Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 73 of 187
Found at i:21445431 original size:27 final size:28
Alignment explanation
Indices: 21445374--21445432 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
21445364 CAAAATTATA
* ***
21445374 AAATCTAAAAAATAGGGGAAAAATTTTT
1 AAATCTAAAAAATAAGGGAAAAATCCAT
*
21445402 AAATCTAAAAAATAAGGGCAAAA-CCAT
1 AAATCTAAAAAATAAGGGAAAAATCCAT
21445429 AAAT
1 AAAT
21445433 TTTGAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.22
Consensus pattern (28 bp):
AAATCTAAAAAATAAGGGAAAAATCCAT
Found at i:21446463 original size:23 final size:23
Alignment explanation
Indices: 21446437--21446483 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21446427 ACTAACCTCC
21446437 TATATTTTGAGGCATGACATTTA
1 TATATTTTGAGGCATGACATTTA
* **
21446460 TATATTTTGGGGGGTGACATTTA
1 TATATTTTGAGGCATGACATTTA
21446483 T
1 T
21446484 CACCTAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (23 bp):
TATATTTTGAGGCATGACATTTA
Found at i:21449493 original size:39 final size:39
Alignment explanation
Indices: 21449450--21449524 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
21449440 TTCTTTTCTA
*
21449450 TTTTTCATA-TTTTTAATAATTTTTTAATTTTTTAAATAT
1 TTTTTCATACTTTTT-ATAATTTTTTAATATTTTAAATAT
** * *
21449489 TTTTTGGTACTTTTTATATTTTTTTCATATTTTAAA
1 TTTTTCATACTTTTTATAATTTTTTAATATTTTAAA
21449525 AAGATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 25 0.83
40 5 0.17
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (39 bp):
TTTTTCATACTTTTTATAATTTTTTAATATTTTAAATAT
Found at i:21449511 original size:9 final size:9
Alignment explanation
Indices: 21449443--21449512 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
21449433 TATGATTTTC
*
21449443 TTTTCTATT
1 TTTTATATT
*
21449452 TTTCATATT
1 TTTTATATT
*
21449461 TTTAATAATT
1 TTTTAT-ATT
21449471 TTTTA-ATT
1 TTTTATATT
21449479 TTTTAAATATT
1 TTTT--ATATT
* *
21449490 TTTTGGTACT
1 TTTT-ATATT
21449500 TTTTATATT
1 TTTTATATT
21449509 TTTT
1 TTTT
21449513 TCATATTTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
8 7 0.15
9 19 0.40
10 15 0.31
11 7 0.15
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:21456299 original size:15 final size:14
Alignment explanation
Indices: 21456278--21456313 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
21456268 ATAATCCTTA
21456278 ATAATTATCTTAAT
1 ATAATTATCTTAAT
21456292 ATTAATTATCTTAAT
1 A-TAATTATCTTAAT
21456307 ATAATTA
1 ATAATTA
21456314 AAATAGAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTATCTTAAT
Found at i:21464253 original size:4 final size:4
Alignment explanation
Indices: 21464240--21464282 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
21464230 TGATTTTTCG
21464240 AATT -ATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
21464283 GAAGTTCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:21474250 original size:27 final size:27
Alignment explanation
Indices: 21474170--21474432 Score: 222
Period size: 27 Copynumber: 9.9 Consensus size: 27
21474160 GCTAATGACT
*
21474170 GAAATACCCCCAAT-GGTAAAATAACC
1 GAAATACCCTCAATAGGTAAAATAACC
* **
21474196 GAAATACCCTC-ATGGGTAAAATGGCC
1 GAAATACCCTCAATAGGTAAAATAACC
21474222 GAAATACCCTCAATAGGTAAAATAACC
1 GAAATACCCTCAATAGGTAAAATAACC
*
21474249 GAAATACCCTCAA-AGGGTAAAATAATC
1 GAAATACCCTCAATA-GGTAAAATAACC
* * * *
21474276 GAAATATCCTCGAT-GTGTAAAGTGACC
1 GAAATACCCTCAATAG-GTAAAATAACC
* * *
21474303 GAAATACCCTCGAT-GGATAAAATGATC
1 GAAATACCCTCAATAGG-TAAAATAACC
*
21474330 GAAATACCCTCAA-AGGGTAAAATAACA
1 GAAATACCCTCAATA-GGTAAAATAACC
* * *
21474357 AAAATACCCTTGAA-GGGTAAAATAACC
1 GAAATACCC-TCAATAGGTAAAATAACC
* *
21474384 GAAATACCC-CAA-AGGGTAAAATGACT
1 GAAATACCCTCAATA-GGTAAAATAACC
*
21474410 GAAATACCC-CTATAGGGTAAAAT
1 GAAATACCCTCAATA-GGTAAAAT
21474433 GACTGTTATA
Statistics
Matches: 197, Mismatches: 29, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
25 4 0.02
26 55 0.28
27 133 0.68
28 5 0.03
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCAATAGGTAAAATAACC
Found at i:21474296 original size:54 final size:54
Alignment explanation
Indices: 21474170--21474432 Score: 257
Period size: 54 Copynumber: 4.9 Consensus size: 54
21474160 GCTAATGACT
* * * **
21474170 GAAATACCC-CCAATGGTAAAATAACCGAAATACCCTC-ATGGGTAAAATGGCC
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
*
21474222 GAAATACCCTCAATA-GGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAATC
1 GAAATACCCTCAA-AGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
* * * * * * * * * * *
21474276 GAAATATCCTCGATGTGTAAAGTGACCGAAATACCCTCGATGGATAAAATGATC
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
** **
21474330 GAAATACCCTCAAAGGGTAAAATAACAAAAATACCCTTGAAGGGTAAAATAACC
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
* * *
21474384 GAAATACCC-CAAAGGGTAAAATGACTGAAATACCC-CTATAGGGTAAAAT
1 GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTC-AAAGGGTAAAAT
21474433 GACTGTTATA
Statistics
Matches: 172, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
52 9 0.05
53 58 0.34
54 105 0.61
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (54 bp):
GAAATACCCTCAAAGGGTAAAATAACCGAAATACCCTCAAAGGGTAAAATAACC
Found at i:21474312 original size:81 final size:79
Alignment explanation
Indices: 21474163--21474432 Score: 296
Period size: 81 Copynumber: 3.4 Consensus size: 79
21474153 ATTGTGGGCT
* * * *
21474163 AATGACTGAAATACCCCCAATGGTAAAATAACCGAAATACCCTC-ATGGGTAAAATGGCCGAAAT
1 AATGACCGAAATACCCCAAAGGGTAAAATAA-CGAAATACCCTCGATGGGTAAAATGACCGAAAT
21474227 ACCCTCAATAGGTAA
65 ACCCTCAATAGGTAA
* * * *
21474242 AATAACCGAAATACCCTCAAAGGGTAAAATAATCGAAATATCCTCGATGTGTAAAGTGACCGAAA
1 AATGACCGAAATACCC-CAAAGGGTAAAATAA-CGAAATACCCTCGATGGGTAAAATGACCGAAA
*
21474307 TACCCTCGAT-GGATAA
64 TACCCTCAATAGG-TAA
* * * * *
21474323 AATGATCGAAATACCCTCAAAGGGTAAAATAACAAAAATACCCTTGAAGGGTAAAATAACCGAAA
1 AATGACCGAAATACCC-CAAAGGGTAAAATAAC-GAAATACCCTCGATGGGTAAAATGACCGAAA
21474388 TACCC-CAA-AGGGTAA
64 TACCCTCAATA-GGTAA
* *
21474403 AATGACTGAAATACCCCTATAGGGTAAAAT
1 AATGACCGAAATACCCC-AAAGGGTAAAAT
21474433 GACTGTTATA
Statistics
Matches: 161, Mismatches: 23, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
79 15 0.09
80 57 0.35
81 89 0.55
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (79 bp):
AATGACCGAAATACCCCAAAGGGTAAAATAACGAAATACCCTCGATGGGTAAAATGACCGAAATA
CCCTCAATAGGTAA
Found at i:21480684 original size:27 final size:26
Alignment explanation
Indices: 21480620--21480866 Score: 230
Period size: 27 Copynumber: 9.2 Consensus size: 26
21480610 ATTGTGGGTT
21480620 AATGACCGAAATACCC-CTAAGGGTAA
1 AATGACCGAAATACCCTC-AAGGGTAA
* **
21480646 AATGATCGAAATACCCTCAATAAGTAA
1 AATGACCGAAATACCCTCAA-GGGTAA
* *
21480673 AATGACCAAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCC-TCAAGGGTAA
* *
21480700 AATTACCAAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTC-AAGGGTAA
* * *
21480727 AATAATCGAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCC-TCAAGGGTAA
* *
21480754 AATGACTGAAATACCCTCGATGGGTAA
1 AATGACCGAAATACCCTC-AAGGGTAA
* *
21480781 AATGACTGAAATACCCTTGAAGGGTAA
1 AATGACCGAAATACCC-TCAAGGGTAA
* **
21480808 AATGACTGAAATATCCCT-AAAAGTAA
1 AATGACCGAAATA-CCCTCAAGGGTAA
21480834 AATGACCGAAATACCC-CTATAGGGTAA
1 AATGACCGAAATACCCTC-A-AGGGTAA
21480861 AATGAC
1 AATGAC
21480867 TGTTGTACCG
Statistics
Matches: 184, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.02
26 38 0.21
27 135 0.73
28 8 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (26 bp):
AATGACCGAAATACCCTCAAGGGTAA
Found at i:21480712 original size:54 final size:53
Alignment explanation
Indices: 21480620--21480866 Score: 284
Period size: 54 Copynumber: 4.6 Consensus size: 53
21480610 ATTGTGGGTT
* *
21480620 AATGACCGAAATACCCCT-AAGGGTAAAATGATCGAAATACCCTCAATAAGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCAA-AAGTAA
* * * **
21480673 AATGACCAAAATACCCTTGAAGGGTAAAATTACCAAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTC-AAAAGTAA
* * * ***
21480727 AATAATCGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTCGATGGGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTC-AAAAGTAA
* *
21480781 AATGACTGAAATACCCTTGAAGGGTAAAATGACTGAAATATCCCT-AAAAGTAA
1 AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATA-CCCTCAAAAGTAA
*
21480834 AATGACCGAAATACCCCT-ATAGGGTAAAATGAC
1 AATGACCGAAATACCCTTGA-AGGGTAAAATGAC
21480867 TGTTGTACCG
Statistics
Matches: 168, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.01
53 50 0.30
54 111 0.66
55 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (53 bp):
AATGACCGAAATACCCTTGAAGGGTAAAATGACCGAAATACCCTCAAAAGTAA
Found at i:21480779 original size:81 final size:79
Alignment explanation
Indices: 21480620--21480866 Score: 284
Period size: 81 Copynumber: 3.1 Consensus size: 79
21480610 ATTGTGGGTT
* * *
21480620 AATGACCGAAATACCC-CTAAGGGTAAAATGATCGAAATACCCTCAATAAGTAAAATGACCAAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCCT-AA-AAGTAAAATGACCGAAA
* *
21480684 TACCCTTGAAGGGTAA
64 TACCCTCGATGGGTAA
* * ** *
21480700 AATTACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTTGAAGGGTAAAATGACTGAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCC-T-AAAAGTAAAATGACCGAAA
21480765 TACCCTCGATGGGTAA
64 TACCCTCGATGGGTAA
** *
21480781 AATGACTGAAATACCCTTGAAGGGTAAAATGA-CTGAAATATCCCTAAAAGTAAAATGACCGAAA
1 AATGACCAAAATACCCTCGAAGGGTAAAATGATC-GAAATA-CCCTAAAAGTAAAATGACCGAAA
*
21480845 TACCC-CTATAGGGTAA
64 TACCCTCGAT-GGGTAA
21480861 AATGAC
1 AATGAC
21480867 TGTTGTACCG
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
79 3 0.02
80 48 0.34
81 85 0.60
82 6 0.04
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (79 bp):
AATGACCAAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTAAAAGTAAAATGACCGAAATA
CCCTCGATGGGTAA
Found at i:21481093 original size:26 final size:26
Alignment explanation
Indices: 21481041--21481115 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
21481031 ATGCCACATA
* *
21481041 TACTGTTACTCA-CAGCTTTGATACGT
1 TACTGTTACT-AGCAGCTTTGCTGCGT
21481067 TACTGTTACTAGCAGCTTTGCTGCGT
1 TACTGTTACTAGCAGCTTTGCTGCGT
* * *
21481093 TATTATTACTGGCAGCTTTGCTG
1 TACTGTTACTAGCAGCTTTGCTG
21481116 TGATTTTGGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTTGCTGCGT
Found at i:21481260 original size:28 final size:28
Alignment explanation
Indices: 21481227--21481293 Score: 102
Period size: 27 Copynumber: 2.4 Consensus size: 28
21481217 CATTGTACTG
21481227 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
*
21481255 ATTACTGTAAT-GGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
21481282 A-TACTGATATTG
1 ATTACTG-TATTG
21481294 TATAAGGCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.14
27 20 0.57
28 10 0.29
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Found at i:21481299 original size:27 final size:27
Alignment explanation
Indices: 21481227--21481301 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
21481217 CATTGTACTG
* *
21481227 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTAAT-GGATAAGGCCCACACT
*
21481255 ATTACTGTAATGGCTAAGGCCCACACT
1 ATTACTGTAATGGATAAGGCCCACACT
* *
21481282 A-TACTGATATTGTATAAGGC
1 ATTACTG-TAATGGATAAGGC
21481302 TCAGGCCCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 27 0.64
28 10 0.24
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (27 bp):
ATTACTGTAATGGATAAGGCCCACACT
Found at i:21482357 original size:43 final size:42
Alignment explanation
Indices: 21482309--21482416 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 42
21482299 CGCAAACTTG
* * *
21482309 TAAGGGTTGAACGGAACCTCATAAGAGCTGGACAGAAACCCAA
1 TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCC-A
* * * *
21482352 TAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAACCCA
1 TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCCA
* *
21482394 TTAGGGTTAAATGGAAACTCATA
1 TAAGGGTTAAACGGAAACTCATA
21482417 TGAGTTAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 19 0.35
43 35 0.65
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (42 bp):
TAAGGGTTAAACGGAAACTCATAAGAGCTGAACAGAAACCCA
Found at i:21482423 original size:21 final size:21
Alignment explanation
Indices: 21482385--21482451 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
21482375 AGAGCTGAAC
* *
21482385 GGAAACCCATTAGGGTTAAAT
1 GGAAACTCATTAGAGTTAAAT
*
21482406 GGAAACTCA-TATGAGTTAACT
1 GGAAACTCATTA-GAGTTAAAT
* *
21482427 -GAAGCTCATTAGAGCTAAAT
1 GGAAACTCATTAGAGTTAAAT
21482447 GGAAA
1 GGAAA
21482452 GTAAACACGA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (21 bp):
GGAAACTCATTAGAGTTAAAT
Found at i:21488076 original size:28 final size:28
Alignment explanation
Indices: 21488044--21488128 Score: 156
Period size: 28 Copynumber: 3.1 Consensus size: 28
21488034 CCAGACTTGT
21488044 TATATCTTTCTTTGCACGTCAAGCATGA
1 TATATCTTTCTTTGCACGTCAAGCATGA
21488072 TATATCTTTCTTTGCACGTCAAGCAT--
1 TATATCTTTCTTTGCACGTCAAGCATGA
21488098 TATATCTTTCTTTGCACGTCAAGCATGA
1 TATATCTTTCTTTGCACGTCAAGCATGA
21488126 TAT
1 TAT
21488129 TTGGTACAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
26 26 0.47
28 29 0.53
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (28 bp):
TATATCTTTCTTTGCACGTCAAGCATGA
Found at i:21488108 original size:26 final size:26
Alignment explanation
Indices: 21488043--21488128 Score: 145
Period size: 26 Copynumber: 3.2 Consensus size: 26
21488033 TCCAGACTTG
21488043 TTATATCTTTCTTTGCACGTCAAGCA
1 TTATATCTTTCTTTGCACGTCAAGCA
21488069 TGATATATCTTTCTTTGCACGTCAAGCA
1 T--TATATCTTTCTTTGCACGTCAAGCA
21488097 TTATATCTTTCTTTGCACGTCAAGCA
1 TTATATCTTTCTTTGCACGTCAAGCA
*
21488123 TGATAT
1 TTATAT
21488129 TTGGTACAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
26 31 0.54
28 26 0.46
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (26 bp):
TTATATCTTTCTTTGCACGTCAAGCA
Found at i:21493539 original size:78 final size:81
Alignment explanation
Indices: 21493380--21493543 Score: 180
Period size: 78 Copynumber: 2.0 Consensus size: 81
21493370 CCAAAAATAA
*
21493380 AAAATTTTAATTTAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATAGCAGACTTGCAC
1 AAAATTTTAATTCAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATA-CAGACTTGCAC
* **
21493445 TTTGACCCTTCAAAATG
65 TTAGACCCCCCAAAATG
*
21493462 AAAATTTTCAATTCAGTCCTT-TTAT-AAATA-A-AAACTATAAATTAATATAGTA-ATA-TTGC
1 AAAATTTT-AATTCAGT-CTTCTTATAAAATAGATAAACTATAAATTAATATA-TACAGACTTGC
*
21493521 ACTATAG-CCCCCCCAAATG
63 ACT-TAGACCCCCCAAAATG
21493540 AAAA
1 AAAA
21493544 AATTATGTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
78 20 0.28
79 4 0.06
80 18 0.25
81 3 0.04
82 13 0.18
83 11 0.15
84 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.34
Consensus pattern (81 bp):
AAAATTTTAATTCAGTCTTCTTATAAAATAGATAAACTATAAATTAATATATACAGACTTGCACT
TAGACCCCCCAAAATG
Found at i:21511562 original size:149 final size:151
Alignment explanation
Indices: 21511389--21511674 Score: 470
Period size: 151 Copynumber: 1.9 Consensus size: 151
21511379 AGTTTAGATT
* *
21511389 TTTTTTAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAATTTTAAAA-TTTTAAAACAAAG
1 TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
*
21511453 TTTTGAT-CTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAA-AAATAGTGATTTTTTT
66 TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAA-AACAAATAGTGATTTTTTT
21511516 AAAAAAAAAGAGAAATGTTAGA
130 AAAAAAAAAGAGAAATGTTAGA
* *
21511538 TTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
1 TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
* *
21511603 TTTTGATATTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAGTAGTGATTTTTTTA
66 TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAATAGTGATTTTTTTA
*
21511668 AAGAAAA
131 AAAAAAA
21511675 CATTGATTTT
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
149 47 0.37
150 22 0.17
151 57 0.45
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (151 bp):
TTTTTAAAATAAAAATATGATTTTTAGTCATATTAAAGGAAAAGTTTAAAATTTTTAAAACAAAG
TTTTGATACTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTAAAACAAATAGTGATTTTTTTA
AAAAAAAAGAGAAATGTTAGA
Found at i:21513699 original size:16 final size:16
Alignment explanation
Indices: 21513678--21513709 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21513668 GTTTTGTTGC
21513678 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
21513694 TAATTTTACTTTTTCA
1 TAATTTTACTTTTTCA
21513710 CTTTCAATCA
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:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTACTTTTTCA
Found at i:21514013 original size:51 final size:50
Alignment explanation
Indices: 21513949--21514123 Score: 183
Period size: 51 Copynumber: 3.5 Consensus size: 50
21513939 GTATCCTACG
* *
21513949 CATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTACTACACACGTGACCAT-ACTATCCGGTACACGTAGTAGCCTGCA
* * * * *
21514000 CATAGTACTACACACGTGATCGA-AGTTATCCGGTACGCATAGTAGCCTGCG
1 CATAGTACTACACACGTGA-CCATA-CTATCCGGTACACGTAGTAGCCTGCA
* * * **
21514051 CATAGTACTACACATGCGACC-TATTATTTTGGTACACGTAGTAGCCTGCA
1 CATAGTACTACACACGTGACCATACTA-TCCGGTACACGTAGTAGCCTGCA
*
21514101 CATAGTACTACATACGTGACCAT
1 CATAGTACTACACACGTGACCAT
21514124 CACTTTCCCT
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
49 3 0.03
50 39 0.39
51 57 0.56
52 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
CATAGTACTACACACGTGACCATACTATCCGGTACACGTAGTAGCCTGCA
Found at i:21514104 original size:101 final size:102
Alignment explanation
Indices: 21513935--21514119 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
21513925 TACCGGTGCA
* *
21513935 CATAGTATCCTACGCATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACGCATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
21514000 CATAGTACTACACACGTGATCGAAGTTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGTTATCCGGTACG
* * ** *
21514037 CATAGTAGCCTGCGCATAGTACTACACATGCGACC-T-ATTATTTTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACGCATAGTACTACACATGCGACCATCACTA-TCCGATACACGTAGTAGCCTGC
*
21514100 ACATAGTACTACATACGTGA
65 ACATAGTACTACACACGTGA
21514120 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 3 0.04
101 39 0.53
102 32 0.43
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTACGCATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGTTATCCGGTACG
Found at i:21514142 original size:101 final size:102
Alignment explanation
Indices: 21513933--21514150 Score: 246
Period size: 101 Copynumber: 2.1 Consensus size: 102
21513923 GATACCGGTG
* *
21513933 CACATAGTATCCTACGCATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTACGCATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTG
* * *
21513998 CACATAGTACTACACACGTGATCGAAGTTATCCGGTA
66 CACATAGTACTACACACGTGATCCAACTTATCCCGTA
* * * ** *
21514035 CGCATAGTAGCCTGCGCATAGTACTACACATGCGACC-T-ATTATTTTGGTACACGTAGTAGCCT
1 CACATAGTAGCCTACGCATAGTACTACACATGCGACCATCACTA-TCCGATACACGTAGTAGCCT
* * *
21514098 GCACATAGTACTACATACGTGA-CCATCACTT-TCCCTTT
65 GCACATAGTACTACACACGTGATCCA--ACTTATCCCGTA
*
21514136 CACATAGTGGCCTAC
1 CACATAGTAGCCTAC
21514151 TCACAGTTTG
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
100 5 0.05
101 55 0.57
102 36 0.38
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (102 bp):
CACATAGTAGCCTACGCATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTG
CACATAGTACTACACACGTGATCCAACTTATCCCGTA
Found at i:21515080 original size:13 final size:13
Alignment explanation
Indices: 21515062--21515089 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
21515052 TTAGTCCTTT
21515062 TGACTAAATTAAG
1 TGACTAAATTAAG
21515075 TGACTAAATTAAG
1 TGACTAAATTAAG
21515088 TG
1 TG
21515090 CCCAAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (13 bp):
TGACTAAATTAAG
Found at i:21516991 original size:42 final size:42
Alignment explanation
Indices: 21516911--21516992 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
21516901 TATTTTCTCT
**
21516911 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
*
21516953 ATGCCATA-TCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGT-CCAACTATGGTCTTACACA-TATGCACATAT
21516993 CACACCGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.03
42 32 0.91
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATTG
Found at i:21520064 original size:51 final size:51
Alignment explanation
Indices: 21519989--21520189 Score: 196
Period size: 51 Copynumber: 4.0 Consensus size: 51
21519979 ATTAATGATA
* * * * *
21519989 CCGGTTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
21520040 CCGATACACGTAGTACCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
** * * *
21520091 CCGGTA-TGGATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-T
1 CCGGTACACG-TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
* *
21520141 CTGGCACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21520190 TTCCCTTTCA
Statistics
Matches: 120, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 74 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:21520174 original size:101 final size:102
Alignment explanation
Indices: 21519998--21520181 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
21519988 ACCGGTTCAC
* * *
21519998 ATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTACCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCCTGCAC
21520063 ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
* * * * *
21520100 ATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGCACACGTAGTAGCCTGCA
1 ATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAGTACCCTGCA
21520163 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
21520182 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 38 0.52
102 31 0.42
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTATGG
Found at i:21520205 original size:101 final size:103
Alignment explanation
Indices: 21519993--21520212 Score: 236
Period size: 101 Copynumber: 2.2 Consensus size: 103
21519983 ATGATACCGG
* * *
21519993 TTCACATAGTATCCTACACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTACCC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCC
* *
21520058 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGT
66 TGCACATAGTACTACACACGTGATCCAAGCTATCCGCT
* ** * * * * *
21520096 AT-GGATAGTAGCCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGCACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAGTACC
*
21520158 CTGCACATAGTACTACACACGTGA-CCATCA-CTTTCC-CT
65 CTGCACATAGTACTACACACGTGATCCA--AGCTATCCGCT
*
21520196 TTCACATAGTGGCCTAC
1 TTCACATAGTAGCCTAC
21520213 TCACAGTTTG
Statistics
Matches: 94, Mismatches: 19, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
100 4 0.04
101 53 0.56
102 32 0.34
103 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (103 bp):
TTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGTACCC
TGCACATAGTACTACACACGTGATCCAAGCTATCCGCT
Found at i:21521050 original size:28 final size:28
Alignment explanation
Indices: 21521010--21521065 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
21521000 CAACAAGTTA
21521010 ACCAATGGTCTAATTACCATTTAAGGAC
1 ACCAATGGTCTAATTACCATTTAAGGAC
*
21521038 ACCAATGGTCTAATTATCATTTAAGGAC
1 ACCAATGGTCTAATTACCATTTAAGGAC
21521066 CTCCAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (28 bp):
ACCAATGGTCTAATTACCATTTAAGGAC
Found at i:21530061 original size:40 final size:38
Alignment explanation
Indices: 21530017--21530154 Score: 120
Period size: 40 Copynumber: 3.5 Consensus size: 38
21530007 TGGCGTTTGA
21530017 ATAAAAAACGCCGCTAAAAATAAATCATTAGCGGCGCTAT
1 ATAAAAAACGCCGCTAAAAAT-AATCATTAGCGGCGCT-T
* *
21530057 ATAAAAAACGCCGCTAAAGATCGAGT-ATTAGCGGCGCTT
1 ATAAAAAACGCCGCTAAAAAT--AATCATTAGCGGCGCTT
* * * * *
21530096 TTCTAAAAACGCCACTAAAAATGAGCATTAGCGGCG-TT
1 AT-AAAAAACGCCGCTAAAAATAATCATTAGCGGCGCTT
*
21530134 TTACAAAAAGCGCCGC-AAAAA
1 ATA-AAAAA-CGCCGCTAAAAA
21530155 CCTAAACCTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
38 14 0.17
39 17 0.21
40 48 0.59
41 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (38 bp):
ATAAAAAACGCCGCTAAAAATAATCATTAGCGGCGCTT
Found at i:21530257 original size:41 final size:41
Alignment explanation
Indices: 21530194--21530347 Score: 245
Period size: 41 Copynumber: 3.8 Consensus size: 41
21530184 TTTTTAGCGA
* *
21530194 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
* *
21530235 TTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
*
21530276 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
* *
21530317 TTTAGGGGCGTTTTTTAAGAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAA
21530348 AAGCATTTTA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTGGTC
Found at i:21531625 original size:14 final size:15
Alignment explanation
Indices: 21531595--21531627 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21531585 TTTTTTTATT
*
21531595 TTTATAAAAAATTAA
1 TTTATAAAAAATAAA
21531610 TTTATAAAAAA-AAA
1 TTTATAAAAAATAAA
21531624 TTTA
1 TTTA
21531628 GCATAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTATAAAAAATAAA
Found at i:21531694 original size:21 final size:21
Alignment explanation
Indices: 21531670--21531737 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
21531660 TAAATAAGGT
21531670 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
*
21531691 TTAGGGGTTAG-ATGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGGGG
* * * *
21531712 TTAAGAGTTAGTGATTTAGGGT
1 TTAGGGGTTAGT-AGTTAGGGG
21531734 TTAG
1 TTAG
21531738 ATATTCGGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.73
22 8 0.22
23 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:21531899 original size:50 final size:50
Alignment explanation
Indices: 21531818--21531916 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
21531808 TAATTGTAAA
* * *
21531818 ATAGGGGTTAGGGGTTTAGAGTTTTTGTTTTATGATTTAGGGTTTAGGAG
1 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGAG
21531868 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGA
1 ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGA
21531917 TTAATTGGTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.21, C:0.02, G:0.34, T:0.42
Consensus pattern (50 bp):
ATAGGGGTTAGGGGTTTAGAGTTTCTATTTTACGATTTAGGGTTTAGGAG
Found at i:21535520 original size:27 final size:26
Alignment explanation
Indices: 21535490--21535546 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
21535480 AATTTCGAGG
*
21535490 TTTACAATTTT-TAATTTTTATTAATT
1 TTTA-AATTTTCTAACTTTTATTAATT
* *
21535516 ATTTATATTTTCTCACTTTTATTAATT
1 -TTTAAATTTTCTAACTTTTATTAATT
21535543 TTTA
1 TTTA
21535547 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAATTTTCTAACTTTTATTAATT
Found at i:21535897 original size:43 final size:43
Alignment explanation
Indices: 21535793--21535936 Score: 220
Period size: 43 Copynumber: 3.4 Consensus size: 43
21535783 GTTTGAGATA
* *
21535793 AAAAGCGTCGCTAAAGATCATGGTCTTTAGCGGC-ATTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGA-TTGTGGG
21535836 -AAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
*
21535878 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
* *
21535921 AGAAGCGCCGCAAAAG
1 AAAAGCGCCGCTAAAG
21535937 TTAGCGACGT
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
42 38 0.40
43 56 0.60
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.22
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGATTGTGGG
Found at i:21536021 original size:22 final size:22
Alignment explanation
Indices: 21535993--21536036 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
21535983 TAGTGGCGCT
* *
21535993 AAAAAGCGCCGTTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
21536015 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
21536037 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:21539432 original size:30 final size:30
Alignment explanation
Indices: 21539364--21539432 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
21539354 CATTTCCAAA
* *
21539364 AAAAAAAAAGAAATAGGGAAGGTGAATAAG
1 AAAAAAAAAGAAATAGGGAAGGAGAAGAAG
21539394 AAACAAAAAA-AAATA-GGAAGGAGTAAGAATG
1 AAA-AAAAAAGAAATAGGGAAGGAG-AAGAA-G
21539425 AAAAAAAA
1 AAAAAAAA
21539433 TGATTGGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 17 0.50
31 10 0.29
ACGTcount: A:0.68, C:0.01, G:0.22, T:0.09
Consensus pattern (30 bp):
AAAAAAAAAGAAATAGGGAAGGAGAAGAAG
Found at i:21540447 original size:42 final size:42
Alignment explanation
Indices: 21540401--21540495 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
21540391 AAGAAAAGCA
* *
21540401 TTCATTGCATTTAGAGGCCTAAGTGTGAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGAAGGTCCATCTACTT
*
21540443 TTCATTGCATTTAGAGGCCCAGGTGTGAAGGTCCATCTACTT
1 TTCATTGCATTTAGAGGCCCAAGTGTGAAGGTCCATCTACTT
21540485 TTCATTGCATT
1 TTCATTGCATT
21540496 GTATATGAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAAGTGTGAAGGTCCATCTACTT
Found at i:21540974 original size:18 final size:18
Alignment explanation
Indices: 21540951--21540987 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21540941 ATTGAAAAAC
21540951 AATATATATATACATGAA
1 AATATATATATACATGAA
21540969 AATATATATATACATGAA
1 AATATATATATACATGAA
21540987 A
1 A
21540988 TGAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AATATATATATACATGAA
Found at i:21564068 original size:21 final size:22
Alignment explanation
Indices: 21564033--21564090 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
21564023 GAGAAGTAGG
21564033 CACCAAAGTGTTAAACAATAGA
1 CACCAAAGTGTTAAACAATAGA
* *
21564055 CACCAAAG-GTTAAATAATAGG
1 CACCAAAGTGTTAAACAATAGA
*
21564076 CACCGAAGTGCTTAA
1 CACCAAAGTG-TTAA
21564091 CAGTAGGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.58
22 9 0.29
23 4 0.13
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (22 bp):
CACCAAAGTGTTAAACAATAGA
Found at i:21564097 original size:22 final size:22
Alignment explanation
Indices: 21564006--21564099 Score: 86
Period size: 22 Copynumber: 4.3 Consensus size: 22
21563996 CACAACACCT
* *
21564006 ATAGGCACCGAAGTGTTGAGA-A
1 ATAGGCACCAAAGTGTT-AAACA
*
21564028 GTAGGCACCAAAGTGTTAAACA
1 ATAGGCACCAAAGTGTTAAACA
* *
21564050 ATAGACACCAAAG-GTTAAATA
1 ATAGGCACCAAAGTGTTAAACA
*
21564071 ATAGGCACCGAAGTGCTT-AACA
1 ATAGGCACCAAAGTG-TTAAACA
*
21564093 GTAGGCA
1 ATAGGCA
21564100 TCGCAATGCG
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 20 0.34
22 37 0.63
23 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.18
Consensus pattern (22 bp):
ATAGGCACCAAAGTGTTAAACA
Found at i:21568060 original size:2 final size:2
Alignment explanation
Indices: 21568053--21568084 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21568043 TGTTTGAATA
21568053 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21568085 AATTGCTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21572999 original size:36 final size:36
Alignment explanation
Indices: 21572959--21573036 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
21572949 GTTCTGGGAC
21572959 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
1 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
*
21572995 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAC
1 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
21573031 TCCATC
1 TCCATC
21573037 TCGTTCGTCG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (36 bp):
TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
Found at i:21582721 original size:14 final size:14
Alignment explanation
Indices: 21582702--21582729 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21582692 ACAATTTATT
21582702 AATATATATTAATA
1 AATATATATTAATA
21582716 AATATATATTAATA
1 AATATATATTAATA
21582730 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:21582874 original size:34 final size:35
Alignment explanation
Indices: 21582816--21582882 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
21582806 CAAACACCAG
21582816 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
21582851 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
21582883 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:21586398 original size:38 final size:37
Alignment explanation
Indices: 21586328--21586400 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
21586318 CTTTCATAAT
*
21586328 TTCACTTTTTCACTTTCAATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
21586365 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCACA-ATTCAATTCAA
21586401 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
Found at i:21586431 original size:23 final size:22
Alignment explanation
Indices: 21586388--21586431 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
21586378 TTCTAAGTCA
21586388 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
21586411 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
21586432 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:21586540 original size:45 final size:45
Alignment explanation
Indices: 21586476--21586569 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
21586466 AACAGATACT
* *
21586476 CGGTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
* *
21586521 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATTATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
21586566 CGGT
1 CGGT
21586570 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
Found at i:21588443 original size:38 final size:37
Alignment explanation
Indices: 21588373--21588445 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 37
21588363 CTTTCATAAT
*
21588373 TTCACTTTTTCACTTTCAATCACAATTCAATTCAAAA
1 TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
21588410 TTCACTTTTCCA-TTTCTAAGTCA-ATATTCAATTCAA
1 TTCACTTTTCCACTTTC-AA-TCACA-ATTCAATTCAA
21588446 TTCCACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.44
38 14 0.44
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.42
Consensus pattern (37 bp):
TTCACTTTTCCACTTTCAATCACAATTCAATTCAAAA
Found at i:21588476 original size:23 final size:22
Alignment explanation
Indices: 21588433--21588476 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
21588423 TTCTAAGTCA
21588433 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
21588456 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
21588477 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:21588585 original size:45 final size:45
Alignment explanation
Indices: 21588521--21588614 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
21588511 AACAGATACT
* *
21588521 CGGTGGATTCAGCATATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
* *
21588566 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATTATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
21588611 CGGT
1 CGGT
21588615 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
Found at i:21597232 original size:7 final size:8
Alignment explanation
Indices: 21597207--21597231 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21597197 GTCAACAAAT
21597207 AATTAAAA
1 AATTAAAA
21597215 AATTAAAA
1 AATTAAAA
21597223 AATTAAAA
1 AATTAAAA
21597231 A
1 A
21597232 TAAGTACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAA
Found at i:21598939 original size:16 final size:15
Alignment explanation
Indices: 21598918--21598980 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 15
21598908 AAAATTTGAA
21598918 AAAATTTGAGCCAGAG
1 AAAATTTGAGCC-GAG
* *
21598934 AAAATTTAAGTCTGAG
1 AAAATTTGAG-CCGAG
*
21598950 AAAATTCGAGCTCGAG
1 AAAATTTGAGC-CGAG
21598966 AAAATTCT-AGCCGAG
1 AAAATT-TGAGCCGAG
21598981 CTTATTCGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
15 5 0.13
16 32 0.84
17 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (15 bp):
AAAATTTGAGCCGAG
Found at i:21609829 original size:18 final size:17
Alignment explanation
Indices: 21609808--21609842 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21609798 TTATTATTAA
*
21609808 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21609826 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21609843 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21609949 original size:18 final size:17
Alignment explanation
Indices: 21609926--21609962 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
21609916 AATTATTATT
21609926 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
21609942 AAATATATGATTTAATA
1 AAATATATGATTTAATA
21609959 AAAT
1 AAAT
21609963 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:21609951 original size:59 final size:59
Alignment explanation
Indices: 21609884--21610192 Score: 227
Period size: 59 Copynumber: 5.2 Consensus size: 59
21609874 CTCAAATCAT
21609884 AATATATGATACTATAAAATATAATTTAAGCTAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAAGCTAATTATTATTAAATATATTTTAATTAA
* * * * * * * * ** * *
21609943 AATATATGAT-TTAATAAAAT-T-CTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATACT-ATAAAATATAATT--TAAGCTA-ATTATTAT-TAAATATATTTTAATTAA
*
21610004 AATATATGATACTATAAAAAATAATTTAAGCTAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAAGCTAATTATTATTAAATATATTTTAATTAA
* * * * * * * * ** * *
21610063 AATATATGAT-TTAATAAAAT-T-CTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATACT-ATAAAATATAATT--TAAGCTA-ATTATTAT-TAAATATATTTTAATTAA
* *
21610124 AATATATGATACTATAAAATATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAGCTAATTATTATTAAATATATTTTAATTAA
21610183 AATATATGAT
1 AATATATGAT
21610193 TTAATAAAAT
Statistics
Matches: 182, Mismatches: 51, Indels: 34
0.68 0.19 0.13
Matches are distributed among these distances:
57 4 0.02
58 4 0.02
59 75 0.41
60 27 0.15
61 62 0.34
62 6 0.03
63 4 0.02
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (59 bp):
AATATATGATACTATAAAATATAATTTAAGCTAATTATTATTAAATATATTTTAATTAA
Found at i:21610001 original size:120 final size:120
Alignment explanation
Indices: 21609795--21610203 Score: 766
Period size: 120 Copynumber: 3.4 Consensus size: 120
21609785 TATTTTAACA
*
21609795 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATT
21609860 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAGC
66 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAGC
21609915 TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATT
*
21609980 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAAATAATTTAAGC
66 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAGC
21610035 TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATT
*
21610100 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA-A
66 CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT-AAGC
*
21610155 TAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
21610204 TAAAATAATT
Statistics
Matches: 283, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
120 281 0.99
121 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (120 bp):
TAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATATT
CTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAAGC
Found at i:21610069 original size:18 final size:17
Alignment explanation
Indices: 21610046--21610082 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
21610036 AATTATTATT
21610046 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
21610062 AAATATATGATTTAATA
1 AAATATATGATTTAATA
21610079 AAAT
1 AAAT
21610083 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:21610141 original size:61 final size:61
Alignment explanation
Indices: 21609836--21610143 Score: 267
Period size: 61 Copynumber: 5.1 Consensus size: 61
21609826 ATATAATTTA
21609836 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * * * * ** * * *
21609897 ATAAAA-T-ATAATTTAAGCTA-ATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TT
1 ATAAAATTCTTAA--TAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
21609955 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
** * * * * * * ** * * *
21610017 ATAAAA--AATAATTTAAGCTA-ATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TT
1 ATAAAATTCTTAA--TAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
21610075 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
21610137 ATAAAAT
1 ATAAAAT
21610144 ATAATTTGAA
Statistics
Matches: 181, Mismatches: 50, Indels: 32
0.69 0.19 0.12
Matches are distributed among these distances:
58 2 0.01
59 70 0.39
60 30 0.17
61 77 0.43
62 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:21610254 original size:47 final size:46
Alignment explanation
Indices: 21610185--21610425 Score: 157
Period size: 47 Copynumber: 5.3 Consensus size: 46
21610175 TTAATTAAAA
*
21610185 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
21610232 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
21610277 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
21610323 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
21610368 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAATATTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
21610414 TATATGAATTTA
1 TATATGAATTTA
21610426 CTAAAATCAT
Statistics
Matches: 151, Mismatches: 21, Indels: 44
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 45 0.30
45 18 0.12
46 13 0.09
47 59 0.39
48 10 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:21610257 original size:101 final size:93
Alignment explanation
Indices: 21610142--21610425 Score: 362
Period size: 91 Copynumber: 3.0 Consensus size: 93
21610132 ATACTATAAA
* * * *
21610142 ATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT-
*
21610206 AAATAATTATAACTAATAAATTTTCTTATATGAATTT
64 ---T--CT-TAA-TAATAAATTTTCTTATATGAATTT
* *
21610243 GTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
*
21610306 TTGATAATAAATTTTCTTATATGAATTT
66 TTAATAATAAATTTTCTTATATGAATTT
*
21610334 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
*
21610397 TTAATAATAAATATTCTTATATGAATTT
66 TTAATAATAAATTTTCTTATATGAATTT
21610425 A
1 A
21610426 CTAAAATCAT
Statistics
Matches: 169, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
91 111 0.66
92 2 0.01
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 50 0.30
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (93 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTC
TTAATAATAAATTTTCTTATATGAATTT
Found at i:21610294 original size:44 final size:43
Alignment explanation
Indices: 21610244--21610386 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 43
21610234 TATGAATTTG
21610244 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
21610288 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
21610335 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
21610379 TATAATTT
1 TATAATTT
21610387 CATAAAATTC
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.39
45 10 0.13
46 10 0.13
47 22 0.28
48 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:21610315 original size:91 final size:91
Alignment explanation
Indices: 21610219--21610425 Score: 369
Period size: 91 Copynumber: 2.3 Consensus size: 91
21610209 TAATTATAAC
* *
21610219 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
21610284 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
21610310 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
21610375 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
21610401 TAATAAATATTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
21610426 CTAAAATCAT
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 111 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:21613565 original size:23 final size:24
Alignment explanation
Indices: 21613505--21613567 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
21613495 TCTACTCACT
21613505 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
* *
21613529 AGAC-TATCAA-AACAATTTCTAG-
1 A-ACAAATCAAGAACAATTTCCAGC
21613551 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
21613568 ATCAAAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 17 0.52
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.21, G:0.08, T:0.19
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:21613576 original size:22 final size:22
Alignment explanation
Indices: 21613534--21613579 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21613524 CCAGCAGACT
* *
21613534 ATCAAAACAATTTCTAGAACAA
1 ATCAAAACAATATCTAAAACAA
21613556 ATCAAGAACAATATC-AAAACAA
1 ATCAA-AACAATATCTAAAACAA
21613578 AT
1 AT
21613580 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.59, C:0.17, G:0.04, T:0.20
Consensus pattern (22 bp):
ATCAAAACAATATCTAAAACAA
Found at i:21613594 original size:107 final size:107
Alignment explanation
Indices: 21613477--21613706 Score: 451
Period size: 107 Copynumber: 2.1 Consensus size: 107
21613467 ACTATACTTG
21613477 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
*
21613542 AATTTCTAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
21613584 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
21613649 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
21613691 CAATTTCCAGTTTCAT
1 CAATTTCCAGTTTCAT
21613707 TGAAAACAAC
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 122 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (107 bp):
CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
Found at i:21613672 original size:23 final size:24
Alignment explanation
Indices: 21613612--21613674 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
21613602 TCTACTCACT
21613612 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
21613636 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
21613658 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
21613675 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:21613683 original size:22 final size:22
Alignment explanation
Indices: 21613641--21613686 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21613631 CCAGCAGACT
* *
21613641 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
21613663 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
21613685 AT
1 AT
21613687 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:21615107 original size:34 final size:33
Alignment explanation
Indices: 21615066--21615134 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
21615056 ATAAACATAA
**
21615066 AAAAATATACATGCATGTTTAAATCATGAAATAT
1 AAAAATATACATGCATGTGAAAATCATGAAA-AT
* * *
21615100 AAAAATATATATGTATGTGAAAATTATGAAAAT
1 AAAAATATACATGCATGTGAAAATCATGAAAAT
21615133 AA
1 AA
21615135 GATAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (33 bp):
AAAAATATACATGCATGTGAAAATCATGAAAAT
Found at i:21615269 original size:24 final size:24
Alignment explanation
Indices: 21615229--21615279 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
21615219 ATGTAGAAAT
*
21615229 AATAATATATAATATAACAATAAC
1 AATAATATATAAAATAACAATAAC
*
21615253 AATAATCATA-AAAATAATAATAAC
1 AATAAT-ATATAAAATAACAATAAC
21615277 AAT
1 AAT
21615280 GTTAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAATATATAAAATAACAATAAC
Found at i:21616039 original size:15 final size:14
Alignment explanation
Indices: 21616011--21616052 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
21616001 ATTTTAAGAG
21616011 AAAAAATAAA-AAT
1 AAAAAATAAATAAT
21616024 AAAAAACTAAATAAT
1 AAAAAA-TAAATAAT
*
21616039 AAATAAGTAAATAA
1 AAA-AAATAAATAA
21616053 AATCAAACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 6 0.24
14 4 0.16
15 13 0.52
16 2 0.08
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAAATAAATAAT
Found at i:21616417 original size:14 final size:15
Alignment explanation
Indices: 21616390--21616427 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
21616380 TCTTTATTTG
21616390 TTTTGGGTCACTTGTA
1 TTTTGGG-CACTTGTA
21616406 TTTTGGGC-CTTGTA
1 TTTTGGGCACTTGTA
*
21616420 TTCTGGGC
1 TTTTGGGC
21616428 TAGCTCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 1 0.05
16 7 0.33
ACGTcount: A:0.08, C:0.16, G:0.29, T:0.47
Consensus pattern (15 bp):
TTTTGGGCACTTGTA
Found at i:21616973 original size:44 final size:44
Alignment explanation
Indices: 21616925--21617024 Score: 155
Period size: 44 Copynumber: 2.3 Consensus size: 44
21616915 ACTGTAACTT
* *
21616925 CAGGGAGGTAAGATTCTCAATCTTCAACCTATTCCACTACTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC
* *
21616969 CAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC
*
21617013 CAGAGAGATAAG
1 CAGGGAGATAAG
21617025 GCTGGGGACT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (44 bp):
CAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTACTGAC
Found at i:21617243 original size:44 final size:44
Alignment explanation
Indices: 21617188--21617331 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 44
21617178 GCTGTCGGTG
*
21617188 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGTAACC
* * * * ** * ***
21617232 CAGGGAGGCAAGGA--TGGTGTCTTCGATCTGCTTCGCTGTCAGTG
1 CAGGAAGGCAA-GATCTGCTATTTTTAACCTGCTTCGCTGT-AACC
* * *
21617276 CAGGAAAGCAAGATCTGTTATTTTTAACCTGCTTCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGTAACC
*
21617320 CAGGGAGGCAAG
1 CAGGAAGGCAAG
21617332 GCTAGTGTCT
Statistics
Matches: 71, Mismatches: 25, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 20 0.28
44 31 0.44
45 20 0.28
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGTAACC
Found at i:21617269 original size:43 final size:43
Alignment explanation
Indices: 21617216--21617353 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 43
21617206 TATTTTTAAC
*
21617216 CTGCTCCGCTGTAACCCAGGGAGGCAAGGATGGTGTCTTCGAT
1 CTGCTTCGCTGTAACCCAGGGAGGCAAGGATGGTGTCTTCGAT
*** * * * * * ** *
21617259 CTGCTTCGCTGTCAGTGCAGGAAAGCAA-GATCTGTTATTTTTAAC
1 CTGCTTCGCTGT-AACCCAGGGAGGCAAGGA--TGGTGTCTTCGAT
* * *
21617304 CTGCTTCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGAT
1 CTGCTTCGCTGTAACCCAGGGAGGCAAGGATGGTGTCTTCGAT
21617347 CTGCTTC
1 CTGCTTC
21617354 TCTCTCGGTG
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 26 0.40
44 20 0.31
45 19 0.29
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (43 bp):
CTGCTTCGCTGTAACCCAGGGAGGCAAGGATGGTGTCTTCGAT
Found at i:21617278 original size:88 final size:88
Alignment explanation
Indices: 21617166--21618039 Score: 1111
Period size: 88 Copynumber: 9.9 Consensus size: 88
21617156 GCTGTGGTCA
* * * * * * **
21617166 TCGATCTGTTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
21617231 CCAGGGAGGCAAGGATGGTGTCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * * *
21617254 TCGATCTGCTTCGCTGTC-AGTGCAGGAAAGCAAGATCTGTTATTTTTAACCTGCTTCGCTGCAA
1 TCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAA
* *
21617318 CCCAGGGAGGCAAGGCTAGTGTCT
65 CCCAGGGAGGCAAGGCTGGTATCT
* * * * *
21617342 TCGATCTGCTTCTCTCTCGGTGCAGGAAGGCAAAATCTGCTATCTTGAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
21617407 CCAGGGAGGCAAGGCTGATATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * *
21617430 TTGATCTACTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
21617495 CCAGGGAAGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * *
21617518 TCGATCTGCTTTGCTATCGATGCAGGAAGGCAAGATCTCCTATCTTCAACCTGCTCTACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
21617583 CCAGTGAGGCAAGGTTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * * *
21617606 TCGGTTTGCTTCGCTGTCGATACAGTAAGGCAAAAATCTGTTGTCTTCAACCTGCTCCACTACAA
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGC-AAGATCTGCTATCTTCAACCTGCTCCACTACAA
*
21617671 TCCAGGGAGGCAAGGCTGGTATCT
65 CCCAGGGAGGCAAGGCTGGTATCT
* * * * *
21617695 TCGATCTGCTTCTCTGTTGATGTAGAAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
* *
21617760 CCATGGAGGCAAGGTTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* * * * * * * * *
21617783 TCGGTTTGGTTTGCTGTCGATGCAGTAAGGCAAAATCTACTGTCTTCAACTTGCTCCACTACAAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
21617848 CCAGGGAGGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
*
21617871 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
21617936 CCAAGGAGGCAAGGCTGGTATCT
66 CCAGGGAGGCAAGGCTGGTATCT
* *
21617959 TCGATCTGCTTCGCTTTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACGAC
1 TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
*
21618024 CCAGGGAGACAAGGCT
66 CCAGGGAGGCAAGGCT
21618040 TTGTGATTTC
Statistics
Matches: 679, Mismatches: 104, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
88 607 0.89
89 72 0.11
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAAC
CCAGGGAGGCAAGGCTGGTATCT
Found at i:21617417 original size:44 final size:44
Alignment explanation
Indices: 21617364--21617499 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 44
21617354 TCTCTCGGTG
21617364 CAGGAAGGCAAAATCTGCTATCTTGAACCTGCTCCACTACAACC
1 CAGGAAGGCAAAATCTGCTATCTTGAACCTGCTCCACTACAACC
* ** * * * * * ****
21617408 CAGGGAGGC-AAGGCTGATATCTTTG-ATCTACTTCACTGTCGGTA
1 CAGGAAGGCAAAATCTGCTATC-TTGAACCTGCTCCACT-ACAACC
* *
21617452 CAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTACAACC
1 CAGGAAGGCAAAATCTGCTATCTTGAACCTGCTCCACTACAACC
21617496 CAGG
1 CAGG
21617500 GAAGCAAGGC
Statistics
Matches: 62, Mismatches: 26, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 18 0.29
44 27 0.44
45 17 0.27
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAAATCTGCTATCTTGAACCTGCTCCACTACAACC
Found at i:21617430 original size:43 final size:43
Alignment explanation
Indices: 21617382--21617518 Score: 114
Period size: 44 Copynumber: 3.1 Consensus size: 43
21617372 CAAAATCTGC
21617382 TATCTTGAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGA
1 TATCTTGAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGA
* * * * **** * * *
21617425 TATCTTTG-ATCTACTTCACTGTCGGTACAGGAAGGCAAGATCTGC
1 TATC-TTGAACCTGCTCCACT-ACAACCCAGGGAGGCAAG-GCTGA
* * *
21617470 TATCTTTAACCTGCTCCACTACAACCCAGGGAAGCAAGGCTGG
1 TATCTTGAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGA
21617513 TATCTT
1 TATCTT
21617519 CGATCTGCTT
Statistics
Matches: 66, Mismatches: 24, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
43 22 0.33
44 28 0.42
45 16 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
TATCTTGAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGA
Found at i:21617527 original size:43 final size:43
Alignment explanation
Indices: 21617392--21617527 Score: 112
Period size: 43 Copynumber: 3.1 Consensus size: 43
21617382 TATCTTGAAC
*
21617392 CTGCTCCACTACAACCCAGGGAGGCAAGGCTGATATCTTTGAT
1 CTGCTCCACTACAACCCAGGGAAGCAAGGCTGATATCTTTGAT
* * * **** * * * *
21617435 CTACTTCACTGTCGGTACA-GGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTCCACT-ACAACCCAGGGAA-GCAAG-GCTGATATCTTTGAT
* *
21617480 CTGCTCCACTACAACCCAGGGAAGCAAGGCTGGTATCTTCGAT
1 CTGCTCCACTACAACCCAGGGAAGCAAGGCTGATATCTTTGAT
21617523 CTGCT
1 CTGCT
21617528 TTGCTATCGA
Statistics
Matches: 65, Mismatches: 24, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 26 0.40
44 16 0.25
45 23 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (43 bp):
CTGCTCCACTACAACCCAGGGAAGCAAGGCTGATATCTTTGAT
Found at i:21623162 original size:23 final size:23
Alignment explanation
Indices: 21623127--21623171 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21623117 TGGAGTATAA
* *
21623127 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
21623150 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
21623172 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:21623220 original size:2 final size:2
Alignment explanation
Indices: 21623215--21623239 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21623205 TATATATATA
21623215 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
21623240 ACTTAAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21623837 original size:41 final size:42
Alignment explanation
Indices: 21623755--21623856 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 42
21623745 CAGTGCCTAT
*
21623755 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTATACGTCTAG
* *
21623797 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTATACGTCTAG
21623838 CAGGC-TAAGTGCCGGTGAA
1 CAGGCTTAA-TGCCGGTGAA
21623857 TCTGTTTAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
40 3 0.05
41 32 0.57
42 21 0.38
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTATACGTCTAG
Found at i:21623880 original size:34 final size:34
Alignment explanation
Indices: 21623832--21623899 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
21623822 CAGACTATAT
* *
21623832 GTCTAGCAGGCTAAGTGCCGGTGAATCTGTTTAA
1 GTCTAGCAGACTAAGTGCCAGTGAATCTGTTTAA
21623866 GTCTAGCAGACTAAGTGCCAGTGAATCTGTTTAA
1 GTCTAGCAGACTAAGTGCCAGTGAATCTGTTTAA
21623900 AGAATGTGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (34 bp):
GTCTAGCAGACTAAGTGCCAGTGAATCTGTTTAA
Found at i:21627329 original size:36 final size:34
Alignment explanation
Indices: 21627248--21627330 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 34
21627238 GAAAATGAAT
* *
21627248 AAAATTATAAACATAAAAAAATATACATGCATGTT
1 AAAATTATGAA-ATAAAAAAATATACATGCATGTG
* * * *
21627283 TAAATCATGAAATAGAAAAATATATATATGTATGTG
1 AAAATTATGAAATA-AAAAA-ATATACATGCATGTG
21627319 AAAATTATGAAA
1 AAAATTATGAAA
21627331 ATAAGATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 3 0.08
35 13 0.34
36 22 0.58
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (34 bp):
AAAATTATGAAATAAAAAAATATACATGCATGTG
Found at i:21627435 original size:3 final size:3
Alignment explanation
Indices: 21627427--21627478 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
21627417 ATATGTAGAT
* * * *
21627427 ATA ATA ATA ATA TATA AT- ATA ACA ATA AAA ATA ATC ATA AAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21627472 ATA ATA A
1 ATA ATA A
21627479 CAATGTCAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:21627448 original size:18 final size:17
Alignment explanation
Indices: 21627425--21627478 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
21627415 ATATATGTAG
*
21627425 ATATAATAATAATATATA
1 ATATAAAAATAATA-ATA
* *
21627443 ATATAACAATAAAAATA
1 ATATAAAAATAATAATA
21627460 ATCATAAAAATAATAATA
1 AT-ATAAAAATAATAATA
21627478 A
1 A
21627479 CAATGTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATAAAAATAATAATA
Found at i:21628424 original size:11 final size:11
Alignment explanation
Indices: 21628408--21628432 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21628398 CAGACCAATG
21628408 AAAAAAAGAAA
1 AAAAAAAGAAA
21628419 AAAAAAAGAAA
1 AAAAAAAGAAA
21628430 AAA
1 AAA
21628433 GGTATGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:21629731 original size:21 final size:22
Alignment explanation
Indices: 21629689--21629731 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
21629679 AAGTGAACAG
21629689 TGCAATAATCGATGAAGAAGAACC
1 TGCAATAATCGAT--AGAAGAACC
21629713 TGCAATAATCGAT-GAAGAA
1 TGCAATAATCGATAGAAGAA
21629732 AAGGAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
24 13 0.68
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (22 bp):
TGCAATAATCGATAGAAGAACC
Found at i:21630729 original size:41 final size:41
Alignment explanation
Indices: 21630672--21630753 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
21630662 TATTATGTTG
*
21630672 GACAAATTTTCTAAAAATGTATGCAGTTCTTTAAAAGATTA
1 GACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGATTA
*
21630713 GACAAATTTTCTAAAAATATATGTAGTTCTTTAAAAGATTA
1 GACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGATTA
21630754 ATTTCGTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (41 bp):
GACAAATTTTCTAAAAATATATGCAGTTCTTTAAAAGATTA
Found at i:21630965 original size:22 final size:21
Alignment explanation
Indices: 21630932--21630973 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
21630922 AAAATAAGTT
21630932 TTAATTTCTTATGATATAAAAA
1 TTAATTTCTTAT-ATATAAAAA
*
21630954 TTAATATT-TTATATTTAAAA
1 TTAAT-TTCTTATATATAAAA
21630974 TAGTGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTTCTTATATATAAAAA
Found at i:21636036 original size:20 final size:20
Alignment explanation
Indices: 21636011--21636049 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21636001 TGGAGCAGGA
21636011 ATATCAATACCTTAAGAAAT
1 ATATCAATACCTTAAGAAAT
21636031 ATATCAATACCTTAAGAAA
1 ATATCAATACCTTAAGAAA
21636050 AGTATTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.28
Consensus pattern (20 bp):
ATATCAATACCTTAAGAAAT
Found at i:21640091 original size:23 final size:23
Alignment explanation
Indices: 21640059--21640102 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21640049 ACTGCCATTT
21640059 TCTAAATAAAACAATAATAAATA
1 TCTAAATAAAACAATAATAAATA
* * *
21640082 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAACAATAATAAA
21640103 ATAATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (23 bp):
TCTAAATAAAACAATAATAAATA
Found at i:21640472 original size:3 final size:3
Alignment explanation
Indices: 21640464--21640493 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21640454 CTGCTTCTTA
21640464 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21640494 TTCAATACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21641761 original size:16 final size:16
Alignment explanation
Indices: 21641740--21641774 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21641730 CTTCTCCAAA
*
21641740 TTTTTTGGGTTCTTTT
1 TTTTTTGGGTTATTTT
*
21641756 TTTTTTGGTTTATTTT
1 TTTTTTGGGTTATTTT
21641772 TTT
1 TTT
21641775 CAATCTAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.80
Consensus pattern (16 bp):
TTTTTTGGGTTATTTT
Found at i:21645760 original size:2 final size:2
Alignment explanation
Indices: 21645755--21645801 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
21645745 TATATATATA
21645755 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21645797 TG TG T
1 TG TG T
21645802 ATTATATATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:21647007 original size:124 final size:123
Alignment explanation
Indices: 21646795--21647091 Score: 413
Period size: 124 Copynumber: 2.4 Consensus size: 123
21646785 AAGTGTTTGA
* * * * **
21646795 AAAACTACGATAGAATCTTTTAGTACAATCATTCAACAAAT--A-CAAAAAAAGGGGTAATGTGT
1 AAAACTAAGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGAAAAAAAAGGGTAAAATGT
* *
21646857 AAGTAAAGGACTAAAGTAAATAGTGTAAATTTTGTTTTGAAGTGTTTGAAAAAATTGG
66 AAGTAAAGGACTAAAGTAAATAGTGTAAATTTTATTTTGAAGTATTTGAAAAAATTGG
** * *
21646915 AAAACTGTGATAGAATCTTTTGGTACAATTATTCAATAAATAAAGGGAAAAAAAAGGGTAAAATG
1 AAAACTAAGATAGAATCTTTTGGTACAATCATTCAACAAATAAA-GGAAAAAAAAGGGTAAAATG
* *
21646980 TAAGTAAAGGGCTAAAGTAAACT-GTGTAAATTTTATTTTGAAGTATTTGATAAAATTGG
65 TAAGTAAAGGACTAAAGTAAA-TAGTGTAAATTTTATTTTGAAGTATTTGAAAAAATTGG
21647039 AAAACTAAGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGAGAAAAAA
1 AAAACTAAGATAGAATCTTTTGGTACAATCATTCAACAAATAAAG-GAAAAAA
21647092 TTGAGTATGA
Statistics
Matches: 154, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
120 36 0.23
122 1 0.01
123 1 0.01
124 115 0.75
125 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (123 bp):
AAAACTAAGATAGAATCTTTTGGTACAATCATTCAACAAATAAAGGAAAAAAAAGGGTAAAATGT
AAGTAAAGGACTAAAGTAAATAGTGTAAATTTTATTTTGAAGTATTTGAAAAAATTGG
Found at i:21651757 original size:49 final size:49
Alignment explanation
Indices: 21651613--21651757 Score: 148
Period size: 49 Copynumber: 2.9 Consensus size: 49
21651603 TTCGTCACGT
* * * * * * *
21651613 GTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTATGTGTACGGGTATCATTGATC-CAC
* * * *
21651663 GTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCTTTGAT-CAC
1 GTGTAGTACTATGTGCAGGCTACTATGTGTAC-GGGTATCATTGATCCAC
*
21651712 GTGTAGTACTATGTGCAGGCTACTATGTGAATCGGGTATCATTGAT
1 GTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGGTATCATTGAT
21651758 TATAAGGTGG
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
49 41 0.53
50 31 0.40
51 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (49 bp):
GTGTAGTACTATGTGCAGGCTACTATGTGTACGGGTATCATTGATCCAC
Found at i:21651940 original size:10 final size:10
Alignment explanation
Indices: 21651925--21651961 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
21651915 AATATAGTGG
21651925 TGAATTGAAA
1 TGAATTGAAA
*
21651935 TGAATTGTATA
1 TGAATTG-AAA
21651946 TGAATTGAAA
1 TGAATTGAAA
21651956 TGAATT
1 TGAATT
21651962 ATTGGAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (10 bp):
TGAATTGAAA
Found at i:21656396 original size:23 final size:22
Alignment explanation
Indices: 21656353--21656410 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
21656343 AGAGGGTATC
* *
21656353 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
21656374 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
21656397 TGCATATCATATCT
1 TACAAATCATATCT
21656411 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:21657715 original size:11 final size:11
Alignment explanation
Indices: 21657699--21657736 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
21657689 GGCCCAGCCC
21657699 ATATTAAATAT
1 ATATTAAATAT
21657710 ATATTAAATAT
1 ATATTAAATAT
*
21657721 ATATAAAATAT
1 ATATTAAATAT
21657732 ATATT
1 ATATT
21657737 TGATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:21661954 original size:8 final size:9
Alignment explanation
Indices: 21661930--21661957 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
21661920 TGGTTGAAGA
21661930 AAGAAAAAT
1 AAGAAAAAT
21661939 AAGAAAAAT
1 AAGAAAAAT
21661948 AAGAAAAAT
1 AAGAAAAAT
21661957 A
1 A
21661958 TTATAGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAGAAAAAT
Found at i:21662990 original size:13 final size:13
Alignment explanation
Indices: 21662965--21662999 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
21662955 TTCAGTCCTT
21662965 TACAGATACAGATA
1 TACAGA-ACAGATA
*
21662979 TGCAGAACAGATA
1 TACAGAACAGATA
21662992 TACAGAAC
1 TACAGAAC
21663000 CCTACCCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (13 bp):
TACAGAACAGATA
Found at i:21663470 original size:17 final size:18
Alignment explanation
Indices: 21663439--21663474 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21663429 GTGGCATGCT
21663439 CGTGTAGGCCCACACGCC
1 CGTGTAGGCCCACACGCC
*
21663457 CGTGT-GGCCTACACGCC
1 CGTGTAGGCCCACACGCC
21663474 C
1 C
21663475 AATATGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.14, C:0.44, G:0.28, T:0.14
Consensus pattern (18 bp):
CGTGTAGGCCCACACGCC
Found at i:21665622 original size:21 final size:21
Alignment explanation
Indices: 21665598--21665645 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
21665588 TCCATAAGGA
*
21665598 CGTGTGCCTTAGACATATGGC
1 CGTGTGCCTTAGACACATGGC
* * *
21665619 CGTGTCCCTTAGCCACATGGG
1 CGTGTGCCTTAGACACATGGC
21665640 CGTGTG
1 CGTGTG
21665646 AGATTTCCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (21 bp):
CGTGTGCCTTAGACACATGGC
Found at i:21666216 original size:21 final size:21
Alignment explanation
Indices: 21666190--21666242 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
21666180 TTTCAATTTC
*
21666190 CACATGGGCGTGTGCCTTAGA
1 CACATGGGCGTGTCCCTTAGA
** *
21666211 CACATGATCGTGTCCCTTAGC
1 CACATGGGCGTGTCCCTTAGA
21666232 CACATGGGCGT
1 CACATGGGCGT
21666243 CTGAGATTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (21 bp):
CACATGGGCGTGTCCCTTAGA
Found at i:21673568 original size:21 final size:21
Alignment explanation
Indices: 21673542--21673593 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
21673532 AGTGATCGTG
21673542 GTGGTGAATATGTTGAACCAT
1 GTGGTGAATATGTTGAACCAT
21673563 GTGGTGAATATGTTGAACCAT
1 GTGGTGAATATGTTGAACCAT
*
21673584 TTGGTGAATA
1 GTGGTGAATA
21673594 CTGTGCACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.35
Consensus pattern (21 bp):
GTGGTGAATATGTTGAACCAT
Found at i:21688562 original size:23 final size:24
Alignment explanation
Indices: 21688519--21688563 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
21688509 ATAAAATAAA
*
21688519 AAATATTAAAATATTTTATTATCT
1 AAATATTAAAATATTTGATTATCT
21688543 AAAT-TTAAAAT-TTATGATTAT
1 AAATATTAAAATATT-TGATTAT
21688564 TATTATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 13 0.68
24 4 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (24 bp):
AAATATTAAAATATTTGATTATCT
Found at i:21690239 original size:22 final size:23
Alignment explanation
Indices: 21690202--21690244 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21690192 AGCATATCAT
*
21690202 TATATTTTAAAAATTAAAATATA
1 TATATCTTAAAAATTAAAATATA
21690225 TATATCTT-AAAATTAAAATA
1 TATATCTTAAAAATTAAAATA
21690245 CTATTACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATATCTTAAAAATTAAAATATA
Found at i:21698725 original size:229 final size:226
Alignment explanation
Indices: 21698327--21698780 Score: 863
Period size: 229 Copynumber: 2.0 Consensus size: 226
21698317 AATAACCAGG
21698327 GTGTTACATTCATTGTACTTATCATGGTTTGAATCTTACTCTTAGTGATATGTCACATTCTTGCA
1 GTGTTACATTCATTGTACTTATCATGGTTTGAATCTTACTCTTAGTGATATGTCACATTCTTGCA
21698392 TTAGAGCTATTTATTTTTTTTTTGGAATTTTTTCAAAGCATATATTCATTATTTTCGGGTTCTAC
66 TTAGAGCTATTTATTTTTTTTTTGGAATTTTTTCAAAGCATATATTCATTATTTTCGGGTTCTAC
*
21698457 AAAAAGATGGAAAATTTTGCTCAACAATGTCATTGAATTAGCTGTGAAATTTTTATCTAATACTC
131 AAAAAGATGGAAAATTTTGCTCAACAATGTCATTGAATTAACTGTGAAATTTTTATCTAATACTC
21698522 GTTGGGCGAGTCAAATTAAAAGTGTTAAAGA
196 GTTGGGCGAGTCAAATTAAAAGTGTTAAAGA
21698553 GTGTTACATTCATTGTACTTATCATGGTTTGAATCTTACTCTTAGTGATATGTCACATTCTTGCA
1 GTGTTACATTCATTGTACTTATCATGGTTTGAATCTTACTCTTAGTGATATGTCACATTCTTGCA
*
21698618 TTAGAGCTATTTCTTTTTTTTTTTTTGGAATTTTTTCAAAGCATATATTCATTATTTTCGGGTTC
66 TTAGAGCTA--T-TTATTTTTTTTTTGGAATTTTTTCAAAGCATATATTCATTATTTTCGGGTTC
21698683 TACAAAAAGATGGAAAATTTTGCTCAACAATGTCATTGAATTAACTGTGAAATTTTTATCTAATA
128 TACAAAAAGATGGAAAATTTTGCTCAACAATGTCATTGAATTAACTGTGAAATTTTTATCTAATA
21698748 CTCGTTGGGCGAGTCAAATTAAAAGTGTTAAAG
193 CTCGTTGGGCGAGTCAAATTAAAAGTGTTAAAG
21698781 CTATTAGATT
Statistics
Matches: 223, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
226 74 0.33
228 1 0.00
229 148 0.66
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (226 bp):
GTGTTACATTCATTGTACTTATCATGGTTTGAATCTTACTCTTAGTGATATGTCACATTCTTGCA
TTAGAGCTATTTATTTTTTTTTTGGAATTTTTTCAAAGCATATATTCATTATTTTCGGGTTCTAC
AAAAAGATGGAAAATTTTGCTCAACAATGTCATTGAATTAACTGTGAAATTTTTATCTAATACTC
GTTGGGCGAGTCAAATTAAAAGTGTTAAAGA
Found at i:21703042 original size:9 final size:8
Alignment explanation
Indices: 21703024--21703112 Score: 56
Period size: 8 Copynumber: 10.8 Consensus size: 8
21703014 TTTTAGAAAC
21703024 TTTTATAT
1 TTTTATAT
21703032 TTTTCATAT
1 TTTT-ATAT
*
21703041 TTTTAAAT
1 TTTTATAT
* *
21703049 TATATACAT
1 T-TTTATAT
21703058 TTTTA-AT
1 TTTTATAT
* *
21703065 TTTAAGGAGT
1 TTTTA-TA-T
21703075 TTTTA-AT
1 TTTTATAT
* *
21703082 TTTCACAT
1 TTTTATAT
21703090 TTTTATGAT
1 TTTTAT-AT
21703099 TTTTATAT
1 TTTTATAT
21703107 TTTTAT
1 TTTTAT
21703113 TAGAAATAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
7 11 0.17
8 26 0.40
9 23 0.35
10 5 0.08
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (8 bp):
TTTTATAT
Found at i:21703044 original size:17 final size:16
Alignment explanation
Indices: 21703024--21703112 Score: 56
Period size: 17 Copynumber: 5.4 Consensus size: 16
21703014 TTTTAGAAAC
*
21703024 TTTTATATTTTTCATAT
1 TTTTATATTTTT-ACAT
* *
21703041 TTTTAAATTATATACAT
1 TTTTATATT-TTTACAT
* *
21703058 TTTTA-ATTTTAAGGAGT
1 TTTTATATTTTTA-CA-T
*
21703075 TTTTA-ATTTTCACAT
1 TTTTATATTTTTACAT
*
21703090 TTTTATGATTTTTATAT
1 TTTTAT-ATTTTTACAT
21703107 TTTTAT
1 TTTTAT
21703113 TAGAAATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
15 8 0.14
16 5 0.09
17 42 0.74
18 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTTATATTTTTACAT
Found at i:21704139 original size:16 final size:16
Alignment explanation
Indices: 21704118--21704152 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21704108 GGAAATGAAG
21704118 TTATTTATATATATAT
1 TTATTTATATATATAT
* *
21704134 TTATTTATTTATATTT
1 TTATTTATATATATAT
21704150 TTA
1 TTA
21704153 GAACAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATATATATAT
Found at i:21708228 original size:45 final size:45
Alignment explanation
Indices: 21708175--21708355 Score: 172
Period size: 45 Copynumber: 4.0 Consensus size: 45
21708165 CTTCAAAATT
*
21708175 AGTATCATTTTCAGATGCAGGATCAATCCTCTTTTCTTCCAAAAG
1 AGTATCATTTTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
* * * *
21708220 AGTATCATTATT-TGATGTAAGATCAATTCTCCTTTCTTCCAAAAG
1 AGTATCATT-TTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
* *
21708265 AG--T-ATTGTCAATGGATGCAAGATCAATCCTCTTTTCTTCCAAAAT
1 AGTATCATTTTC-A--GATGCAAGATCAATCCTCTTTTCTTCCAAAAG
* * * ** * *
21708310 AGTATCAGTTTCAGATGTAAGATTAATATTGTTTCCTTCCAAAAG
1 AGTATCATTTTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
21708355 A
1 A
21708356 ACTTGATCTG
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
45 95 0.88
46 2 0.02
47 2 0.02
48 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (45 bp):
AGTATCATTTTCAGATGCAAGATCAATCCTCTTTTCTTCCAAAAG
Found at i:21715690 original size:16 final size:16
Alignment explanation
Indices: 21715671--21715725 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
21715661 TTAGTTCATC
21715671 TTTTTTTCTTTTCTTT
1 TTTTTTTCTTTTCTTT
**
21715687 TTTTTTT-TTGGC-TT
1 TTTTTTTCTTTTCTTT
*
21715701 TTGTTTTCTTCTTCTTT
1 TTTTTTTCTT-TTCTTT
21715718 TGTTTTTT
1 T-TTTTTT
21715726 TGTTGTTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 8 0.28
15 5 0.17
16 8 0.28
17 3 0.10
18 5 0.17
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTTTTCTTT
Found at i:21715753 original size:3 final size:3
Alignment explanation
Indices: 21715747--21715790 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21715737 CAACACAAAG
21715747 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
21715791 CTTTGGATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:21716170 original size:4 final size:4
Alignment explanation
Indices: 21716144--21716226 Score: 98
Period size: 4 Copynumber: 21.2 Consensus size: 4
21716134 GTAATATTCC
* * * * * *
21716144 TGTA TGAA TGAA TGAA TGAA TGTA TGTA TGTA TGCA TGCA TG-- TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
21716190 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
21716227 AATGGTGGCC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
2 2 0.03
4 72 0.97
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.43
Consensus pattern (4 bp):
TGTA
Found at i:21722443 original size:17 final size:18
Alignment explanation
Indices: 21722406--21722443 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
21722396 AAAATACTAA
21722406 TTACGAAAATGTAACATAT
1 TTACGAAAA-GTAACATAT
*
21722425 TTACGAAAA-TAATATAT
1 TTACGAAAAGTAACATAT
21722442 TT
1 TT
21722444 TCTATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (18 bp):
TTACGAAAAGTAACATAT
Done.