGACATGGTCTTATATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
37703799 CCTCTCAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
47 4 0.04
48 25 0.23
49 66 0.61
50 10 0.09
51 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCACAT
Found at i:37706598 original size:15 final size:15
Alignment explanation
Indices: 37706578--37706608 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37706568 TCGTACTCAT
37706578 AACATTTGCACCTAG
1 AACATTTGCACCTAG
37706593 AACATTTGCACCTAG
1 AACATTTGCACCTAG
37706608 A
1 A
37706609 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (15 bp):
AACATTTGCACCTAG
Found at i:37707448 original size:103 final size:104
Alignment explanation
Indices: 37707232--37707448 Score: 267
Period size: 103 Copynumber: 2.1 Consensus size: 104
37707222 TTGCTGCAAG
* *
37707232 CCAA-AAAGTATTGATACATTTTTGGCCAAGTATCGATATTTTCTAAATTACCAATACCCCTTCT
1 CCAACAAAGTACTGATACACTTTTGGCCAAGTATCGATATTTTCTAAATTACCAATACCCCTTCT
* * * * *
37707296 TAAAAACGATACCAAAATGGCATTCTATTTTTCACAAAC
66 TAAAAACGATACCAAAATAGCATTATATTTCTCAAAAAA
* * * * ***
37707335 CCTACTAAGTACTGATAC-CTTTTGGTCAAGTATCGATATTTTCTGAATTATTGATACCCCTTCT
1 CCAACAAAGTACTGATACACTTTTGGCCAAGTATCGATATTTTCTAAATTACCAATACCCCTTCT
** *
37707399 TAAAAGTGATACCAAAATAGCATTATGTTTCTCAAAAAA
66 TAAAAACGATACCAAAATAGCATTATATTTCTCAAAAAA
37707438 CCAACAAAGTA
1 CCAACAAAGTA
37707449 TCGATACGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
103 83 0.88
104 11 0.12
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (104 bp):
CCAACAAAGTACTGATACACTTTTGGCCAAGTATCGATATTTTCTAAATTACCAATACCCCTTCT
TAAAAACGATACCAAAATAGCATTATATTTCTCAAAAAA
Found at i:37709308 original size:3 final size:3
Alignment explanation
Indices: 37709300--37709345 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
37709290 AATGAAATCC
37709300 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37709346 TACTTTTTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37710837 original size:11 final size:11
Alignment explanation
Indices: 37710823--37710850 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37710813 TTTATTTTTA
37710823 AATTTTAAAAT
1 AATTTTAAAAT
37710834 AATTTTAAAAT
1 AATTTTAAAAT
37710845 AATTTT
1 AATTTT
37710851 TTCTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:37710875 original size:9 final size:9
Alignment explanation
Indices: 37710846--37710893 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 9
37710836 TTTTAAAATA
*
37710846 ATTTTTTCT
1 ATTTTTTAT
*
37710855 -TTTTTTCT
1 ATTTTTTAT
37710863 -TTTTTTAT
1 ATTTTTTAT
37710871 ATTTTTTAT
1 ATTTTTTAT
37710880 ATTTTTTAAT
1 ATTTTTT-AT
37710890 ATTT
1 ATTT
37710894 ATTAAAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
8 15 0.42
9 15 0.42
10 6 0.17
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:37716635 original size:50 final size:50
Alignment explanation
Indices: 37716527--37716926 Score: 514
Period size: 50 Copynumber: 7.8 Consensus size: 50
37716517 ATTTGGGTAA
* * * * *
37716527 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGAATCCTTGATATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--G--A-GATG
*
37716583 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
37716633 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
37716683 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGGTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * **
37716733 AAAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
37716783 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*** * *
37716833 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGC-ATGGACACCCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG-CA-CCGAGATG
** *
37716884 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
37716927 TGTTATGATC
Statistics
Matches: 306, Mismatches: 34, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
49 3 0.01
50 220 0.72
51 10 0.03
52 30 0.10
53 4 0.01
55 2 0.01
56 37 0.12
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:37722988 original size:12 final size:12
Alignment explanation
Indices: 37722963--37723001 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37722953 ACTCGCTTGT
* *
37722963 TTACTTACTCAC
1 TTACTTGCTTAC
*
37722975 TTACTTGTTTAC
1 TTACTTGCTTAC
37722987 TTACTTGCTTAC
1 TTACTTGCTTAC
37722999 TTA
1 TTA
37723002 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:37723278 original size:49 final size:49
Alignment explanation
Indices: 37723214--37723441 Score: 165
Period size: 49 Copynumber: 4.5 Consensus size: 49
37723204 CAAAGCTATG
* *
37723214 TCCCAGACATAGTCTTACATGGGATGTTTTC-TATAC-TACCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTACCAATGCCATA
* * * *
37723263 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTACCAATGCCATA
* ** * * * * *
37723313 TCCCAGACATGGTCTTAC-GGGGACCTCTCATCTTGGTGCCAACGTCATA
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-ATCGTACCAATGCCATA
* ** * *
37723362 TCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TACCAATGCCATA
37723418 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
37723442 TCTCATTCCC
Statistics
Matches: 143, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
48 6 0.04
49 63 0.44
50 39 0.27
52 1 0.01
55 1 0.01
56 33 0.23
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTACCAATGCCATA
Found at i:37725629 original size:38 final size:38
Alignment explanation
Indices: 37725578--37725651 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
37725568 CGTAGGCTAG
37725578 GAAAGCTTCACAACCTTGATTCAGGAACTTATTAGCAC
1 GAAAGCTTCACAACCTTGATTCAGGAACTTATTAGCAC
*
37725616 GAAAGCTTCACAACCTTGATTCAGGAGCTTATTAGC
1 GAAAGCTTCACAACCTTGATTCAGGAACTTATTAGC
37725652 TTGAACTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (38 bp):
GAAAGCTTCACAACCTTGATTCAGGAACTTATTAGCAC
Found at i:37740284 original size:50 final size:50
Alignment explanation
Indices: 37740223--37740329 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
37740213 ACATGGGAGT
* * *
37740223 TCTCATATCGGTGCCCATGCCATCTCCCAGACATGGTCTTACGGGGGATC
1 TCTCATATCGGTGCCAATGCCATCTCCCAGACATGGTCTTACAGGGGACC
* * *
37740273 TCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATATCGGTGCCAATGCCATCTCCCAGACATGGTCTTACAGGGGACC
37740323 TCTCATA
1 TCTCATA
37740330 ACCTCAATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTGCCAATGCCATCTCCCAGACATGGTCTTACAGGGGACC
Found at i:37742097 original size:36 final size:36
Alignment explanation
Indices: 37742045--37742118 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
37742035 TTTCCTTTCC
* * *
37742045 CTCTCTCGTCTTTCTATCTTTCTCTCATATCTCTTT
1 CTCTCTCGCCTCTCTATCTTTCTCCCATATCTCTTT
37742081 CTCTCTCGCCTCTCTATCTTTCTCCCATATCTCTTT
1 CTCTCTCGCCTCTCTATCTTTCTCCCATATCTCTTT
37742117 CT
1 CT
37742119 TTCCTACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.08, C:0.38, G:0.03, T:0.51
Consensus pattern (36 bp):
CTCTCTCGCCTCTCTATCTTTCTCCCATATCTCTTT
Found at i:37742119 original size:19 final size:19
Alignment explanation
Indices: 37742061--37742121 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
37742051 CGTCTTTCTA
*
37742061 TCTTTCTCTCATATCTCTT
1 TCTTTCTCCCATATCTCTT
* *
37742080 TCTCTCTCGCC---TCTCTA
1 TCTTTCTC-CCATATCTCTT
37742097 TCTTTCTCCCATATCTCTT
1 TCTTTCTCCCATATCTCTT
37742116 TCTTTC
1 TCTTTC
37742122 CTACTTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.06
17 12 0.36
19 18 0.55
20 1 0.03
ACGTcount: A:0.08, C:0.38, G:0.02, T:0.52
Consensus pattern (19 bp):
TCTTTCTCCCATATCTCTT
Found at i:37747576 original size:16 final size:17
Alignment explanation
Indices: 37747555--37747592 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
37747545 GGCTTAATTT
37747555 AATATAATAT-TTATAA
1 AATATAATATATTATAA
*
37747571 AATAT-ATTTATTATAA
1 AATATAATATATTATAA
37747587 AATATA
1 AATATA
37747593 GGTTTAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATATATTATAA
Found at i:37747879 original size:37 final size:35
Alignment explanation
Indices: 37747837--37747951 Score: 103
Period size: 37 Copynumber: 3.2 Consensus size: 35
37747827 TTAAAATCTT
37747837 TAAAAATTATTAAAAAAATATATACAAAAATTAAA
1 TAAAAATTATTAAAAAAATATATACAAAAATTAAA
* *
37747872 TACAAAAATTATTTAAAAATTATAAATATACAAGAATT--A
1 T--AAAAATTA-TTAAAAA--A-ATATATACAAAAATTAAA
** *
37747911 TAAAAATTACAAAAAAAATATTTA-AAAAATTAAA
1 TAAAAATTATTAAAAAAATATATACAAAAATTAAA
37747945 -AAAAATT
1 TAAAAATT
37747952 TAAATTATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
32 6 0.09
33 12 0.18
34 2 0.03
35 1 0.02
36 5 0.08
37 16 0.25
38 7 0.11
39 2 0.03
40 1 0.02
41 13 0.20
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (35 bp):
TAAAAATTATTAAAAAAATATATACAAAAATTAAA
Found at i:37747880 original size:13 final size:13
Alignment explanation
Indices: 37747858--37747882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37747848 AAAAAAATAT
37747858 ATACAAAAATTAA
1 ATACAAAAATTAA
37747871 ATACAAAAATTA
1 ATACAAAAATTA
37747883 TTTAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
ATACAAAAATTAA
Found at i:37747947 original size:19 final size:19
Alignment explanation
Indices: 37747923--37747968 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
37747913 AAAATTACAA
37747923 AAAAAATATTTAAAAAATT
1 AAAAAATATTTAAAAAATT
* **
37747942 AAAAAAAATTTAAATTATT
1 AAAAAATATTTAAAAAATT
37747961 AAAAAATA
1 AAAAAATA
37747969 GGAAAAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAATATTTAAAAAATT
Found at i:37748034 original size:29 final size:28
Alignment explanation
Indices: 37748001--37748062 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
37747991 AAAAGCATTA
*
37748001 TAAAAAT-ATTAAAAATTACTAAATTTTTT
1 TAAAAATAATTAAAAA-T-CTAAATATTTT
* *
37748030 TAAAAATAATTATAAATCTTAATATTTT
1 TAAAAATAATTAAAAATCTAAATATTTT
37748058 TAAAA
1 TAAAA
37748063 TTTTATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 14 0.48
29 8 0.28
30 7 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAAAATAATTAAAAATCTAAATATTTT
Found at i:37748762 original size:20 final size:20
Alignment explanation
Indices: 37748737--37748791 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
37748727 ATAATTTTAA
*
37748737 AATTTTAAAATATTTTTTG-
1 AATTTTTAAATATTTTTTGT
* **
37748756 CATTTTTTTATATTTTTTGT
1 AATTTTTAAATATTTTTTGT
37748776 AATTTTTAAATATTTT
1 AATTTTTAAATATTTT
37748792 AAGGTGATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
AATTTTTAAATATTTTTTGT
Found at i:37749228 original size:2 final size:2
Alignment explanation
Indices: 37749221--37749246 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37749211 CCTTAGCTCC
37749221 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
37749247 GTTACTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:37753772 original size:22 final size:22
Alignment explanation
Indices: 37753744--37753793 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
37753734 ACAAATCCTA
37753744 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
37753766 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
37753788 TCTCAA
1 TCTCAA
37753794 ACTCTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:37753895 original size:28 final size:29
Alignment explanation
Indices: 37753857--37753920 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
37753847 CCTCAATTTC
37753857 ATTTTTTT-AAATAATTTTAAATTTTTAT
1 ATTTTTTTAAAATAATTTTAAATTTTTAT
* *
37753885 ATTTTTTTAAAATAATTTTAATTTTTTTT
1 ATTTTTTTAAAATAATTTTAAATTTTTAT
*
37753914 ATATTTT
1 ATTTTTT
37753921 CATCAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
ATTTTTTTAAAATAATTTTAAATTTTTAT
Found at i:37753897 original size:19 final size:18
Alignment explanation
Indices: 37753871--37753912 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
37753861 TTTTAAATAA
37753871 TTTTAAAT-TTTTATATTT
1 TTTTAAATATTTTA-ATTT
37753889 TTTTAAAATAATTTTAATTT
1 TTTT-AAAT-ATTTTAATTT
37753909 TTTT
1 TTTT
37753913 TATATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.19
19 4 0.19
20 8 0.38
21 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTAAATATTTTAATTT
Found at i:37754040 original size:14 final size:15
Alignment explanation
Indices: 37754011--37754044 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37754001 AAAATTTAAA
37754011 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
37754026 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
37754040 TTTTA
1 TTTTA
37754045 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:37754527 original size:38 final size:38
Alignment explanation
Indices: 37754476--37754549 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
37754466 GCAAATTCAA
37754476 CCGAAATTGAAAGAATCCAATATGCTCGATCATACACT
1 CCGAAATTGAAAGAATCCAATATGCTCGATCATACACT
*
37754514 CCGAAATTGAAAGAATCCGATATGCTCGATCATACA
1 CCGAAATTGAAAGAATCCAATATGCTCGATCATACA
37754550 TTCTTCAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (38 bp):
CCGAAATTGAAAGAATCCAATATGCTCGATCATACACT
Found at i:37756304 original size:29 final size:29
Alignment explanation
Indices: 37756235--37757057 Score: 851
Period size: 29 Copynumber: 26.3 Consensus size: 29
37756225 AATAAAAATT
*
37756235 CTAATTTAATTAAAAACCCTAAACACTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
* *
37756265 CTAATTTAATTAAACACCCTAACCCCAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
37756294 CTAATTTAATTAAAAACCCTAAACCTTAACCCTAAC
1 CTAATTTAATTAAAAA--C----CC-TAACCCTAAC
37756330 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37756360 CGTAACCTGATTTAATTGAAAACCCTAACCCTAAC
1 C-T-A----ATTTAATTAAAAACCCTAACCCTAAC
*
37756395 CTAATTTAATTAAAAACACTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
37756424 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37756454 CGTAACCTGATTTAATTGAAAACCCTAACCCTAAC
1 C-T-A----ATTTAATTAAAAACCCTAACCCTAAC
*
37756489 CTAATTTAATTAAAAACACTAACCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
* *
37756518 CTAATTTAATTAAAAACCCAAATCCTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
37756547 CTAATTTAATTAAAAACCCTAAACCCTAACCCTAAC
1 CTAATTTAATT---AA----AAACCCTAACCCTAAC
*
37756583 CTAATTTAATTAAAGACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37756613 CTAATTTAATTAAAGACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
37756643 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37756673 TTAATTTAATTAAAAACCTTAAACCCTAACCCTAAC
1 CTAATTTAATT---AA----AAACCCTAACCCTAAC
* *
37756709 CTAATTTAATTAAAAACACTAACCTTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
*
37756738 TTAATTTAATTAAAAACCCTAAACCCTAACCCTAAC
1 CTAATTTAATT---AA----AAACCCTAACCCTAAC
*
37756774 CTAATTTAATTAAAAACCCTAACCTTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
37756803 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37756833 TTAATTTAATTAAAAACCCTAA--C-AAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
*
37756859 ATAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37756889 TTAATTTAATTAAAAACCTTAAACCCTAACCCTAAC
1 CTAATTTAATT---AA----AAACCCTAACCCTAAC
* *
37756925 CTAATTTAATTAAAAACACTAACCTTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
*
37756954 TTAATTTAATTAAAAACCCTAAACCCTAACCCTAAC
1 CTAATTTAATT---AA----AAACCCTAACCCTAAC
37756990 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCT-AACCCTAAC
*
37757020 CTAATTTAATTAAAAACCCTAACCTTAAC
1 CTAATTTAATTAAAAACCCTAACCCTAAC
37757049 CTAATTTAA
1 CTAATTTAA
37757058 NNNNNNNNNN
Statistics
Matches: 690, Mismatches: 40, Indels: 127
0.81 0.05 0.15
Matches are distributed among these distances:
26 22 0.03
27 3 0.00
29 243 0.35
30 188 0.27
31 3 0.00
32 8 0.01
33 16 0.02
34 3 0.00
35 22 0.03
36 168 0.24
37 14 0.02
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (29 bp):
CTAATTTAATTAAAAACCCTAACCCTAAC
Found at i:37756339 original size:65 final size:65
Alignment explanation
Indices: 37756248--37757057 Score: 902
Period size: 65 Copynumber: 12.8 Consensus size: 65
37756238 ATTTAATTAA
* * *
37756248 AAACCCTAAACACTAACCTAATTTAATTAAACACCCTAACCCCAACCTAATTTAATTAAAAACCC
1 AAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
37756313 T
65 T
* ** * * **
37756314 AAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCGTAACCTGATT--TAATT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACC-TAATTTAATTAAAAACC
**
37756377 GA
64 CT
*
37756379 AAACCCTAACCCTAACCTAATTTAATTAAAAACACTAACCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * *
37756444 AAACCCTAACCGTAACCTGATTTAATTGAAAACCCTAACCCTAACCTAATTTAATTAAAAA--C-
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
37756506 --A--CTAACCCTAACCTAATTTAATTAAAAACCCAAATCCTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
37756567 AAACCCTAACCCTAACCTAATTTAATTAAAGACCCTAAACCCTAACCTAATTTAATTAAAGACCC
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCC
37756632 T
65 T
* *
37756633 --A----AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCC
37756692 T
65 T
* * *
37756693 AAACCCTAACCCTAACCTAATTTAATTAAAAACACTAACCTTAACTTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
37756758 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
37756823 AAACCCTAA--CT----TAATTTAATTAAAAACCCTAA--C-AACATAATTTAATTAAAAACCCT
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* ** *
37756879 AAACCCTAA-CTTAATTTAA-TTAA-AAACCTTAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 AAACCCTAACCCTAACCTAATTTAATTAA----AAACCCTAACCCTAACCTAATTTAATTAAAAA
*
37756941 CACT
62 CCCT
* * ** *
37756945 -AACCTTAA-CTTAATTTAA-TTAA-AAACCCTAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 AAACCCTAACCCTAACCTAATTTAATTAA----AAACCCTAACCCTAACCTAATTTAATTAAAAA
37757006 CCCT
62 CCCT
*
37757010 --A----AACCCTAACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAA
1 AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
37757058 NNNNNNNNNN
Statistics
Matches: 653, Mismatches: 58, Indels: 73
0.83 0.07 0.09
Matches are distributed among these distances:
56 31 0.05
57 1 0.00
58 51 0.08
59 47 0.07
60 63 0.10
61 10 0.02
62 5 0.01
63 22 0.03
64 12 0.02
65 313 0.48
66 91 0.14
67 7 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (65 bp):
AAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:37756617 original size:25 final size:26
Alignment explanation
Indices: 37756588--37756678 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 26
37756578 CTAACCTAAT
37756588 TTAATTAAAGACCCTAAACCCTAACC
1 TTAATTAAAGACCCTAAACCCTAACC
37756614 TAATTTAATTAAAGACCCTAAACCCTAACC
1 ----TTAATTAAAGACCCTAAACCCTAACC
*
37756644 TAATTTAATTAAAAACCCTAAACCCTAA-C
1 ----TTAATTAAAGACCCTAAACCCTAACC
37756673 TTAATT
1 TTAATT
37756679 TAATTAAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
25 6 0.10
29 1 0.02
30 53 0.88
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (26 bp):
TTAATTAAAGACCCTAAACCCTAACC
Found at i:37761911 original size:40 final size:40
Alignment explanation
Indices: 37761475--37761897 Score: 657
Period size: 40 Copynumber: 10.6 Consensus size: 40
37761465 NNNNNNNNNN
37761475 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
* *
37761515 TATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
* *
37761555 TATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
*
37761595 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
* *
37761635 TATCCGGGCTAAGTCCCGAGGAGCATTTGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
* * *
37761675 TATTCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTAATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
*
37761715 TATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
* *
37761755 TATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
*
37761795 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
* ** * * *
37761835 TATCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
*
37761875 TATCCGGGCTAGGTCCCGAAGAG
1 TATCCGGGCTAAGTCCCGAAGAG
37761898 TAATCATGCT
Statistics
Matches: 350, Mismatches: 33, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 350 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATA
Found at i:37763706 original size:85 final size:85
Alignment explanation
Indices: 37763560--37763738 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
37763550 TGCCGGCCAT
*
37763560 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAATGCATTAT
37763625 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37763645 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAATGCATTAT
37763710 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
37763730 GAGCATGGG
1 GAGCATGGG
37763739 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATATCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:37773504 original size:15 final size:17
Alignment explanation
Indices: 37773484--37773515 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
37773474 TATCATTCAA
37773484 TTCATCA-ATC-CCTTT
1 TTCATCATATCACCTTT
37773499 TTCATCATATCACCTTT
1 TTCATCATATCACCTTT
37773516 CAATAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (17 bp):
TTCATCATATCACCTTT
Found at i:37774093 original size:39 final size:41
Alignment explanation
Indices: 37773996--37774109 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 41
37773986 ACCGAGCACA
*
37773996 CCAAACAGAAGCTCATAAGAGTTGATCCA-AC-AAAAATGCG
1 CCAAATAGAAGCTCATAAGAGTTGATCCACACGAAAAA-GCG
* * * *
37774036 CCAAATAGAAGCTTATAAGAGTTGGTCCACTCGAAACA-CG
1 CCAAATAGAAGCTCATAAGAGTTGATCCACACGAAAAAGCG
* *
37774076 CC-AATAGAAGCTCATAAGAGCTGATCCACCCGAA
1 CCAAATAGAAGCTCATAAGAGTTGATCCACACGAA
37774110 TCATGCCAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
39 28 0.44
40 30 0.48
41 1 0.02
42 4 0.06
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (41 bp):
CCAAATAGAAGCTCATAAGAGTTGATCCACACGAAAAAGCG
Found at i:37782692 original size:22 final size:22
Alignment explanation
Indices: 37782667--37782717 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
37782657 GGACAAGCCA
*
37782667 CCACATAATTGTCGATAAACGG
1 CCACATAATTGTAGATAAACGG
* *
37782689 CCACACAATTGTAGATAAACTG
1 CCACATAATTGTAGATAAACGG
37782711 CCACATA
1 CCACATA
37782718 TCTTTCTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (22 bp):
CCACATAATTGTAGATAAACGG
Found at i:37782938 original size:18 final size:19
Alignment explanation
Indices: 37782908--37782944 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
37782898 TTTGTACAAA
*
37782908 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
37782927 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
37782945 ACTTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:37784970 original size:40 final size:41
Alignment explanation
Indices: 37784912--37785014 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 41
37784902 ATTAAGATAT
*
37784912 GATTCGCATGTTAAGCATGCTC-ACTGTACTGATTA-AATTC
1 GATTCACATGTTAAGCATGC-CGACTGTACTGATTAGAATTC
* * * * *
37784952 GGTTCACCTGTTTAGCATGCCGACTGTATTGATTATGAATTT
1 GATTCACATGTTAAGCATGCCGACTGTACTGATTA-GAATTC
37784994 GATTCACATGTTAAGCATGCC
1 GATTCACATGTTAAGCATGCC
37785015 CATTGAAAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.02
40 28 0.55
42 22 0.43
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (41 bp):
GATTCACATGTTAAGCATGCCGACTGTACTGATTAGAATTC
Found at i:37789127 original size:9 final size:9
Alignment explanation
Indices: 37789105--37789138 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
37789095 GCTGCCCCCA
*
37789105 TTGCGGCTG
1 TTGCTGCTG
*
37789114 CTGCTGCTG
1 TTGCTGCTG
37789123 TTGCTGCTG
1 TTGCTGCTG
37789132 TTGCTGC
1 TTGCTGC
37789139 GCCACTGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.26, G:0.35, T:0.38
Consensus pattern (9 bp):
TTGCTGCTG
Found at i:37793893 original size:14 final size:15
Alignment explanation
Indices: 37793874--37793906 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37793864 ATGCAGGGAA
37793874 AAAAT-AGGAAAAAG
1 AAAATAAGGAAAAAG
*
37793888 AAAATAAGTAAAAAG
1 AAAATAAGGAAAAAG
37793903 AAAA
1 AAAA
37793907 AAAAAGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (15 bp):
AAAATAAGGAAAAAG
Found at i:37795985 original size:16 final size:15
Alignment explanation
Indices: 37795958--37795987 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37795948 TGGTAAAGTA
37795958 AATAAAAAAGTAAAT
1 AATAAAAAAGTAAAT
37795973 AATAAATAAAGTAAA
1 AATAAA-AAAGTAAA
37795988 ATATATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
AATAAAAAAGTAAAT
Found at i:37795987 original size:24 final size:24
Alignment explanation
Indices: 37795951--37796001 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
37795941 CTAAGAGTGG
37795951 TAAAGTAAATAAAAAAGTA-AATAA
1 TAAAGTAAATAAAAAA-TATAATAA
*
37795975 TAAA-TAAAGTAAAATATATAATAA
1 TAAAGTAAA-TAAAAAATATAATAA
37795999 TAA
1 TAA
37796002 TAATCAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (24 bp):
TAAAGTAAATAAAAAATATAATAA
Found at i:37797618 original size:25 final size:24
Alignment explanation
Indices: 37797590--37797704 Score: 117
Period size: 25 Copynumber: 4.7 Consensus size: 24
37797580 AAAAATAGAA
*
37797590 ATAAATATATATATAATAATAATAT
1 ATAAATATATAAATAATAA-AATAT
* *
37797615 ATAAATATAAAAATAATATTAATAT
1 ATAAATATATAAATAATA-AAATAT
*
37797640 ATAAATATAAAAATATATAAAATAT
1 ATAAATATATAAATA-ATAAAATAT
* *
37797665 TTAGAATATAT--ATAATAAAATAG
1 ATA-AATATATAAATAATAAAATAT
37797688 ATATAATATATAAATAA
1 ATA-AATATATAAATAA
37797705 ATTGAATATA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
23 17 0.22
24 3 0.04
25 47 0.62
26 9 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAAATATATAAATAATAAAATAT
Found at i:37797682 original size:23 final size:23
Alignment explanation
Indices: 37797652--37797705 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
37797642 AAATATAAAA
**
37797652 ATAT-ATAAAATATTTAGAATAT
1 ATATAATAAAATAGATAGAATAT
*
37797674 ATATAATAAAATAGATATAATAT
1 ATATAATAAAATAGATAGAATAT
37797697 ATA-AATAAA
1 ATATAATAAA
37797706 TTGAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAATAAAATAGATAGAATAT
Found at i:37797714 original size:38 final size:37
Alignment explanation
Indices: 37797598--37797732 Score: 104
Period size: 38 Copynumber: 3.6 Consensus size: 37
37797588 AAATAAATAT
* *
37797598 ATATATAATAATAATATATAAATATAAAAATAATATT-A
1 ATATATAATAA-AATAGATAAATATATAAATAA-ATTGA
* *
37797636 ATATAT-A-AATATA-A-AAATATATAAA-ATATTTAGAA
1 ATATATAATAAAATAGATAAATATATAAATA-AATT-G-A
37797671 TATATATAATAAAATAGATATAATATATAAATAAATTGA
1 -ATATATAATAAAATAGATA-AATATATAAATAAATTGA
*
37797710 ATATA-ATATTAAATAGATAAATA
1 ATATATA-ATAAAATAGATAAATA
37797733 AATTAAACCA
Statistics
Matches: 79, Mismatches: 6, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
32 3 0.04
33 11 0.14
34 1 0.01
35 4 0.05
36 8 0.10
37 7 0.09
38 27 0.34
39 2 0.03
40 2 0.03
41 13 0.16
42 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (37 bp):
ATATATAATAAAATAGATAAATATATAAATAAATTGA
Found at i:37798447 original size:6 final size:6
Alignment explanation
Indices: 37798436--37798460 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37798426 TCCGGTTTTG
37798436 TTCATC TTCATC TTCATC TTCATC T
1 TTCATC TTCATC TTCATC TTCATC T
37798461 GTGTAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATC
Found at i:37798837 original size:3 final size:3
Alignment explanation
Indices: 37798829--37798868 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
37798819 TTTGTTTACT
37798829 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
37798869 AAATACAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37802386 original size:19 final size:19
Alignment explanation
Indices: 37802334--37802387 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
37802324 AATCTTCAAG
*
37802334 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
37802353 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
37802372 GATATACAATCTTAGA
1 GATATGCAATCTTAGA
37802388 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:37802655 original size:23 final size:23
Alignment explanation
Indices: 37802607--37802655 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37802597 TTATTCTTAT
* *
37802607 TTTATTGATTTGTATATAATTTA
1 TTTATTGATTTGTAGATAATTGA
**
37802630 TTTATTGATTTGTAGATTGTTGA
1 TTTATTGATTTGTAGATAATTGA
37802653 TTT
1 TTT
37802656 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.61
Consensus pattern (23 bp):
TTTATTGATTTGTAGATAATTGA
Found at i:37807651 original size:65 final size:65
Alignment explanation
Indices: 37807526--37807652 Score: 193
Period size: 65 Copynumber: 2.0 Consensus size: 65
37807516 GTTTTGTATG
* * *
37807526 AATTATTGAATACATATTTATATATTTGATAATATTGAATTTCACCCTAAGTCACTATTTAACCA
1 AATTACTGAATACATATTTATATATTTGATAATATTGAATTTCACCCTAAATCACAATTTAACCA
* *
37807591 AATTACTGAATACAT-TTGTATATATTTGATAATATTGAATTTGACCCTAAATTACAATTTAA
1 AATTACTGAATACATATT-TATATATTTGATAATATTGAATTTCACCCTAAATCACAATTTAA
37807653 TTAATGCATT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 2 0.04
65 54 0.96
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (65 bp):
AATTACTGAATACATATTTATATATTTGATAATATTGAATTTCACCCTAAATCACAATTTAACCA
Found at i:37815451 original size:18 final size:19
Alignment explanation
Indices: 37815428--37815471 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
37815418 ATAAATTGTA
37815428 AAAGTAAAAACT-AAAAAT
1 AAAGTAAAAACTAAAAAAT
37815446 AAAGT-AAAACTAAAAAAAT
1 AAAGTAAAAACT-AAAAAAT
37815465 AAAGTAA
1 AAAGTAA
37815472 GAGTGAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.26
18 5 0.22
19 11 0.48
20 1 0.04
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (19 bp):
AAAGTAAAAACTAAAAAAT
Found at i:37817597 original size:22 final size:22
Alignment explanation
Indices: 37817557--37817598 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37817547 TAAAGGATGA
37817557 AGAAAGAAAATAAAGGAAAAGT
1 AGAAAGAAAATAAAGGAAAAGT
*
37817579 AGAAA-AAATTAAAGAGAAAA
1 AGAAAGAAAATAAAG-GAAAA
37817599 TTAATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (22 bp):
AGAAAGAAAATAAAGGAAAAGT
Found at i:37817598 original size:32 final size:34
Alignment explanation
Indices: 37817561--37817623 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
37817551 GGATGAAGAA
*
37817561 AGAAAA-TAAAGGAAAAGTAGAAAA-AATTAAAG
1 AGAAAATTAAAGGAAAAGTAAAAAAGAATTAAAG
* *
37817593 AGAAAATTAATGTAAAAGTAAAAAAGAATTA
1 AGAAAATTAAAGGAAAAGTAAAAAAGAATTA
37817624 TTATTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 6 0.23
33 15 0.58
34 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.17
Consensus pattern (34 bp):
AGAAAATTAAAGGAAAAGTAAAAAAGAATTAAAG
Found at i:37818987 original size:98 final size:98
Alignment explanation
Indices: 37818820--37819079 Score: 488
Period size: 98 Copynumber: 2.7 Consensus size: 98
37818810 GATGGTTTTC
37818820 TTTTTAG-TTT-TCTTCTGTAAAAACCTTTTCTTTTAAAGAGTCTATAAATCATTCCGCTTGTAT
1 TTTTTAGTTTTCTCTTCTGTAAAAACCTTTTCTTTTAAAGAGTCTATAAATCATTCCGCTTGTAT
37818883 ATCGCACTCTACCCTACATACCTTTCCCCCTTA
66 ATCGCACTCTACCCTACATACCTTTCCCCCTTA
37818916 TTTTTAGTTTTCTCTTCTGTAAAAACCTTTTCTTTTAAAGAGTCTATAAATCATTCCGCTTGTAT
1 TTTTTAGTTTTCTCTTCTGTAAAAACCTTTTCTTTTAAAGAGTCTATAAATCATTCCGCTTGTAT
37818981 ATCGCACTCTACCCTACATACCTTTCCCCCTTA
66 ATCGCACTCTACCCTACATACCTTTCCCCCTTA
* *
37819014 TTTTTAGTTTTCTCTTCTGTAAAAACCTTTTCTTTTAAAGAGACTATAAATCCTTCCGCTTGTAT
1 TTTTTAGTTTTCTCTTCTGTAAAAACCTTTTCTTTTAAAGAGTCTATAAATCATTCCGCTTGTAT
37819079 A
66 A
37819080 CTCTACCCTA
Statistics
Matches: 160, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
96 7 0.04
97 3 0.02
98 150 0.94
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (98 bp):
TTTTTAGTTTTCTCTTCTGTAAAAACCTTTTCTTTTAAAGAGTCTATAAATCATTCCGCTTGTAT
ATCGCACTCTACCCTACATACCTTTCCCCCTTA
Found at i:37819159 original size:3 final size:3
Alignment explanation
Indices: 37819151--37819175 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37819141 TCCTGATTTA
37819151 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
37819176 TATAACCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37819261 original size:18 final size:19
Alignment explanation
Indices: 37819238--37819274 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
37819228 CTATTTAAAT
37819238 CTAAATT-TTTAATTTCTC
1 CTAAATTATTTAATTTCTC
*
37819256 CTAAATTATTTACTTTCTC
1 CTAAATTATTTAATTTCTC
37819275 TTCTACTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (19 bp):
CTAAATTATTTAATTTCTC
Found at i:37828463 original size:50 final size:50
Alignment explanation
Indices: 37828382--37828496 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
37828372 TTGTACATGT
* * * *
37828382 AAGGTCATACGAGCTATGAATCGATATGCTCTCACGAGCTGTAAATCTGC
1 AAGGTCATACGAGCTATGAATCGATAAGCTCTCAAGAGCTGCAAATCGGC
* * * *
37828432 AAGGTCATACGAGTTGA-GAATTGGTAAGCTCTCAAGAGCTGCAAATCGGT
1 AAGGTCATACGAGCT-ATGAATCGATAAGCTCTCAAGAGCTGCAAATCGGC
*
37828482 AAGCTCATACGAGCT
1 AAGGTCATACGAGCT
37828497 GTGGTGTGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (50 bp):
AAGGTCATACGAGCTATGAATCGATAAGCTCTCAAGAGCTGCAAATCGGC
Found at i:37828495 original size:25 final size:25
Alignment explanation
Indices: 37828380--37828498 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
37828370 TCTTGTACAT
* * *
37828380 GTAAGGTCATACGAGCTATGAATCG
1 GTAAGCTCATACGAGCTGTAAATCG
* * *
37828405 ATATGCTC-TCACGAGCTGTAAATCT
1 GTAAGCTCAT-ACGAGCTGTAAATCG
* * * *
37828430 GCAAGGTCATACGAGTTG-AGAATTG
1 GTAAGCTCATACGAGCTGTA-AATCG
* *
37828455 GTAAGCTC-TCAAGAGCTGCAAATCG
1 GTAAGCTCAT-ACGAGCTGTAAATCG
37828480 GTAAGCTCATACGAGCTGT
1 GTAAGCTCATACGAGCTGT
37828499 GGTGTGTCCG
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
24 3 0.04
25 62 0.91
26 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (25 bp):
GTAAGCTCATACGAGCTGTAAATCG
Found at i:37831715 original size:25 final size:25
Alignment explanation
Indices: 37831658--37831716 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
37831648 ACATGTATGG
* ** *
37831658 TCATACGAGCTGTGAATCGGTAAGC
1 TCATACGAGATGCAAATCAGTAAGC
37831683 TC-TCACGAGATGCAAATCAGTAAGC
1 TCAT-ACGAGATGCAAATCAGTAAGC
37831708 TCATACGAG
1 TCATACGAG
37831717 CTGTGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
TCATACGAGATGCAAATCAGTAAGC
Found at i:37834855 original size:138 final size:137
Alignment explanation
Indices: 37834550--37835125 Score: 773
Period size: 138 Copynumber: 4.2 Consensus size: 137
37834540 AGCTTTTACA
* *
37834550 GTATGAATCAAATTCTTATATTAATTATATTCTTTCCAAAAGAATATTAATTTCTACGTCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTA
* *
37834615 TATTTTGACTGAAATTCATTAATATAA-TTTTATATTAATAAATTCGGTAAAATATATAAAATTA
66 TATTTTGACTGAAATTAATTAATATAACTTTCATATTAATAAATTCGGTAAAATATATAAAATTA
37834679 ATATTTT
131 ATATTTT
* * * *
37834686 GTATGAATCAAATTTAAATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTA
* * * * * *
37834751 TATTTTGA-TCAAAATTAATTAATCTAACTATTCATATTTATAAATTTGATAAAATGTATAAAAT
66 TATTTTGACT-GAAATTAATTAATATAACT-TTCATATTAATAAATTCGGTAAAATATATAAAAT
37834815 TAATATTTT
129 TAATATTTT
* * * * *
37834824 GTATGAATTAAATTCATATATTAATTATATTCTTTCCAAATGAATATTAACTTCCATGTATTTTA
1 GTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTA
* * * * *
37834889 TATTTTGACTGAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTCAACTATATATAATT
66 TATTTTGACTGAAATTAATTAATATAACT-TTCATATTAATAAATTCGGTAAAATATATAAAATT
37834954 AATATTTT
130 AATATTTT
* * * *
37834962 GTATGAACCAAATTCATATATTAATTATA--CTTTTCAAAAGAACATTAATTTCCACATCTTTTA
1 GTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTA
* * * *
37835025 TATTTTGATTTTAAATTAATTAATATAACTGTCTATATTAATAAATTCGGTAAAATATATATAAT
66 TATTTTGA-CTGAAATTAATTAATATAACTTTC-ATATTAATAAATTCGGTAAAATATATAAAAT
37835090 TAATATTTTT
129 TAATA-TTTT
*
37835100 GTATGAATCAAATTCACATATTAATT
1 GTATGAATCAAATTCATATATTAATT
37835126 TTATCTATGT
Statistics
Matches: 382, Mismatches: 51, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
135 1 0.00
136 117 0.31
137 53 0.14
138 210 0.55
139 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (137 bp):
GTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCACGTCTTTTA
TATTTTGACTGAAATTAATTAATATAACTTTCATATTAATAAATTCGGTAAAATATATAAAATTA
ATATTTT
Found at i:37844690 original size:14 final size:14
Alignment explanation
Indices: 37844671--37844697 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37844661 TATTCATCAA
37844671 TCATAAATACCTAC
1 TCATAAATACCTAC
37844685 TCATAAATACCTA
1 TCATAAATACCTA
37844698 TGTCATTTGA
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:0.26, G:0.00, T:0.30
Consensus pattern (14 bp):
TCATAAATACCTAC
Done.