Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 48 of 310
Found at i:14296373 original size:48 final size:48
Alignment explanation
Indices: 14296195--14296366 Score: 249
Period size: 48 Copynumber: 3.6 Consensus size: 48
14296185 CCTGATTTCC
14296195 AATATCATGGCCC-AACGCCAAATCAATGAAGCTCGCACCCGAAGTGCT
1 AATATCATGGCCCGAA-GCCAAATCAATGAAGCTCGCACCCGAAGTGCT
* * *
14296243 AATATCATGGCTCGAAGCCAAATCAATGAAGCTCGTACCTGAAGTGCT
1 AATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCT
* * *
14296291 AATATCATGGCCCAAATCCAAATCAATGTAA-CTCGCACCCAAAGTGCT
1 AATATCATGGCCCGAAGCCAAATCAATG-AAGCTCGCACCCGAAGTGCT
*
14296339 AATATCATCGCCCGAAGCCAAATCAATG
1 AATATCATGGCCCGAAGCCAAATCAATG
14296367 TAACTCGTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
48 106 0.96
49 4 0.04
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (48 bp):
AATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCGAAGTGCT
Found at i:14300670 original size:21 final size:21
Alignment explanation
Indices: 14300644--14300699 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
14300634 AACAGCAGTG
* *
14300644 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTATA
*
14300665 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTAGATACTATA
14300686 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
14300700 AACAATGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:14308431 original size:22 final size:22
Alignment explanation
Indices: 14308404--14308458 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
14308394 GTCCAGGGCG
14308404 CACGGGCGTGTTCCTGCGTCCA
1 CACGGGCGTGTTCCTGCGTCCA
14308426 CACGGGCGTGTTCCTGCGTCCA
1 CACGGGCGTGTTCCTGCGTCCA
14308448 CACGGGCGTGT
1 CACGGGCGTGT
14308459 AACCGGGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.09, C:0.35, G:0.35, T:0.22
Consensus pattern (22 bp):
CACGGGCGTGTTCCTGCGTCCA
Found at i:14319700 original size:62 final size:61
Alignment explanation
Indices: 14319616--14319786 Score: 207
Period size: 62 Copynumber: 2.8 Consensus size: 61
14319606 AATCCAAAAT
* *
14319616 AGTGAGTTACACAACCTGGACACACGTCCATGTCCCTAGCCCATGTGACCAGAAATACAAAC
1 AGTGAGTTACACGACCTAGACACACG-CCATGTCCCTAGCCCATGTGACCAGAAATACAAAC
** * * * *
14319678 AGTGAGTTACACGTTCTAGACACACGCCCGTGTCCCTGGCTCGTGTGACCAGAAATACAAAC
1 AGTGAGTTACACGACCTAGACACACG-CCATGTCCCTAGCCCATGTGACCAGAAATACAAAC
* * * *
14319740 AATGAGTTAAACGACCTAGACACACGCCTCTGTCCCTAGCCTATGTG
1 AGTGAGTTACACGACCTAGACACACGCC-ATGTCCCTAGCCCATGTG
14319787 CCTCCAATTC
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 2 0.02
62 88 0.98
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (61 bp):
AGTGAGTTACACGACCTAGACACACGCCATGTCCCTAGCCCATGTGACCAGAAATACAAAC
Found at i:14319910 original size:12 final size:12
Alignment explanation
Indices: 14319893--14319924 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
14319883 GGACCAGAAA
14319893 GTATATAAAAAT
1 GTATATAAAAAT
14319905 GTATATAAAAAT
1 GTATATAAAAAT
*
14319917 GTACATAA
1 GTATATAA
14319925 CAAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (12 bp):
GTATATAAAAAT
Found at i:14320700 original size:7 final size:7
Alignment explanation
Indices: 14320688--14320712 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14320678 TAGTCCTTCC
14320688 CTTTTTT
1 CTTTTTT
14320695 CTTTTTT
1 CTTTTTT
14320702 CTTTTTT
1 CTTTTTT
14320709 CTTT
1 CTTT
14320713 CCTTTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:14328384 original size:29 final size:29
Alignment explanation
Indices: 14328328--14328386 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
14328318 GCGAACACAA
* *
14328328 TGGCTGCTAACTCTAAATCATGCGTCGTG
1 TGGCTGCTAACTCTAAAACATGCATCGTG
*
14328357 TGGCTGCTAACTCTAAAACGTGCATCGTG
1 TGGCTGCTAACTCTAAAACATGCATCGTG
14328386 T
1 T
14328387 AATTCTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (29 bp):
TGGCTGCTAACTCTAAAACATGCATCGTG
Found at i:14332652 original size:53 final size:50
Alignment explanation
Indices: 14332589--14332691 Score: 134
Period size: 53 Copynumber: 2.0 Consensus size: 50
14332579 GGTCGTTAAG
* * *
14332589 ACCCTAGTTTGTCAAATTACCAAAATACTCCTGATTTGTAAAATTACTAAAAT
1 ACCCTAGTTTGTAAAATTACCAAAATAC-CCT--TGTGTAAAATTACCAAAAT
* *
14332642 ACCCTAGTTTGTAAAATTATCAAATTACCCTTGTGTAAAATTACCAAAAT
1 ACCCTAGTTTGTAAAATTACCAAAATACCCTTGTGTAAAATTACCAAAAT
14332692 GCACTTGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 17 0.38
52 3 0.07
53 25 0.56
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (50 bp):
ACCCTAGTTTGTAAAATTACCAAAATACCCTTGTGTAAAATTACCAAAAT
Found at i:14332659 original size:26 final size:25
Alignment explanation
Indices: 14332589--14332691 Score: 118
Period size: 26 Copynumber: 4.0 Consensus size: 25
14332579 GGTCGTTAAG
*
14332589 ACCCTAGTTTGTCAAATTACCAAAAT
1 ACCCT-GTTTGTAAAATTACCAAAAT
*
14332615 ACTCCTGATTTGTAAAATTACTAAAAT
1 AC-CCTG-TTTGTAAAATTACCAAAAT
* *
14332642 ACCCTAGTTTGTAAAATTATCAAATT
1 ACCCT-GTTTGTAAAATTACCAAAAT
*
14332668 ACCCT-TGTGTAAAATTACCAAAAT
1 ACCCTGTTTGTAAAATTACCAAAAT
14332692 GCACTTGTAG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
24 16 0.24
26 27 0.41
27 23 0.35
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (25 bp):
ACCCTGTTTGTAAAATTACCAAAAT
Found at i:14336103 original size:27 final size:26
Alignment explanation
Indices: 14336064--14336163 Score: 128
Period size: 27 Copynumber: 3.8 Consensus size: 26
14336054 TAAGACCTCA
14336064 GTTTGTAAAATTACCGAAATACCCTT
1 GTTTGTAAAATTACCGAAATACCCTT
* *
14336090 GATTTGTAAAATTACAGAAATACCCTG
1 G-TTTGTAAAATTACCGAAATACCCTT
* *
14336117 GTTTGTAAAATTATCGAATTACCCTT
1 GTTTGTAAAATTACCGAAATACCCTT
* *
14336143 GTAGTGTAAAATTACCAAAAT
1 GT-TTGTAAAATTACCGAAAT
14336164 GCACCTGTAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.39
27 38 0.61
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
GTTTGTAAAATTACCGAAATACCCTT
Found at i:14337212 original size:40 final size:40
Alignment explanation
Indices: 14337180--14337367 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
14337170 TCCAGTACGA
* *
14337180 AACCTGCGGGTCTTTAAACCCGGATACAATTCCATCATAT
1 AACCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACAT
* * * *
14337220 AGCCTGCGGGTCTTTAAACCCGGATACAACTCCAACATAT
1 AACCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACAT
* * * *
14337260 AGCCTGCAGGTCTTTAAACCCGGATACATTTCCAGCATAT
1 AACCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACAT
* *
14337300 AGCCTGCGGGTCTTTAAACCCGGATACTATTCCAGCACGA-
1 AACCTGCGGGTCTTTAAACCCGGATACAATTCCAGCAC-AT
* *
14337340 AGCCTGCGGGTCTTTAAGCCCGGATACA
1 AACCTGCGGGTCTTTAAACCCGGATACA
14337368 CACATCAAAT
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 133 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AACCTGCGGGTCTTTAAACCCGGATACAATTCCAGCACAT
Found at i:14337273 original size:80 final size:80
Alignment explanation
Indices: 14337176--14337367 Score: 287
Period size: 80 Copynumber: 2.4 Consensus size: 80
14337166 CCATTCCAGT
* *
14337176 ACGAAACCTGCGGGTCTTTAAACCCGGATACAATTCCATCATATAGCCTGCGGGTCTTTAAACCC
1 ACGAAGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAAACCC
14337241 GGATACAACTCCAAC
66 GGATACAACTCCAAC
* * *
14337256 A-TATAGCCTGCAGGTCTTTAAACCCGGATACATTTCCAGCATATAGCCTGCGGGTCTTTAAACC
1 ACGA-AGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAAACC
* * *
14337320 CGGATACTATTCCAGC
65 CGGATACAACTCCAAC
*
14337336 ACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ACGAAGCCTGCGGGTCTTTAAACCCGGATACA
14337368 CACATCAAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 97 0.98
81 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
ACGAAGCCTGCGGGTCTTTAAACCCGGATACAATTCCAGCATATAGCCTGCGGGTCTTTAAACCC
GGATACAACTCCAAC
Found at i:14340547 original size:17 final size:18
Alignment explanation
Indices: 14340525--14340565 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14340515 TTTTACTCAA
* *
14340525 GTTTTCAAATAAGA-AGG
1 GTTTTCAAAGAAAATAGG
14340542 GTTTTCAAAGAAAATAGG
1 GTTTTCAAAGAAAATAGG
14340560 GTTTTC
1 GTTTTC
14340566 GAAAAACACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (18 bp):
GTTTTCAAAGAAAATAGG
Found at i:14342019 original size:16 final size:15
Alignment explanation
Indices: 14341998--14342027 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14341988 ATTATTATGT
14341998 CATTTTAACCATTTAC
1 CATTTTAACC-TTTAC
14342014 CATTTTAACCTTTA
1 CATTTTAACCTTTA
14342028 ATAACATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
CATTTTAACCTTTAC
Found at i:14345276 original size:40 final size:40
Alignment explanation
Indices: 14345200--14345317 Score: 139
Period size: 40 Copynumber: 2.9 Consensus size: 40
14345190 AATGAAGCTT
* * * * *
14345200 ATAATTTTAGTTTAATAATTGAGTTGTTGGATTTTATTAAA
1 ATAATCTTAG-TTAATTATTGATTTGCTGGACTTTATTAAA
*
14345241 ATAATCTTAGTTAATTCTTGATTTGCTGGACTTTATTAAA
1 ATAATCTTAGTTAATTATTGATTTGCTGGACTTTATTAAA
* *
14345281 CTCATCTTAGTTAATTATTGATTTGCAT-GACTTTATT
1 ATAATCTTAGTTAATTATTGATTTGC-TGGACTTTATT
14345318 TTTATTACAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 57 0.85
41 10 0.15
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.50
Consensus pattern (40 bp):
ATAATCTTAGTTAATTATTGATTTGCTGGACTTTATTAAA
Found at i:14347490 original size:17 final size:16
Alignment explanation
Indices: 14347468--14347510 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14347458 AAATTGAAAG
*
14347468 AAGAAAAAGAGATATGA
1 AAGAAAAAGA-AAATGA
*
14347485 AAGAAAAATAAAATGA
1 AAGAAAAAGAAAATGA
*
14347501 AAAAAAAAGA
1 AAGAAAAAGA
14347511 TTGTGAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.09
Consensus pattern (16 bp):
AAGAAAAAGAAAATGA
Found at i:14349298 original size:40 final size:40
Alignment explanation
Indices: 14349254--14349348 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
14349244 AATACTTGAG
14349254 TTGCTGGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
1 TTGCTGGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
* * * *
14349294 TTGCTAGATTTTATTAAACTCATCTTAGTTAATTTTTGAT
1 TTGCTGGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
* *
14349334 CTACTGGACTTTATT
1 TTGCTGGACTTTATT
14349349 TTTATTACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (40 bp):
TTGCTGGACTTTATTAAACTCATCTTAGTTAATTCTTAAT
Found at i:14351967 original size:56 final size:56
Alignment explanation
Indices: 14351656--14351958 Score: 426
Period size: 56 Copynumber: 5.4 Consensus size: 56
14351646 TTTTTAGCAC
** * *
14351656 CGATATGTGATTTTGATATGTGTGTGCGAGTAAGACCACATTTAATAAGTTGGCAT
1 CGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
* * * * * *
14351712 CAACATGTGATACAGATATGTGTTTGCGAGTAAGGCCACGTTTAATACGTTGGCAT
1 CGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
* ** *
14351768 CAATATGTGATTCTAATATGTGTGTGCGAGTAAGACCACGTTTCATACGTTGGCAT
1 CGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
*
14351824 CGATATGTGATTCCGATATGTGTGTGTGAGTAAGACCACGTTTAATACGTTGGCAT
1 CGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
*
14351880 CGATATGTGATTTCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
1 CGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
* * * *
14351936 TGATATATAATTCCGTTATGTGT
1 CGATATGTGATTCCGATATGTGT
14351959 TTATGAGTAG
Statistics
Matches: 219, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 219 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (56 bp):
CGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATACGTTGGCAT
Found at i:14352560 original size:29 final size:29
Alignment explanation
Indices: 14352518--14352577 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
14352508 CTTTTATTTG
14352518 CTTATGACTTACTAAGCTGTGATAGCTTA
1 CTTATGACTTACTAAGCTGTGATAGCTTA
14352547 CTTATGACTTACTAAGCTGTGATAGCTTA
1 CTTATGACTTACTAAGCTGTGATAGCTTA
14352576 CT
1 CT
14352578 GTGTGTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTATGACTTACTAAGCTGTGATAGCTTA
Found at i:14353771 original size:9 final size:9
Alignment explanation
Indices: 14353750--14353782 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
14353740 AGATATGTTT
14353750 TTTATTT-A
1 TTTATTTGA
14353758 TTTATTTGA
1 TTTATTTGA
*
14353767 TTTATATGA
1 TTTATTTGA
14353776 TTTATTT
1 TTTATTT
14353783 ACGGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (9 bp):
TTTATTTGA
Found at i:14354892 original size:32 final size:34
Alignment explanation
Indices: 14354856--14354920 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
14354846 TAACAGTGGT
*
14354856 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
14354888 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
14354921 TGACCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:14356795 original size:26 final size:26
Alignment explanation
Indices: 14356765--14356820 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
14356755 TGAAATTCCC
*
14356765 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACACATT
14356791 ATCATGGAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAACACATT
14356817 ATCA
1 ATCA
14356821 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACACATT
Found at i:14361952 original size:32 final size:34
Alignment explanation
Indices: 14361916--14361980 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
14361906 TAACAGTGGT
*
14361916 ACTGGACCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
* **
14361948 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGACCAGAGCCCCTTATTCAGATAACAATA
14361981 TGACCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
ACTGGACCAGAGCCCCTTATTCAGATAACAATAA
Found at i:14362273 original size:22 final size:22
Alignment explanation
Indices: 14362245--14362298 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
14362235 TGCATCAGAT
*
14362245 AATAACAACATGGCATGCAGTA
1 AATAACAACATGGCATGCAGCA
14362267 AATAACAACATGGCATGCAGCA
1 AATAACAACATGGCATGCAGCA
14362289 AATAACAACA
1 AATAACAACA
14362299 GTCAAACATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.50, C:0.20, G:0.15, T:0.15
Consensus pattern (22 bp):
AATAACAACATGGCATGCAGCA
Found at i:14363885 original size:26 final size:26
Alignment explanation
Indices: 14363855--14363910 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
14363845 TGAAATTCCC
14363855 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14363881 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14363907 ATCA
1 ATCA
14363911 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14364570 original size:5 final size:5
Alignment explanation
Indices: 14364560--14364585 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14364550 CAAGTTATAC
14364560 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
14364586 CTGATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:14367952 original size:33 final size:33
Alignment explanation
Indices: 14367914--14367980 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
14367904 TGTGTGAGTA
*
14367914 AGACCACGTTTAATACGTTGGCGTCGATATGTG
1 AGACCACGTTTAATACGTTGGCATCGATATGTG
14367947 AGACCACGTTTAATACGTTGGCATCGATATGTG
1 AGACCACGTTTAATACGTTGGCATCGATATGTG
14367980 A
1 A
14367981 TTTCGGTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (33 bp):
AGACCACGTTTAATACGTTGGCATCGATATGTG
Found at i:14370487 original size:43 final size:43
Alignment explanation
Indices: 14370376--14370490 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
14370366 AATGCGATAT
* * * * *
14370376 CCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTGC
1 CCCAGACATGGTCTTACATGTAATCACATAACAATGCCAATGC
* * * * *
14370419 CCCAAACAGGGTCTTACACGAAATCA-ATTAACAATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACA-TAACAATGCCAATGC
*
14370462 CTCAGACATGGTCTTACATGTAATCACAT
1 CCCAGACATGGTCTTACATGTAATCACAT
14370491 CTCGATAACC
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
42 1 0.02
43 53 0.96
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGTAATCACATAACAATGCCAATGC
Found at i:14382545 original size:8 final size:8
Alignment explanation
Indices: 14382532--14382562 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14382522 CTAGATCGGC
14382532 AAAAGCCG
1 AAAAGCCG
14382540 AAAAGCCG
1 AAAAGCCG
*
14382548 AAATGCCG
1 AAAAGCCG
14382556 AAAAGCC
1 AAAAGCC
14382563 AGCATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:14383217 original size:20 final size:20
Alignment explanation
Indices: 14383174--14383221 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14383164 GCTGTTTTGT
14383174 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
14383194 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
14383213 TAT-GGCCAA
1 TATGGGCCAA
14383222 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:14385042 original size:42 final size:42
Alignment explanation
Indices: 14384977--14385071 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
14384967 ACAAGGGTTT
14384977 TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
1 TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
* *
14385019 TCATACGGCCATACACACGCCCGTGTCAATGGCCCGTGTCCC
1 TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
14385061 TCACACGGCCA
1 TCACACGGCCA
14385072 CGACATGCCC
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:0.20, C:0.43, G:0.20, T:0.17
Consensus pattern (42 bp):
TCACACGGCCATACACACCCCCGTGTCAATGGCCCGTGTCCC
Found at i:14386300 original size:46 final size:46
Alignment explanation
Indices: 14386014--14386329 Score: 227
Period size: 46 Copynumber: 6.7 Consensus size: 46
14386004 GGGTATAATA
*
14386014 CCGATGCCATGTCCCAGACATAGTCTTACACT-AGCTCATTCATCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCA-TC-TCAATG
* * * **
14386061 TCGATGCCATGTCCCAGACAT-GTTTTACACTAACT-ATCGAAATTGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCTCAA-T---G
* * * * *
14386109 ACGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATGTCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACT--CATCTCAATG
* *
14386159 CCGATGCCATGTCCCAGATATGGTCTTACACTGACACATCTC-ATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCTCAAT-G
* * * * * *
14386205 CCGATG-CATGTCCCAAACAT-GTCTCACTCTGGCTTACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC-T-CATCTCAATG
*
14386251 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGAACTCGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCTCAATG
* *
14386297 CCGATGCCATGTCCCAAACATGGTCATACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
14386330 GCTCTCATAA
Statistics
Matches: 214, Mismatches: 35, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 15 0.07
46 70 0.33
47 38 0.18
48 31 0.14
49 10 0.05
50 30 0.14
51 2 0.01
53 1 0.00
54 3 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCTCAATG
Found at i:14386354 original size:94 final size:91
Alignment explanation
Indices: 14386114--14386376 Score: 266
Period size: 94 Copynumber: 2.8 Consensus size: 91
14386104 TGAGGACGAC
* * * * *
14386114 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATGTCCATGCCGATGCCATGTCCCAGATA
1 GCCATGTCCCAAACATGGTC-TACACTGGCTCTCATATGT---GGCCGATG-CATGTCCCAGACA
14386179 TGGTCTTACACT-GACACATCTCATAGCCGAT
61 T-GTCTTACACTAGACACATCTCATAGCCGAT
* * *
14386210 G-CATGTCCCAAACAT-GTCTCACTCTGGCT-TACATCTCGAGGCCGATGCATGTCCCAGACATG
1 GCCATGTCCCAAACATGGTCT-ACACTGGCTCT-CATAT-GTGGCCGATGCATGTCCCAGACATG
* *
14386272 TCTTACACTAGAACTCGTCTCA-ATGCCGAT
63 TCTTACACTAG-ACACATCTCATA-GCCGAT
* *
14386302 GCCATGTCCCAAACATGGTCATACACTGGCTCTCATAATGTGGTCGATGCATGTCCCAAACATGT
1 GCCATGTCCCAAACATGGTC-TACACTGGCTCTCAT-ATGTGGCCGATGCATGTCCCAGACATGT
14386367 CTTACACTAG
64 CTTACACTAG
14386377 CTCACACAAG
Statistics
Matches: 141, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
90 10 0.07
91 15 0.11
92 22 0.16
93 16 0.11
94 60 0.43
95 17 0.12
96 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (91 bp):
GCCATGTCCCAAACATGGTCTACACTGGCTCTCATATGTGGCCGATGCATGTCCCAGACATGTCT
TACACTAGACACATCTCATAGCCGAT
Found at i:14390986 original size:13 final size:13
Alignment explanation
Indices: 14390968--14390994 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14390958 CAGCTTCCGT
14390968 AAAAGTATCATAG
1 AAAAGTATCATAG
14390981 AAAAGTATCATAG
1 AAAAGTATCATAG
14390994 A
1 A
14390995 GATTCACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (13 bp):
AAAAGTATCATAG
Found at i:14391752 original size:35 final size:35
Alignment explanation
Indices: 14391701--14391921 Score: 239
Period size: 35 Copynumber: 6.2 Consensus size: 35
14391691 TTTAAACTCA
* * *
14391701 TCTAAGGCAACCTTAAAAAGGTTGGGAAAGACCCG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACCCG
* * *
14391736 TCTAAGACAACTTTAAAAAGGTTGGGATAGACCATG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACC-CG
* *
14391772 TCTAAGGCAACCTTTAAAAAAAGTTGAGATAGACTCG
1 TCTAAGGCAA-CTTT-AAAAAAGTTGGGATAGACCCG
* * * *
14391809 --TAAGGCAACATTAAAAAAGTTGAGATAAACCTTG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACC-CG
*
14391843 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCT
1 TCTAAGGCAA-CTTTAAAAAA-GTTGGGATAGACCCG
* *
14391880 TCTAAGGCAACCTTAAAAAAGTTGGGATAGACACG
1 TCTAAGGCAACTTTAAAAAAGTTGGGATAGACCCG
14391915 TCTAAGG
1 TCTAAGG
14391922 TAATTTTTTT
Statistics
Matches: 157, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
33 17 0.11
34 4 0.03
35 58 0.37
36 27 0.17
37 24 0.15
38 27 0.17
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (35 bp):
TCTAAGGCAACTTTAAAAAAGTTGGGATAGACCCG
Found at i:14391823 original size:71 final size:71
Alignment explanation
Indices: 14391701--14391921 Score: 261
Period size: 71 Copynumber: 3.1 Consensus size: 71
14391691 TTTAAACTCA
* * * * *
14391701 TCTAAGGCAACC-TT-AAAAAGGTTGGGAAAGACCCGTCTAAGACAACTTTAAAAAGGTTGGGAT
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTCG--TAAGGCAACATTAAAAAAGTTGGGAT
14391764 AGACCATG
64 AGACCATG
* * * *
14391772 TCTAAGGCAACCTTTAAAAAAAGTTGAGATAGACTCGTAAGGCAACATTAAAAAAGTTGAGATAA
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTCGTAAGGCAACATTAAAAAAGTTGGGATAG
*
14391837 ACCTTG
66 ACCATG
*
14391843 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCCTTC-TAAGGCAACCTTAAAAAAGTTGGGA
1 TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA--C-TCGTAAGGCAACATTAAAAAAGTTGGGA
*
14391907 TAGA-CACG
63 TAGACCATG
14391915 TCTAAGG
1 TCTAAGG
14391922 TAATTTTTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
71 71 0.55
72 11 0.09
73 44 0.34
74 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (71 bp):
TCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTCGTAAGGCAACATTAAAAAAGTTGGGATAG
ACCATG
Found at i:14397632 original size:20 final size:20
Alignment explanation
Indices: 14397590--14397632 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
14397580 CATGGATGTA
*
14397590 TATGCTAGAAATTAGAAATT
1 TATGCTAGAAAATAGAAATT
*
14397610 TATGGTAGAAAAT-GAAATAT
1 TATGCTAGAAAATAGAAAT-T
14397630 TAT
1 TAT
14397633 TGATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATAGAAATT
Found at i:14397736 original size:20 final size:20
Alignment explanation
Indices: 14397691--14397728 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14397681 TAGGGACTAA
* *
14397691 AATGAAAAGTTGTAAAATTT
1 AATGAAAAATTCTAAAATTT
14397711 AATGAAAAATTCTAAAAT
1 AATGAAAAATTCTAAAAT
14397729 GTTATGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (20 bp):
AATGAAAAATTCTAAAATTT
Found at i:14398412 original size:57 final size:58
Alignment explanation
Indices: 14398275--14398424 Score: 162
Period size: 57 Copynumber: 2.6 Consensus size: 58
14398265 TATTAACCAT
* * * * *
14398275 GTTATAGAAAGGATTTAGCCCGGACGGGTAATCCTGATATAATACCTCTCGAGCATAC
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAATACCTCTCGAGCATAC
* * * * *
14398333 GATATGAT-TAGGGTTTAGCCTGGACTGGTAATCCTAATCGAGCT-CCTCT-GAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGA-ATACCTCTCGAGCATAC
*
14398390 GTTATATAAAGGATTTAACCTGGACTGGTAATCCT
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCT
14398425 GTTATAGGAT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
56 2 0.03
57 36 0.48
58 35 0.47
59 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTAATAGAATACCTCTCGAGCATAC
Found at i:14398478 original size:42 final size:42
Alignment explanation
Indices: 14398410--14398493 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
14398400 GGATTTAACC
* *
14398410 TGGACTGGTAATCCTGTTATAGGATATGTGGCTCGAAAGAGT
1 TGGACTGGTAATCCTATTATACGATATGTGGCTCGAAAGAGT
* * *
14398452 TGGAGTGGTAATCCTATTATACGATATGTGGCTTGAGAGAGT
1 TGGACTGGTAATCCTATTATACGATATGTGGCTCGAAAGAGT
14398494 GTTTCTTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.32
Consensus pattern (42 bp):
TGGACTGGTAATCCTATTATACGATATGTGGCTCGAAAGAGT
Found at i:14402953 original size:5 final size:5
Alignment explanation
Indices: 14402945--14402977 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
14402935 TCCTTCCTTT
*
14402945 CTGTT CTGTC CTGTC CTGTC CTGTC CTGTC CTG
1 CTGTC CTGTC CTGTC CTGTC CTGTC CTGTC CTG
14402978 CGCTGCTCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.36, G:0.21, T:0.42
Consensus pattern (5 bp):
CTGTC
Found at i:14403683 original size:3 final size:3
Alignment explanation
Indices: 14403677--14403702 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14403667 TACAAAAAAA
14403677 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
14403703 ATCACCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14405701 original size:12 final size:14
Alignment explanation
Indices: 14405683--14405714 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
14405673 ATTTTAACCT
14405683 TACTAAA-TATTTA
1 TACTAAATTATTTA
14405696 -ACTAAATTATTTA
1 TACTAAATTATTTA
14405709 TACTAA
1 TACTAA
14405715 TTTAGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 6 0.35
14 5 0.29
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (14 bp):
TACTAAATTATTTA
Found at i:14405724 original size:23 final size:21
Alignment explanation
Indices: 14405698--14405756 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
14405688 AATATTTAAC
14405698 TAAATTATTTATACTAATTTAGT
1 TAAATTATTTATACT-ATTTA-T
14405721 TAAATTA--TATACTATTTAT
1 TAAATTATTTATACTATTTAT
*
14405740 TACAAATGATTTATACT
1 T--AAATTATTTATACT
14405757 TGGCCAACGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 11 0.35
23 13 0.42
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (21 bp):
TAAATTATTTATACTATTTAT
Found at i:14411510 original size:10 final size:10
Alignment explanation
Indices: 14411497--14411530 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
14411487 ATAAAATCTA
14411497 TAAATTTTAT
1 TAAATTTTAT
14411507 TAAATTTTAT
1 TAAATTTTAT
14411517 TAAATTTTAT
1 TAAATTTTAT
14411527 TAAA
1 TAAA
14411531 AATTAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAAATTTTAT
Found at i:14411551 original size:19 final size:19
Alignment explanation
Indices: 14411524--14411571 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
14411514 TATTAAATTT
14411524 TATTAAAAATTAG-AAAAAAA
1 TATTAAAAA--AGTAAAAAAA
14411544 TA-TAAAAAAGTAAAAAAA
1 TATTAAAAAAGTAAAAAAA
14411562 TATTAAAAAA
1 TATTAAAAAA
14411572 TTGTAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.08
18 9 0.35
19 13 0.50
20 2 0.08
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
TATTAAAAAAGTAAAAAAA
Found at i:14411589 original size:28 final size:28
Alignment explanation
Indices: 14411537--14411628 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
14411527 TAAAAATTAG
* * *
14411537 AAAAAAATATAAAAAAGTAAAAAAATATT
1 AAAAAATTATAAAATA-TAATAAAATATT
* * * *
14411566 AAAAAATTGTAAATTTTTATAAAAT-TGT
1 AAAAAATTATAAAATATAATAAAATAT-T
14411594 AAAAAATTATAAAATATAATAAAA-ATT
1 AAAAAATTATAAAATATAATAAAATATT
*
14411621 ATAAAATT
1 AAAAAATT
14411629 TTATAAAGTC
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
27 9 0.18
28 29 0.59
29 11 0.22
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAAATTATAAAATATAATAAAATATT
Found at i:14411632 original size:10 final size:10
Alignment explanation
Indices: 14411558--14411635 Score: 60
Period size: 9 Copynumber: 8.3 Consensus size: 10
14411548 AAAAAGTAAA
14411558 AAAATATTA-
1 AAAATATTAT
*
14411567 AAAA-ATTGT
1 AAAATATTAT
* *
14411576 AAATTTTTAT
1 AAAATATTAT
14411586 AAAAT-TGTA-
1 AAAATAT-TAT
14411595 AAAA-ATTAT
1 AAAATATTAT
*
14411604 AAAATATAAT
1 AAAATATTAT
14411614 AAAA-ATTAT
1 AAAATATTAT
*
14411623 AAAATTTTAT
1 AAAATATTAT
14411633 AAA
1 AAA
14411636 GTCAAAAGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
8 5 0.09
9 25 0.46
10 24 0.44
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
AAAATATTAT
Found at i:14411634 original size:19 final size:19
Alignment explanation
Indices: 14411582--14411635 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
14411572 TTGTAAATTT
*
14411582 TTATAAAATTGTA-AAAAA
1 TTATAAAATTTTATAAAAA
* *
14411600 TTATAAAATATAATAAAAA
1 TTATAAAATTTTATAAAAA
14411619 TTATAAAATTTTATAAA
1 TTATAAAATTTTATAAA
14411636 GTCAAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TTATAAAATTTTATAAAAA
Found at i:14411854 original size:19 final size:19
Alignment explanation
Indices: 14411830--14411885 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
14411820 GAGGTCATTC
14411830 ATTTTTTATGATTTTTATA
1 ATTTTTTATGATTTTTATA
*
14411849 ATTTTTT-TCAATTTTTAT-
1 ATTTTTTAT-GATTTTTATA
* *
14411867 -TTTTTAATGATATTTATA
1 ATTTTTTATGATTTTTATA
14411885 A
1 A
14411886 AAAAATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 15 0.52
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.66
Consensus pattern (19 bp):
ATTTTTTATGATTTTTATA
Found at i:14411937 original size:18 final size:19
Alignment explanation
Indices: 14411916--14411964 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
14411906 ATTTTAAAGT
14411916 TTTATATTTTTAT-TAAAA
1 TTTATATTTTTATCTAAAA
* *
14411934 TTTATTTTTTTTTCTAAAA
1 TTTATATTTTTATCTAAAA
14411953 TTTAATATTTTT
1 TTT-ATATTTTT
14411965 CTAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 8 0.31
20 7 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATTTTTATCTAAAA
Found at i:14411965 original size:18 final size:19
Alignment explanation
Indices: 14411918--14411973 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
14411908 TTTAAAGTTT
*
14411918 TATATTTTTATTAAAATTTA
1 TATATTTTT-CTAAAATTTA
* *
14411938 TTTTTTTTTCTAAAATTTA
1 TATATTTTTCTAAAATTTA
*
14411957 -ATATTTTTCTAATATTT
1 TATATTTTTCTAAAATTT
14411974 TTCCTAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 14 0.47
19 9 0.30
20 7 0.23
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTTTTCTAAAATTTA
Found at i:14412092 original size:87 final size:88
Alignment explanation
Indices: 14412001--14412167 Score: 219
Period size: 88 Copynumber: 1.9 Consensus size: 88
14411991 GAGTAGGGGC
* * **
14412001 TTAATTGC-TTTTTTGAAAAATTTTGAGGGTCTTTTTTATACATTTTGAAAGTTCAAGTGCCCAA
1 TTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTGAATACATTTTGAAAGTTCAAGTGCCCAA
* * *
14412065 TTGAGTGAAAAAAAAGCAAGGGA
66 GTAAATGAAAAAAAAGCAAGGGA
* ** * *
14412088 TTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTGAATGTATTTTGAAAGTTTAAGTGCTCAA
1 TTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTGAATACATTTTGAAAGTTCAAGTGCCCAA
14412153 GTAAATGAAAAAAAA
66 GTAAATGAAAAAAAA
14412168 AAAGAAAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 8 0.12
88 59 0.88
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.38
Consensus pattern (88 bp):
TTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTGAATACATTTTGAAAGTTCAAGTGCCCAA
GTAAATGAAAAAAAAGCAAGGGA
Found at i:14414921 original size:26 final size:26
Alignment explanation
Indices: 14414887--14414941 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
14414877 ATGCACTGTT
14414887 ATGAAACTAACTTGATGAATGAGTGC
1 ATGAAACTAACTTGATGAATGAGTGC
*
14414913 ATGAGACTAACTTGATGAATGAGTGC
1 ATGAAACTAACTTGATGAATGAGTGC
14414939 ATG
1 ATG
14414942 TGATAGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (26 bp):
ATGAAACTAACTTGATGAATGAGTGC
Found at i:14417194 original size:24 final size:22
Alignment explanation
Indices: 14417162--14417220 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
14417152 TGATTCATTC
14417162 CAGTGAGATTAAAAATTGTAAT
1 CAGTGAGATTAAAAATTGTAAT
***
14417184 GACAGTGAGATTAGTTATTGTAAT
1 --CAGTGAGATTAAAAATTGTAAT
14417208 -AGTGAGATTAAAA
1 CAGTGAGATTAAAA
14417221 TCAAAGGTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (22 bp):
CAGTGAGATTAAAAATTGTAAT
Found at i:14418167 original size:31 final size:30
Alignment explanation
Indices: 14418132--14418204 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
14418122 TGATCAAATT
* *
14418132 AAAGTATAAGGATTAAATCCACAATTTCCAC
1 AAAGTA-AAGGACTAAATACACAATTTCCAC
* *
14418163 AAAGTAAAGGGGACTAAATACATAATTTTCAC
1 AAAGTAAA--GGACTAAATACACAATTTCCAC
14418195 AAAGTAAAGG
1 AAAGTAAAGG
14418205 GAGTAATAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 4 0.11
31 6 0.17
32 26 0.72
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (30 bp):
AAAGTAAAGGACTAAATACACAATTTCCAC
Found at i:14418190 original size:32 final size:32
Alignment explanation
Indices: 14418145--14418205 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
14418135 GTATAAGGAT
*
14418145 TAAATCCACAATTTCCACAAAGTAAAGGGGAC
1 TAAATACACAATTTCCACAAAGTAAAGGGGAC
* *
14418177 TAAATACATAATTTTCACAAAGTAAAGGG
1 TAAATACACAATTTCCACAAAGTAAAGGG
14418206 AGTAATAGCC
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:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (32 bp):
TAAATACACAATTTCCACAAAGTAAAGGGGAC
Found at i:14418923 original size:20 final size:20
Alignment explanation
Indices: 14418895--14418934 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14418885 TTCTAACATC
* *
14418895 CTTAGAAATATTAGTAAATT
1 CTTAAAAATATTAATAAATT
14418915 CTTAAAAATATTAATAAATT
1 CTTAAAAATATTAATAAATT
14418935 GTTAGATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
CTTAAAAATATTAATAAATT
Found at i:14420022 original size:19 final size:20
Alignment explanation
Indices: 14419996--14420045 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
14419986 TGTTATTTGT
14419996 TTAA-AATTTTTTATTGT-A
1 TTAATAATTTTTTATTGTAA
*
14420014 TTGATAA-TTTTTATTGTAA
1 TTAATAATTTTTTATTGTAA
14420033 TTAAT-ATTTTTTA
1 TTAATAATTTTTTA
14420046 AAATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTAATAATTTTTTATTGTAA
Found at i:14420024 original size:18 final size:19
Alignment explanation
Indices: 14420003--14420045 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14419993 TGTTTAAAAT
*
14420003 TTTTTATTGT-ATTGATAA
1 TTTTTATTGTAATTAATAA
*
14420021 TTTTTATTGTAATTAATAT
1 TTTTTATTGTAATTAATAA
14420040 TTTTTA
1 TTTTTA
14420046 AAATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTTTATTGTAATTAATAA
Found at i:14431345 original size:21 final size:21
Alignment explanation
Indices: 14431321--14431389 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
14431311 GAAGAGATAC
14431321 AATTATCATTCATCACTCAAT
1 AATTATCATTCATCACTCAAT
* * * *
14431342 AATTAT-TTTCCAACAAT-ATT
1 AATTATCATT-CATCACTCAAT
*
14431362 CAATTATCATTCTTCACTCAAT
1 -AATTATCATTCATCACTCAAT
14431384 AATTAT
1 AATTAT
14431390 TTTTCAACAA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTATCATTCATCACTCAAT
Found at i:14431367 original size:42 final size:42
Alignment explanation
Indices: 14431320--14431400 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
14431310 CGAAGAGATA
14431320 CAATTATCATTCATCACTCAATAATTATTTTCCAACAATATT
1 CAATTATCATTCATCACTCAATAATTATTTTCCAACAATATT
* *
14431362 CAATTATCATTCTTCACTCAATAATTATTTTTCAACAAT
1 CAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
14431401 CCCCTACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (42 bp):
CAATTATCATTCATCACTCAATAATTATTTTCCAACAATATT
Found at i:14437648 original size:39 final size:40
Alignment explanation
Indices: 14437547--14437648 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
14437537 TATTCGGATG
* *
14437547 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGTTACT
14437587 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGTTA-CT
* *
14437627 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAATCCCGAAGG
14437649 TACTTGGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
39 17 0.30
40 40 0.70
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGTTACT
Found at i:14443256 original size:12 final size:14
Alignment explanation
Indices: 14443241--14443272 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14443231 GTGAGAACAC
14443241 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
14443253 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
14443267 ATGTGT
1 ATGTGT
14443273 TTAAGACGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:14443367 original size:50 final size:50
Alignment explanation
Indices: 14443238--14443671 Score: 429
Period size: 50 Copynumber: 8.6 Consensus size: 50
14443228 ATTGTGAGAA
* * * ** *
14443238 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGACGGTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACCA-GATTGTTAGGT
* * * * *
14443290 CACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAAATTGTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** * * * *
14443340 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
14443391 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
14443441 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
14443491 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
** * * * *
14443542 CATGTGTGTAGTACTAAGTCCAGGCTAATACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
*
14443592 CACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** **
14443642 TGCATGTGTAGGGCTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
14443672 TGCATACCAG
Statistics
Matches: 313, Mismatches: 66, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
49 2 0.01
50 204 0.65
51 79 0.25
52 28 0.09
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:14443449 original size:101 final size:101
Alignment explanation
Indices: 14443284--14443688 Score: 427
Period size: 101 Copynumber: 4.0 Consensus size: 101
14443274 TAAGACGGTT
* * * * * * *
14443284 TTAGGTCACGTGTGTAGTACTAAATGCAGGCTACTACATGTACCAAATTGTTTGGTCGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
* *
14443349 AGTACTAAGTGCAAGCTACTATGCATACCCGATAGC
66 AGTACTAAGTGCAGGCTACTATGCATACCAGATAGC
* * * * * *
14443385 TTCGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
** *
14443450 AGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-
66 AGTACTAAGTGCAGGCTACTATGCATACCAGATAGC
* * * * * * **
14443485 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCATGTGTG
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGTCACATGTG
* * * ** * *
14443550 TAGTACTAAGTCCAGGCTAATACGTGTATCAGAT-GG
65 TAGTACTAAGTGCAGGCTACTATGCATACCAGATAGC
* * **
14443586 TTAGGTCACATGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGT
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
** *
14443651 AGGGCTAAGTGCAGGCTACTATGCATACCAGAGAGC
66 AGTACTAAGTGCAGGCTACTATGCATACCAGATAGC
14443687 TT
1 TT
14443689 CGGTTACAAG
Statistics
Matches: 247, Mismatches: 54, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
100 74 0.30
101 173 0.70
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACATGTGT
AGTACTAAGTGCAGGCTACTATGCATACCAGATAGC
Found at i:14443558 original size:151 final size:151
Alignment explanation
Indices: 14443242--14443690 Score: 655
Period size: 151 Copynumber: 3.0 Consensus size: 151
14443232 TGAGAACACA
* * * * * *
14443242 TGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGACGGTTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG--TTAGGTCACGTGTGTAGTACTAA
* * * * *
14443307 ATGCAGGCTACTACATGTACCAAATTGTTTGGTCGCATGTGTAGTACTAAGTGCAAGCTACTATG
64 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
14443372 CATACCCGATAGCTTCGATCACG
129 CATACCCGATAGCTTCGATCACG
*
14443395 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
14443460 GCAGGCTACTATGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
*
14443525 TACCCGATAGCTTCGATCATG
131 TACCCGATAGCTTCGATCACG
* * *
14443546 TGTGTAGTACTAAGTCCAGGCTAATACGTGTATCAGATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * **
14443611 ACAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGTAGGGCTAAGTGCAGGCTACTATGCA
66 GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
* *
14443676 TACCAGAGAGCTTCG
131 TACCCGATAGCTTCG
14443691 GTTACAAGGG
Statistics
Matches: 267, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
151 234 0.88
153 33 0.12
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
TACCCGATAGCTTCGATCACG
Found at i:14445206 original size:25 final size:25
Alignment explanation
Indices: 14445173--14445223 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14445163 AATGGACATG
14445173 AAGATAATTATGGTATAAAAGTATA
1 AAGATAATTATGGTATAAAAGTATA
14445198 AAGATAATTATGGTATAAAAGTATA
1 AAGATAATTATGGTATAAAAGTATA
14445223 A
1 A
14445224 GTGGTAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (25 bp):
AAGATAATTATGGTATAAAAGTATA
Found at i:14445510 original size:13 final size:13
Alignment explanation
Indices: 14445492--14445525 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
14445482 AGCACATGGG
14445492 CGTGTGACTTGGC
1 CGTGTGACTTGGC
14445505 CGTGTGACTTGGC
1 CGTGTGACTTGGC
14445518 CGTGTGAC
1 CGTGTGAC
14445526 CCTAAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.24, G:0.38, T:0.29
Consensus pattern (13 bp):
CGTGTGACTTGGC
Found at i:14448775 original size:28 final size:26
Alignment explanation
Indices: 14448736--14448802 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 26
14448726 AAGTCCCCCC
14448736 AAAAAAAAACCTAACCCCCCCCAAAAA
1 AAAAAAAAACCTAA-CCCCCCCAAAAA
14448763 AAAAGAAAAACCTAACCCCCCCAAAAA
1 AAAA-AAAAACCTAACCCCCCCAAAAA
14448790 AAACCAAAAAACC
1 AAA--AAAAAACC
14448803 CTAGCCACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
27 19 0.51
28 17 0.46
29 1 0.03
ACGTcount: A:0.61, C:0.34, G:0.01, T:0.03
Consensus pattern (26 bp):
AAAAAAAAACCTAACCCCCCCAAAAA
Found at i:14449052 original size:13 final size:13
Alignment explanation
Indices: 14449034--14449058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14449024 ATTTTACTCT
14449034 TTTTTTATTTTTA
1 TTTTTTATTTTTA
14449047 TTTTTTATTTTT
1 TTTTTTATTTTT
14449059 TTNNNNNNNN
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:14456920 original size:21 final size:21
Alignment explanation
Indices: 14456891--14456934 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
14456881 TCGAAAAATC
14456891 AAATAATAT-TATTTCTTATAA
1 AAATAATATATATTT-TTATAA
*
14456912 AAATGATATCATATTTTTATAA
1 AAATAATAT-ATATTTTTATAA
14456934 A
1 A
14456935 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
AAATAATATATATTTTTATAA
Found at i:14459751 original size:39 final size:39
Alignment explanation
Indices: 14459697--14459850 Score: 175
Period size: 39 Copynumber: 3.9 Consensus size: 39
14459687 CAATACATCA
* *
14459697 GCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACTG
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCACTG
* * * *
14459736 GCACATAATCTGCTAGGCACATTGCCCGAATAATCAGTG
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCACTG
*
14459775 GCACACAGCCTGCTAGGCACATAGCCCGAATAATCACCT-
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCA-CTG
* * * ** *
14459814 GCACAGAGCCTGCTAAGCATGTAGCTCGAATAATCAC
1 GCACACAACCTGCTAGGCACATAGCCCGAATAATCAC
14459851 CGTATTTCTA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 96 0.98
40 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.18
Consensus pattern (39 bp):
GCACACAACCTGCTAGGCACATAGCCCGAATAATCACTG
Found at i:14459844 original size:78 final size:78
Alignment explanation
Indices: 14459697--14459849 Score: 209
Period size: 78 Copynumber: 2.0 Consensus size: 78
14459687 CAATACATCA
* * * *
14459697 GCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACTGGCACATAATCTGCTAGGCACATTGCC
1 GCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACTGGCACAGAACCTGCTAAGCACATAGCC
14459762 CGAATAATCAGTG
66 CGAATAATCAGTG
* * **
14459775 GCACACAGCCTGCTAGGCACATAGCCCGAATAATCACCT-GCACAGAGCCTGCTAAGCATGTAGC
1 GCACACAGCCTGCTAGGCACAAAGCCCGAATAATCA-CTGGCACAGAACCTGCTAAGCACATAGC
*
14459839 TCGAATAATCA
65 CCGAATAATCA
14459850 CCGTATTTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
78 63 0.97
79 2 0.03
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (78 bp):
GCACACAGCCTGCTAGGCACAAAGCCCGAATAATCACTGGCACAGAACCTGCTAAGCACATAGCC
CGAATAATCAGTG
Found at i:14464434 original size:10 final size:9
Alignment explanation
Indices: 14464362--14464445 Score: 57
Period size: 9 Copynumber: 9.0 Consensus size: 9
14464352 CAGCATACAT
14464362 TTATAAAAA
1 TTATAAAAA
14464371 TTAAATAAAATA
1 TT--ATAAAA-A
14464383 TT-TAAAAA
1 TTATAAAAA
**
14464391 TGGTAAAAA
1 TTATAAAAA
14464400 -TAT-AAAA
1 TTATAAAAA
*
14464407 TTATGAATAA
1 TTAT-AAAAA
14464417 TTATTAAAGAA
1 TTA-TAAA-AA
14464428 TTATAAAAA
1 TTATAAAAA
*
14464437 TCATAAAAA
1 TTATAAAAA
14464446 ATATTTTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
7 4 0.07
8 6 0.10
9 23 0.38
10 12 0.20
11 12 0.20
12 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14480496 original size:15 final size:15
Alignment explanation
Indices: 14480476--14480506 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14480466 TTTACTTTCC
14480476 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
14480491 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
14480506 A
1 A
14480507 AAATCTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:14488802 original size:205 final size:203
Alignment explanation
Indices: 14488428--14489199 Score: 1217
Period size: 205 Copynumber: 3.8 Consensus size: 203
14488418 ATAGATCTGG
*
14488428 CCTTCAGATGTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGA-AA
1 CCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGA-ACAA
14488492 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
64 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
* * *
14488557 TCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACGCATA
129 TCTCTGTATCGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATA
14488622 GCAGATCTCA
194 GCAGATCTCA
*
14488632 CCTTCAGATGATTTCACTAAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
1 CCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
*
14488697 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTATCG
64 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
**
14488762 TCTCTGTATCGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATA
129 TCTCTGTATCGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATA
*
14488827 GCAGATCTCG
194 GCAGATCTCA
14488837 CCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
1 CCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
*
14488902 ATCGAAGACATAGTTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCTAAGATGATTTGTC
64 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCTAAGATGATTTGTC
14488966 GTCTCTGTATCGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACAT
128 GTCTCTGTATCGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACAT
14489031 AGCAGATCTCA
193 AGCAGATCTCA
* * * * *
14489042 CCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAGCAA
1 CCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAA
* * * * * * * *
14489107 ATCGAA-TCATAGTTGATTTGGTTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCA
64 ATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCG
* *
14489171 TCTCTGTATTGTCAGGGAACAAATCGAAG
129 TCTCTGTATCGTCAGAGAACAAATCGAAG
14489200 AAATAGATTT
Statistics
Matches: 534, Mismatches: 27, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
203 1 0.00
204 93 0.17
205 440 0.82
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
CCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAAT
CGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTC
TCTGTATCGTCAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGC
AGATCTCA
Found at i:14489375 original size:44 final size:43
Alignment explanation
Indices: 14489297--14489382 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
14489287 GATTTCAGCA
*
14489297 TGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGAAACAAGTCGAAGA-AGCAGATT
* * *
14489341 TGGCATCCCTGTGTTTATGGGGAAC-AGATCGAAGAAGCAGAT
1 TGGCATCCCTGTGCTTATAGGAAACAAG-TCGAAGAAGCAGAT
14489383 CAAGAACTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (43 bp):
TGGCATCCCTGTGCTTATAGGAAACAAGTCGAAGAAGCAGATT
Found at i:14492349 original size:13 final size:13
Alignment explanation
Indices: 14492331--14492358 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14492321 GATGACATAA
14492331 CAAATCAAGATTC
1 CAAATCAAGATTC
14492344 CAAATCAAGATTC
1 CAAATCAAGATTC
14492357 CA
1 CA
14492359 GTGGAATAAA
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:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CAAATCAAGATTC
Found at i:14493788 original size:22 final size:23
Alignment explanation
Indices: 14493758--14493800 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14493748 TTAAAGTATA
* *
14493758 ATAACTAGATTTCAAATTTAAAT
1 ATAACTAGAATTAAAATTTAAAT
14493781 ATAA-TAGAATTAAAATTTAA
1 ATAACTAGAATTAAAATTTAA
14493801 CTAATTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (23 bp):
ATAACTAGAATTAAAATTTAAAT
Found at i:14494785 original size:20 final size:21
Alignment explanation
Indices: 14494749--14494788 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14494739 TTACTGTTAT
14494749 CAAATAATTTTACTAATATAC
1 CAAATAATTTTACTAATATAC
14494770 CAAA-AATTTATA-TAATATA
1 CAAATAATTT-TACTAATATA
14494789 AATTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
CAAATAATTTTACTAATATAC
Found at i:14496034 original size:24 final size:26
Alignment explanation
Indices: 14495985--14496037 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 26
14495975 TTTAAAGTTT
14495985 TTTTTATAATATTTTTGTGGGATCAA
1 TTTTTATAATATTTTTGTGGGATCAA
14496011 TTTTTA-AA-ATTTGTTGTGGG-TCAA
1 TTTTTATAATATTT-TTGTGGGATCAA
14496035 TTT
1 TTT
14496038 ACTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 11 0.42
25 9 0.35
26 6 0.23
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.55
Consensus pattern (26 bp):
TTTTTATAATATTTTTGTGGGATCAA
Found at i:14497626 original size:77 final size:77
Alignment explanation
Indices: 14497499--14497721 Score: 446
Period size: 77 Copynumber: 2.9 Consensus size: 77
14497489 TATGTTTAGA
14497499 ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
1 ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
14497564 TAATTAATTTTT
66 TAATTAATTTTT
14497576 ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
1 ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
14497641 TAATTAATTTTT
66 TAATTAATTTTT
14497653 ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
1 ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
14497718 TAAT
66 TAAT
14497722 AGATAATGTT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 146 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (77 bp):
ATCTTGAATGAGTCTATTTTCAACAGAAACAAATATGAACATCATTCGAATTCTGTACAAGGAGA
TAATTAATTTTT
Found at i:14497938 original size:34 final size:33
Alignment explanation
Indices: 14497892--14497956 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
14497882 AAAATGTCAG
* *
14497892 AAATTACCAAATTGTATGAAATGGATTATTTTTT
1 AAATTACAAAATTGAATGAAAT-GATTATTTTTT
*
14497926 AAATTACAAAATTGAATGAAATTATTATTTT
1 AAATTACAAAATTGAATGAAATGATTATTTT
14497957 AGTTCAAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (33 bp):
AAATTACAAAATTGAATGAAATGATTATTTTTT
Found at i:14498836 original size:46 final size:46
Alignment explanation
Indices: 14498784--14498908 Score: 171
Period size: 46 Copynumber: 2.7 Consensus size: 46
14498774 GTATGCTCTC
* *
14498784 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
14498830 TGATATGAAATGAACAAGACTATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
14498876 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
14498909 CATTATGGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 67 0.99
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:14502431 original size:13 final size:13
Alignment explanation
Indices: 14502408--14502467 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
14502398 CACTTAAATT
14502408 TTTTC-AAAGCAC
1 TTTTCAAAAGCAC
* *
14502420 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
*
14502433 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
14502446 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
14502459 TTTTCAAAA
1 TTTTCAAAA
14502468 ACAATGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 8 0.21
13 27 0.69
14 4 0.10
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:14506117 original size:11 final size:11
Alignment explanation
Indices: 14506085--14506119 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
14506075 CGGTTTAGAG
14506085 TTTTAAGGTTT
1 TTTTAAGGTTT
14506096 TGTTTAAGGTTT
1 T-TTTAAGGTTT
*
14506108 TTTTACGGTTT
1 TTTTAAGGTTT
14506119 T
1 T
14506120 AATTTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.14, C:0.03, G:0.20, T:0.63
Consensus pattern (11 bp):
TTTTAAGGTTT
Found at i:14506156 original size:21 final size:20
Alignment explanation
Indices: 14506119--14506177 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
14506109 TTTACGGTTT
14506119 TAATTTTTA-ACTTTTTTATA
1 TAATTTTTAGA-TTTTTTATA
*
14506139 T-ATTCTTTAGGATTTTTTTTA
1 TAATT-TTTA-GATTTTTTATA
*
14506160 TAATTTTTATATTTTTTA
1 TAATTTTTAGATTTTTTA
14506178 AAAATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 3 0.09
20 12 0.38
21 13 0.41
22 4 0.12
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
TAATTTTTAGATTTTTTATA
Found at i:14506241 original size:20 final size:18
Alignment explanation
Indices: 14506187--14506244 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
14506177 AAAAATATAA
14506187 ATTTTGAAATTTTATAAA-T
1 ATTTTGAAA-TTTA-AAATT
14506206 ATTTTGAAATTTAAAATT
1 ATTTTGAAATTTAAAATT
14506224 ATTTTGAAAATATTAAAATT
1 ATTTTG-AAAT-TTAAAATT
14506244 A
1 A
14506245 CTTGTGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.08
18 11 0.31
19 13 0.36
20 9 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
ATTTTGAAATTTAAAATT
Found at i:14523669 original size:11 final size:11
Alignment explanation
Indices: 14523653--14523709 Score: 78
Period size: 11 Copynumber: 5.2 Consensus size: 11
14523643 AGAGTGAACT
14523653 GAGAGAATTGA
1 GAGAGAATTGA
* *
14523664 GTGAGAATTAA
1 GAGAGAATTGA
14523675 GAGAGAATTGA
1 GAGAGAATTGA
*
14523686 GAGAGAGTTGA
1 GAGAGAATTGA
*
14523697 GAGTGAATTGA
1 GAGAGAATTGA
14523708 GA
1 GA
14523710 AAGAGGGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (11 bp):
GAGAGAATTGA
Found at i:14523699 original size:164 final size:164
Alignment explanation
Indices: 14523379--14523688 Score: 514
Period size: 164 Copynumber: 1.9 Consensus size: 164
14523369 TCCATATAAA
**
14523379 CGAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATTGTAATACAAAATTAA
1 CGAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATCATAATACAAAATTAA
** *
14523444 TTAAAAAAAACTTAAAACAATTTTAATAAAAAATGTGAGTGAATTGAGAGAATTAAGTGAGAATT
66 TTAAAAAAAACTTAAAACAATTTTAATAAAAAATAAGAGTGAACTGAGAGAATTAAGTGAGAATT
14523509 AAGAGAAAATTGAGAGTAAATTGAGAGAGAGAAG
131 AAGAGAAAATTGAGAGTAAATTGAGAGAGAGAAG
*
14523543 CGAATAAGAGAATTTTCCATTAAGAATTTCAATAAATATGAATAAAAATCATAATACAAAATTAA
1 CGAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATCATAATACAAAATTAA
* * *
14523608 TTAAAAAAACCTTAAGA-AATGTTTAATAAAAAATAAGAGTGAACTGAGAGAATTGAGTGAGAAT
66 TTAAAAAAAACTTAAAACAAT-TTTAATAAAAAATAAGAGTGAACTGAGAGAATTAAGTGAGAAT
*
14523672 TAAGAGAGAATTGAGAG
130 TAAGAGAAAATTGAGAG
14523689 AGAGTTGAGA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 3 0.02
164 132 0.98
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.26
Consensus pattern (164 bp):
CGAATAAGAGAATTTTCCATTAAGAATTTCAATAAATACGAATAAAAATCATAATACAAAATTAA
TTAAAAAAAACTTAAAACAATTTTAATAAAAAATAAGAGTGAACTGAGAGAATTAAGTGAGAATT
AAGAGAAAATTGAGAGTAAATTGAGAGAGAGAAG
Found at i:14524067 original size:16 final size:17
Alignment explanation
Indices: 14524046--14524080 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14524036 AGTATTGAAT
*
14524046 TATT-AATAATTTAATA
1 TATTAAATAATTAAATA
14524062 TATTAAATAATTAAATA
1 TATTAAATAATTAAATA
14524079 TA
1 TA
14524081 AATATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATAATTAAATA
Found at i:14533342 original size:25 final size:24
Alignment explanation
Indices: 14533273--14533390 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
14533263 TCAATATGAT
*
14533273 TCTTGCGAGCTTCCCGAATAA-TAGC
1 TCTTG-GAGCTTCCCG-ATAATTGGC
*
14533298 TCTCTGGAGCTTCCCAATAATTGGC
1 TCT-TGGAGCTTCCCGATAATTGGC
* *
14533323 TCCTTGGAGCTTCCCGATAAATGAC
1 T-CTTGGAGCTTCCCGATAATTGGC
**
14533348 TCTTATAAGCTTCCCGAT-ATTGGC
1 TCTT-GGAGCTTCCCGATAATTGGC
*
14533372 TCACTT-GAACTTCCCGATA
1 T--CTTGGAGCTTCCCGATA
14533391 TTAGCTAGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
24 22 0.29
25 46 0.61
26 7 0.09
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (24 bp):
TCTTGGAGCTTCCCGATAATTGGC
Found at i:14535071 original size:20 final size:20
Alignment explanation
Indices: 14535048--14535099 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
14535038 GAAGTTAACT
14535048 TTAACGGTCAACTATTAAAG
1 TTAACGGTCAACTATTAAAG
*
14535068 TTAAATGGTCAACTATTAAAG
1 TT-AACGGTCAACTATTAAAG
*
14535089 TTAGCGGTCAA
1 TTAACGGTCAA
14535100 AGGGCCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
TTAACGGTCAACTATTAAAG
Found at i:14535217 original size:31 final size:32
Alignment explanation
Indices: 14535182--14535250 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
14535172 ATTATTGATC
* * * *
14535182 TTGAAAAAGTTTGAGGGCCTTTTTGATG-TTT
1 TTGAAAAAATTTGAAGGCATTTTTGATGCATT
*
14535213 TTGAAAAAATTTGAAGGCATTTTTTATGCATT
1 TTGAAAAAATTTGAAGGCATTTTTGATGCATT
14535245 TTGAAA
1 TTGAAA
14535251 GTCCAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 24 0.75
32 8 0.25
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (32 bp):
TTGAAAAAATTTGAAGGCATTTTTGATGCATT
Found at i:14537003 original size:21 final size:21
Alignment explanation
Indices: 14536977--14537037 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
14536967 GAAGCTTGAA
14536977 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGCACATAAG
* *
14536998 GGCTAAACAGAAACCCAT-AG
1 GGCTAAACAGAAGCACATAAG
* * *
14537018 GGTTGAACAGAAGCTCATAA
1 GGCTAAACAGAAGCACATAA
14537038 AAGCTGAACG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (21 bp):
GGCTAAACAGAAGCACATAAG
Found at i:14537027 original size:41 final size:42
Alignment explanation
Indices: 14536980--14537073 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 42
14536970 GCTTGAAGGC
**
14536980 TAAACAGAAGCACATAAGGGCTAAAC-AGAAACCCAT-AGGGT
1 TAAACAGAAGCACATAAAAGCTAAACGA-AAACCCATAAGGGT
* * *
14537021 TGAACAGAAGCTCATAAAAGCTGAACGAAAACCCATAAGGGT
1 TAAACAGAAGCACATAAAAGCTAAACGAAAACCCATAAGGGT
*
14537063 TAAACAAAAGC
1 TAAACAGAAGC
14537074 TTAATAGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 29 0.66
42 15 0.34
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (42 bp):
TAAACAGAAGCACATAAAAGCTAAACGAAAACCCATAAGGGT
Found at i:14537036 original size:20 final size:20
Alignment explanation
Indices: 14536977--14537036 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
14536967 GAAGCTTGAA
14536977 GGCTAAACAGAAGCACATAAG
1 GGCTAAACAGAAGCACAT-AG
* *
14536998 GGCTAAACAGAAACCCATAG
1 GGCTAAACAGAAGCACATAG
* * *
14537018 GGTTGAACAGAAGCTCATA
1 GGCTAAACAGAAGCACATA
14537037 AAAGCTGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (20 bp):
GGCTAAACAGAAGCACATAG
Found at i:14537085 original size:42 final size:41
Alignment explanation
Indices: 14537008--14537116 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 41
14536998 GGCTAAACAG
* *
14537008 AAACCCAT-AGGGTTGAACAGAAGCTCATAAAAGCTGAACGA
1 AAACCCATAAGGGTTAAACAAAAGCT-ATAAAAGCTGAACGA
14537049 AAACCCATAAGGGTTAAACAAAAGCT-TAATAGAGCTGAACGA
1 AAACCCATAAGGGTTAAACAAAAGCTATAA-A-AGCTGAACGA
* * * *
14537091 AAACTCATATGAGTTAAATAAAAGCT
1 AAACCCATAAGGGTTAAACAAAAGCT
14537117 CGTGAGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 3 0.05
41 9 0.15
42 47 0.80
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAACAAAAGCTATAAAAGCTGAACGA
Found at i:14541814 original size:18 final size:18
Alignment explanation
Indices: 14541791--14541826 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14541781 AGTAGACCCA
14541791 GGGTCGATCAATTCATAT
1 GGGTCGATCAATTCATAT
14541809 GGGTCGATCAATTCATAT
1 GGGTCGATCAATTCATAT
14541827 ACAGTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
GGGTCGATCAATTCATAT
Found at i:14543513 original size:221 final size:220
Alignment explanation
Indices: 14543130--14543565 Score: 836
Period size: 221 Copynumber: 2.0 Consensus size: 220
14543120 TCATCATTAA
*
14543130 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATTACACTATCACAGA
1 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
14543195 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
66 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
*
14543260 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAATAGGGTTACAAAGC
131 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
14543325 ATTACCGAACATGTTCAGATCTTTCT
196 ATTACCGAAC-TGTTCAGATCTTTCT
14543351 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
1 GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
14543416 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
66 TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
14543481 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
131 AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
*
14543546 ATTACCGAACTTTTCAGATC
196 ATTACCGAACTGTTCAGATC
14543566 AAATACAAAT
Statistics
Matches: 212, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
220 9 0.04
221 203 0.96
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (220 bp):
GAAATCTTTACAACCTATAAGAAAACAAGGGTTAGATTGGATCATACTCATCACACTATCACAGA
TTTATATGCCATGTATTTCTACACATTTCACACAATAAGTTTAGTCTGAGAATCAGCTAAATTGT
AGCTTTGATACCACTAAATGTAACACCCGTAACCCTTATCAGTCGTCGAAACAGGGTTACAAAGC
ATTACCGAACTGTTCAGATCTTTCT
Found at i:14545197 original size:15 final size:14
Alignment explanation
Indices: 14545163--14545222 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
14545153 TATAGATAAC
* *
14545163 AAGAAAACCAGGATT
1 AAGAAATCCAAGA-T
*
14545178 AAGAAGTCCAAGAT
1 AAGAAATCCAAGAT
14545192 AGAGAAATCCAAGAT
1 A-AGAAATCCAAGAT
14545207 AAGGAAATCCAAGAT
1 AA-GAAATCCAAGAT
14545222 A
1 A
14545223 CAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 3 0.08
15 36 0.92
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAAATCCAAGAT
Found at i:14545198 original size:30 final size:30
Alignment explanation
Indices: 14545164--14545222 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14545154 ATAGATAACA
* *
14545164 AGAAAACCAGGATTAA-GAAGTCCAAGATAG
1 AGAAAACCAAGA-TAAGGAAATCCAAGATAG
*
14545194 AGAAATCCAAGATAAGGAAATCCAAGATA
1 AGAAAACCAAGATAAGGAAATCCAAGATA
14545223 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.20, T:0.14
Consensus pattern (30 bp):
AGAAAACCAAGATAAGGAAATCCAAGATAG
Found at i:14547204 original size:19 final size:20
Alignment explanation
Indices: 14547166--14547205 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
14547156 TAGGCCGTGT
14547166 CCTCCACACGGGCAGAGACA
1 CCTCCACACGGGCAGAGACA
*
14547186 CCTCCACAC-GGCTGAGACA
1 CCTCCACACGGGCAGAGACA
14547205 C
1 C
14547206 ATGGCCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.28, C:0.42, G:0.23, T:0.07
Consensus pattern (20 bp):
CCTCCACACGGGCAGAGACA
Found at i:14548534 original size:16 final size:16
Alignment explanation
Indices: 14548515--14548546 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14548505 AATTGTTTTA
14548515 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
14548531 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
14548547 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:14550852 original size:21 final size:21
Alignment explanation
Indices: 14550828--14550867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14550818 AGCTCGAAGG
*
14550828 CTAAACAGAAGCACATAAGTT
1 CTAAACAGAAACACATAAGTT
* *
14550849 CTAAATAGAAACCCATAAG
1 CTAAACAGAAACACATAAG
14550868 GTTGAACGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.17
Consensus pattern (21 bp):
CTAAACAGAAACACATAAGTT
Found at i:14550907 original size:21 final size:20
Alignment explanation
Indices: 14550856--14550909 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
14550846 GTTCTAAATA
*
14550856 GAAACCCATAAGGTTGAACG
1 GAAACCCATAAGGCTGAACG
* ** *
14550876 GAAGCTTATAAGAGCTGAATG
1 GAAACCCATAAG-GCTGAACG
14550897 GAAACCCATAAGG
1 GAAACCCATAAGG
14550910 GTTAAACTGA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (20 bp):
GAAACCCATAAGGCTGAACG
Found at i:14550934 original size:42 final size:42
Alignment explanation
Indices: 14550856--14550957 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
14550846 GTTCTAAATA
* *
14550856 GAAACCCATAA-GGTTGAACGGAAGCTTATAAGAGCTGAATG
1 GAAACCCATAAGGGTTAAACGGAAGCTAATAAGAGCTGAATG
*
14550897 GAAACCCATAAGGGTTAAACTGAAGCTCAAT-AGAGCTGAATG
1 GAAACCCATAAGGGTTAAACGGAAGCT-AATAAGAGCTGAATG
* * * *
14550939 AAAACTCATATGAGTTAAA
1 GAAACCCATAAGGGTTAAA
14550958 TAAAAGCTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 11 0.21
42 39 0.75
43 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTAATAAGAGCTGAATG
Found at i:14553563 original size:249 final size:249
Alignment explanation
Indices: 14552859--14553742 Score: 1190
Period size: 250 Copynumber: 3.6 Consensus size: 249
14552849 CCAATATAAT
*
14552859 AATAACATACAATAGATAATG-AACGTATGGTTTGAAACTAATTAACAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
** * * * * *
14552923 TACAATGTTAAAATTG-AAAAATTTAGGTTAAAAATGGTTATCATGGTGTTGGCATCAATCTTGA
66 TACAATGTTAAAA-TGAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGA
* * *
14552987 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATACTAGAATCCCTA
130 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTA
* * *
14553052 TCACATGCATATGCGTGTGAAAA-GAAAAATTTGTAAACACAAATATGTGATTAAA
195 TCACATGCATATGCGTGTGAAAACAAAAAATTT-TGAACACAAATATGTGTTTAAA
* * *
14553107 AAGAGCATACAATAGATAATGAAACGTATGGTTTGAAAATAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* *
14553172 TACAATGTTAAAATAATAAAAAAATAGATTAAAATTGTTTATCATGGTGTTGTCATCAATCTTGA
66 TACAATGTTAAAATGA-AAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGA
* *
14553237 GTGGGTGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAGTAGAA-TCTTT
130 GTGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTC-TT
* *
14553301 ATCACATGCATATGTGTGTGAAAACAAAAAATTTTGAACACAAATGTGTGTTTAAA
194 ATCACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATATGTGTTTAAA
* * * * * *
14553357 AATAACAGAAAATAGATAATGAAATGTATGGTTTGAAATTAATTAATAATAACACACGAAACATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
** * *
14553422 TATGATGTTAAAATGAAAAAAAATAAATTAAAATTTTTTATCATGATGTTGTCATCAATCTTGAG
66 TACAATGTTAAAATGAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAG
* ** * * * *
14553487 TTGATGTCGAGTTAACTTATGTTACCAAATCAATCAAACACATTTATATATAATACAATTCTTAT
131 TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTAT
* * * * *
14553552 CACACGCATATGCGTGTGAATACAAAAAA-ATTGAACACAAATCTGTGTTCAAA
196 CACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATATGTGTTTAAA
* * **
14553605 TATAACATACAATAGATAACGAAATATATGGTTTGAAACTAATTAATAATAACACATGAAATATG
1 AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
* * *
14553670 TACAATGTTAAAAT-AAACAAAA-AGATTAAAATTTTTTATCAT-AGTTTTGTCATCAATCTTGA
66 TACAATGTTAAAATGAAAAAAAATAGATTAAAATTGTTTATCATGA-TGTTGTCATCAATCTTGA
*
14553732 GTTGATGTCGA
130 GTGGATGTCGA
14553743 TTACACACAC
Statistics
Matches: 567, Mismatches: 62, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
245 1 0.00
246 47 0.08
247 7 0.01
248 110 0.19
249 180 0.32
250 214 0.38
251 8 0.01
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (249 bp):
AATAACATACAATAGATAATGAAACGTATGGTTTGAAACTAATTAATAATAACACATGAAATATG
TACAATGTTAAAATGAAAAAAAATAGATTAAAATTGTTTATCATGATGTTGTCATCAATCTTGAG
TGGATGTCGAGTTAACTTATGACACCAACTCAATCAAATACATTAATATATAATAGAATTCTTAT
CACATGCATATGCGTGTGAAAACAAAAAATTTTGAACACAAATATGTGTTTAAA
Found at i:14560215 original size:28 final size:28
Alignment explanation
Indices: 14560182--14560237 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
14560172 AATATAATTA
*
14560182 TTTTATATTAAATAATATTAAAATATTT
1 TTTTATATAAAATAATATTAAAATATTT
* *
14560210 TTTTATATAAAATTATATTACAATATTT
1 TTTTATATAAAATAATATTAAAATATTT
14560238 AAAATATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTTATATAAAATAATATTAAAATATTT
Found at i:14561456 original size:3 final size:3
Alignment explanation
Indices: 14561448--14561491 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
14561438 TCACCTCTAG
14561448 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
14561492 AGTAGAATGC
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:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:14563637 original size:21 final size:21
Alignment explanation
Indices: 14563607--14563651 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
14563597 AAATTGGAGC
14563607 TCCCCCCTCCCCTCTCTTCT-T
1 TCCCCCCT-CCCTCTCTTCTCT
* *
14563628 TCCCCGCTCCCTCTTTTCTCT
1 TCCCCCCTCCCTCTCTTCTCT
14563649 TCC
1 TCC
14563652 TCCTCTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (21 bp):
TCCCCCCTCCCTCTCTTCTCT
Found at i:14564233 original size:13 final size:14
Alignment explanation
Indices: 14564209--14564239 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
14564199 ATTATTATCA
14564209 ATATTAATATATGT
1 ATATTAATATATGT
14564223 ATATT-ATATATGT
1 ATATTAATATATGT
14564236 ATAT
1 ATAT
14564240 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:14564495 original size:13 final size:13
Alignment explanation
Indices: 14564477--14564501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14564467 GGGAAAGAAG
14564477 CGTTTAGAGGGAT
1 CGTTTAGAGGGAT
14564490 CGTTTAGAGGGA
1 CGTTTAGAGGGA
14564502 AGAAAGAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.40, T:0.28
Consensus pattern (13 bp):
CGTTTAGAGGGAT
Found at i:14569477 original size:21 final size:21
Alignment explanation
Indices: 14569455--14569494 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14569445 TAACTCAGTA
*
14569455 AAATACTTA-ATAAATAATAT
1 AAATACATACATAAATAATAT
*
14569475 AAATACATACATTAATAATA
1 AAATACATACATAAATAATA
14569495 GTATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATACATACATAAATAATAT
Found at i:14570069 original size:8 final size:9
Alignment explanation
Indices: 14569992--14570205 Score: 73
Period size: 9 Copynumber: 22.7 Consensus size: 9
14569982 AAAAAATCAT
14569992 TAAAAATTA
1 TAAAAATTA
14570001 TAAAAATT-
1 TAAAAATTA
*
14570009 TAAAAATAA
1 TAAAAATTA
14570018 T-AAAATTGA
1 TAAAAATT-A
* *
14570027 CATAAACTTA
1 TA-AAAATTA
** *
14570037 TGGAACTTA
1 TAAAAATTA
*
14570046 CAAAAAATTA
1 -TAAAAATTA
14570056 TAAAAATTA
1 TAAAAATTA
*
14570065 TAAAACATCA
1 TAAAA-ATTA
**
14570075 TCAAATTTTA
1 T-AAAAATTA
* *
14570085 TAGATATTA
1 TAAAAATTA
14570094 TAAAAAATT-
1 T-AAAAATTA
14570103 TATAAAATTA
1 TA-AAAATTA
14570113 -AGAAAGCA-TA
1 TA-AAA--ATTA
*
14570123 TAAAACATATT
1 TAAAA-AT-TA
*
14570134 TAAAATTTTA
1 TAAAA-ATTA
14570144 TAAAAAAATTA
1 T--AAAAATTA
14570155 TAAAAACTTA
1 TAAAAA-TTA
14570165 TAAAAA--A
1 TAAAAATTA
14570172 TAAAAATTA
1 TAAAAATTA
* *
14570181 AAAAAATTC
1 TAAAAATTA
*
14570190 TAAAAAATTC
1 T-AAAAATTA
14570200 TAAAAA
1 TAAAAA
14570206 AATTCTAAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 42
0.69 0.13 0.19
Matches are distributed among these distances:
7 7 0.05
8 13 0.08
9 67 0.43
10 43 0.28
11 21 0.14
12 4 0.03
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:14570069 original size:19 final size:19
Alignment explanation
Indices: 14569983--14570206 Score: 76
Period size: 19 Copynumber: 11.8 Consensus size: 19
14569973 TTTTATCATA
* *
14569983 AAAAATCATTAAAAATTAT
1 AAAAATTATAAAAAATTAT
*
14570002 AAAAATT-T-AAAAATAAT
1 AAAAATTATAAAAAATTAT
* * *
14570019 -AAAATTGACATAAACTTAT
1 AAAAATT-ATAAAAAATTAT
** * *
14570038 GGAACTTACAAAAAATTAT
1 AAAAATTATAAAAAATTAT
* *
14570057 AAAAATTATAAAACATCAT
1 AAAAATTATAAAAAATTAT
* * * *
14570076 -CAAATTTTATAGATATTAT
1 AAAAATTATA-AAAAATTAT
*
14570095 AAAAAATT-TATAAAATTA-
1 -AAAAATTATAAAAAATTAT
14570113 AGAAAGCA-TATAAAACATATT-T
1 A-AAA--ATTATAAAA-A-ATTAT
*
14570135 AAAATTTTATAAAAAAATTAT
1 AAAA-ATTAT-AAAAAATTAT
14570156 AAAAACTTAT-AAAAA--AT
1 AAAAA-TTATAAAAAATTAT
*
14570173 AAAAATTA-AAAAAATTCT
1 AAAAATTATAAAAAATTAT
*
14570191 AAAAAATTCTAAAAAA
1 -AAAAATTATAAAAAA
14570207 ATTCTAAATC
Statistics
Matches: 151, Mismatches: 31, Indels: 45
0.67 0.14 0.20
Matches are distributed among these distances:
16 14 0.09
17 16 0.11
18 12 0.08
19 59 0.39
20 20 0.13
21 22 0.15
22 8 0.05
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:14570158 original size:21 final size:20
Alignment explanation
Indices: 14570121--14570214 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
14570111 TAAGAAAGCA
* **
14570121 TATAAAACATATTTAAAATTT
1 TATAAAA-AAATTTAAAAACT
14570142 TATAAAAAAATTATAAAAACT
1 TATAAAAAAATT-TAAAAACT
14570163 TAT-AAAAAA--TAAAAA--
1 TATAAAAAAATTTAAAAACT
*
14570178 T-TAAAAAAATTCTAAAAAAT
1 TATAAAAAAATT-TAAAAACT
*
14570198 TCTAAAAAAATTCTAAA
1 TATAAAAAAATT-TAAA
14570215 TCATAAAACA
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
14 1 0.02
15 7 0.11
17 6 0.10
18 6 0.10
20 11 0.18
21 31 0.50
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
TATAAAAAAATTTAAAAACT
Found at i:14570159 original size:10 final size:10
Alignment explanation
Indices: 14570047--14570206 Score: 72
Period size: 10 Copynumber: 16.6 Consensus size: 10
14570037 TGGAACTTAC
14570047 AAAAAATTAT
1 AAAAAATTAT
14570057 -AAAAATTAT
1 AAAAAATTAT
* *
14570066 AAAACATCAT
1 AAAAAATTAT
* **
14570076 CAAATTTTAT
1 AAAAAATTAT
* *
14570086 -AGATATTAT
1 AAAAAATTAT
14570095 AAAAAATT-T
1 AAAAAATTAT
*
14570104 ATAAAATTA-
1 AAAAAATTAT
*
14570113 AGAAAGCA-TAT
1 A-AAA-AATTAT
14570124 AAAACATATT-T
1 AAAA-A-ATTAT
**
14570135 AAAATTTTAT
1 AAAAAATTAT
14570145 AAAAAAATTAT
1 -AAAAAATTAT
*
14570156 AAAAACTTAT
1 AAAAAATTAT
14570166 -AAAAA--AT
1 AAAAAATTAT
14570173 -AAAAATTA-
1 AAAAAATTAT
*
14570181 AAAAAATTCT
1 AAAAAATTAT
*
14570191 AAAAAATTCT
1 AAAAAATTAT
14570201 AAAAAA
1 AAAAAA
14570207 ATTCTAAATC
Statistics
Matches: 114, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
7 7 0.06
9 39 0.34
10 51 0.45
11 16 0.14
12 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:14570176 original size:17 final size:15
Alignment explanation
Indices: 14570154--14570187 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
14570144 TAAAAAAATT
14570154 ATAAAAACTTATAAAAA
1 ATAAAAA-TTA-AAAAA
14570171 ATAAAAATTAAAAAA
1 ATAAAAATTAAAAAA
14570186 AT
1 AT
14570188 TCTAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAAATTAAAAAA
Done.