Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 130 of 189
Found at i:37469267 original size:36 final size:38
Alignment explanation
Indices: 37469169--37469267 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 38
37469159 GAATATATGT
*
37469169 GTGGAATTGAATTGAATATATTGACTTGAAAAATGAAAAA
1 GTGGAATTGAATTGAA-AT-GTGACTTGAAAAATGAAAAA
** *
37469209 GT-GAATTTTGAATTGATTTGTGA-TTG-AAAGTGAAAAA
1 GTGGAA--TTGAATTGAAATGTGACTTGAAAAATGAAAAA
37469246 GTGGAATTGAATTGAAATGTGA
1 GTGGAATTGAATTGAAATGTGA
37469268 ATTTAGAGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
36 14 0.28
37 12 0.24
38 6 0.12
39 6 0.12
40 3 0.06
41 9 0.18
ACGTcount: A:0.41, C:0.01, G:0.24, T:0.33
Consensus pattern (38 bp):
GTGGAATTGAATTGAAATGTGACTTGAAAAATGAAAAA
Found at i:37474890 original size:34 final size:33
Alignment explanation
Indices: 37474846--37474924 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
37474836 ATCACAATGC
* **
37474846 TAGTAATCAGTAGGGCCTTTGACCAATTCCAGTAA
1 TAGT-ATCAGTAGGACC-TTGACCAATAACAGTAA
* *
37474881 TAGTATCAGTAGGACCTTGGCCCATAACAGTAA
1 TAGTATCAGTAGGACCTTGACCAATAACAGTAA
37474914 TAGATATCAGT
1 TAG-TATCAGT
37474925 CATGCAGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 16 0.42
34 18 0.47
35 4 0.11
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (33 bp):
TAGTATCAGTAGGACCTTGACCAATAACAGTAA
Found at i:37474992 original size:29 final size:32
Alignment explanation
Indices: 37474926--37474985 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
37474916 GATATCAGTC
*
37474926 ATGCAGTGAACAGTATCTAATATCATTAATCG
1 ATGCAGTGAACAGTATCTAAAATCATTAATCG
37474958 ATGCAGT-AACAGTA-C-AAAATCATTAATC
1 ATGCAGTGAACAGTATCTAAAATCATTAATC
37474986 AGTGCAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 1 0.04
31 7 0.26
32 7 0.26
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (32 bp):
ATGCAGTGAACAGTATCTAAAATCATTAATCG
Found at i:37475403 original size:27 final size:27
Alignment explanation
Indices: 37475386--37475562 Score: 221
Period size: 27 Copynumber: 6.6 Consensus size: 27
37475376 GGGTATAATA
37475386 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
37475413 GTCATATTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
37475440 GTCATTTTACCCTATAGGGATATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
37475467 GTCATTTTAACATAT-GAGGGTATTTCA
1 GTCATTTTACCCTATAG-GGGTATTTCG
* * *
37475494 ATCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
37475521 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
37475548 GTCATTCTACCCTAT
1 GTCATTTTACCCTAT
37475563 GAAATAGCCA
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:37475564 original size:81 final size:82
Alignment explanation
Indices: 37475386--37475564 Score: 247
Period size: 81 Copynumber: 2.2 Consensus size: 82
37475376 GGGTATAATA
** *
37475386 GTCATTTTACCCTAT-AGGGGTATTTCGGTCATATTACTCTATGGGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTATGAGGGGTATTTCAATCATATTACTCTATGGGGGTATTTCGATCATTTTAC
*
37475450 CCTATAGGGATATTTTG
66 CCTATAGGGATATTTCG
* * *
37475467 GTCATTTTAACATATGA-GGGTATTTCAATCATTTTA-TCCTATGGGGGTATTTCGATCATTTTA
1 GTCATTTTACCCTATGAGGGGTATTTCAATCATATTACT-CTATGGGGGTATTTCGATCATTTTA
*
37475530 CCCTATAGGGGTATTTCG
65 CCCTATAGGGATATTTCG
*
37475548 GTCATTCTACCCTATGA
1 GTCATTTTACCCTATGA
37475565 AATAGCCACA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 1 0.01
81 83 0.98
82 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (82 bp):
GTCATTTTACCCTATGAGGGGTATTTCAATCATATTACTCTATGGGGGTATTTCGATCATTTTAC
CCTATAGGGATATTTCG
Found at i:37476214 original size:29 final size:29
Alignment explanation
Indices: 37476152--37476546 Score: 315
Period size: 29 Copynumber: 13.8 Consensus size: 29
37476142 CAAAGGTTGT
* * * **
37476152 CACAAAGGCTTCCTTTTGATAGAGATCAT
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* * *
37476181 TACAAAGGCTTCCATTTAATAAAGATCGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
37476210 CACAAAGGTTTCCATTTAACAAAGAT-G-
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
37476237 -GC--GGGCTTCCATTTAACAGAGA-CAGC
1 CACAAAGGCTTCCATTTAACAGAGATC-GC
* * * * **
37476263 CACAAAGGTTTCCATTTCACAAACATTAC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* * *
37476292 CACAAAGGCTTTCATTTAACAGAGATAGT
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* * * * *
37476321 CAGAAAGGTTTCCATTTAAAAAACATCGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
37476350 CAGAAAGGCTTCCATTTAATAGAGATCGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
37476379 CACAAAGGCTTCCATTTAACAGAGAT-GCC
1 CACAAAGGCTTCCATTTAACAGAGATCG-C
* *
37476408 CACAAAGGAC-TCCATTTACCAGAGATAGC
1 CACAAAGG-CTTCCATTTAACAGAGATCGC
* * * *
37476437 CACAATGGCCTCCATTTAATAGAGATAGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
37476466 CACAAAGGCCTCTATTTCAA-AGAGATC-C
1 CACAAAGGCTTCCATTT-AACAGAGATCGC
* * * *
37476494 CTAAAAAGGCCTCCATTTAATAGAGATCAC
1 C-ACAAAGGCTTCCATTTAACAGAGATCGC
37476524 CACAAAGGCTTCCATTTAACAGA
1 CACAAAGGCTTCCATTTAACAGA
37476547 TACAAAAACT
Statistics
Matches: 296, Mismatches: 55, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
24 17 0.06
25 1 0.00
26 1 0.00
27 1 0.00
28 7 0.02
29 263 0.89
30 6 0.02
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (29 bp):
CACAAAGGCTTCCATTTAACAGAGATCGC
Found at i:37477205 original size:29 final size:29
Alignment explanation
Indices: 37477171--37477345 Score: 98
Period size: 29 Copynumber: 6.2 Consensus size: 29
37477161 CAAAGGTTGT
* * * *
37477171 CACAAAAGCTTCCTTTTGACAGAGATTGC
1 CACAAAAGCTTCCATTTAACAAAGATTAC
37477200 CAC-AAAGCCTTCCATTTAACAAAGATTAC
1 CACAAAAG-CTTCCATTTAACAAAGATTAC
*
37477229 CACAAAGGCTTCCATTTCAA-AAAGA-T--
1 CACAAAAGCTTCCATTT-AACAAAGATTAC
** ** * * *
37477255 GGC--AAGCTTCTGTTTCACAGAGA-CAGC
1 CACAAAAGCTTCCATTTAACAAAGATTA-C
* *
37477282 CAC-AAAGCTTTCCATTTAACAAATATTGC
1 CACAAAAGC-TTCCATTTAACAAAGATTAC
* * *
37477311 CACAAAGGCTTCCATTTAACAAATATTTC
1 CACAAAAGCTTCCATTTAACAAAGATTAC
37477340 CACAAA
1 CACAAA
37477346 GGAATTCATT
Statistics
Matches: 111, Mismatches: 24, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 13 0.12
26 1 0.01
27 1 0.01
28 9 0.08
29 77 0.69
30 9 0.08
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (29 bp):
CACAAAAGCTTCCATTTAACAAAGATTAC
Found at i:37477314 original size:82 final size:82
Alignment explanation
Indices: 37477176--37477327 Score: 234
Period size: 82 Copynumber: 1.9 Consensus size: 82
37477166 GTTGTCACAA
* **
37477176 AAGCTTCCTTTTGACAGAGATTGCCACAAAGCCTTCCATTTAACAAAGATTACCACAAAGGCTTC
1 AAGCTTCCTTTTCACAGAGACAGCCACAAAGCCTTCCATTTAACAAAGATTACCACAAAGGCTTC
37477241 CATTTCAAAAAGATGGC
66 CATTTCAAAAAGATGGC
* * *
37477258 AAGCTT-CTGTTTCACAGAGACAGCCACAAAGCTTTCCATTTAACAAATATTGCCACAAAGGCTT
1 AAGCTTCCT-TTTCACAGAGACAGCCACAAAGCCTTCCATTTAACAAAGATTACCACAAAGGCTT
37477322 CCATTT
65 CCATTT
37477328 AACAAATATT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 2 0.03
82 61 0.97
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (82 bp):
AAGCTTCCTTTTCACAGAGACAGCCACAAAGCCTTCCATTTAACAAAGATTACCACAAAGGCTTC
CATTTCAAAAAGATGGC
Found at i:37477346 original size:29 final size:30
Alignment explanation
Indices: 37477280--37477347 Score: 113
Period size: 29 Copynumber: 2.3 Consensus size: 30
37477270 CACAGAGACA
37477280 GCCACAAA-GCTTTCCATTTAACAAATATT
1 GCCACAAAGGCTTTCCATTTAACAAATATT
37477309 GCCACAAAGGC-TTCCATTTAACAAATATT
1 GCCACAAAGGCTTTCCATTTAACAAATATT
*
37477338 TCCACAAAGG
1 GCCACAAAGG
37477348 AATTCATTCG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.26
Consensus pattern (30 bp):
GCCACAAAGGCTTTCCATTTAACAAATATT
Found at i:37477568 original size:252 final size:252
Alignment explanation
Indices: 37477106--37477583 Score: 688
Period size: 252 Copynumber: 1.9 Consensus size: 252
37477096 ATTCCTTTCC
* * * *
37477106 AAAGATAGTCATAGAGGCTTTCCTTTTGGAGTCTCGACACAATGGCGTCCTTTCACAAAGGTTGT
1 AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGACACAATGGCATCCGTTCACAAAGGTTGT
* *
37477171 CACAAAAGCTTCCTTTTGACAGAGATTGCCACAAAGCCTTCCATTTAACAAAGATTACCACAAAG
66 CACAAAAGCTTCCTTTTGACAGACATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
** **
37477236 GCTTCCATTTCAAAAAGATGGCAAGCTTCTGTTTCACAGAGACAGCCACAAAGCTTTCCATTTAA
131 GCTTCCATTTCAAAAAGATGGCAAGCTTCCATTAAACAGAGACAGCCACAAAGCTTTCCATTTAA
* *
37477301 CAAATATTGCCACAAAGGCTTCCATTTAACAAATATTTCCACAAAGGAATTCATTCG
196 CAAACATTACCACAAAGGCTTCCATTTAACAAATATTTCCACAAAGGAATTCATTCG
* * * *
37477358 AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGCCATAATGGCATCCGTTGAGAAAGGTTGT
1 AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGACACAATGGCATCCGTTCACAAAGGTTGT
* * * * * * * *
37477423 CACAAAGGCTTCCTTTTGATAGACATTGTCACAAAGTCTTCTATTTAATAAATATCACCACAGAG
66 CACAAAAGCTTCCTTTTGACAGACATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
* * * *
37477488 GCTTCCATTT-AAAATAGATGGCAGGTTTCCATTAAACAGAGACAGCCACAAAGGTTTCCATTTC
131 GCTTCCATTTCAAAA-AGATGGCAAGCTTCCATTAAACAGAGACAGCCACAAAGCTTTCCATTTA
37477552 ACAAACATTACCACAAAGGCTTCCATTTAACA
195 ACAAACATTACCACAAAGGCTTCCATTTAACA
37477584 GAGATAGTTA
Statistics
Matches: 197, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
251 4 0.02
252 193 0.98
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (252 bp):
AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGACACAATGGCATCCGTTCACAAAGGTTGT
CACAAAAGCTTCCTTTTGACAGACATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
GCTTCCATTTCAAAAAGATGGCAAGCTTCCATTAAACAGAGACAGCCACAAAGCTTTCCATTTAA
CAAACATTACCACAAAGGCTTCCATTTAACAAATATTTCCACAAAGGAATTCATTCG
Found at i:37477598 original size:29 final size:29
Alignment explanation
Indices: 37477514--37477756 Score: 179
Period size: 29 Copynumber: 8.4 Consensus size: 29
37477504 GATGGCAGGT
* * * *
37477514 TTCCATTAAACAGAGACAGCCACAAAGGT
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
37477543 TTCCATTTCACAAACATTA-CCACAAAGGC
1 TTCCATTTAACAGAGA-TAGCCAGAAAGGC
** *
37477572 TTCCATTTAACAGAGATAGTTAGAAAGGT
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
37477601 TTCCATTTAAAAAAGATCGCCAGAGA-GC
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
37477629 ATTTCATTTAACAGAGATTGCCACAAATGC
1 -TTCCATTTAACAGAGATAGCCAGAAAGGC
* *
37477659 TTCCATTTAATAGAGATACCCAGAAAGGC
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * *
37477688 -CCCTATTTAACAGAGATAGCAATAAAGGC
1 TTCC-ATTTAACAGAGATAGCCAGAAAGGC
* * *
37477717 CTCCATTTAACAGAGATAG-CAAAAAAGC
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
*
37477745 CTCCATTTAACA
1 TTCCATTTAACA
37477757 CATACAGAAA
Statistics
Matches: 167, Mismatches: 41, Indels: 13
0.76 0.19 0.06
Matches are distributed among these distances:
28 23 0.14
29 139 0.83
30 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (29 bp):
TTCCATTTAACAGAGATAGCCAGAAAGGC
Found at i:37478736 original size:29 final size:29
Alignment explanation
Indices: 37478401--37478737 Score: 213
Period size: 29 Copynumber: 11.8 Consensus size: 29
37478391 CAAAGGTTGT
* * * **
37478401 CACAAAGGCTTCCTTTTGATAGAGATTTC
1 CACAAAGGCTTCCATTTAACAGAGATAGC
* * * *
37478430 CATAAAGGCTTCTATTTAACAAAGATCGC
1 CACAAAGGCTTCCATTTAACAGAGATAGC
*
37478459 CACAAAAGCTTCCATTTAACA-A-ATATG-
1 CACAAAGGCTTCCATTTAACAGAGATA-GC
*** *
37478486 ---GTGGGATTCCATTTAACAGAGATAGC
1 CACAAAGGCTTCCATTTAACAGAGATAGC
* * * * * *
37478512 TACAAAGGTTTACATTTCACAAACATTA-C
1 CACAAAGGCTTCCATTTAACAGAGA-TAGC
* * *
37478541 CACAAAGGCTTCCATTTAATAAAGATAGT
1 CACAAAGGCTTCCATTTAACAGAGATAGC
* * * * * *
37478570 CAGAAAGGTTTCCATTTAAAAAAGATCGT
1 CACAAAGGCTTCCATTTAACAGAGATAGC
* * * *
37478599 TAGAGAGGCTTCCATTTAACAGAGATCGC
1 CACAAAGGCTTCCATTTAACAGAGATAGC
37478628 CACAAAGGCTTCCATTTAA-ATGAGATAGC
1 CACAAAGGCTTCCATTTAACA-GAGATAGC
* * **
37478657 CACAAAGACCTCCATTTAATGGAGATAGC
1 CACAAAGGCTTCCATTTAACAGAGATAGC
* ** *
37478686 CATAAAGGCCCCCCTTTAACAGAGATAGC
1 CACAAAGGCTTCCATTTAACAGAGATAGC
*
37478715 CACAAAGGCCTCCATTTAACAGA
1 CACAAAGGCTTCCATTTAACAGA
37478738 TACAGAAACT
Statistics
Matches: 239, Mismatches: 58, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
24 13 0.05
25 2 0.01
26 3 0.01
27 2 0.01
28 5 0.02
29 212 0.89
30 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
CACAAAGGCTTCCATTTAACAGAGATAGC
Found at i:37479399 original size:29 final size:29
Alignment explanation
Indices: 37479362--37479440 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
37479352 AATGGCGTTC
* * *
37479362 TTTGACAAAGGTTGTCACAAAGGCTTCCT
1 TTTGACAAAGATTGCCACAAAGGCTTCCA
37479391 TTTGACAAAGATTGCCACAAAGGCTTCCA
1 TTTGACAAAGATTGCCACAAAGGCTTCCA
*
37479420 TTTAACAAAGATCT-CCACAAA
1 TTTGACAAAGAT-TGCCACAAA
37479441 AGCACTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 44 0.98
30 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (29 bp):
TTTGACAAAGATTGCCACAAAGGCTTCCA
Found at i:37480821 original size:28 final size:27
Alignment explanation
Indices: 37480758--37480821 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
37480748 TAATAGTAAT
*
37480758 AGTACAGTGTGGGCCTTAGCCCAATAC
1 AGTACAGTGTGGGCCTAAGCCCAATAC
* **
37480785 AGAAACAGTGTGGGCCTAAGCCTGATAC
1 AG-TACAGTGTGGGCCTAAGCCCAATAC
37480813 AGTATCAGT
1 AGTA-CAGT
37480822 ATGGTGTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (27 bp):
AGTACAGTGTGGGCCTAAGCCCAATAC
Found at i:37480982 original size:26 final size:26
Alignment explanation
Indices: 37480930--37480982 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
37480920 CACCAATATC
* *
37480930 GCAGCATAGCTGCCAGTAGTAATAAT
1 GCAGCAAAGCTGCCAGTAGTAAGAAT
* *
37480956 GCAGCAAAGCTGCTAGTAGTCAGAAT
1 GCAGCAAAGCTGCCAGTAGTAAGAAT
37480982 G
1 G
37480983 GCTAAGAGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAGTAAGAAT
Found at i:37481093 original size:32 final size:32
Alignment explanation
Indices: 37481052--37481300 Score: 143
Period size: 32 Copynumber: 7.8 Consensus size: 32
37481042 TATAGTAATG
* *
37481052 TGATTGGCACAAAGCCATCAGTAGTAGTGACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGACA
* * * *
37481084 TGATCGGCACACAA-CCATTAGTAACGGTAACA
1 TGATCGGCACA-AAGCCATCAGTAGCAGTGACA
* *
37481116 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGACA
* * ** *
37481148 TGATCGGTACACAA-CCATCAATAATAGTGAAA
1 TGATCGGCACA-AAGCCATCAGTAGCAGTGACA
** * * * * * *
37481180 TGATCAACACACAGCCATC-GACAACGGTAAGA
1 TGATCGGCACAAAGCCATCAG-TAGCAGTGACA
* * * *
37481212 TCATTGGCATAAAG-CATCAGTAGCGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGAC-A
*
37481243 TGATCGGCACAAAGCCATCAGTAGCGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGAC-A
* *
37481275 CGA-CTGGCACAAAGCCATCAATAGCA
1 TGATC-GGCACAAAGCCATCAGTAGCA
37481301 TCGCAGCAAA
Statistics
Matches: 165, Mismatches: 43, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
30 1 0.01
31 25 0.15
32 135 0.82
33 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGACA
Found at i:37481183 original size:64 final size:64
Alignment explanation
Indices: 37481052--37481171 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
37481042 TATAGTAATG
* * * *
37481052 TGATTGGCACAAAGCCATCAGTAGTAGTGACATGATCGGCACACAACCATTAGTAACGGTAACA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGTAACA
* *
37481116 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAATAA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAA
37481172 TAGTGAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (64 bp):
TGATTGGCACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGTAACA
Found at i:37481196 original size:64 final size:64
Alignment explanation
Indices: 37481059--37481198 Score: 165
Period size: 64 Copynumber: 2.2 Consensus size: 64
37481049 ATGTGATTGG
* * * * ***
37481059 CACAAAGCCATCAGTAGTAGTGACATGATCGGCACACAACCATTAGTAACGGTAACATGATTGG
1 CACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGTAACATGATCAA
* * *
37481123 CACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAATAATAGTGAA-ATGATCAA
1 CACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGT-AACATGATCAA
*
37481187 CACACAGCCATC
1 CACAAAGCCATC
37481199 GACAACGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 62 0.97
65 2 0.03
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGTAACATGATCAA
Found at i:37481239 original size:31 final size:32
Alignment explanation
Indices: 37481204--37481271 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
37481194 CCATCGACAA
* *
37481204 CGGTAAGATCATTGGCATAAAG-CATCAGTAG
1 CGGTAAGATCATCGGCACAAAGCCATCAGTAG
** *
37481235 CGGTACTATGATCGGCACAAAGCCATCAGTAG
1 CGGTAAGATCATCGGCACAAAGCCATCAGTAG
37481267 CGGTA
1 CGGTA
37481272 CTACGACTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (32 bp):
CGGTAAGATCATCGGCACAAAGCCATCAGTAG
Found at i:37481514 original size:24 final size:23
Alignment explanation
Indices: 37481470--37481536 Score: 98
Period size: 24 Copynumber: 2.9 Consensus size: 23
37481460 CATGCTTAGT
37481470 ATCAGTCATTCAAACACAGACAA
1 ATCAGTCATTCAAACACAGACAA
*
37481493 ATCAGTCATATCGAACACAGACAA
1 ATCAGTCAT-TCAAACACAGACAA
* *
37481517 ATCAGTCATTTAACCACAGA
1 ATCAGTCATTCAAACACAGA
37481537 AAAAATAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.19
Consensus pattern (23 bp):
ATCAGTCATTCAAACACAGACAA
Found at i:37481629 original size:27 final size:26
Alignment explanation
Indices: 37481575--37481793 Score: 130
Period size: 27 Copynumber: 8.2 Consensus size: 26
37481565 AAAATAGTCA
* * *
37481575 TTTACCCACTA-GGGCATTACGATTAT
1 TTTACCCAC-AGGGGTATTTCGATCAT
*
37481601 TTTACCCTACAGGGGTATTACGATCAT
1 TTTACCC-ACAGGGGTATTTCGATCAT
*
37481628 TTTA-CCACATGGGGGCATTTCAGA-CAT
1 TTTACCCACA--GGGGTATTTC-GATCAT
* * *
37481655 TTTACACATC-GATGGTATTTTGATCAT
1 TTTACCCA-CAG-GGGTATTTCGATCAT
*
37481682 TTTACCCATCAAGGGTATTTCGATCAT
1 TTTACCCA-CAGGGGTATTTCGATCAT
*
37481709 TTTACCCTTC-GAGGGTATTTCGATCAT
1 TTTACCC-ACAG-GGGTATTTCGATCAT
* * *
37481736 TTTACCCATC-GAGGGTATTTTGGTTAT
1 TTTACCCA-CAG-GGGTATTTCGATCAT
37481763 TTTACCCATC-GAGGGTATTTC-AGTCAT
1 TTTACCCA-CAG-GGGTATTTCGA-TCAT
37481790 TTTA
1 TTTA
37481794 TCTATCGAGG
Statistics
Matches: 158, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
25 3 0.02
26 13 0.08
27 137 0.87
28 4 0.03
29 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (26 bp):
TTTACCCACAGGGGTATTTCGATCAT
Found at i:37481657 original size:54 final size:54
Alignment explanation
Indices: 37481575--37481793 Score: 191
Period size: 54 Copynumber: 4.1 Consensus size: 54
37481565 AAAATAGTCA
* * * *
37481575 TTTACCCA-CTAGGGCATTACGATTATTTTACCCTAC-AGGGGTATTACGATCAT
1 TTTACCCATCAAGGGCATTTCGATCATTTTACCCTACGA-GGGTATTTCGATCAT
** * * *
37481628 TTTACCACAT-GGGGGCATTTCAGA-CATTTTACAC-ATCGATGGTATTTTGATCAT
1 TTTACC-CATCAAGGGCATTTC-GATCATTTTACCCTA-CGAGGGTATTTCGATCAT
* *
37481682 TTTACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCAT
1 TTTACCCATCAAGGGCATTTCGATCATTTTACCCTACGAGGGTATTTCGATCAT
* * * * *
37481736 TTTACCCATCGAGGGTATTTTGGTTATTTTACCC-ATCGAGGGTATTTC-AGTCAT
1 TTTACCCATCAAGGGCATTTCGATCATTTTACCCTA-CGAGGGTATTTCGA-TCAT
37481790 TTTA
1 TTTA
37481794 TCTATCGAGG
Statistics
Matches: 136, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
53 13 0.10
54 120 0.88
55 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (54 bp):
TTTACCCATCAAGGGCATTTCGATCATTTTACCCTACGAGGGTATTTCGATCAT
Found at i:37481698 original size:81 final size:81
Alignment explanation
Indices: 37481599--37481809 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 81
37481589 CATTACGATT
* *
37481599 ATTTTACCC-TACAGGGGTATTACGATCATTTTACCACAT-GGGGGCATTTCAGA-CATTTTACA
1 ATTTTACCCAT-CAAGGGTATTACGATCATTTTACC-CATCGAGGGCATTTC-GATCATTTTACA
*
37481661 CATCGATGGTATTTTGATC
63 CATCGAGGGTATTTTGATC
* * * *
37481680 ATTTTACCCATCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCAT
1 ATTTTACCCATCAAGGGTATTACGATCATTTTACCCATCGAGGGCATTTCGATCATTTTACACAT
* *
37481745 CGAGGGTATTTTGGTT
66 CGAGGGTATTTTGATC
* * * * *
37481761 ATTTTACCCATCGAGGGTATTTC-AGTCATTTTATCTATCGAGGGTATTT
1 ATTTTACCCATCAAGGGTATTACGA-TCATTTTACCCATCGAGGGCATTT
37481810 TAGTCCAGAT
Statistics
Matches: 113, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
80 5 0.04
81 107 0.95
82 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (81 bp):
ATTTTACCCATCAAGGGTATTACGATCATTTTACCCATCGAGGGCATTTCGATCATTTTACACAT
CGAGGGTATTTTGATC
Found at i:37481800 original size:27 final size:27
Alignment explanation
Indices: 37481624--37481814 Score: 192
Period size: 27 Copynumber: 7.1 Consensus size: 27
37481614 GGTATTACGA
* *
37481624 TCATTTTACCACAT-GGGGGCATTTCAG
1 TCATTTTACC-CATCGAGGGTATTTCAG
* * * *
37481651 ACATTTTACACATCGATGGTATTT-TG
1 TCATTTTACCCATCGAGGGTATTTCAG
*
37481677 ATCATTTTACCCATCAAGGGTATTTC-G
1 -TCATTTTACCCATCGAGGGTATTTCAG
*
37481704 ATCATTTTACCCTTCGAGGGTATTTC-G
1 -TCATTTTACCCATCGAGGGTATTTCAG
**
37481731 ATCATTTTACCCATCGAGGGTATTTTGG
1 -TCATTTTACCCATCGAGGGTATTTCAG
*
37481759 TTATTTTACCCATCGAGGGTATTTCAG
1 TCATTTTACCCATCGAGGGTATTTCAG
* * *
37481786 TCATTTTATCTATCGAGGGTATTTTAG
1 TCATTTTACCCATCGAGGGTATTTCAG
37481813 TC
1 TC
37481815 CAGATATCAA
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.03
27 134 0.96
28 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCAG
Found at i:37481801 original size:54 final size:54
Alignment explanation
Indices: 37481613--37481810 Score: 222
Period size: 54 Copynumber: 3.7 Consensus size: 54
37481603 TACCCTACAG
* * * * *
37481613 GGGTATTACGATCATTTTACCACAT-GGGGGCATTTCAGA-CATTTTACACATCGA
1 GGGTATTTCGATCATTTTACC-CATCGAGGGTATTT-TGATCATTTTACCCATCGA
* * * * *
37481667 TGGTATTTTGATCATTTTACCCATCAAGGGTATTTCGATCATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGA
* *
37481721 GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGGTTATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGA
* *
37481775 GGGTATTTC-AGTCATTTTATCTATCGAGGGTATTTT
1 GGGTATTTCGA-TCATTTTACCCATCGAGGGTATTTT
37481811 AGTCCAGATA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 6 0.05
54 117 0.95
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGA
Found at i:37481822 original size:27 final size:27
Alignment explanation
Indices: 37481770--37481822 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
37481760 TATTTTACCC
**
37481770 ATCGAGGGTATTTCAGTCATTTTATCT
1 ATCGAGGGTATTTCAGTCATGATATCT
*
37481797 ATCGAGGGTATTTTAGTCCA-GATATC
1 ATCGAGGGTATTTCAGT-CATGATATC
37481823 AACCTCTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (27 bp):
ATCGAGGGTATTTCAGTCATGATATCT
Found at i:37485756 original size:92 final size:91
Alignment explanation
Indices: 37485584--37485760 Score: 223
Period size: 92 Copynumber: 1.9 Consensus size: 91
37485574 TCACGTGAGA
* * * *
37485584 ATTTTATGAAATTATATATCACTATTAAATTATATTTAATATTAATTATTTTAAATTGTATAAAT
1 ATTTTATGAAATTATATATAACTATTAAATTATATGTAATATTAATTATTTTAAATTATACAAAT
**
37485649 TCATGTAAGAAAATTTATTATCAAGT
66 TCATAAAAGAAAATTTATTATCAAGT
* *
37485675 ATTTTATGAAATT-TAATATTAATTATTAAATTATATGTAATAATT-ATTATTTTAGATTATACA
1 ATTTTATGAAATTAT-ATA-TAACTATTAAATTATATGTAAT-ATTAATTATTTTAAATTATACA
* *
37485738 AATTCATAAAATATAATTTATTA
63 AATTCATAAAAGAAAATTTATTA
37485761 GTTATAATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
90 1 0.01
91 16 0.22
92 53 0.73
93 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (91 bp):
ATTTTATGAAATTATATATAACTATTAAATTATATGTAATATTAATTATTTTAAATTATACAAAT
TCATAAAAGAAAATTTATTATCAAGT
Found at i:37485922 original size:120 final size:120
Alignment explanation
Indices: 37485783--37486188 Score: 719
Period size: 120 Copynumber: 3.4 Consensus size: 120
37485773 TTAAATTATT
* * * *
37485783 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAG
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
37485845 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
37485903 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
*
37485968 CATATGTTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
37486023 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
37486088 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
37486143 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
37486189 TAAATATGAT
Statistics
Matches: 277, Mismatches: 6, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 6 0.02
120 269 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:37485925 original size:18 final size:17
Alignment explanation
Indices: 37485897--37485931 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37485887 ATTATTAAGA
*
37485897 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37485914 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37485932 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:37486045 original size:18 final size:17
Alignment explanation
Indices: 37486017--37486051 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37486007 ATTATTAAGA
*
37486017 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37486034 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37486052 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:37486165 original size:18 final size:17
Alignment explanation
Indices: 37486137--37486171 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37486127 ATTATTAAGA
*
37486137 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37486154 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37486172 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:37486560 original size:17 final size:16
Alignment explanation
Indices: 37486526--37486578 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
37486516 GATTTGCTAT
37486526 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
37486542 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
37486559 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
37486575 TACA
1 TACA
37486579 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:37489246 original size:19 final size:19
Alignment explanation
Indices: 37489222--37489285 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
37489212 TCTTATGCCA
37489222 AAATATTTAAAGATTTACC
1 AAATATTTAAAGATTTACC
* *
37489241 AAATATCT-AAGGTTTGACC
1 AAATATTTAAAGATTT-ACC
*
37489260 AAAT-TTCTAAGGATTTACC
1 AAATATT-TAAAGATTTACC
37489279 -AATATTT
1 AAATATTT
37489286 CTAGACATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.31
19 20 0.56
20 5 0.14
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (19 bp):
AAATATTTAAAGATTTACC
Found at i:37489287 original size:20 final size:19
Alignment explanation
Indices: 37489233--37489288 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
37489223 AATATTTAAA
*
37489233 GATTTACCAAATATCTAAG
1 GATTTACCAAATTTCTAAG
37489252 G-TTTGACCAAATTTCTAAG
1 GATTT-ACCAAATTTCTAAG
37489271 GATTTACCAATATTTCTA
1 GATTTACCAA-ATTTCTA
37489289 GACATTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 3 0.09
19 20 0.61
20 10 0.30
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
GATTTACCAAATTTCTAAG
Found at i:37489390 original size:20 final size:20
Alignment explanation
Indices: 37489365--37489582 Score: 164
Period size: 20 Copynumber: 11.2 Consensus size: 20
37489355 TAACAATATG
*
37489365 CTAAGGATTTACTAAAATTT
1 CTAAGGATTTACCAAAATTT
* *
37489385 CTAAGGCTTTGCCAAAA-TT
1 CTAAGGATTTACCAAAATTT
37489404 -T-AGGATTTACCAAAATTT
1 CTAAGGATTTACCAAAATTT
* *
37489422 CTAAGG-TTATATCAAAATGT
1 CTAAGGATT-TACCAAAATTT
* *
37489442 ATAAGGATTTACCAAAGTTT
1 CTAAGGATTTACCAAAATTT
* *
37489462 CCAA-GATTATACCAAAATAT
1 CTAAGGATT-TACCAAAATTT
* * *
37489482 CCAAGCATTTACCAAAAATT
1 CTAAGGATTTACCAAAATTT
* *
37489502 CTAAGG-CTTACCCAAATTT
1 CTAAGGATTTACCAAAATTT
** *
37489521 CTAAGG-TTATATAAAAATAT
1 CTAAGGATT-TACCAAAATTT
* *
37489541 CTAGGGAATTACCAAAATTT
1 CTAAGGATTTACCAAAATTT
* *
37489561 CTAA-GCTTTACCAAAATAT
1 CTAAGGATTTACCAAAATTT
37489580 CTA
1 CTA
37489583 TTGATTTCCT
Statistics
Matches: 152, Mismatches: 37, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
17 12 0.08
18 3 0.02
19 41 0.27
20 90 0.59
21 6 0.04
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (20 bp):
CTAAGGATTTACCAAAATTT
Found at i:37489522 original size:19 final size:19
Alignment explanation
Indices: 37489490--37489576 Score: 61
Period size: 19 Copynumber: 4.5 Consensus size: 19
37489480 ATCCAAGCAT
37489490 TTACCAAAAATTCTAAGGC
1 TTACCAAAAATTCTAAGGC
* *
37489509 TTACCCAAATTTCTAAGG-
1 TTACCAAAAATTCTAAGGC
** * *
37489527 TTATATAAAAATATCTAGGGAA
1 TTA-CCAAAAAT-TCTAAGG-C
*
37489549 TTACCAAAATTTCTAA-GC
1 TTACCAAAAATTCTAAGGC
37489567 TTTACCAAAA
1 -TTACCAAAA
37489577 TATCTATTGA
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
18 3 0.06
19 30 0.59
20 10 0.20
21 5 0.10
22 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (19 bp):
TTACCAAAAATTCTAAGGC
Found at i:37489656 original size:20 final size:20
Alignment explanation
Indices: 37489631--37489698 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
37489621 TTTAACATGA
*
37489631 CAAAATTTCCAAGGCTTTAG
1 CAAAATTTCCAAGGATTTAG
* *
37489651 CAAAATTTTCAAGGATTTAT
1 CAAAATTTCCAAGGATTTAG
* * * * *
37489671 CAATATTTCTAAAGATTCAT
1 CAAAATTTCCAAGGATTTAG
37489691 CAAAATTT
1 CAAAATTT
37489699 TTAAAGATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.37
Consensus pattern (20 bp):
CAAAATTTCCAAGGATTTAG
Found at i:37489703 original size:20 final size:20
Alignment explanation
Indices: 37489651--37489707 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
37489641 AAGGCTTTAG
* * *
37489651 CAAAATTTTCAAGGATTTAT
1 CAAAATTTTTAAAGATTCAT
* *
37489671 CAATATTTCTAAAGATTCAT
1 CAAAATTTTTAAAGATTCAT
37489691 CAAAATTTTTAAAGATT
1 CAAAATTTTTAAAGATT
37489708 TCTTTAGTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (20 bp):
CAAAATTTTTAAAGATTCAT
Found at i:37489844 original size:20 final size:21
Alignment explanation
Indices: 37489760--37489864 Score: 69
Period size: 20 Copynumber: 5.2 Consensus size: 21
37489750 ACAAATTTTT
*
37489760 TAAGGATTTATCAATA-TTTC
1 TAAGGATTTACCAATACTTTC
* * *
37489780 TAAGG-TTATACC-TTAATATC
1 TAAGGATT-TACCAATACTTTC
* * * *
37489800 TAAAGACTTACCAAAATTTTC
1 TAAGGATTTACCAATACTTTC
* *
37489821 -AAGGCTTTTCCAA-ACTTTC
1 TAAGGATTTACCAATACTTTC
37489840 TAAGGATTTACCAATAC-TTC
1 TAAGGATTTACCAATACTTTC
37489860 TAAGG
1 TAAGG
37489865 GCTCACCAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 9 0.14
20 47 0.75
21 7 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (21 bp):
TAAGGATTTACCAATACTTTC
Found at i:37489987 original size:20 final size:20
Alignment explanation
Indices: 37489949--37489989 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37489939 CTAAGAAAAA
* *
37489949 TTTATCAAATTTTATAAGGT
1 TTTATCAAAATTTACAAGGT
*
37489969 TTTATCAAAATTTCCAAGGT
1 TTTATCAAAATTTACAAGGT
37489989 T
1 T
37489990 AAACCAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTATCAAAATTTACAAGGT
Found at i:37490016 original size:20 final size:20
Alignment explanation
Indices: 37489993--37490031 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37489983 CAAGGTTAAA
*
37489993 CCAAAATATCTAAGGATTTG
1 CCAAAATATCTAAAGATTTG
*
37490013 CCAAAATTTCTAAAGATTT
1 CCAAAATATCTAAAGATTT
37490032 CTTTTGTGCC
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:0.10, T:0.33
Consensus pattern (20 bp):
CCAAAATATCTAAAGATTTG
Found at i:37500331 original size:50 final size:50
Alignment explanation
Indices: 37500131--37500427 Score: 217
Period size: 50 Copynumber: 5.8 Consensus size: 50
37500121 ATTTGGGTAA
* *
37500131 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTCGCACCGAGAT-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
37500180 ATGAGGTCCCATGTAAGACCATGTTTGGGACCTAGCATTGGCATCATTGAGATTATG
1 A-GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * * * *
37500237 AGATGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGCCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
37500287 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGATACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
37500337 AGAACTCTCATGTAAGACCATATTTGGGATATGACATTTGAAGTA-C-AGA--
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTG--GCACCGAGATG
* ** *
37500386 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37500428 TGTTATTATT
Statistics
Matches: 192, Mismatches: 45, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
46 2 0.01
48 3 0.02
49 28 0.15
50 106 0.55
51 5 0.03
52 1 0.01
53 8 0.04
55 1 0.01
56 37 0.19
57 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:37510093 original size:40 final size:39
Alignment explanation
Indices: 37510049--37510190 Score: 194
Period size: 40 Copynumber: 3.6 Consensus size: 39
37510039 CGGACGAGCG
*
37510049 ATACCTACTGAATCTAGTGAAACGTATATGCTTTCAAGCC
1 ATACCTACTGAATCTATTGAAACGTATA-GCTTTCAAGCC
* *
37510089 ATACCTACTGAATCTACTGAAACATATGAGCTTTCAAGCC
1 ATACCTACTGAATCTATTGAAACGTAT-AGCTTTCAAGCC
* * *
37510129 ATACCTACTGAATCTATTGAAATGTATGCGCTCTCAAGCC
1 ATACCTACTGAATCTATTGAAACGTAT-AGCTTTCAAGCC
*
37510169 AGACCTACTGAATCTATTGAAA
1 ATACCTACTGAATCTATTGAAA
37510191 AGAATGCTCT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (39 bp):
ATACCTACTGAATCTATTGAAACGTATAGCTTTCAAGCC
Found at i:37511580 original size:15 final size:15
Alignment explanation
Indices: 37511556--37511587 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
37511546 TATGTATGAA
*
37511556 AAATATAAAAGACAT
1 AAATACAAAAGACAT
37511571 AAATACAAAAGACAT
1 AAATACAAAAGACAT
37511586 AA
1 AA
37511588 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:37524468 original size:22 final size:23
Alignment explanation
Indices: 37524443--37524488 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
37524433 TGTGTTGTGG
37524443 CTAATATGAAA-ACAATTGATGC
1 CTAATATGAAAGACAATTGATGC
37524465 CTAATATGAAAGACAATTGATGC
1 CTAATATGAAAGACAATTGATGC
37524488 C
1 C
37524489 CTTAATTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (23 bp):
CTAATATGAAAGACAATTGATGC
Found at i:37527937 original size:17 final size:17
Alignment explanation
Indices: 37527895--37527937 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
37527885 GGTATAACCG
*
37527895 TCATAAAATAAAATTGC
1 TCATAAAATAAAATTCC
*
37527912 T-ATAGAAATTAAATTCC
1 TCATA-AAATAAAATTCC
37527929 TCATAAAAT
1 TCATAAAAT
37527938 GAGGTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (17 bp):
TCATAAAATAAAATTCC
Found at i:37532292 original size:120 final size:120
Alignment explanation
Indices: 37532106--37532335 Score: 406
Period size: 120 Copynumber: 1.9 Consensus size: 120
37532096 ACCTTATTAG
*
37532106 GATCCACTTTAATACCCTCGATAGAAATCACATGGCCCAAAAAATGTACTTCTCTCAACAGAACT
1 GATCCACTTTAATACCCTCGATAGAAATCACATAGCCCAAAAAATGTACTTCTCTCAACAGAACT
*
37532171 CACACTTACTCAACTTGGTATATAACTAATTCACACGTAATGCCCGCCTTAACAT
66 CACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCCGCCTTAACAT
* * * *
37532226 GATCCACTTTAATACCTTCGATAGGAATCACATAGCCCAAAAAATGTACTTCTCTCAGCATAACT
1 GATCCACTTTAATACCCTCGATAGAAATCACATAGCCCAAAAAATGTACTTCTCTCAACAGAACT
37532291 CACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCC
66 CACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCC
37532336 TCAGATAATC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 104 1.00
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.27
Consensus pattern (120 bp):
GATCCACTTTAATACCCTCGATAGAAATCACATAGCCCAAAAAATGTACTTCTCTCAACAGAACT
CACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCCGCCTTAACAT
Found at i:37532786 original size:20 final size:20
Alignment explanation
Indices: 37532752--37532796 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
37532742 AAGTACTAGA
*
37532752 AGCTTGTCTACAATTCTGGT
1 AGCTTGTCCACAATTCTGGT
* * *
37532772 GGCTTGTCCATAATTTTGGT
1 AGCTTGTCCACAATTCTGGT
37532792 AGCTT
1 AGCTT
37532797 TTCTGTAACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
AGCTTGTCCACAATTCTGGT
Found at i:37535673 original size:27 final size:27
Alignment explanation
Indices: 37535638--37535715 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
37535628 ATATAACCCT
37535638 GTGTTTATTGTCTCGTCAGACTATCTC
1 GTGTTTATTGTCTCGTCAGACTATCTC
* *
37535665 GTGTTTATTGTCCCGAT-GGACTATCTC
1 GTGTTTATTGTCTCG-TCAGACTATCTC
* *
37535692 ATGTTTAGTGTCTCGTCAGACTAT
1 GTGTTTATTGTCTCGTCAGACTAT
37535716 TCCATGATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (27 bp):
GTGTTTATTGTCTCGTCAGACTATCTC
Found at i:37535740 original size:54 final size:54
Alignment explanation
Indices: 37535639--37535741 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
37535629 TATAACCCTG
* * *
37535639 TGTTTATTGTCTCGTCAGACTATCTCGTGTTTATTGTCCCGATGGACTATCTCA
1 TGTTTAGTGTCTCGTCAGACTATCTCATGTTAATTGTCCCGATGGACTATCTCA
37535693 TGTTTAGTGTCTCGTCAGACTAT-TCCATGATTAATT-TCCC-ATCGGACTA
1 TGTTTAGTGTCTCGTCAGACTATCT-CATG-TTAATTGTCCCGAT-GGACTA
37535742 CCTACGATGC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
53 3 0.07
54 35 0.81
55 5 0.12
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (54 bp):
TGTTTAGTGTCTCGTCAGACTATCTCATGTTAATTGTCCCGATGGACTATCTCA
Found at i:37537868 original size:37 final size:36
Alignment explanation
Indices: 37537819--37537898 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 36
37537809 ATTCCAAAAA
37537819 TAATATTATTTTAATAGT-TTAATATTTAATTTAAT-T
1 TAATATTATTTTAATAGTATT-ATA-TTAATTTAATAT
*
37537855 TAATACTTATTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATTTTAATAGTATTATATTAATTTAATAT
37537892 TAA-ATTA
1 TAATATTA
37537899 ATTATCTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
35 3 0.08
36 16 0.40
37 19 0.47
38 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (36 bp):
TAATATTATTTTAATAGTATTATATTAATTTAATAT
Found at i:37537892 original size:11 final size:11
Alignment explanation
Indices: 37537819--37537900 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 11
37537809 ATTCCAAAAA
*
37537819 TAATATTATTT
1 TAATATTAATT
37537830 TAATAGTTTAATATT
1 TAATA--TT-A-ATT
37537845 TAAT-TTAATT
1 TAATATTAATT
*
37537855 TAATACTTATTT
1 TAATA-TTAATT
*
37537867 TAATAGT-ATT
1 TAATATTAATT
37537877 T--TATTAATT
1 TAATATTAATT
*
37537886 TAATATTAAAT
1 TAATATTAATT
37537897 TAAT
1 TAAT
37537901 TATCTTAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 10 0.18
11 18 0.32
12 12 0.21
13 2 0.04
14 1 0.02
15 6 0.11
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (11 bp):
TAATATTAATT
Found at i:37540775 original size:43 final size:43
Alignment explanation
Indices: 37540676--37540777 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
37540666 CACACACCCG
* *
37540676 TGTGGCCAAGCCGTGTGCCTCACACGGCCAAGACACACGCCCA
1 TGTGGCCAAGCCGTGTGCCTCACACAGCCAAGACACACGACCA
* * * * * *
37540719 TGTGACTAGGCCGTGTGCCTCACACAGTCGAGACACATGACCA
1 TGTGGCCAAGCCGTGTGCCTCACACAGCCAAGACACACGACCA
37540762 TGTGGCCAAGCCGTGT
1 TGTGGCCAAGCCGTGT
37540778 AACTCTCTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (43 bp):
TGTGGCCAAGCCGTGTGCCTCACACAGCCAAGACACACGACCA
Found at i:37548811 original size:14 final size:15
Alignment explanation
Indices: 37548787--37548815 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37548777 TTTTTCTGTG
37548787 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
37548802 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
37548816 AGTTTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:37549054 original size:28 final size:28
Alignment explanation
Indices: 37549007--37549063 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
37548997 TATAGTTTTT
37549007 ATAATAATTATAAAGTTTATAACAATAA
1 ATAATAATTATAAAGTTTATAACAATAA
*
37549035 ATAATATATTATAAAG-TTATAATAATAA
1 ATAATA-ATTATAAAGTTTATAACAATAA
37549063 A
1 A
37549064 AACAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (28 bp):
ATAATAATTATAAAGTTTATAACAATAA
Found at i:37550848 original size:41 final size:41
Alignment explanation
Indices: 37550790--37550935 Score: 147
Period size: 41 Copynumber: 3.6 Consensus size: 41
37550780 GACTTTATGT
* *
37550790 CTAGCAGGCT-TGATGCCGGTGAAAT-AATTC-GGACTTTAAGT
1 CTAGCAGGCTAAG-TGCCGGTGAAATGAA-TCAGG-CTTTAAGC
** *
37550831 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-TTGTAAAC
1 CTAGCAGGCTAAGTGCCGGTGAAATGAATCAGGCTT-TAAGC
* ** *
37550872 CTAGCAGGCTAAGTGCGGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAAATGAATCAGGCTTTAAGC
37550913 CTAGCAGGCTAAGTGCCGGTGAA
1 CTAGCAGGCTAAGTGCCGGTGAA
37550936 TATATTAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
40 2 0.02
41 82 0.91
42 6 0.07
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAAATGAATCAGGCTTTAAGC
Found at i:37553210 original size:44 final size:44
Alignment explanation
Indices: 37553159--37553345 Score: 123
Period size: 44 Copynumber: 4.3 Consensus size: 44
37553149 CAAAACATCG
* *
37553159 GGGAGATAGGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTA
1 GGGAGATAAGATTCGCTGTCTTCAATCTGCTCCACTACTGCTTA
*** * * * * *
37553203 GGGAGATAAGA-TCTGAAATTTTCAACCTACTCCATTACTGCTCA
1 GGGAGATAAGATTC-GCTGTCTTCAATCTGCTCCACTACTGCTTA
* * * * * *
37553247 GGGAAATAGGACTT-G-TGGCTTAAATCTGCTTCC-CTACT-CCTG
1 GGGAGATAAGA-TTCGCTGTCTTCAATCTGC-TCCACTACTGCTTA
* * * *
37553289 GGGAGGATAACATTCGCCGTCTTCGATCTGCTCCATTACTGCTTA
1 GGGA-GATAAGATTCGCTGTCTTCAATCTGCTCCACTACTGCTTA
37553334 GGGAGATAAGAT
1 GGGAGATAAGAT
37553346 CTAAAATTCT
Statistics
Matches: 100, Mismatches: 34, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
42 7 0.07
43 21 0.21
44 65 0.65
45 6 0.06
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
GGGAGATAAGATTCGCTGTCTTCAATCTGCTCCACTACTGCTTA
Found at i:37553700 original size:44 final size:43
Alignment explanation
Indices: 37553438--37553717 Score: 163
Period size: 44 Copynumber: 6.4 Consensus size: 43
37553428 AAGATCCTTT
* * *
37553438 ACTGTAATCTTAGGGAAATAGGATTACTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACT-GCTTCAATCTGCTCC
* * * * *
37553482 GCTATAATCTCAGGGAGATACGATTTCTAGCTTCAATTTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACT-GCTTCAATCTGCTCC
* * * **
37553526 ACTGTAA-CTTCAGGGAGATAAGATTTAAAATTCTTCAGTCTATTCC
1 ACTGTAATC-TCAGGGAGATAAGA-TT--ACTGCTTCAATCTGCTCC
* * * * * *
37553572 ACTGTAATCTCAGGGAGATAAGA--CCTGATGCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATTACTGCTTCAATCTGCTCC
* * * * ** * *
37553613 ACTGTAATTTTAGAGAGATAAGATCCT-TTATTTTAATCCGCTCC
1 ACTGTAATCTCAGGGAGATAAGAT--TACTGCTTCAATCTGCTCC
* *
37553657 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACT-GCTTCAATCTGCTCC
** *
37553701 GTTGTAATCTCAAGGAG
1 ACTGTAATCTCAGGGAG
37553718 GTAAAATCCG
Statistics
Matches: 172, Mismatches: 53, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
41 29 0.17
42 1 0.01
43 2 0.01
44 105 0.61
45 2 0.01
46 31 0.18
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (43 bp):
ACTGTAATCTCAGGGAGATAAGATTACTGCTTCAATCTGCTCC
Found at i:37574099 original size:35 final size:35
Alignment explanation
Indices: 37574036--37574106 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
37574026 TCTAAGATCA
*
37574036 CATATCTCTGAAGATCACCTTTATTATTTTCCAAG
1 CATATCTCTGAAGATCACCTTTATTATTTACCAAG
*
37574071 CATATCTTTGAAGATCA-CTTTCCA-TATTTACCAAG
1 CATATCTCTGAAGATCACCTTT--ATTATTTACCAAG
37574106 C
1 C
37574107 TCCAGAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.12
35 27 0.84
36 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (35 bp):
CATATCTCTGAAGATCACCTTTATTATTTACCAAG
Found at i:37587749 original size:30 final size:31
Alignment explanation
Indices: 37587723--37587781 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
37587713 GTAAATACTC
* *
37587723 AAAACTTGAGGGACTAA-AGTGTAAATATGA
1 AAAACTTGAAGGACCAATAGTGTAAATATGA
*
37587753 AAAAGTTGAAGGACCAATAGTGTAAATAT
1 AAAACTTGAAGGACCAATAGTGTAAATAT
37587782 TTTAATGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAACTTGAAGGACCAATAGTGTAAATATGA
Found at i:37602246 original size:50 final size:50
Alignment explanation
Indices: 37602180--37602414 Score: 263
Period size: 50 Copynumber: 4.6 Consensus size: 50
37602170 TAATGTCATA
* ** * *
37602180 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
** * *
37602230 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
* * * * *
37602280 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGACAACGCCATT
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
*
37602330 TCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAACGATGCCAAGGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T---CGATGCCAACGCCATG
* *
37602386 TCCCAGACATGGTCTTACATTGGATCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
37602415 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 117 0.75
53 1 0.01
56 39 0.25
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
Found at i:37604029 original size:105 final size:101
Alignment explanation
Indices: 37603879--37604072 Score: 246
Period size: 105 Copynumber: 1.9 Consensus size: 101
37603869 CTCATAATGT
** * *
37603879 CATAACCCAGTTATGGCCTTATCATCAGGATACCATAGCCTAGCTATGGTCTTACACGTAT-ACA
1 CATAACCCAGTTATGGCCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACA--T-TCAAA
*
37603943 CTTTCTACCATGGTCCAACCATGGTCTTACGTTTAAGATGC
63 CATT-T-CCATGGTCCAACCATGGTCTTACGTTTAAGATGC
* * * **
37603984 CATAACCCAGTTATGGTCTTTTCATTAAAATGTCATAGCCCAGCTATGGTCTTACATTCAAACAT
1 CATAACCCAGTTATGGCCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATTCAAACAT
37604049 TTCCATGGTCCAACCATGGTCTTA
66 TTCCATGGTCCAACCATGGTCTTA
37604073 TCCGTCAATT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
101 22 0.28
102 2 0.03
103 6 0.08
105 48 0.62
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (101 bp):
CATAACCCAGTTATGGCCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATTCAAACAT
TTCCATGGTCCAACCATGGTCTTACGTTTAAGATGC
Found at i:37606660 original size:11 final size:12
Alignment explanation
Indices: 37606634--37606667 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37606624 TAGGTTTCCA
37606634 AAAATGGAAATG
1 AAAATGGAAATG
* *
37606646 GAAATGAAAATG
1 AAAATGGAAATG
37606658 AAAATGGAAA
1 AAAATGGAAA
37606668 CTTGCAATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:37611713 original size:47 final size:46
Alignment explanation
Indices: 37611637--37612085 Score: 675
Period size: 47 Copynumber: 9.5 Consensus size: 46
37611627 CTTCGGGACT
* * * * * *
37611637 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC-C
*
37611684 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
37611730 TCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
37611777 TCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
37611824 TCATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGCC
1 T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
37611870 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
37611916 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 -TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
37611965 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 -TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
37612014 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 -TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
37612061 TTATCACATATATATACATTCACAT
1 -TATCACATATATACACTTTCACAT
37612086 CACAATTATC
Statistics
Matches: 381, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
45 35 0.09
46 21 0.06
47 231 0.61
49 94 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (46 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:37613735 original size:43 final size:43
Alignment explanation
Indices: 37613616--37613756 Score: 205
Period size: 42 Copynumber: 3.3 Consensus size: 43
37613606 GCGTCGCTAA
* *
37613616 CTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGAC
* *
37613658 CTTTAGCGGCGCTTTT-CGACAAACGCCGCTAAAGACGATGAC
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGAC
* * *
37613700 TTTTAGCGACGCTTTTCCGACAAATGCCGCTAAAGACCCTGAC
1 CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGAC
37613743 CTTTAGCGACGCTT
1 CTTTAGCGACGCTT
37613757 AAAAAACAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
42 50 0.56
43 39 0.44
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (43 bp):
CTTTAGCGACGCTTTTCCGACAAACGCCGCTAAAGACCATGAC
Found at i:37613783 original size:85 final size:85
Alignment explanation
Indices: 37613617--37613817 Score: 237
Period size: 85 Copynumber: 2.4 Consensus size: 85
37613607 CGTCGCTAAC
* * ****
37613617 TTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCGACAAA
1 TTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTAAAAACAAA
* *
37613681 CGCCGCTAAAGACGATGACT
66 CGCCACTAAAGAAGATGACT
* * * *
37613701 TTTAGCGACGCTTTTCCGACAAATGCCGCTAAAGACCCTGACCTTTAGCGACGCTTAAAAAACAA
1 TTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTT-AAAAACAA
* *
37613766 ACGCCAC-AATGAAGATGAGT
65 ACGCCACTAAAGAAGATGACT
*
37613786 TTTAGCGGCGCTTTT-TAACAAACGCCGCTAAA
1 TTTAGCGGCGCTTTTCCAACAAACGCCGCTAAA
37613818 ACATGGCTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
84 24 0.24
85 64 0.65
86 10 0.10
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (85 bp):
TTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTAAAAACAAA
CGCCACTAAAGAAGATGACT
Found at i:37617390 original size:39 final size:39
Alignment explanation
Indices: 37617341--37617425 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
37617331 TGGGCCTAGT
* * *
37617341 TTTTTTGCGGCGCTTTT-CTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCG-TTTTCCGAAAAACACCACTAATGCTCA
* * *
37617380 TTTTTAGCGGCGTTTTCCGAAAAGCACCGCTAATGCTTA
1 TTTTTAGCGGCGTTTTCCGAAAAACACCACTAATGCTCA
37617419 TTTTTAG
1 TTTTTAG
37617426 TGATTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 4 0.10
39 35 0.90
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCCGAAAAACACCACTAATGCTCA
Found at i:37617454 original size:23 final size:23
Alignment explanation
Indices: 37617428--37617474 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
37617418 ATTTTTAGTG
37617428 ATTTTATTTA-TTTATTTGTTAAA
1 ATTTT-TTTATTTTATTTGTTAAA
37617451 ATTTTTTTATTTTATTTGTTAAA
1 ATTTTTTTATTTTATTTGTTAAA
37617474 A
1 A
37617475 ATTATTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
ATTTTTTTATTTTATTTGTTAAA
Found at i:37617740 original size:21 final size:22
Alignment explanation
Indices: 37617701--37617741 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
37617691 TCTAAAACCC
37617701 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACTT
*
37617723 TAAATCCC-AACCCTTAAAC
1 TAAATCCCTAACCCCTAAAC
37617742 AATAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACTT
Found at i:37617747 original size:21 final size:22
Alignment explanation
Indices: 37617701--37617747 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
37617691 TCTAAAACCC
**
37617701 TAAATCCCTAACCCCTAAACTT
1 TAAATCCCTAACCCCTAAACAA
*
37617723 TAAATCCC-AACCCTTAAACAA
1 TAAATCCCTAACCCCTAAACAA
37617744 TAAA
1 TAAA
37617748 CCATAAACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACAA
Found at i:37617969 original size:16 final size:17
Alignment explanation
Indices: 37617933--37617974 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
37617923 CACTATAATC
37617933 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
37617951 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
37617967 ATTATTTA
1 ATTATTTA
37617975 TAAAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:37618163 original size:34 final size:32
Alignment explanation
Indices: 37618077--37618182 Score: 122
Period size: 34 Copynumber: 3.1 Consensus size: 32
37618067 AAAAAACTAA
*
37618077 TTAATCTAAACCCTAAATCCTAAACCCCTAACTC
1 TTAATCTAAACCCTAAA-CCTAAACCCC-AACCC
*
37618111 TTAACTCTCAACCCTAAACCTTAAACCCCAACCC
1 TTAA-TCTAAACCCTAAACC-TAAACCCCAACCC
* *
37618145 TTAATCTATAACCTTAAACCATAAACCGCAACCC
1 TTAATCTA-AACCCTAAACC-TAAACCCCAACCC
37618179 TTAA
1 TTAA
37618183 ACCCTATATC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.05
34 40 0.63
35 20 0.32
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.25
Consensus pattern (32 bp):
TTAATCTAAACCCTAAACCTAAACCCCAACCC
Found at i:37618247 original size:22 final size:23
Alignment explanation
Indices: 37618222--37618272 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
37618212 CTATAACCCC
37618222 TAAACTCA-TAA-TCCATAAACCT
1 TAAACTCAGTAACTCC-TAAACCT
*
37618244 TAAAAT-AGTAACTCCTAAACCT
1 TAAACTCAGTAACTCCTAAACCT
37618266 TAAACTC
1 TAAACTC
37618273 TAAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (23 bp):
TAAACTCAGTAACTCCTAAACCT
Found at i:37618587 original size:19 final size:20
Alignment explanation
Indices: 37618561--37618606 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
37618551 ATAGAATTTT
37618561 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
37618579 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
37618599 AATAAAAT
1 AATTAAAT
37618607 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:37618671 original size:41 final size:41
Alignment explanation
Indices: 37618613--37618723 Score: 195
Period size: 41 Copynumber: 2.7 Consensus size: 41
37618603 AAATGTTTTT
*
37618613 GCGGCGCTTTTCTAAAAACGCCGTTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTA
*
37618654 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTA
*
37618695 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCTAAAAACGCCGCTAAAG
37618724 CCTCGAAAGG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTTCTAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:37623346 original size:14 final size:14
Alignment explanation
Indices: 37623307--37623350 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
37623297 TAAAACATAG
37623307 ATTAATTAAG-TTAA
1 ATTAATTAAGATT-A
37623321 ATTATGATTAAGATTA
1 ATTA--ATTAAGATTA
37623337 ATTAATTAAGATTA
1 ATTAATTAAGATTA
37623351 CACTATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.52
16 11 0.41
17 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (14 bp):
ATTAATTAAGATTA
Found at i:37625643 original size:16 final size:16
Alignment explanation
Indices: 37625598--37625648 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
37625588 AAAAGAGAAT
37625598 GAAAAAG-AAATA-AA
1 GAAAAAGAAAATATAA
*
37625612 GAAAAA-AAAAGAATAA
1 GAAAAAGAAAA-TATAA
37625628 GAAAAAGAAAATATAA
1 GAAAAAGAAAATATAA
37625644 -AAAAA
1 GAAAAA
37625649 TTAAGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 9 0.29
15 6 0.19
16 12 0.39
17 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (16 bp):
GAAAAAGAAAATATAA
Found at i:37625653 original size:25 final size:23
Alignment explanation
Indices: 37625609--37625664 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
37625599 AAAAAGAAAT
*
37625609 AAAGAAAA-AAAAAGAATAAGAA
1 AAAGAAAATAAAAAAAATAAGAA
37625631 AAAGAAAATATAAAAAAATTAAGAA
1 AAAGAAAATA-AAAAAAA-TAAGAA
37625656 ATAA-AAAAT
1 A-AAGAAAAT
37625665 GAATTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 1 0.03
24 6 0.21
25 12 0.41
26 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (23 bp):
AAAGAAAATAAAAAAAATAAGAA
Found at i:37625655 original size:31 final size:31
Alignment explanation
Indices: 37625598--37625663 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
37625588 AAAAGAGAAT
37625598 GAAAAAGAAATAAAGAAAAAAAAAG-AATAA
1 GAAAAAGAAATAAAGAAAAAAAAAGAAATAA
**
37625628 GAAAAAGAAAATATAA-AAAAATTAAGAAATAA
1 GAAAAAG-AAATA-AAGAAAAAAAAAGAAATAA
37625660 -AAAA
1 GAAAA
37625664 TGAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 7 0.23
31 17 0.55
32 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (31 bp):
GAAAAAGAAATAAAGAAAAAAAAAGAAATAA
Found at i:37627797 original size:15 final size:16
Alignment explanation
Indices: 37627773--37627814 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
37627763 CAGCCATCTA
*
37627773 CTTCATCTCCA-GACT
1 CTTCACCTCCACGACT
37627788 CTTCACCTCCACGACT
1 CTTCACCTCCACGACT
* *
37627804 CATCCCCTCCA
1 CTTCACCTCCA
37627815 AATCTGCTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.19, C:0.50, G:0.05, T:0.26
Consensus pattern (16 bp):
CTTCACCTCCACGACT
Found at i:37635823 original size:6 final size:6
Alignment explanation
Indices: 37635812--37635853 Score: 56
Period size: 5 Copynumber: 7.7 Consensus size: 6
37635802 AAAATAAAGA
37635812 AAATAT AAATAT AAATAT -AATA- AAATA- AAATAT AAATA- AAAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
37635854 TCAGTTGCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 17 0.50
6 17 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:37635834 original size:15 final size:14
Alignment explanation
Indices: 37635814--37635853 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
37635804 AATAAAGAAA
37635814 ATATAAATATAAAT
1 ATATAAATATAAAT
37635828 ATAATAAA-ATAAA-
1 AT-ATAAATATAAAT
37635841 ATATAAATA-AAAT
1 ATATAAATATAAAT
37635854 TCAGTTGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.35
13 3 0.13
14 7 0.30
15 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATATAAATATAAAT
Found at i:37635842 original size:21 final size:21
Alignment explanation
Indices: 37635803--37635851 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
37635793 ACATGCAAGA
37635803 AAATAAAGAAAATATAAATAT
1 AAATAAAGAAAATATAAATAT
*
37635824 AAATATAATAAAATA-AAATAT
1 AAATA-AAGAAAATATAAATAT
37635845 AAATAAA
1 AAATAAA
37635852 ATTCAGTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAATAAAGAAAATATAAATAT
Found at i:37648496 original size:3 final size:3
Alignment explanation
Indices: 37648490--37648545 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
37648480 GTGTCTATTA
*
37648490 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
37648538 TTA TTG TT
1 TTG TTG TT
37648546 TTAGTTTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.04, C:0.00, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:37649599 original size:15 final size:15
Alignment explanation
Indices: 37649579--37649629 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
37649569 ATAACACGAT
37649579 AACGTAAGTGATTAA
1 AACGTAAGTGATTAA
*
37649594 AACGTAA-T-ATTTCA
1 AACGTAAGTGA-TTAA
* *
37649608 AACATAAGTGACTAA
1 AACGTAAGTGATTAA
37649623 AACGTAA
1 AACGTAA
37649630 CCTGAGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (15 bp):
AACGTAAGTGATTAA
Found at i:37650515 original size:17 final size:19
Alignment explanation
Indices: 37650482--37650531 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
37650472 AATAGAATCC
*
37650482 TAATT-AAATTAAGTT-AA
1 TAATTAAAATTTAGTTAAA
37650499 TAATTAAAATTTA-TTAAAA
1 TAATTAAAATTTAGTT-AAA
37650518 TAATTAAAATTTAG
1 TAATTAAAATTTAG
37650532 AGTAGACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 15 0.54
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TAATTAAAATTTAGTTAAA
Found at i:37654017 original size:20 final size:20
Alignment explanation
Indices: 37653974--37654017 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
37653964 AAGTTTATTC
*
37653974 AATTTAGTCTAAATTATTTC
1 AATTTAGTCTAAATTATTTA
*
37653994 AATTTAGTCCTTAA-TATTTA
1 AATTTAGT-CTAAATTATTTA
37654014 AATT
1 AATT
37654018 AATTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTTAGTCTAAATTATTTA
Found at i:37657157 original size:50 final size:50
Alignment explanation
Indices: 37657103--37657209 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
37657093 ACATGAGAGT
* * * *
37657103 TCTCATATCAGTGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACC
1 TCTCATATCAGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
* *
37657153 TCTCATCTCAGTACCAACGCCATGTCCCAGACATGGTCTTACGTGGGACC
1 TCTCATATCAGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
37657203 TCTCATA
1 TCTCATA
37657210 ACCTCAATAA
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:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCAGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
Found at i:37658987 original size:21 final size:19
Alignment explanation
Indices: 37658951--37658991 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
37658941 TCATTGTAAC
*
37658951 TATATTACAACCTGACCCA
1 TATATTACAACATGACCCA
37658970 TATACTTACGAACATGACCCA
1 TATA-TTAC-AACATGACCCA
37658991 T
1 T
37658992 TTAACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 4 0.21
21 11 0.58
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (19 bp):
TATATTACAACATGACCCA
Found at i:37668657 original size:22 final size:22
Alignment explanation
Indices: 37668625--37668739 Score: 108
Period size: 22 Copynumber: 5.1 Consensus size: 22
37668615 TGCACTAATG
* *
37668625 AACAGAAAGCACTAAAGTGCTA
1 AACAGAGAGCACTAACGTGCTA
* *
37668647 TACAGAGAGCA-TAGATGTGCTA
1 AACAGAGAGCACTA-ACGTGCTA
*
37668669 AACAGAGAGCACTGACGTGCTAA
1 AACAGAGAGCACTAACGTGCT-A
* *
37668692 TAATCAGAGAGTAC-AGATGTGCTA
1 -AA-CAGAGAGCACTA-ACGTGCTA
37668716 AACAGAGAGCACTAACGTGCTA
1 AACAGAGAGCACTAACGTGCTA
37668738 AA
1 AA
37668740 TATTAGAGAG
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.03
22 50 0.67
23 5 0.07
24 3 0.04
25 15 0.20
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTAACGTGCTA
Found at i:37668748 original size:47 final size:46
Alignment explanation
Indices: 37668625--37668750 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 46
37668615 TGCACTAATG
* * *
37668625 AACAGAAAGCACTAAAGTGCT-ATA-CAGAGAGCATAGATGTGCTA
1 AACAGAGAGCACTAACGTGCTAATATCAGAGAGCACAGATGTGCTA
* *
37668669 AACAGAGAGCACTGACGTGCTAATAATCAGAGAGTACAGATGTGCTA
1 AACAGAGAGCACTAACGTGCTAAT-ATCAGAGAGCACAGATGTGCTA
*
37668716 AACAGAGAGCACTAACGTGCTAAATATTAGAGAGC
1 AACAGAGAGCACTAACGTGCT-AATATCAGAGAGC
37668751 GCGCTAGAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 18 0.26
45 2 0.03
46 1 0.01
47 46 0.66
48 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (46 bp):
AACAGAGAGCACTAACGTGCTAATATCAGAGAGCACAGATGTGCTA
Found at i:37669854 original size:5 final size:5
Alignment explanation
Indices: 37669844--37669951 Score: 107
Period size: 5 Copynumber: 21.6 Consensus size: 5
37669834 TATATATATA
* * * * *
37669844 ATAAT ATAAT ATTAT ATAAT ATTAT AAAAAT ATAAT GTAAT A-ACAT ACTTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATA-AT A-TAAT
37669896 -TAAT -TAAGT A-AAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
37669944 ATAAT ATA
1 ATAAT ATA
37669952 TATTTTAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
4 9 0.10
5 72 0.84
6 5 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:37669862 original size:15 final size:15
Alignment explanation
Indices: 37669833--37669955 Score: 76
Period size: 15 Copynumber: 8.1 Consensus size: 15
37669823 TTCTGTTGTT
37669833 TTATATATATAATAATA
1 TTATATA-AT-ATAATA
* *
37669850 TAATATTATATAATA
1 TTATATAATATAATA
*
37669865 TTATAAAAATATAAT-
1 TTAT-ATAATATAATA
* * *
37669880 GTA-ATAACATACTTA
1 TTATATAATATA-ATA
37669895 TTA-ATTAAGTA-AATA
1 TTATA-TAA-TATAATA
*
37669910 TAATATAATATAATA
1 TTATATAATATAATA
*
37669925 TAATATAATATAATA
1 TTATATAATATAATA
*
37669940 TAATATAATAT-ATA
1 TTATATAATATAATA
37669954 TT
1 TT
37669956 TTAAATTAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.07
14 7 0.08
15 51 0.60
16 15 0.18
17 6 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
TTATATAATATAATA
Found at i:37673773 original size:9 final size:9
Alignment explanation
Indices: 37673759--37673787 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
37673749 CATCCCCAAG
37673759 ATTCCACTA
1 ATTCCACTA
37673768 ATTCCACTA
1 ATTCCACTA
37673777 ATTCCACTA
1 ATTCCACTA
37673786 AT
1 AT
37673788 GCTGCAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (9 bp):
ATTCCACTA
Found at i:37681691 original size:15 final size:15
Alignment explanation
Indices: 37681667--37681716 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
37681657 ATAACTTAAA
37681667 TTCAACACTTAATTT
1 TTCAACACTTAATTT
*
37681682 TTCAATACTTAATTT
1 TTCAACACTTAATTT
*
37681697 TTCAACA-TAAACTTT
1 TTCAACACTTAA-TTT
37681712 TTCAA
1 TTCAA
37681717 TAGTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 3 0.10
15 28 0.90
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (15 bp):
TTCAACACTTAATTT
Found at i:37686725 original size:27 final size:27
Alignment explanation
Indices: 37686693--37686754 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
37686683 AAATATATAT
37686693 AAAATATACATATTTGATTAAAAATAA
1 AAAATATACATATTTGATTAAAAATAA
*
37686720 AAAATATAGATATTTGATTAAAAATAA
1 AAAATATACATATTTGATTAAAAATAA
37686747 AAAATATA
1 AAAATATA
37686755 TTTAATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
AAAATATACATATTTGATTAAAAATAA
Found at i:37689639 original size:50 final size:50
Alignment explanation
Indices: 37689515--37689805 Score: 352
Period size: 50 Copynumber: 5.8 Consensus size: 50
37689505 GAATATAACA
* * * ** * * *
37689515 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** *
37689564 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
37689614 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
37689664 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37689714 TACCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
37689764 TGCCAATGCCATCTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37689806 TTACCCAAAT
Statistics
Matches: 209, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 37 0.18
50 171 0.82
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37695648 original size:24 final size:24
Alignment explanation
Indices: 37695620--37695671 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
37695610 TTTTTAGAAG
* **
37695620 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAACATAATAT
37695644 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
37695668 ATTT
1 ATTT
37695672 GACTGTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:37705884 original size:29 final size:29
Alignment explanation
Indices: 37705773--37705880 Score: 81
Period size: 29 Copynumber: 3.7 Consensus size: 29
37705763 ATCATTAGGG
* *
37705773 TTTATCAGGCACTATGTGCCAGTGATTATA
1 TTTATCAAGCACTATGTACCAGTG-TTATA
* * * *
37705803 TTTATCAAGTACTTTGGACCAGTGTTACA
1 TTTATCAAGCACTATGTACCAGTGTTATA
* * * * **
37705832 GTTATCAAACACTCTGTGCTGGTGTTATA
1 TTTATCAAGCACTATGTACCAGTGTTATA
* *
37705861 TTTATCAGGTACTATGTACC
1 TTTATCAAGCACTATGTACC
37705881 GGTGGTGGAT
Statistics
Matches: 56, Mismatches: 22, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
29 37 0.66
30 19 0.34
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (29 bp):
TTTATCAAGCACTATGTACCAGTGTTATA
Found at i:37710635 original size:76 final size:78
Alignment explanation
Indices: 37710546--37710711 Score: 291
Period size: 78 Copynumber: 2.2 Consensus size: 78
37710536 TGATGATTTA
*
37710546 AATATGTGTTATATATACATCTGTATGATGAGATCCATGAATT-A-ATGAAAATATATTAAAGCA
1 AATATGTGATATATATACATCTGTATGATGAGATCCATGAATTAATATGAAAATATATTAAAGCA
37710609 TGCTAAAGTGAAT
66 TGCTAAAGTGAAT
* *
37710622 AATATGTGATATATATACATCTGTATGATGAGATCTATGATTTAATATGAAAATATATTAAAGCA
1 AATATGTGATATATATACATCTGTATGATGAGATCCATGAATTAATATGAAAATATATTAAAGCA
37710687 TGCTAAAGTGAAT
66 TGCTAAAGTGAAT
37710700 AATATGTGATAT
1 AATATGTGATAT
37710712 GTGATATATG
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
76 40 0.47
77 1 0.01
78 44 0.52
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (78 bp):
AATATGTGATATATATACATCTGTATGATGAGATCCATGAATTAATATGAAAATATATTAAAGCA
TGCTAAAGTGAAT
Found at i:37716153 original size:17 final size:17
Alignment explanation
Indices: 37716131--37716186 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
37716121 AAATTGGGTC
37716131 GTGTGGGCCACACAGGT
1 GTGTGGGCCACACAGGT
*
37716148 GTGTGGGCCCCACATGG-
1 GTGTGGGCCACACA-GGT
**
37716165 GTG-AAG-CACACAGGT
1 GTGTGGGCCACACAGGT
37716180 GTGTGGG
1 GTGTGGG
37716187 AATATTAGGC
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
14 2 0.07
15 8 0.27
16 2 0.07
17 16 0.53
18 2 0.07
ACGTcount: A:0.18, C:0.21, G:0.43, T:0.18
Consensus pattern (17 bp):
GTGTGGGCCACACAGGT
Found at i:37716167 original size:19 final size:19
Alignment explanation
Indices: 37716125--37716167 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 19
37716115 CAGGCCAAAT
37716125 TGGGTCGTGTGGGCCACACA
1 TGGGT-GTGTGGGCCACACA
*
37716145 --GGTGTGTGGGCCCCACA
1 TGGGTGTGTGGGCCACACA
37716162 TGGGTG
1 TGGGTG
37716168 AAGCACACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 13 0.65
18 3 0.15
19 4 0.20
ACGTcount: A:0.12, C:0.23, G:0.44, T:0.21
Consensus pattern (19 bp):
TGGGTGTGTGGGCCACACA
Found at i:37729853 original size:20 final size:20
Alignment explanation
Indices: 37729828--37729868 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37729818 ATTTCTAAGC
* *
37729828 TTCAAAATCTACCATTAACA
1 TTCAAAAACTACAATTAACA
*
37729848 TTCAAAAACTTCAATTAACA
1 TTCAAAAACTACAATTAACA
37729868 T
1 T
37729869 CAATGGAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
TTCAAAAACTACAATTAACA
Found at i:37733964 original size:20 final size:21
Alignment explanation
Indices: 37733912--37733955 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
37733902 ACCCTTTCAA
*
37733912 ATTTTATTA-TTTCCATTTGC
1 ATTTCATTACTTTCCATTTGC
37733932 ATTTCATTACTTTCCA-TTGC
1 ATTTCATTACTTTCCATTTGC
37733952 ATTT
1 ATTT
37733956 ACTTTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.20, C:0.18, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTCATTACTTTCCATTTGC
Found at i:37747437 original size:40 final size:40
Alignment explanation
Indices: 37747400--37747624 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
37747390 GCTACTCGTT
* *
37747400 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
37747440 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
37747480 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
37747520 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*** * * * *
37747559 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
37747600 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
37747625 CATCATTCGA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 115 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:37747585 original size:119 final size:120
Alignment explanation
Indices: 37747402--37747624 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
37747392 TACTCGTTCA
*
37747402 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
37747467 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
* * ***
37747522 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTTCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
37747584 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
37747625 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
Found at i:37748816 original size:55 final size:56
Alignment explanation
Indices: 37748750--37748868 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
37748740 TATTAGTTTA
37748750 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAAC-TGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
37748805 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
37748861 TTGCCCAT
1 TTGCCCAT
37748869 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 39 0.62
56 24 0.38
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:37755967 original size:42 final size:42
Alignment explanation
Indices: 37755920--37756003 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
37755910 GACACGATAC
37755920 TTAATCAGTGCATGTTTAATCATCTAAGGTAGTTGGGGGTTA
1 TTAATCAGTGCATGTTTAATCATCTAAGGTAGTTGGGGGTTA
37755962 TTAATCAGTGCATGTTTAATCATCTAAGGTAGTTGGGGGTTA
1 TTAATCAGTGCATGTTTAATCATCTAAGGTAGTTGGGGGTTA
37756004 AATTAGCAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (42 bp):
TTAATCAGTGCATGTTTAATCATCTAAGGTAGTTGGGGGTTA
Found at i:37767303 original size:8 final size:8
Alignment explanation
Indices: 37767290--37767319 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
37767280 GTGAATTGGC
37767290 AAAAGCTG
1 AAAAGCTG
*
37767298 AAAAGCCG
1 AAAAGCTG
37767306 AAAAGCTG
1 AAAAGCTG
37767314 AAAAGC
1 AAAAGC
37767320 CGTATCTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.23, T:0.07
Consensus pattern (8 bp):
AAAAGCTG
Found at i:37767311 original size:16 final size:16
Alignment explanation
Indices: 37767290--37767321 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37767280 GTGAATTGGC
37767290 AAAAGCTGAAAAGCCG
1 AAAAGCTGAAAAGCCG
37767306 AAAAGCTGAAAAGCCG
1 AAAAGCTGAAAAGCCG
37767322 TATCTCTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:37768513 original size:27 final size:27
Alignment explanation
Indices: 37768474--37768734 Score: 323
Period size: 27 Copynumber: 9.7 Consensus size: 27
37768464 GGAAATTTTA
* *
37768474 TAAAATGACCGTAATACCCCTGTAGGA
1 TAAAATGATCGTAATACCCCTGTAGGG
* *
37768501 TAAAATGATCGTAATGCCCTTGTAGGG
1 TAAAATGATCGTAATACCCCTGTAGGG
37768528 TAAAATGA-CTGTAATACCCCTGTAGGG
1 TAAAATGATC-GTAATACCCCTGTAGGG
* *
37768555 TAAAATGATCGTAATGCCCCTGTAAGG
1 TAAAATGATCGTAATACCCCTGTAGGG
* * *
37768582 TAAAATGA-CTGTAATTCCTCTATAGGG
1 TAAAATGATC-GTAATACCCCTGTAGGG
37768609 TAAAATGA-CTGTAATACCCCTGTAGGG
1 TAAAATGATC-GTAATACCCCTGTAGGG
* * *
37768636 TAAAATGATCGTAATGCCCTTTTAGGG
1 TAAAATGATCGTAATACCCCTGTAGGG
*
37768663 TAAAATGATCGTAATA-CCCTTTAGGG
1 TAAAATGATCGTAATACCCCTGTAGGG
* * *
37768689 TAAAATGACCGTAATGCCCCTGTAAGG
1 TAAAATGATCGTAATACCCCTGTAGGG
37768716 TAAAATGATCGTAATACCC
1 TAAAATGATCGTAATACCC
37768735 TCGAGGTCAA
Statistics
Matches: 203, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
26 25 0.12
27 176 0.87
28 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (27 bp):
TAAAATGATCGTAATACCCCTGTAGGG
Found at i:37768609 original size:81 final size:80
Alignment explanation
Indices: 37768474--37768730 Score: 356
Period size: 81 Copynumber: 3.2 Consensus size: 80
37768464 GGAAATTTTA
* * * *
37768474 TAAAATGACCGTAATACCCCTGT-AGGATAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACT
1 TAAAATGATCGTAATGCCCCTGTAAGG-TAAAATGATCGTAATACCC-TATAGGGTAAAATGACT
37768538 GTAATACCCCTGTAGGG
64 GTAATACCCCTGTAGGG
*
37768555 TAAAATGATCGTAATGCCCCTGTAAGGTAAAATGA-CTGTAATTCCTCTATAGGGTAAAATGACT
1 TAAAATGATCGTAATGCCCCTGTAAGGTAAAATGATC-GTAATACC-CTATAGGGTAAAATGACT
37768619 GTAATACCCCTGTAGGG
64 GTAATACCCCTGTAGGG
* * * * *
37768636 TAAAATGATCGTAATGCCCTTTTAGGGTAAAATGATCGTAATACCCTTTAGGGTAAAATGACCGT
1 TAAAATGATCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACCCTATAGGGTAAAATGACTGT
* *
37768701 AATGCCCCTGTAAGG
66 AATACCCCTGTAGGG
37768716 TAAAATGATCGTAAT
1 TAAAATGATCGTAAT
37768731 ACCCTCGAGG
Statistics
Matches: 160, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
80 47 0.29
81 108 0.68
82 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (80 bp):
TAAAATGATCGTAATGCCCCTGTAAGGTAAAATGATCGTAATACCCTATAGGGTAAAATGACTGT
AATACCCCTGTAGGG
Found at i:37768814 original size:24 final size:24
Alignment explanation
Indices: 37768767--37768825 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
37768757 TCTGTGGTTA
* * *
37768767 AATGACTTATTTGTTTATGTTTTG
1 AATGACTGATTTGTCTATGATTTG
* *
37768791 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTATGATTTG
37768815 AATGACTGATT
1 AATGACTGATT
37768826 CTGAGCATGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (24 bp):
AATGACTGATTTGTCTATGATTTG
Found at i:37768932 original size:27 final size:27
Alignment explanation
Indices: 37768894--37768947 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
37768884 GGAAGTACTG
*
37768894 TACTGGTGGCTTTGCCACA-ATCACTAT
1 TACTGGTGGCTTGGCCACATAT-ACTAT
37768921 TACTGGTGGCTTGGCCACATATACTAT
1 TACTGGTGGCTTGGCCACATATACTAT
37768948 ACTAGCAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (27 bp):
TACTGGTGGCTTGGCCACATATACTAT
Found at i:37769029 original size:32 final size:32
Alignment explanation
Indices: 37768993--37769053 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
37768983 TTTGGTGCGT
*
37768993 TGCTACTAATGACTGTGTGCCGATCATATCAC
1 TGCTACTAATGACTGTGTGCCAATCATATCAC
* *
37769025 TGCTACTAATGGCTTTGTGCCAATCATAT
1 TGCTACTAATGACTGTGTGCCAATCATAT
37769054 TACTATACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (32 bp):
TGCTACTAATGACTGTGTGCCAATCATATCAC
Found at i:37770073 original size:27 final size:27
Alignment explanation
Indices: 37770040--37770095 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
37770030 AGTAAACCAA
37770040 TACTATAGAGAGTATTGACCCAAAACT
1 TACTATAGAGAGTATTGACCCAAAACT
*
37770067 TACTATAGAGAGTATTGACCCGAAACT
1 TACTATAGAGAGTATTGACCCAAAACT
37770094 TA
1 TA
37770096 TAAGTCACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (27 bp):
TACTATAGAGAGTATTGACCCAAAACT
Found at i:37776153 original size:25 final size:26
Alignment explanation
Indices: 37776111--37776164 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
37776101 TTCTCCTGAA
*
37776111 TTTCAATTTTATTTAATTATTTAAT-T
1 TTTCAATTTTATTGAATTA-TTAATAT
37776137 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAATTATTAATAT
37776162 TTT
1 TTT
37776165 ATACTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCAATTTTATTGAATTATTAATAT
Found at i:37782136 original size:18 final size:18
Alignment explanation
Indices: 37782077--37782136 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
37782067 ACATAAAAAA
*
37782077 TTAATAATGTTAATAGCATAA
1 TTAATAAT-TTAATA--ATAT
*
37782098 TTAATTAA-TTAATTAAAAT
1 TTAA-TAATTTAA-TAATAT
37782117 TTAATAATTTAATAATAT
1 TTAATAATTTAATAATAT
37782135 TT
1 TT
37782137 TTTACCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 10 0.30
19 10 0.30
20 4 0.12
21 6 0.18
22 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (18 bp):
TTAATAATTTAATAATAT
Found at i:37782287 original size:21 final size:21
Alignment explanation
Indices: 37782263--37782303 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
37782253 AACATTTGAA
37782263 ACGAAATTATCGAGAGAATTG
1 ACGAAATTATCGAGAGAATTG
*
37782284 ACGAAATTATTGAGAGAATT
1 ACGAAATTATCGAGAGAATT
37782304 TAGAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (21 bp):
ACGAAATTATCGAGAGAATTG
Found at i:37786701 original size:21 final size:22
Alignment explanation
Indices: 37786662--37786702 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37786652 TCCGCCTCGC
*
37786662 ATGGTCTCGTTTCGAGTCATGG
1 ATGGTCTCGTTTCCAGTCATGG
*
37786684 ATGG-CTCGTTTCCTGTCAT
1 ATGGTCTCGTTTCCAGTCAT
37786703 AATCATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.22, G:0.27, T:0.39
Consensus pattern (22 bp):
ATGGTCTCGTTTCCAGTCATGG
Done.