Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 21 of 106
Found at i:9132673 original size:81 final size:81
Alignment explanation
Indices: 9132567--9132727 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 81
9132557 CGCATAGAAC
* * *
9132567 ACCCCTGAGCGCTTCTGCGCTTGGAATGTCCCTAGG-TGTTTCCACGCTTGAAACACCCCTAGGC
1 ACCCCTGAGCGCTTCTACGCTTGGAACG-CCCTAGGATGCTTCCACGCTTGAAACACCCCTAGGC
*
9132631 ACTTCTGTACTTGGAAG
65 ACTTCTATACTTGGAAG
* * * ** * * **
9132648 ACCCCTGGGCGTTTCTACGCTTGGAACGCCCTTGGATGCTTCTGCGCTTGGAACGCCCCTAGGTG
1 ACCCCTGAGCGCTTCTACGCTTGGAACGCCCTAGGATGCTTCCACGCTTGAAACACCCCTAGGCA
9132713 CTTCTATACTTGGAA
66 CTTCTATACTTGGAA
9132728 TGCCCCTTGG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
80 6 0.09
81 60 0.91
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (81 bp):
ACCCCTGAGCGCTTCTACGCTTGGAACGCCCTAGGATGCTTCCACGCTTGAAACACCCCTAGGCA
CTTCTATACTTGGAAG
Found at i:9132690 original size:27 final size:27
Alignment explanation
Indices: 9132660--9132780 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 27
9132650 CCCTGGGCGT
9132660 TTCTACGCTTGGAACG-CCCTTGGATGC
1 TTCTACGCTTGGAACGCCCCTTGG-TGC
* *
9132687 TTCTGCGCTTGGAACGCCCCTAGGTGC
1 TTCTACGCTTGGAACGCCCCTTGGTGC
** *
9132714 TTCTATACTTGGAATGCCCCTTGGCT-C
1 TTCTACGCTTGGAACGCCCCTTGG-TGC
* * * * * *
9132741 TTCCATGCTTAGAACACCCCTAGGCGC
1 TTCTACGCTTGGAACGCCCCTTGGTGC
*
9132768 TTCTA-GTTTGGAA
1 TTCTACGCTTGGAA
9132781 TACCCTTAGC
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
26 6 0.08
27 61 0.82
28 7 0.09
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.31
Consensus pattern (27 bp):
TTCTACGCTTGGAACGCCCCTTGGTGC
Found at i:9132718 original size:54 final size:53
Alignment explanation
Indices: 9132578--9132780 Score: 133
Period size: 54 Copynumber: 3.8 Consensus size: 53
9132568 CCCCTGAGCG
* * * * * * * *
9132578 CTTCTGCGCTTGGAATGTCCCTAGGTGTTTCCACGCTTGAAACACCCCTAGGCA-
1 CTTCTGCGCTTGGAACGCCCCTAGGCGCTTCTACGCTTGGAAC-GCCCTTGG-AT
** * *
9132632 CTTCTGTACTTGGAA-GACCCCTGGGCGTTTCTACGCTTGGAACGCCCTTGGAT
1 CTTCTGCGCTTGGAACG-CCCCTAGGCGCTTCTACGCTTGGAACGCCCTTGGAT
* ** * *
9132685 GCTTCTGCGCTTGGAACGCCCCTAGGTGCTTCTATACTTGGAATGCCCCTTGGCT
1 -CTTCTGCGCTTGGAACGCCCCTAGGCGCTTCTACGCTTGGAACG-CCCTTGGAT
*** * * *
9132740 CTTCCATGCTTAGAACACCCCTAGGCGCTTCTA-GTTTGGAA
1 CTTCTGCGCTTGGAACGCCCCTAGGCGCTTCTACGCTTGGAA
9132781 TACCCTTAGC
Statistics
Matches: 118, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
52 1 0.01
53 13 0.11
54 95 0.81
55 9 0.08
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.30
Consensus pattern (53 bp):
CTTCTGCGCTTGGAACGCCCCTAGGCGCTTCTACGCTTGGAACGCCCTTGGAT
Found at i:9133017 original size:2 final size:2
Alignment explanation
Indices: 9133012--9133052 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9133002 TTATTTATTT
9133012 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9133053 TAACTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9134098 original size:2 final size:2
Alignment explanation
Indices: 9134091--9134132 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
9134081 TAAAATCATA
9134091 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9134132 A
1 A
9134133 AAATTACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9136603 original size:33 final size:32
Alignment explanation
Indices: 9136559--9136671 Score: 111
Period size: 33 Copynumber: 3.4 Consensus size: 32
9136549 ACGGGAGTCA
* *
9136559 GTGATGGTGATGTGGATGCTGCTACTAGAGTTG
1 GTGATGATGATGTGGATGCTGCTAAT-GAGTTG
* * *
9136592 ATGATGATGATGTGAATGCTACTAATGGAGTTG
1 GTGATGATGATGTGGATGCTGCTAAT-GAGTTG
* *
9136625 GTGATGACGATGTAGG-TGATGCTAATGAAGTTG
1 GTGATGATGATGT-GGATGCTGCTAATG-AGTTG
*
9136658 GTGGTGATGATGTG
1 GTGATGATGATGTG
9136672 AATGTCATTA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
32 2 0.03
33 62 0.95
34 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.37, T:0.33
Consensus pattern (32 bp):
GTGATGATGATGTGGATGCTGCTAATGAGTTG
Found at i:9137804 original size:52 final size:51
Alignment explanation
Indices: 9137747--9137897 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 51
9137737 CCGTGGCCTT
* *
9137747 TTTGTGAATAGCAAACCATGGCCAAGAAGTGAGTGATAAAGCTTGCGACCAA
1 TTTGTGAATAGCAAACTATGGCCAAGAAGTGAGCGATAAAGCTTGCG-CCAA
* * * * *
9137799 TTTGTGAATAGTAAACTATGGCCAATAAGTGAGCAATAAAACTTACTGCCAA
1 TTTGTGAATAGCAAACTATGGCCAAGAAGTGAGCGATAAAGCTTGC-GCCAA
* * *
9137851 TATGTAAATAACAAACTATGGCCAAGAAGTGAGCGATAAAGCTTGCG
1 TTTGTGAATAGCAAACTATGGCCAAGAAGTGAGCGATAAAGCTTGCG
9137898 GTCAATAGCG
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 1 0.01
52 81 0.98
53 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (51 bp):
TTTGTGAATAGCAAACTATGGCCAAGAAGTGAGCGATAAAGCTTGCGCCAA
Found at i:9137830 original size:25 final size:25
Alignment explanation
Indices: 9137750--9137830 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
9137740 TGGCCTTTTT
* * *
9137750 GTGAATAGCAAACCATGGCCAAGAA
1 GTGAATAGTAAACTATGGCCAATAA
* **
9137775 GTGAGT-GATAAAGCT-TGCGACCAATTT
1 GTGAATAG-TAAA-CTATG-G-CCAATAA
9137802 GTGAATAGTAAACTATGGCCAATAA
1 GTGAATAGTAAACTATGGCCAATAA
9137827 GTGA
1 GTGA
9137831 GCAATAAAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 1 0.02
25 19 0.46
26 5 0.12
27 15 0.37
28 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (25 bp):
GTGAATAGTAAACTATGGCCAATAA
Found at i:9137838 original size:25 final size:25
Alignment explanation
Indices: 9137810--9137890 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
9137800 TTGTGAATAG
9137810 TAAACTATGGCCAATAAGTGAGCAA
1 TAAACTATGGCCAATAAGTGAGCAA
* * **
9137835 TAAAACTTACT-GCCAATATGTAAATAA
1 T-AAAC-TA-TGGCCAATAAGTGAGCAA
* * *
9137862 CAAACTATGGCCAAGAAGTGAGCGA
1 TAAACTATGGCCAATAAGTGAGCAA
9137887 TAAA
1 TAAA
9137891 GCTTGCGGTC
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
24 1 0.03
25 16 0.40
26 8 0.20
27 14 0.35
28 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (25 bp):
TAAACTATGGCCAATAAGTGAGCAA
Found at i:9139286 original size:27 final size:27
Alignment explanation
Indices: 9139256--9139315 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
9139246 CCCCTAAGTG
*
9139256 CTTCTACGCTT-AGAATGCCCCTAGGCA
1 CTTCTACGCTTGA-AACGCCCCTAGGCA
* *
9139283 CTTCCACGCTTGAAACGCCCCTAGGCT
1 CTTCTACGCTTGAAACGCCCCTAGGCA
9139310 CTTCTA
1 CTTCTA
9139316 TACTTGGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.27
Consensus pattern (27 bp):
CTTCTACGCTTGAAACGCCCCTAGGCA
Found at i:9139354 original size:81 final size:81
Alignment explanation
Indices: 9139255--9139416 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 81
9139245 ACCCCTAAGT
* *
9139255 GCTTCTACGCTTAGAATGCCCCTAGGCACTTCCACGCTTGAAACGCCCCTAGGCTCTTCTATACT
1 GCTTCTACCCTTAGAATGCCCCTAGGCACTTCCACGCTTGAAACGCCCCTAGGCACTTCTATACT
* *
9139320 TGGAAGACTCTTGGGC
66 TGGAACACCCTTGGGC
** * ** * * * *
9139336 GCTTCTACCCTT-GAAATGCCTTTGGGTGCTTCCACGCTTGGAATGTCCCTAGGCACTTCTGTAC
1 GCTTCTACCCTTAG-AATGCCCCTAGGCACTTCCACGCTTGAAACGCCCCTAGGCACTTCTATAC
9139400 TTGGAACACCCTTGGGC
65 TTGGAACACCCTTGGGC
9139417 ATTTCTGCGC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 66 0.99
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (81 bp):
GCTTCTACCCTTAGAATGCCCCTAGGCACTTCCACGCTTGAAACGCCCCTAGGCACTTCTATACT
TGGAACACCCTTGGGC
Found at i:9139417 original size:27 final size:27
Alignment explanation
Indices: 9139387--9139491 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
9139377 AATGTCCCTA
*
9139387 GGCACTTCTGTACTTGGAACACCCTTG
1 GGCACTTCTGCACTTGGAACACCCTTG
* * *
9139414 GGCATTTCTGCGCTTGGAACACCCCTG
1 GGCACTTCTGCACTTGGAACACCCTTG
*** * * **
9139441 GATGCTTCTACGCTTGGAATGCCCTTG
1 GGCACTTCTGCACTTGGAACACCCTTG
* * * *
9139468 GGCGCTTATGTACTTGGAATACCC
1 GGCACTTCTGCACTTGGAACACCC
9139492 CTGAACGCTT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.30
Consensus pattern (27 bp):
GGCACTTCTGCACTTGGAACACCCTTG
Found at i:9139447 original size:81 final size:80
Alignment explanation
Indices: 9139283--9139491 Score: 202
Period size: 81 Copynumber: 2.6 Consensus size: 80
9139273 CCCCTAGGCA
* * * * * * *
9139283 CTTCCACGCTTGAAACGCCCCTAGGCTCTTCTATACTTGGAAGACTCTTGGGCGCTTCTACCCTT
1 CTTCCACGCTTGGAATG-CCCTAGGCACTTCTGTACTTGGAACACCCTTGGGCACTTCTACCCTT
** ** *
9139348 GAAATGCCTTTGGGTG
65 GAAACACCCCTGGATG
* * *
9139364 CTTCCACGCTTGGAATGTCCCTAGGCACTTCTGTACTTGGAACACCCTTGGGCATTTCTGCGCTT
1 CTTCCACGCTTGGAATG-CCCTAGGCACTTCTGTACTTGGAACACCCTTGGGCACTTCTACCCTT
*
9139429 GGAACACCCCTGGATG
65 GAAACACCCCTGGATG
* * * * *
9139445 CTTCTACGCTTGGAATGCCCTTGGGCGCTTATGTACTTGGAATACCC
1 CTTCCACGCTTGGAATGCCC-TAGGCACTTCTGTACTTGGAACACCC
9139492 CTGAACGCTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 3 0.03
81 102 0.97
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (80 bp):
CTTCCACGCTTGGAATGCCCTAGGCACTTCTGTACTTGGAACACCCTTGGGCACTTCTACCCTTG
AAACACCCCTGGATG
Found at i:9139449 original size:54 final size:54
Alignment explanation
Indices: 9139391--9139513 Score: 120
Period size: 54 Copynumber: 2.3 Consensus size: 54
9139381 TCCCTAGGCA
* * * * *
9139391 CTTCTGTACTTGGAACACCCTTGGGCATTTCTGCGCTTGGAACACCCCTGGATG
1 CTTCTGTACTTGGAACACCCTTGGGCACTTATGCACTTGGAACACCCCTGAACG
*** ** * * *
9139445 CTTCTACGCTTGGAATGCCCTTGGGCGCTTATGTACTTGGAATACCCCTGAACG
1 CTTCTGTACTTGGAACACCCTTGGGCACTTATGCACTTGGAACACCCCTGAACG
*
9139499 CTTATGTACTTGGAA
1 CTTCTGTACTTGGAA
9139514 GACTCCTAGG
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (54 bp):
CTTCTGTACTTGGAACACCCTTGGGCACTTATGCACTTGGAACACCCCTGAACG
Found at i:9139527 original size:27 final size:26
Alignment explanation
Indices: 9139468--9139528 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
9139458 AATGCCCTTG
*
9139468 GGCGCTTATGTACTTGGAATACCCCT
1 GGCGCTTATGTACTTGGAAGACCCCT
* *
9139494 GAACGCTTATGTACTTGGAAGACTCCT
1 G-GCGCTTATGTACTTGGAAGACCCCT
9139521 AGGCGCTT
1 -GGCGCTT
9139529 CTGCGATTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (26 bp):
GGCGCTTATGTACTTGGAAGACCCCT
Found at i:9139554 original size:26 final size:26
Alignment explanation
Indices: 9139518--9139572 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
9139508 TTGGAAGACT
* *
9139518 CCTAGGCGCTTCTGCGATTGGAATGC
1 CCTAAGCGCTTCTACGATTGGAATGC
* *
9139544 CCTAAGCGCTTCTATGCTTGGAATGC
1 CCTAAGCGCTTCTACGATTGGAATGC
9139570 CCT
1 CCT
9139573 TCGGCGCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.29, G:0.25, T:0.29
Consensus pattern (26 bp):
CCTAAGCGCTTCTACGATTGGAATGC
Found at i:9139599 original size:27 final size:26
Alignment explanation
Indices: 9139569--9139624 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
9139559 GCTTGGAATG
*
9139569 CCCTTCGGCGCTTTCACA-CTTAGAACA
1 CCCTTAGGCGC-TTC-CAGCTTAGAACA
*
9139596 CCCTTAGGCGCTTCCAGCTTGGAACA
1 CCCTTAGGCGCTTCCAGCTTAGAACA
9139622 CCC
1 CCC
9139625 CAGGCAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 2 0.08
26 14 0.54
27 10 0.38
ACGTcount: A:0.20, C:0.39, G:0.18, T:0.23
Consensus pattern (26 bp):
CCCTTAGGCGCTTCCAGCTTAGAACA
Found at i:9140860 original size:34 final size:34
Alignment explanation
Indices: 9140821--9140891 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
9140811 TCAAGAAGAT
9140821 ATGAGAAAAAGTAGGAGACATATACGCATGGAAG
1 ATGAGAAAAAGTAGGAGACATATACGCATGGAAG
9140855 ATGAGAAAAAGTAGGAGACATATACGCATGGAAG
1 ATGAGAAAAAGTAGGAGACATATACGCATGGAAG
9140889 ATG
1 ATG
9140892 TATTAGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.46, C:0.08, G:0.30, T:0.15
Consensus pattern (34 bp):
ATGAGAAAAAGTAGGAGACATATACGCATGGAAG
Found at i:9143540 original size:20 final size:21
Alignment explanation
Indices: 9143505--9143543 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9143495 AAAACTAATC
9143505 AATAATAAACAAATTAAAAAA
1 AATAATAAACAAATTAAAAAA
*
9143526 AATAATATA-AAATTAAAA
1 AATAATAAACAAATTAAAA
9143544 TAACTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AATAATAAACAAATTAAAAAA
Found at i:9144330 original size:23 final size:25
Alignment explanation
Indices: 9144277--9144332 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
9144267 AGGAGGAAAC
*
9144277 AAAAGAAAAAGAGAGAGAATGAAGG
1 AAAAGAAAAAGAAAGAGAATGAAGG
*
9144302 AAAAGAAAAAGAAAGAG-A-GAGGG
1 AAAAGAAAAAGAAAGAGAATGAAGG
9144325 AAAAGAAA
1 AAAAGAAA
9144333 GACGCTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 12 0.41
24 1 0.03
25 16 0.55
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAAGAAAGAGAATGAAGG
Found at i:9146208 original size:54 final size:53
Alignment explanation
Indices: 9146143--9146347 Score: 259
Period size: 54 Copynumber: 3.8 Consensus size: 53
9146133 TGGCATTAAC
* * *
9146143 TGTGCACGATGTAGAGGGATGCACATGAGCTGGGTGAGATAGGGTGTTCTGCTA
1 TGTGCAAGATGT-GAGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
*
9146197 TGTGCAAGATGTGAGGGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTA
1 TGTGCAAGATGTGA-GGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
* * * * *
9146251 TGTGCACGATGTGGGGGGATGCAAATGAGCTAGGTGAGATGGGGTGTCCGGCTA
1 TGTGCAAGATGT-GAGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
* *
9146305 TGTGCACA-ATGTGGGGGAATGCACATAAGCTGGGTGAGATAGG
1 TGTGCA-AGATGTGAGGG-ATGCACATGAGCTGGGTGAGATAGG
9146348 CACGATGTGG
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
53 7 0.05
54 126 0.94
55 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.42, T:0.23
Consensus pattern (53 bp):
TGTGCAAGATGTGAGGGATGCACATGAGCTGGGTGAGATAGGGTGTCCGGCTA
Found at i:9146336 original size:108 final size:108
Alignment explanation
Indices: 9146143--9146344 Score: 300
Period size: 108 Copynumber: 1.9 Consensus size: 108
9146133 TGGCATTAAC
* * * *
9146143 TGTGCACGATGTAGAGGGATGCACATGAGCTGGGTGAGATAGGGTGTTCTGCTATGTGCAAGATG
1 TGTGCACGATGTAGAGGGATGCAAATGAGCTAGGTGAGATAGGGTGTCCGGCTATGTGCAAGATG
*
9146208 TGAGGGGATGCACATGAGCTGGGTGAGATGGGGTGTCCGGCTA
66 TGAGGGGATGCACATAAGCTGGGTGAGATGGGGTGTCCGGCTA
* * *
9146251 TGTGCACGATGTGGGGGGATGCAAATGAGCTAGGTGAGATGGGGTGTCCGGCTATGTGCACA-AT
1 TGTGCACGATGTAGAGGGATGCAAATGAGCTAGGTGAGATAGGGTGTCCGGCTATGTGCA-AGAT
9146315 GTG-GGGGAATGCACATAAGCTGGGTGAGAT
65 GTGAGGGG-ATGCACATAAGCTGGGTGAGAT
9146345 AGGCACGATG
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 4 0.05
108 79 0.94
109 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.42, T:0.23
Consensus pattern (108 bp):
TGTGCACGATGTAGAGGGATGCAAATGAGCTAGGTGAGATAGGGTGTCCGGCTATGTGCAAGATG
TGAGGGGATGCACATAAGCTGGGTGAGATGGGGTGTCCGGCTA
Found at i:9146375 original size:39 final size:39
Alignment explanation
Indices: 9146308--9146383 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
9146298 CCGGCTATGT
9146308 GCACAATGTGGGGGAATGCACATAAGCTGGGTGAGATAG
1 GCACAATGTGGGGGAATGCACATAAGCTGGGTGAGATAG
* * * *
9146347 GCACGATGTGGGGGAATGGACATGAGCTGGGTTAGAT
1 GCACAATGTGGGGGAATGCACATAAGCTGGGTGAGAT
9146384 GTGGTTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.41, T:0.20
Consensus pattern (39 bp):
GCACAATGTGGGGGAATGCACATAAGCTGGGTGAGATAG
Found at i:9149209 original size:23 final size:22
Alignment explanation
Indices: 9149165--9149212 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
9149155 AATTGAAATT
*
9149165 TTTGTTAAAATTTGGTTGAAAA
1 TTTGTTAAAATTTCGTTGAAAA
9149187 TTTGTTGAAAATTTCCGTT-AAAA
1 TTTGTT-AAAATTT-CGTTGAAAA
9149210 TTT
1 TTT
9149213 CTAACGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 14 0.61
24 3 0.13
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (22 bp):
TTTGTTAAAATTTCGTTGAAAA
Found at i:9149213 original size:12 final size:11
Alignment explanation
Indices: 9149165--9149200 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
9149155 AATTGAAATT
9149165 TTTGTT-AAAA
1 TTTGTTGAAAA
9149175 TTTGGTTGAAAA
1 TTT-GTTGAAAA
9149187 TTTGTTGAAAA
1 TTTGTTGAAAA
9149198 TTT
1 TTT
9149201 CCGTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 3 0.12
11 14 0.58
12 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (11 bp):
TTTGTTGAAAA
Found at i:9151843 original size:78 final size:78
Alignment explanation
Indices: 9151702--9151845 Score: 216
Period size: 78 Copynumber: 1.8 Consensus size: 78
9151692 CAATTGTTAG
* * **
9151702 AGATAAACTAGATGATCAATAGGTAAATTTAATTGGTCAAATTTAAATATTATCTCTCTATTATC
1 AGATAAACTAGATAATCAATAAGTAAATTTAATTGGTCAAATTTAAATATTATCTCTAAATTATC
9151767 TTAATTTATTTAA
66 TTAATTTATTTAA
* * * *
9151780 AGATAAATTAGATAATCAATAAGTAATTTTAATTGGTCCAATTTAAATATTATCTTTAAATTATC
1 AGATAAACTAGATAATCAATAAGTAAATTTAATTGGTCAAATTTAAATATTATCTCTAAATTATC
9151845 T
66 T
9151846 CAATAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (78 bp):
AGATAAACTAGATAATCAATAAGTAAATTTAATTGGTCAAATTTAAATATTATCTCTAAATTATC
TTAATTTATTTAA
Found at i:9153449 original size:22 final size:22
Alignment explanation
Indices: 9153424--9153507 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 22
9153414 ACTTAATCAC
9153424 TACGTGACTGATTTTTAAGCAT
1 TACGTGACTGATTTTTAAGCAT
* * *
9153446 TACGTGATTG-GTTTTAGGCAT
1 TACGTGACTGATTTTTAAGCAT
* * *
9153467 TGCGTGACTGGTTTTTAGGCAT
1 TACGTGACTGATTTTTAAGCAT
* * *
9153489 TGCGTGATTAATTTTTAAG
1 TACGTGACTGATTTTTAAG
9153508 TAATGCCTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 17 0.33
22 34 0.67
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (22 bp):
TACGTGACTGATTTTTAAGCAT
Found at i:9153466 original size:21 final size:22
Alignment explanation
Indices: 9153426--9153497 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
9153416 TTAATCACTA
* * * *
9153426 CGTGACTGATTTTTAAGCATTA
1 CGTGATTGGTTTTTAGGCATTG
9153448 CGTGATTGG-TTTTAGGCATTG
1 CGTGATTGGTTTTTAGGCATTG
*
9153469 CGTGACTGGTTTTTAGGCATTG
1 CGTGATTGGTTTTTAGGCATTG
9153491 CGTGATT
1 CGTGATT
9153498 AATTTTTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 18 0.42
22 25 0.58
ACGTcount: A:0.18, C:0.12, G:0.28, T:0.42
Consensus pattern (22 bp):
CGTGATTGGTTTTTAGGCATTG
Found at i:9153617 original size:22 final size:23
Alignment explanation
Indices: 9153516--9153599 Score: 118
Period size: 23 Copynumber: 3.7 Consensus size: 23
9153506 AGTAATGCCT
* *
9153516 AAGTCACACAATGCTTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
9153539 TAA-TCACGCAATGCCTTAC-AAC
1 -AAGTCACGCAATGCCTTACTAAC
*
9153561 AAGTCATGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
9153584 AAGTCACGCAATGCCT
1 AAGTCACGCAATGCCT
9153600 ATCAACTAGT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.04
22 18 0.33
23 32 0.59
24 2 0.04
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:9153698 original size:95 final size:95
Alignment explanation
Indices: 9153585--9153765 Score: 265
Period size: 95 Copynumber: 1.9 Consensus size: 95
9153575 CTTACTAACA
* * *
9153585 AGTCACGCAATGCCTATCAACTAGTCACACAATACTTTATTAGAAACTAGTCACGCAATACCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAACAAGTCACGCAATACCTTA
*
9153650 TCAAAAACTAA-TCACGTAATGCCCAAAGTT
66 TCAAAAAC-AAGTCACGCAATGCCCAAAGTT
* * **
9153680 AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAGAAACAAGTCACGCAATGTCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAACAAGTCACGCAATACCTTA
*
9153745 TCAGAAACAAGTCACGCAATG
66 TCAAAAACAAGTCACGCAATG
9153766 TCTTATCAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
94 2 0.03
95 74 0.97
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (95 bp):
AGTCACGCAATGCCTATCAACTAGTCACACAATACCTTATCAGAAACAAGTCACGCAATACCTTA
TCAAAAACAAGTCACGCAATGCCCAAAGTT
Found at i:9153760 original size:121 final size:118
Alignment explanation
Indices: 9153562--9153793 Score: 272
Period size: 121 Copynumber: 1.9 Consensus size: 118
9153552 CCTTACAACA
* * *
9153562 AGTCATGCAATGCCTTACTAACAAGTCACGCAATGCCTATCAACTAGTCACACAATACTTTATTA
1 AGTCACGCAATGCCTTACTAACAAGTCACGCAATGCCTATCAACAAGTCACACAATACTTTATCA
* * *
9153627 GAAACTAGTCACGCAATACCTTATCAAAAACTAATCACGTAATGCCCAAAGTT
66 GAAACAAGTCACGCAATACCTTATCAAAAACCAATCACGCAATGCCCAAAGTT
* * *
9153680 AGTCACGCAATGCC-TA-TCAACTAGTCACGCAATGCCTTATCAGAAACAAGTCACGCAAT-GTC
1 AGTCACGCAATGCCTTACT-AACAAGTCACGCAATGCC-TATC---AACAAGTCACACAATACT-
** * *
9153742 TTATCAGAAACAAGTCACGCAATGTCTTATCAGAAACCAGTCACGCAATGCC
60 TTATCAGAAACAAGTCACGCAATACCTTATCAAAAACCAATCACGCAATGCC
9153794 TTATCAAAAA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
116 1 0.01
117 19 0.20
118 17 0.18
120 1 0.01
121 57 0.60
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (118 bp):
AGTCACGCAATGCCTTACTAACAAGTCACGCAATGCCTATCAACAAGTCACACAATACTTTATCA
GAAACAAGTCACGCAATACCTTATCAAAAACCAATCACGCAATGCCCAAAGTT
Found at i:9153802 original size:147 final size:140
Alignment explanation
Indices: 9153542--9153852 Score: 403
Period size: 147 Copynumber: 2.2 Consensus size: 140
9153532 TACTAACTAA
* * *
9153542 TCACGCAATGCCT-TACAACAAGTCATGCAATGCCTTACTAACAAGTCACGCAATGCCTATCAAC
1 TCACGCAATGCCTAT-CAACTAGTCACGCAATGCCTTACAAACAAGTCACGCAATGCCTATCAAC
* * * *
9153606 TAGTCACACAATACTTTATTAGAAACTAGTCACGCAATACCTTATCAAAAACTAATCACGTAATG
65 AAGTCACACAATACTTTATCAGAAACCAGTCACGCAATACCTTATCAAAAACTAATCACGCAATG
9153671 CCCAAAGTTAG
130 CCCAAAGTTAG
*
9153682 TCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAGAAACAAGTCACGCAATGTCTTATC
1 TCACGCAATGCCTATCAACTAGTCACGCAATGCCTTA-C--AAACAAGTCACGCAATG-CCTATC
* * * *
9153747 AGAAACAAGTCACGCAAT-GTCTTATCAGAAACCAGTCACGCAATGCCTTATCAAAAACTAGTCA
62 ---AACAAGTCACACAATACT-TTATCAGAAACCAGTCACGCAATACCTTATCAAAAACTAATCA
9153811 CGCAATGCCCAAAGTTAG
123 CGCAATGCCCAAAGTTAG
*
9153829 TCACGCAATGCCTA-AAACTAGTCA
1 TCACGCAATGCCTATCAACTAGTCA
9153853 TGTAATTCCC
Statistics
Matches: 149, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
140 33 0.22
141 2 0.01
143 16 0.11
144 5 0.03
146 10 0.07
147 83 0.56
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (140 bp):
TCACGCAATGCCTATCAACTAGTCACGCAATGCCTTACAAACAAGTCACGCAATGCCTATCAACA
AGTCACACAATACTTTATCAGAAACCAGTCACGCAATACCTTATCAAAAACTAATCACGCAATGC
CCAAAGTTAG
Found at i:9153817 original size:26 final size:25
Alignment explanation
Indices: 9153536--9153819 Score: 238
Period size: 26 Copynumber: 11.7 Consensus size: 25
9153526 ATGCTTTACT
*
9153536 AACTAATCACGCAATGCCTTA-C--
1 AACTAGTCACGCAATGCCTTATCAA
* * *
9153558 AACAAGTCATGCAATGCCTTA-C-T
1 AACTAGTCACGCAATGCCTTATCAA
*
9153581 AACAAGTCACGCAATGCC-TATC--
1 AACTAGTCACGCAATGCCTTATCAA
* * * *
9153603 AACTAGTCACACAATACTTTATTAGA
1 AACTAGTCACGCAATGCCTTATCA-A
*
9153629 AACTAGTCACGCAATACCTTATCAAA
1 AACTAGTCACGCAATGCCTTATC-AA
* *
9153655 AACTAATCACGTAATGCC----CAA
1 AACTAGTCACGCAATGCCTTATCAA
**
9153676 AGTTAGTCACGCAATGCC-TATC--
1 AACTAGTCACGCAATGCCTTATCAA
9153698 AACTAGTCACGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCA-A
* *
9153724 AACAAGTCACGCAATGTCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCA-A
* *
9153750 AACAAGTCACGCAATGTCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCA-A
*
9153776 AACCAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATC-AA
9153802 AACTAGTCACGCAATGCC
1 AACTAGTCACGCAATGCC
9153820 CAAAGTTAGT
Statistics
Matches: 221, Mismatches: 26, Indels: 26
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.07
22 52 0.24
23 25 0.11
24 1 0.00
26 125 0.57
27 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (25 bp):
AACTAGTCACGCAATGCCTTATCAA
Found at i:9153866 original size:21 final size:21
Alignment explanation
Indices: 9153653--9153866 Score: 86
Period size: 26 Copynumber: 9.2 Consensus size: 21
9153643 TACCTTATCA
* *
9153653 AAAACTAATCACGTAATGCCC
1 AAAACTAGTCACGCAATGCCC
** *
9153674 AAAGTTAGTCACGCAATGCCT
1 AAAACTAGTCACGCAATGCCC
*
9153695 ATCAACTAGTCACGCAATGCCTTATC
1 A-AAACTAGTCACGCAATGCC----C
* *
9153721 AGAAACAAGTCACGCAATGTCTTATC
1 A-AAACTAGTCACGCAATG-C---CC
* *
9153747 AGAAACAAGTCACGCAATGTCTTATC
1 A-AAACTAGTCACGCAATG-C---CC
*
9153773 AGAAACCAGTCACGCAATGCCTTATC
1 A-AAACTAGTCACGCAATGCC----C
9153799 AAAAACTAGTCACGCAATGCCC
1 -AAAACTAGTCACGCAATGCCC
** *
9153821 AAAGTTAGTCACGCAATGCCT
1 AAAACTAGTCACGCAATGCCC
* * *
9153842 AAAACTAGTCATGTAATTCCC
1 AAAACTAGTCACGCAATGCCC
9153863 AAAA
1 AAAA
9153867 ATCACCAAAA
Statistics
Matches: 154, Mismatches: 25, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
21 54 0.35
22 17 0.11
25 1 0.01
26 80 0.52
27 2 0.01
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
AAAACTAGTCACGCAATGCCC
Found at i:9155673 original size:19 final size:18
Alignment explanation
Indices: 9155651--9155696 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
9155641 TTAAAATAAA
*
9155651 ATATATAATATAAAAAATT
1 ATATATAAAATAAAAAA-T
*
9155670 ATATTAAAAAATAAAAAAT
1 ATA-TATAAAATAAAAAAT
9155689 ATATATAA
1 ATATATAA
9155697 GATTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 12 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATATATAAAATAAAAAAT
Found at i:9155693 original size:31 final size:32
Alignment explanation
Indices: 9155643--9155717 Score: 91
Period size: 31 Copynumber: 2.3 Consensus size: 32
9155633 AAAAGAAATT
*
9155643 AAAATAAAATATATAATATAAAAAATTATATTAA
1 AAAATAAAA-ATATAATATAAAAAATTATAAT-A
* *
9155677 AAAATAAAAA-AT-ATATATAAGATTATAATA
1 AAAATAAAAATATAATATAAAAAATTATAATA
9155707 AAAATAAAAAT
1 AAAATAAAAAT
9155718 GAATATATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 11 0.30
31 14 0.38
32 2 0.05
33 1 0.03
34 9 0.24
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (32 bp):
AAAATAAAAATATAATATAAAAAATTATAATA
Found at i:9155724 original size:31 final size:31
Alignment explanation
Indices: 9155655--9155725 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
9155645 AATAAAATAT
* *
9155655 ATAATATAAAAAATTATATTAAAAAATAAAA
1 ATAATATATAAAATTATAATAAAAAATAAAA
*
9155686 A-ATATATATAAGATTATAAT-AAAAATAAAA
1 ATA-ATATATAAAATTATAATAAAAAATAAAA
9155716 ATGAATATAT
1 AT-AATATAT
9155726 GATATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 12 0.35
31 21 0.62
32 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (31 bp):
ATAATATATAAAATTATAATAAAAAATAAAA
Found at i:9156648 original size:33 final size:33
Alignment explanation
Indices: 9156611--9156684 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
9156601 AAAAAAATTT
* * *
9156611 AATATTTTTCTGTTGTTTGGAT-AAATTGTTAAA
1 AATATTTTT-TATTGTTTAGATCAAATTGTGAAA
**
9156644 AATATTTTTTATTGTTTAGATCATCTTGTGAAA
1 AATATTTTTTATTGTTTAGATCAAATTGTGAAA
9156677 AATATTTT
1 AATATTTT
9156685 CTAACATCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 10 0.29
33 25 0.71
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.53
Consensus pattern (33 bp):
AATATTTTTTATTGTTTAGATCAAATTGTGAAA
Found at i:9157659 original size:33 final size:33
Alignment explanation
Indices: 9157622--9157685 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
9157612 TCATGTTATC
*
9157622 ATCAATTATAATATGTCAACATGCCACATCATA
1 ATCAATTATAATATGTCAACATGACACATCATA
* * *
9157655 ATCAATTATGATATTTTAACATGACACATCA
1 ATCAATTATAATATGTCAACATGACACATCA
9157686 GCGTCACACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (33 bp):
ATCAATTATAATATGTCAACATGACACATCATA
Found at i:9157782 original size:30 final size:29
Alignment explanation
Indices: 9157748--9157844 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
9157738 TTATAAGAGC
9157748 TTATTTGACTTAAAATAAAAGTATAAGGAT
1 TTATTTGA-TTAAAATAAAAGTATAAGGAT
* *
9157778 TTATTTGGTTTAAAATAAAAATATAAGGACT
1 TTATTT-GATTAAAATAAAAGTATAAGGA-T
* ** **
9157809 TTA-TTGAATGCAATAAAAGTATAAGGGC
1 TTATTTGATTAAAATAAAAGTATAAGGAT
9157837 TTATTTGA
1 TTATTTGA
9157845 ATTTTCTTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
28 3 0.05
29 20 0.36
30 27 0.49
31 5 0.09
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (29 bp):
TTATTTGATTAAAATAAAAGTATAAGGAT
Found at i:9157841 original size:28 final size:30
Alignment explanation
Indices: 9157791--9157846 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
9157781 TTTGGTTTAA
9157791 AATAAAAATATAAGGACTTTA-TTGAATGC
1 AATAAAAATATAAGGACTTTATTTGAATGC
* *
9157820 AATAAAAGTATAAGGGC-TTATTTGAAT
1 AATAAAAATATAAGGACTTTATTTGAAT
9157847 TTTCTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (30 bp):
AATAAAAATATAAGGACTTTATTTGAATGC
Found at i:9162518 original size:92 final size:92
Alignment explanation
Indices: 9162416--9162601 Score: 372
Period size: 92 Copynumber: 2.0 Consensus size: 92
9162406 AACACTTTCT
9162416 TATATATACTAAACACTTCAATATTATTTTCTAGGAGTCATTTTCCCACTAATCATGTTTCATTG
1 TATATATACTAAACACTTCAATATTATTTTCTAGGAGTCATTTTCCCACTAATCATGTTTCATTG
9162481 GCAATGTTGTGGTGGTAAAATACCAAA
66 GCAATGTTGTGGTGGTAAAATACCAAA
9162508 TATATATACTAAACACTTCAATATTATTTTCTAGGAGTCATTTTCCCACTAATCATGTTTCATTG
1 TATATATACTAAACACTTCAATATTATTTTCTAGGAGTCATTTTCCCACTAATCATGTTTCATTG
9162573 GCAATGTTGTGGTGGTAAAATACCAAA
66 GCAATGTTGTGGTGGTAAAATACCAAA
9162600 TA
1 TA
9162602 CAACCTAATT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (92 bp):
TATATATACTAAACACTTCAATATTATTTTCTAGGAGTCATTTTCCCACTAATCATGTTTCATTG
GCAATGTTGTGGTGGTAAAATACCAAA
Found at i:9163938 original size:32 final size:33
Alignment explanation
Indices: 9163868--9163953 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
9163858 CATCTCTTAA
*
9163868 ATATATTTTATTTTCATTTCTTATTATAATCTT
1 ATATATTTTATTTTCATTTTTTATTATAATCTT
*
9163901 ATATATTTTATTTTCATTTTTTA-TATAATTTT
1 ATATATTTTATTTTCATTTTTTATTATAATCTT
* * *
9163933 CTATATTATATATTTGATTTT
1 ATATATTTTAT-TTTCATTTT
9163954 AATTTTTTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 17 0.36
33 30 0.64
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTTTTATTATAATCTT
Found at i:9164102 original size:16 final size:17
Alignment explanation
Indices: 9164075--9164108 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9164065 GTAAAATATT
*
9164075 TTTAACAAAGTAATAAA
1 TTTAACAAAGTAAAAAA
9164092 TTTAA-AAAGTAAAAAA
1 TTTAACAAAGTAAAAAA
9164108 T
1 T
9164109 CTTTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TTTAACAAAGTAAAAAA
Found at i:9164211 original size:13 final size:13
Alignment explanation
Indices: 9164193--9164220 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9164183 CGATAATATA
9164193 ATTATATTATAAT
1 ATTATATTATAAT
9164206 ATTATATTATAAT
1 ATTATATTATAAT
9164219 AT
1 AT
9164221 AATTTAATTA
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:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATATTATAAT
Found at i:9182606 original size:2 final size:2
Alignment explanation
Indices: 9182599--9182633 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9182589 TTACCTCCTT
9182599 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9182634 TCATGGACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9184776 original size:4 final size:4
Alignment explanation
Indices: 9184769--9184795 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9184759 GAAGGATATA
9184769 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
9184796 ATCTTGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:9190296 original size:17 final size:16
Alignment explanation
Indices: 9190264--9190307 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
9190254 TATTATTTAA
9190264 ACATAAAACTATATATTTT
1 ACATAAAA--ATATA-TTT
9190283 ACATAAAAATATATTT
1 ACATAAAAATATATTT
*
9190299 AAATAAAAA
1 ACATAAAAA
9190308 AATTAAGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 11 0.46
17 5 0.21
19 8 0.33
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (16 bp):
ACATAAAAATATATTT
Found at i:9193120 original size:9 final size:9
Alignment explanation
Indices: 9193094--9193123 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
9193084 ATAATAATTA
9193094 TAATTATAT
1 TAATTATAT
9193103 TAATTATAT
1 TAATTATAT
9193112 TAATTATAT
1 TAATTATAT
9193121 TAA
1 TAA
9193124 AAATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAATTATAT
Found at i:9193129 original size:18 final size:18
Alignment explanation
Indices: 9193094--9193129 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9193084 ATAATAATTA
**
9193094 TAATTATATTAATTATAT
1 TAATTATATTAAAAATAT
9193112 TAATTATATTAAAAATAT
1 TAATTATATTAAAAATAT
9193130 ATAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTATATTAAAAATAT
Found at i:9193140 original size:16 final size:16
Alignment explanation
Indices: 9193119--9193159 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9193109 TATTAATTAT
*
9193119 ATTAAAAATATATAAA
1 ATTAAAAAAATATAAA
9193135 ATTAAAAAAATATAAA
1 ATTAAAAAAATATAAA
*
9193151 AGTAAAAAA
1 ATTAAAAAA
9193160 TAATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
ATTAAAAAAATATAAA
Found at i:9193412 original size:86 final size:84
Alignment explanation
Indices: 9193321--9193583 Score: 377
Period size: 86 Copynumber: 3.1 Consensus size: 84
9193311 TCCAACTGTT
* * *
9193321 TTTTTTTCTCACTTATTTCTTCTATTTCCAATCAACGTATTGAATGATTTCCAATAGCTATCTTT
1 TTTTTTTCTCACTTATTTCTTCTATTTCCAATCAACGTATT-AATGATTTCCAATAGTTTTTTTT
9193386 TCCTATATATAAAACCTATTA
65 TCCTATATATAAAACC-ATTA
* *
9193407 TTTTTTTCTCACTTATTTCTTCTATTTCCAATCAAAGTATTTAATGATTTCCAACAGTTTTTTTT
1 TTTTTTTCTCACTTATTTCTTCTATTTCCAATCAACGTA-TTAATGATTTCCAATAGTTTTTTTT
*
9193472 TCCTATATATAAAACCAAT-
65 TCCTATATATAAAACCATTA
*
9193491 TTTTTTTCTCACTTATTTC-TCATATTTCCAATCAACGTATTAATGATTTTCAATAGTTTTTTTT
1 TTTTTTTCTCACTTATTTCTTC-TATTTCCAATCAACGTATTAATGATTTCCAATAG-TTTTTTT
* *
9193555 TTCTTATATGTAAAACCAATTA
64 TTCCTATATATAAAACC-ATTA
9193577 TTTTTTT
1 TTTTTTT
9193584 TAAATGTATT
Statistics
Matches: 160, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
83 17 0.11
84 57 0.36
85 4 0.03
86 80 0.50
87 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.04, T:0.51
Consensus pattern (84 bp):
TTTTTTTCTCACTTATTTCTTCTATTTCCAATCAACGTATTAATGATTTCCAATAGTTTTTTTTT
CCTATATATAAAACCATTA
Found at i:9193595 original size:15 final size:15
Alignment explanation
Indices: 9193575--9193614 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9193565 TAAAACCAAT
9193575 TATTTTTTTTAAATG-
1 TATTTTTTTTAAA-GC
*
9193590 TATTTTTTTCAAAGC
1 TATTTTTTTTAAAGC
9193605 TATTTTTTTT
1 TATTTTTTTT
9193615 TTCAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (15 bp):
TATTTTTTTTAAAGC
Found at i:9195973 original size:16 final size:17
Alignment explanation
Indices: 9195940--9195973 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9195930 AATTAATTAT
9195940 ATTAAAAAAATATAAAA
1 ATTAAAAAAATATAAAA
*
9195957 ATTAAAAAAATGTAAAA
1 ATTAAAAAAATATAAAA
9195974 GTAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
ATTAAAAAAATATAAAA
Found at i:9195978 original size:16 final size:17
Alignment explanation
Indices: 9195942--9195979 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9195932 TTAATTATAT
*
9195942 TAAAAAAATATAAAAAT
1 TAAAAAAATATAAAAAG
*
9195959 TAAAAAAATGT-AAAAG
1 TAAAAAAATATAAAAAG
9195975 TAAAA
1 TAAAA
9195980 TATAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
TAAAAAAATATAAAAAG
Found at i:9196840 original size:30 final size:30
Alignment explanation
Indices: 9196804--9196867 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
9196794 TAAGAAGTTA
*
9196804 ATGAAGAGATTCAAAATGACCATAGAAATC
1 ATGAAGAGATTCAAAATGACCATAAAAATC
*
9196834 ATGAAGAGATTCAAAATGATCATAAAAATC
1 ATGAAGAGATTCAAAATGACCATAAAAATC
9196864 ATGA
1 ATGA
9196868 TGAAGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.22
Consensus pattern (30 bp):
ATGAAGAGATTCAAAATGACCATAAAAATC
Found at i:9221650 original size:33 final size:32
Alignment explanation
Indices: 9221612--9221687 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
9221602 GACCACCTTC
* * *
9221612 CTCTCCTCTCTCGACTGGCCTTCCCCCATCTT
1 CTCTCCTCTCTCAACCGACCTTCCCCCATCTT
*
9221644 CATCTCCTCTCTCAACCGATCTTCCCCCATCTT
1 C-TCTCCTCTCTCAACCGACCTTCCCCCATCTT
*
9221677 CCCTCCTCTCT
1 CTCTCCTCTCT
9221688 TAGTCGATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 10 0.26
33 28 0.74
ACGTcount: A:0.09, C:0.51, G:0.05, T:0.34
Consensus pattern (32 bp):
CTCTCCTCTCTCAACCGACCTTCCCCCATCTT
Found at i:9222093 original size:23 final size:23
Alignment explanation
Indices: 9222040--9222093 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
9222030 ATGAAAGTAA
*
9222040 AAATTATATAACTAATTTAATAT
1 AAATTATTTAACTAATTTAATAT
9222063 AAATTATTTAA-TAATTTAATAAT
1 AAATTATTTAACTAATTTAAT-AT
9222086 AAATTATT
1 AAATTATT
9222094 GATGTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATTATTTAACTAATTTAATAT
Found at i:9231640 original size:24 final size:24
Alignment explanation
Indices: 9231613--9231661 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9231603 TTCTACGCTT
9231613 ATGCTTCCCATGCTTAAATTTGCC
1 ATGCTTCCCATGCTTAAATTTGCC
*
9231637 ATGCTTCCCATGCTTGAATTTGCC
1 ATGCTTCCCATGCTTAAATTTGCC
9231661 A
1 A
9231662 CCATGATGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (24 bp):
ATGCTTCCCATGCTTAAATTTGCC
Found at i:9232035 original size:33 final size:33
Alignment explanation
Indices: 9231974--9232036 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
9231964 ACTAATTCTT
* * * * *
9231974 GATTTTGCTAACGGGTTATAGTAGTTAGCATAC
1 GATTTTACTAACAGGTTACAATAATTAGCATAC
9232007 GATTTTACTAACAGGTTACAATAATTAGCA
1 GATTTTACTAACAGGTTACAATAATTAGCA
9232037 CATGAACTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (33 bp):
GATTTTACTAACAGGTTACAATAATTAGCATAC
Found at i:9249669 original size:35 final size:34
Alignment explanation
Indices: 9249620--9249688 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
9249610 AAGGTGATGA
9249620 TTGTGATGTCCTTACAATTTCAGAAAATATGGAT
1 TTGTGATGTCCTTACAATTTCAGAAAATATGGAT
*
9249654 NTTGTGATGTTCTTACAATTTCAGAAAATATGGAT
1 -TTGTGATGTCCTTACAATTTCAGAAAATATGGAT
9249689 GCAAATTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.39
Consensus pattern (34 bp):
TTGTGATGTCCTTACAATTTCAGAAAATATGGAT
Found at i:9250880 original size:12 final size:12
Alignment explanation
Indices: 9250863--9250888 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9250853 ATTCTTGTGT
9250863 TTTTCTGTTTGC
1 TTTTCTGTTTGC
9250875 TTTTCTGTTTGC
1 TTTTCTGTTTGC
9250887 TT
1 TT
9250889 ATTTTCTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.69
Consensus pattern (12 bp):
TTTTCTGTTTGC
Found at i:9252781 original size:30 final size:30
Alignment explanation
Indices: 9252729--9252785 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9252719 TAATTAGTTA
9252729 TAAAGATTAATTTAATTAAAAATAAAAGTC
1 TAAAGATTAATTTAATTAAAAATAAAAGTC
* *
9252759 TAAAGACTT-ATTTGATTCAAAATAAAA
1 TAAAGA-TTAATTTAATTAAAAATAAAA
9252786 ATATAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAAGATTAATTTAATTAAAAATAAAAGTC
Found at i:9256617 original size:2 final size:2
Alignment explanation
Indices: 9256610--9256637 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9256600 TAAGCAGTGA
9256610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9256638 TTTTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9257096 original size:2 final size:2
Alignment explanation
Indices: 9257089--9257145 Score: 78
Period size: 2 Copynumber: 28.0 Consensus size: 2
9257079 TGACTCAAGA
* * *
9257089 AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AG AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
9257132 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
9257146 TTGTTTCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 47 0.98
3 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9260142 original size:13 final size:13
Alignment explanation
Indices: 9260124--9260148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9260114 TGATGATAAT
9260124 AATAATAATAAAA
1 AATAATAATAAAA
9260137 AATAATAATAAA
1 AATAATAATAAA
9260149 GAGGGAACAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAATAATAAAA
Found at i:9271667 original size:21 final size:22
Alignment explanation
Indices: 9271641--9271698 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
9271631 AATTTTTTAA
9271641 ATTTTTTTA-ATTTATATTA-TT
1 ATTTTTTTATATTTAT-TTATTT
9271662 A-TTTTTTATATTTATTTATTT
1 ATTTTTTTATATTTATTTATTT
9271683 ATTTTTATTATATTTA
1 ATTTTT-TTATATTTA
9271699 CTCATATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.30
21 10 0.30
22 4 0.12
23 9 0.27
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (22 bp):
ATTTTTTTATATTTATTTATTT
Found at i:9271668 original size:30 final size:30
Alignment explanation
Indices: 9271632--9271693 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
9271622 TCAATTTTAA
*
9271632 ATTTTTTAAATTTTTTTAATTTA-TATTATT
1 ATTTTTTAAATTTATTT-ATTTATTATTATT
* *
9271662 ATTTTTTATATTTATTTATTTATTTTTATT
1 ATTTTTTAAATTTATTTATTTATTATTATT
9271692 AT
1 AT
9271694 ATTTACTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (30 bp):
ATTTTTTAAATTTATTTATTTATTATTATT
Found at i:9271708 original size:23 final size:22
Alignment explanation
Indices: 9271663--9271710 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
9271653 TATATTATTA
* * *
9271663 TTTTTTATATTTATTTATTTAT
1 TTTTTTATATTTACTCATATAT
9271685 TTTTATTATATTTACTCATATAT
1 TTTT-TTATATTTACTCATATAT
9271708 TTT
1 TTT
9271711 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTATATTTACTCATATAT
Found at i:9273534 original size:10 final size:11
Alignment explanation
Indices: 9273521--9273553 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9273511 TTTTTAAATG
9273521 TTGTT-AAAAA
1 TTGTTGAAAAA
9273531 TTGTTGAAAAA
1 TTGTTGAAAAA
*
9273542 ATGTTGAAAAA
1 TTGTTGAAAAA
9273553 T
1 T
9273554 AGGAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (11 bp):
TTGTTGAAAAA
Found at i:9275779 original size:16 final size:18
Alignment explanation
Indices: 9275758--9275796 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9275748 GTGAAATTAA
9275758 TTATTATTT-T-TATTTT
1 TTATTATTTATATATTTT
9275774 TTATTATTTATATATTTT
1 TTATTATTTATATATTTT
9275792 TTATT
1 TTATT
9275797 CTTGACTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 1 0.05
18 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATTATTTATATATTTT
Found at i:9275808 original size:18 final size:18
Alignment explanation
Indices: 9275768--9275811 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9275758 TTATTATTTT
*
9275768 TATTTTTTATTATTTATA
1 TATTTTTTATTATTGATA
*
9275786 TATTTTTTATTCTTGACTA
1 TATTTTTTATTATTGA-TA
9275805 -ATTTTTT
1 TATTTTTT
9275812 TATATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTTTTTATTATTGATA
Found at i:9277562 original size:1 final size:1
Alignment explanation
Indices: 9277556--9277643 Score: 59
Period size: 1 Copynumber: 88.0 Consensus size: 1
9277546 NNNNNNNNNN
* * * * * * * * * * *
9277556 TTTTTTTTTTGTGTTTTTGTTTTTGTTTTTTTCTTTTTTTTTTGTGTTTGTTTGTGTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
9277621 TTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
9277644 GTTGTTTAAA
Statistics
Matches: 61, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (1 bp):
T
Found at i:9277576 original size:6 final size:6
Alignment explanation
Indices: 9277556--9277646 Score: 82
Period size: 6 Copynumber: 15.3 Consensus size: 6
9277546 NNNNNNNNNN
* * * *
9277556 TTTTTT TTTTGTG TTTTTG TTTTTG TTTTTT TCTTTTT TTTTTG TGTTTG
1 TTTTTG TTTT-TG TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG
*
9277606 TTTGTG TTTTT- TTTGTT- TTTTTG -TTTTG TTTTT- TTTTTG TT
1 TTTTTG TTTTTG TTT-TTG TTTTTG TTTTTG TTTTTG TTTTTG TT
9277647 GTTTAAATGA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
5 15 0.21
6 46 0.64
7 11 0.15
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:9277648 original size:19 final size:18
Alignment explanation
Indices: 9277556--9277650 Score: 86
Period size: 19 Copynumber: 4.9 Consensus size: 18
9277546 NNNNNNNNNN
9277556 TTTTTTTTTTG-TGTTTT
1 TTTTTTTTTTGTTGTTTT
* *
9277573 TGTTTTTGTTTTTTTCTTTT
1 T-TTTTT-TTTTGTTGTTTT
9277593 TTTTTTGTGTTTGTTTGTGTTT
1 TTTTTT-T-TTTG-TTGT-TTT
9277615 TTTTTGTTTTT-TTGTTTT
1 TTTTT-TTTTTGTTGTTTT
9277633 GTTTTTTTTTTGTTGTTT
1 -TTTTTTTTTTGTTGTTT
9277651 AAATGAGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
17 1 0.02
18 13 0.20
19 26 0.40
20 9 0.14
21 6 0.09
22 9 0.14
23 1 0.02
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTGTTGTTTT
Found at i:9277749 original size:21 final size:21
Alignment explanation
Indices: 9277725--9277829 Score: 122
Period size: 21 Copynumber: 5.0 Consensus size: 21
9277715 TTTTGAGGAA
*
9277725 AAAATGTGCCCGGAGGTTTTG
1 AAAATGTACCCGGAGGTTTTG
*
9277746 AAAATGTACCCGGAGACTTTAT-
1 AAAATGTACCCGGAG-GTTT-TG
* * *
9277768 AGAATGTACTCGAAGGTTTTG
1 AAAATGTACCCGGAGGTTTTG
*
9277789 AAAATGTACTCGGAGGTTTTG
1 AAAATGTACCCGGAGGTTTTG
*
9277810 AAAATATACCCGGAGGTTTT
1 AAAATGTACCCGGAGGTTTT
9277830 AAGGGAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.01
21 54 0.76
22 15 0.21
23 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (21 bp):
AAAATGTACCCGGAGGTTTTG
Found at i:9278140 original size:47 final size:47
Alignment explanation
Indices: 9278062--9278164 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 47
9278052 GATGCACCCG
* *
9278062 GAGGATTTAAGAGAATAATGTGTCCGAAGGTCTTCAGAATCTATCTA
1 GAGGATTTAAAAGAATAATGTGTCCGAAGGTCTTCAGAATCTACCTA
* * *
9278109 GAGGTTTTAAAAGAATAATGTGTCCGGAGGTCTTCAGAATGTACCTA
1 GAGGATTTAAAAGAATAATGTGTCCGAAGGTCTTCAGAATCTACCTA
9278156 GAGGATTTA
1 GAGGATTTA
9278165 GGAAATGTGG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (47 bp):
GAGGATTTAAAAGAATAATGTGTCCGAAGGTCTTCAGAATCTACCTA
Found at i:9278256 original size:189 final size:189
Alignment explanation
Indices: 9277931--9278290 Score: 596
Period size: 189 Copynumber: 1.9 Consensus size: 189
9277921 AGATTGTAAG
9277931 AGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGAATTTAAGAAATGTGGCTCCTCGAAA
1 AGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGAATTTAAGAAATGTGGCTCCTCGAAA
* *
9277996 ACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACTCGGAGGTTTTAGAAGATGCACCC
66 ACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACTCGGAGGTTTTAAAACATGCACCC
* *
9278061 GGAGGATTTAAGAGAATAATGTGTCCGAAGGTCTTCAGAATCTATCTAGAGGTTTTAAA
131 GGAGGATTTAAGAGAATAATGTGCCCCAAGGTCTTCAGAATCTATCTAGAGGTTTTAAA
* * * * *
9278120 AGAATAATGTGTCCGGAGGTCTTCAGAATGTACCTAGAGGATTTAGGAAATGTGGCTCCTCGAAA
1 AGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGAATTTAAGAAATGTGGCTCCTCGAAA
* *
9278185 ATTGAGGCAACGTAACTTTAAAAAATCTTGATACTAATTA-TCCGGAGGTTTTAAAACATGCACC
66 ACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACT-CGGAGGTTTTAAAACATGCACC
*
9278249 TGGAGGATTTAAGAGAATAATGTGCCCCAAGGTCTTCAGAAT
130 CGGAGGATTTAAGAGAATAATGTGCCCCAAGGTCTTCAGAAT
9278291 GTGCCCAGAG
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
188 1 0.01
189 157 0.99
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (189 bp):
AGAATAATGTGCCCGAAGGTCTTCAGAATGTACCCAGAGAATTTAAGAAATGTGGCTCCTCGAAA
ACTGAGGCAACGTAACTTTAAAAAATCTTGACACTAATTACTCGGAGGTTTTAAAACATGCACCC
GGAGGATTTAAGAGAATAATGTGCCCCAAGGTCTTCAGAATCTATCTAGAGGTTTTAAA
Found at i:9279674 original size:83 final size:81
Alignment explanation
Indices: 9279531--9279694 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 81
9279521 AATTCCCATC
* * * * * *
9279531 TTCACTTTAGATTACCCTTTTGGGTTTTCACCCTAGAGCTTCATCTTTTTCACTCACTTTTTTTC
1 TTCACTCTAGACTACCCTTTCGGGTTTTCACCATAAAGCTTCATCTTTCTCACTCAC-TTTTTTC
9279596 TTTTT-TTTTGTCTTTATT
65 TTTTTATTTT-T-TTTATT
* * **
9279614 TTCACTCTAGACTGCCCTTTCGGGTTTTCGCCATAAAGCTTCATCTTTCTCACTTGCTTTTTTCT
1 TTCACTCTAGACTACCCTTTCGGGTTTTCACCATAAAGCTTCATCTTTCTCACTCACTTTTTTCT
9279679 TTTTATTTTTTTTATT
66 TTTTATTTTTTTTATT
9279695 CATTATTCCA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 6 0.09
82 13 0.19
83 51 0.73
ACGTcount: A:0.13, C:0.23, G:0.09, T:0.55
Consensus pattern (81 bp):
TTCACTCTAGACTACCCTTTCGGGTTTTCACCATAAAGCTTCATCTTTCTCACTCACTTTTTTCT
TTTTATTTTTTTTATT
Found at i:9280110 original size:19 final size:19
Alignment explanation
Indices: 9280059--9280113 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
9280049 TCTTCCTTTC
*
9280059 TTTTTTCAATTTTCATTTTCA
1 TTTTTTCAATCTTCA--TTCA
*
9280080 TTTTTTC-TTCTTCATTCA
1 TTTTTTCAATCTTCATTCA
9280098 TTTTTTCAATCTTCAT
1 TTTTTTCAATCTTCAT
9280114 GTTGATGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 11 0.37
19 7 0.23
20 5 0.17
21 7 0.23
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTTTCAATCTTCATTCA
Found at i:9283424 original size:55 final size:56
Alignment explanation
Indices: 9283338--9283444 Score: 166
Period size: 56 Copynumber: 1.9 Consensus size: 56
9283328 AGATTACAAA
*
9283338 AAAATCTAAGTTGTGTAAAACATTTATTTTTCC-ATTAATCATC-ATTTTTTTGTNT
1 AAAATCTAAGTCGTGTAAAACATTTATTTTTCCTATTAATCATCTATTTTTTTGT-T
9283393 AAAATCTAAGTCGTAGTAAAACATTTA-TTTTCCTATTAATCATCTATTTTTT
1 AAAATCTAAGTCGT-GTAAAACATTTATTTTTCCTATTAATCATCTATTTTTT
9283445 GTTTTATTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
55 19 0.40
56 22 0.46
57 7 0.15
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (56 bp):
AAAATCTAAGTCGTGTAAAACATTTATTTTTCCTATTAATCATCTATTTTTTTGTT
Found at i:9283467 original size:2 final size:2
Alignment explanation
Indices: 9283460--9283484 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9283450 ATTCTTTTAT
9283460 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9283485 TTTGTTGTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9290946 original size:13 final size:13
Alignment explanation
Indices: 9290930--9290959 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9290920 TTTTATGTGC
9290930 TTTTATTATATTA
1 TTTTATTATATTA
*
9290943 TTTTGTTATATTA
1 TTTTATTATATTA
9290956 TTTT
1 TTTT
9290960 TATTGGTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTATTATATTA
Found at i:9307738 original size:17 final size:17
Alignment explanation
Indices: 9307713--9307746 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9307703 TTTTGTATGT
* *
9307713 TTTTGATGAAAGAAGAA
1 TTTTAATGAAAAAAGAA
9307730 TTTTAATGAAAAAAGAA
1 TTTTAATGAAAAAAGAA
9307747 GAACAATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (17 bp):
TTTTAATGAAAAAAGAA
Found at i:9313114 original size:14 final size:14
Alignment explanation
Indices: 9313095--9313125 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9313085 GTTTGTACTA
9313095 ATAACAGGTTGCTG
1 ATAACAGGTTGCTG
*
9313109 ATAACAGGTTGTTG
1 ATAACAGGTTGCTG
9313123 ATA
1 ATA
9313126 TCATTACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (14 bp):
ATAACAGGTTGCTG
Found at i:9323005 original size:45 final size:45
Alignment explanation
Indices: 9322921--9323007 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
9322911 GATAACTTGA
* * *
9322921 AGTCATCACAATCAACCAAGGATAGATAGCTAAATCAATCTTCAT
1 AGTCATCACAATCAACCAAAGATAGACAGCTAAACCAATCTTCAT
* *
9322966 AGTCATCACAATCAACCAAAGATA-AGCGGCTGAACCAATCTT
1 AGTCATCACAATCAACCAAAGATAGA-CAGCTAAACCAATCTT
9323008 TACAATCACC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (45 bp):
AGTCATCACAATCAACCAAAGATAGACAGCTAAACCAATCTTCAT
Found at i:9324918 original size:44 final size:44
Alignment explanation
Indices: 9324836--9324919 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
9324826 TTGTTACTAA
* *
9324836 TTTCGTCACTAGTATTTATCACAATATGATAATGTTGTCATTGG
1 TTTCGTCACTAGTATTTATCACAATATGAGAATATTGTCATTGG
* * *
9324880 TTTCGTCACTAGTATTTGTCACAGTGTGAGAATATTGTCA
1 TTTCGTCACTAGTATTTATCACAATATGAGAATATTGTCA
9324920 CTGTTTTCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (44 bp):
TTTCGTCACTAGTATTTATCACAATATGAGAATATTGTCATTGG
Found at i:9325449 original size:44 final size:44
Alignment explanation
Indices: 9325351--9325564 Score: 216
Period size: 44 Copynumber: 4.7 Consensus size: 44
9325341 ACCATAAGTG
* * *
9325351 TAGTTGAGTTCAACTAGATGAACAAAATTTATATAGAACCCAAATAAGTC
1 TAGTTGAGTTCAACTAGAT-AACAAAA--TATAT---ACCTAAATGAGCC
9325401 TAGTTGAGATT-AACTAGATAACAAAATATATACCTAAATGAGCC
1 TAGTTGAG-TTCAACTAGATAACAAAATATATACCTAAATGAGCC
* *
9325445 TAGTTGAGATCAACTATAGATAACAAAATATATACCTAAATGAGGC
1 TAGTTGAGTTCAAC--TAGATAACAAAATATATACCTAAATGAGCC
* * * *
9325491 TAGCTAAGTTCAATTAGATAACAAAATATATACCTAAACGAGTCC
1 TAGTTGAGTTCAACTAGATAACAAAATATATACCTAAATGAG-CC
** *
9325536 -AGTTTTGTTCAACTAGATAACCAAATATA
1 TAGTTGAGTTCAACTAGATAACAAAATATA
9325565 CATATAGAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 72 0.50
45 1 0.01
46 39 0.27
47 5 0.03
49 7 0.05
50 16 0.11
51 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.28
Consensus pattern (44 bp):
TAGTTGAGTTCAACTAGATAACAAAATATATACCTAAATGAGCC
Found at i:9328019 original size:30 final size:30
Alignment explanation
Indices: 9327969--9328025 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9327959 TTTAATCCAG
*
9327969 GAAATATCAACCTAAAAAAAA-ATAAACCT
1 GAAATATCAACCAAAAAAAAACATAAACCT
9327998 GAAATAATCAA-CAAAATAAAAACATAAA
1 GAAAT-ATCAACCAAAA-AAAAACATAAA
9328026 AAATAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.38
30 10 0.42
31 5 0.21
ACGTcount: A:0.67, C:0.14, G:0.04, T:0.16
Consensus pattern (30 bp):
GAAATATCAACCAAAAAAAAACATAAACCT
Found at i:9328460 original size:2 final size:2
Alignment explanation
Indices: 9328453--9328496 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9328443 TCATGTAAGA
9328453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9328495 AT
1 AT
9328497 GTTTTAACAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9328700 original size:12 final size:13
Alignment explanation
Indices: 9328678--9328702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9328668 TGACGTGGTA
9328678 CAAAAATTTTTTT
1 CAAAAATTTTTTT
9328691 CAAAAATTTTTT
1 CAAAAATTTTTT
9328703 GATCTGTCAC
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
CAAAAATTTTTTT
Found at i:9329553 original size:23 final size:23
Alignment explanation
Indices: 9329519--9329573 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
9329509 ATTTAAAATG
*
9329519 CTGTCAC-AATTTTGTTATGAAT
1 CTGTCACTAATTTTGTCATGAAT
9329541 -TCGTCACTAATTTTGTCATGAAT
1 CT-GTCACTAATTTTGTCATGAAT
9329564 CTGTCACTAA
1 CTGTCACTAA
9329574 ATCTGTCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
23 22 0.76
24 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (23 bp):
CTGTCACTAATTTTGTCATGAAT
Found at i:9329580 original size:23 final size:23
Alignment explanation
Indices: 9329535--9329581 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
9329525 CAATTTTGTT
* *
9329535 ATGAATTCGTCACTAATTTTGTC
1 ATGAATTCGTCACTAAATCTGTC
9329558 ATGAA-TCTGTCACTAAATCTGTC
1 ATGAATTC-GTCACTAAATCTGTC
9329581 A
1 A
9329582 CAAAGTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (23 bp):
ATGAATTCGTCACTAAATCTGTC
Found at i:9329674 original size:13 final size:13
Alignment explanation
Indices: 9329656--9329680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9329646 GTCATTATCT
9329656 GTGACAAAAAATA
1 GTGACAAAAAATA
9329669 GTGACAAAAAAT
1 GTGACAAAAAAT
9329681 TTTTCCGTCA
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:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (13 bp):
GTGACAAAAAATA
Found at i:9330607 original size:14 final size:14
Alignment explanation
Indices: 9330590--9330619 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9330580 TTTTTTTAAT
9330590 TTAGTTTTTATTTA
1 TTAGTTTTTATTTA
*
9330604 TTAGTTTTTTTTTA
1 TTAGTTTTTATTTA
9330618 TT
1 TT
9330620 TTTCGTAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (14 bp):
TTAGTTTTTATTTA
Found at i:9330621 original size:24 final size:24
Alignment explanation
Indices: 9330561--9330622 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
9330551 TTTTAGTGAG
*
9330561 TTATTTTAATTTTATGTTATTTTT
1 TTATTTTATTTTTATGTTATTTTT
*
9330585 TTAATTTAGTTTTTAT-TTATTAGTTT
1 TTATTTTA-TTTTTATGTTATT--TTT
9330611 TT-TTTTATTTTT
1 TTATTTTATTTTT
9330623 CGTAGGAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
24 17 0.53
25 10 0.31
26 5 0.16
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (24 bp):
TTATTTTATTTTTATGTTATTTTT
Found at i:9340473 original size:10 final size:10
Alignment explanation
Indices: 9340450--9340483 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9340440 TTTGGGAGTT
9340450 AAAAAAAAAGG
1 AAAAAAAAA-G
*
9340461 AAAAGAAAAG
1 AAAAAAAAAG
9340471 AAAAAAAAAG
1 AAAAAAAAAG
9340481 AAA
1 AAA
9340484 TAAAGTATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:9342321 original size:14 final size:14
Alignment explanation
Indices: 9342302--9342328 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9342292 TTGGTTAAAA
9342302 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
9342316 TTTTAGTTAATTA
1 TTTTAGTTAATTA
9342329 ATTAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:9351855 original size:8 final size:8
Alignment explanation
Indices: 9351842--9351962 Score: 140
Period size: 8 Copynumber: 16.6 Consensus size: 8
9351832 TTTTATAATA
9351842 TATATATG
1 TATATATG
9351850 TATATA--
1 TATATATG
9351856 TATATATG
1 TATATATG
9351864 TATATATG
1 TATATATG
9351872 --TATATG
1 TATATATG
9351878 TATATATG
1 TATATATG
9351886 --TATATG
1 TATATATG
9351892 TATATATG
1 TATATATG
9351900 --TATATG
1 TATATATG
9351906 TATATATG
1 TATATATG
9351914 TATATA--
1 TATATATG
9351920 TATATATG
1 TATATATG
9351928 --TATATG
1 TATATATG
9351934 TATATATG
1 TATATATG
*
9351942 TATATATA
1 TATATATG
*
9351950 TATATATA
1 TATATATG
9351958 TATAT
1 TATAT
9351963 GGAATCCATA
Statistics
Matches: 100, Mismatches: 1, Indels: 24
0.80 0.01 0.19
Matches are distributed among these distances:
6 36 0.36
8 64 0.64
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:9351962 original size:14 final size:14
Alignment explanation
Indices: 9351839--9351960 Score: 199
Period size: 14 Copynumber: 8.7 Consensus size: 14
9351829 ATATTTTATA
*
9351839 ATATATATATGTAT
1 ATATGTATATGTAT
*
9351853 ATATATATATGTAT
1 ATATGTATATGTAT
9351867 ATATGTATATGTAT
1 ATATGTATATGTAT
9351881 ATATGTATATGTAT
1 ATATGTATATGTAT
9351895 ATATGTATATGTAT
1 ATATGTATATGTAT
*
9351909 ATATGTATATATAT
1 ATATGTATATGTAT
9351923 ATATGTATATGTAT
1 ATATGTATATGTAT
*
9351937 ATATGTATATATAT
1 ATATGTATATGTAT
*
9351951 ATATATATAT
1 ATATGTATAT
9351961 ATGGAATCCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 103 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATATGTATATGTAT
Found at i:9355019 original size:36 final size:36
Alignment explanation
Indices: 9354911--9355008 Score: 169
Period size: 36 Copynumber: 2.7 Consensus size: 36
9354901 CATCCTAATT
9354911 AACCAAGGATAAGCAGTTGAATCAATCATCACAATC
1 AACCAAGGATAAGCAGTTGAATCAATCATCACAATC
* *
9354947 AACCAAGGATAAGTAGCTGAATCAATCATCACAATC
1 AACCAAGGATAAGCAGTTGAATCAATCATCACAATC
*
9354983 AACCAAGGACAAGCAGTTGAATCAAT
1 AACCAAGGATAAGCAGTTGAATCAAT
9355009 TTTCATAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (36 bp):
AACCAAGGATAAGCAGTTGAATCAATCATCACAATC
Found at i:9355064 original size:45 final size:45
Alignment explanation
Indices: 9354969--9355064 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 45
9354959 GTAGCTGAAT
* * **
9354969 CAATCATCACAATCAACCAAGGACAAGCAGTTGAATCAATTTTCA
1 CAATCATCACAATAAACCAAGGACAAACAACTGAATCAATTTTCA
* *
9355014 TAATCATCACAATAAACCAAGGATAAACAACTGAA-CTAATCTTT-A
1 CAATCATCACAATAAACCAAGGACAAACAACTGAATC-AAT-TTTCA
9355059 CAATCA
1 CAATCA
9355065 CAACATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.02
45 38 0.90
46 3 0.07
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (45 bp):
CAATCATCACAATAAACCAAGGACAAACAACTGAATCAATTTTCA
Found at i:9357266 original size:16 final size:17
Alignment explanation
Indices: 9357230--9357271 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
9357220 GGTTTTCTTT
* *
9357230 CCCCTAAGTGTGTGCTC
1 CCCCTTAGTATGTGCTC
9357247 CCCCTTAGTATGTGCTC
1 CCCCTTAGTATGTGCTC
9357264 CCCCTTAG
1 CCCCTTAG
9357272 AGCGTGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.12, C:0.38, G:0.19, T:0.31
Consensus pattern (17 bp):
CCCCTTAGTATGTGCTC
Found at i:9363544 original size:21 final size:21
Alignment explanation
Indices: 9363520--9363582 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
9363510 TTAGTTTTGC
*
9363520 TTTCCAATTCTAATTTTAGAG
1 TTTCCAATTCTAATTTTAGAA
* * *
9363541 TTTCAAAATCT-ATTTTTGAA
1 TTTCCAATTCTAATTTTAGAA
9363561 TGTTCCAATTC-AATTTGTAGAA
1 T-TTCCAATTCTAATTT-TAGAA
9363583 AGTTTCTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 8 0.25
21 20 0.62
22 4 0.12
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCCAATTCTAATTTTAGAA
Found at i:9367212 original size:81 final size:81
Alignment explanation
Indices: 9367077--9367266 Score: 267
Period size: 81 Copynumber: 2.3 Consensus size: 81
9367067 GATGATGGAG
* *
9367077 TTACATTCTTTCTAACTTGGGCTGCTAGACAAGGATGATGAAGAATGTACATTCTTTCC-AACTT
1 TTACATTCTTTCTAACTTGGGCTGCTAGACAAGGACGATGAAGAATGTACATTC-TGCCTAACTT
* *
9367141 GGGCTTGCTGGTGTGGC
65 AGGCTTCCTGGTGTGGC
* * *
9367158 TTACATTCTCTCTAACTTGGGCTGCTAGACAAGTACGATGAAGAA-GCTACATTCTGCCTGACTT
1 TTACATTCTTTCTAACTTGGGCTGCTAGACAAGGACGATGAAGAATG-TACATTCTGCCTAACTT
9367222 AGGCTTCCTGGTGTGGC
65 AGGCTTCCTGGTGTGGC
* *
9367239 TTACATTCTTTCCAACTTGGGCGGCTAG
1 TTACATTCTTTCTAACTTGGGCTGCTAG
9367267 GCAAAAAAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 4 0.04
81 93 0.96
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (81 bp):
TTACATTCTTTCTAACTTGGGCTGCTAGACAAGGACGATGAAGAATGTACATTCTGCCTAACTTA
GGCTTCCTGGTGTGGC
Found at i:9371670 original size:27 final size:25
Alignment explanation
Indices: 9371647--9371716 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 25
9371637 TATATATACA
9371647 TAAAATAGTATGTATAATGTATATGAT
1 TAAAATA-TATGTATAATGTATAT-AT
*
9371674 TAATATAATATGTATAAATG-ATATAT
1 TAAAAT-ATATGTAT-AATGTATATAT
9371700 TAATAATATATGTATAA
1 TAA-AATATATGTATAA
9371717 ATTAATTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 2 0.05
26 13 0.34
27 18 0.47
28 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (25 bp):
TAAAATATATGTATAATGTATATAT
Found at i:9371710 original size:26 final size:28
Alignment explanation
Indices: 9371650--9371718 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 28
9371640 ATATACATAA
9371650 AATAGTATGTAT-AATGTATATGATTAAT
1 AATA-TATGTATAAATGTATATGATTAAT
9371678 -ATAATATGTATAAATG-ATAT-ATTAAT
1 AAT-ATATGTATAAATGTATATGATTAAT
9371704 AATATATGTATAAAT
1 AATATATGTATAAAT
9371719 TAATTGTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 18 0.47
27 15 0.39
28 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (28 bp):
AATATATGTATAAATGTATATGATTAAT
Found at i:9371982 original size:14 final size:15
Alignment explanation
Indices: 9371955--9371984 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9371945 ATATATTAAT
9371955 TTTATATAGTATATA
1 TTTATATAGTATATA
9371970 TTTATAT-GTATATA
1 TTTATATAGTATATA
9371984 T
1 T
9371985 ATAGTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTATATAGTATATA
Found at i:9372429 original size:2 final size:2
Alignment explanation
Indices: 9372422--9372456 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9372412 AATATAAGTT
* *
9372422 TA TA TA TA TA TA TG TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9372457 TTTATTACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9396889 original size:18 final size:17
Alignment explanation
Indices: 9396866--9396919 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
9396856 AAGCTATCTA
9396866 ACTTATCTAGATTATGT
1 ACTTATCTAGATTATGT
* **
9396883 CACTTATTTAGGACAATG-
1 -ACTTATCTA-GATTATGT
9396901 ACTTATCTAGATTATGT
1 ACTTATCTAGATTATGT
9396918 AC
1 AC
9396920 AAGATTTCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 8 0.29
19 5 0.18
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (17 bp):
ACTTATCTAGATTATGT
Found at i:9401277 original size:21 final size:21
Alignment explanation
Indices: 9401253--9401293 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9401243 GCCATTAACT
*
9401253 CACAC-TATATAATTTTATGTC
1 CACACTTATA-AAATTTATGTC
9401274 CACACTTATAAAATTTATGT
1 CACACTTATAAAATTTATGT
9401294 TAATGTCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (21 bp):
CACACTTATAAAATTTATGTC
Found at i:9401533 original size:31 final size:30
Alignment explanation
Indices: 9401467--9401533 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
9401457 TGATATTGTC
9401467 AATTTTGAAAAGTACAAGGACTAAATCCAT
1 AATTTTGAAAAGTACAAGGACTAAATCCAT
* * * * *
9401497 CATTTTGATAGAGTACATGGACTAATTGCAT
1 AATTTTGA-AAAGTACAAGGACTAAATCCAT
9401528 AATTTT
1 AATTTT
9401534 ACCTTTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (30 bp):
AATTTTGAAAAGTACAAGGACTAAATCCAT
Found at i:9406032 original size:42 final size:42
Alignment explanation
Indices: 9406015--9406181 Score: 219
Period size: 42 Copynumber: 4.0 Consensus size: 42
9406005 GTTGGGTAAT
* *
9406015 CATCGACTTATGCGCACTACTACTCGCACATAGCCGAGTCAG
1 CATCGACTTATGCGCACTCCCACTCGCACATAGCCGAGTCAG
* * *
9406057 CATCGGCTTATGCGCACTCCCACTTGCACATAGTC-AGGTCAG
1 CATCGACTTATGCGCACTCCCACTCGCACATAGCCGA-GTCAG
* * *
9406099 CATCGACTAATACGCACTCCCACTCGCACATAGCTGAGTCAG
1 CATCGACTTATGCGCACTCCCACTCGCACATAGCCGAGTCAG
* * *
9406141 CATCGGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCA
1 CATCGACTTATGCGCACTCCCACTCGCACATAGCCGAGTCA
9406182 ATATCATTAC
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 104 0.98
43 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.22
Consensus pattern (42 bp):
CATCGACTTATGCGCACTCCCACTCGCACATAGCCGAGTCAG
Found at i:9406103 original size:84 final size:84
Alignment explanation
Indices: 9405986--9406173 Score: 259
Period size: 84 Copynumber: 2.2 Consensus size: 84
9405976 AAGCTCATAT
* ** * * * *
9405986 GCACTCCCACTAGCACATGGTTGGGTAATCATCGACTTATGCGCACTACTACTCGCACATAGCCG
1 GCACTCCCACTAGCACATAGTCAGGTAAGCATCGACTAATACGCACTACCACTCGCACATAGCCG
9406051 AGTCAGCATCGGCTTATGC
66 AGTCAGCATCGGCTTATGC
* * * *
9406070 GCACTCCCACTTGCACATAGTCAGGTCAGCATCGACTAATACGCACTCCCACTCGCACATAGCTG
1 GCACTCCCACTAGCACATAGTCAGGTAAGCATCGACTAATACGCACTACCACTCGCACATAGCCG
9406135 AGTCAGCATCGGCTTATGC
66 AGTCAGCATCGGCTTATGC
* *
9406154 GCACTCCTACTCGCACATAG
1 GCACTCCCACTAGCACATAG
9406174 CCGGGTCAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (84 bp):
GCACTCCCACTAGCACATAGTCAGGTAAGCATCGACTAATACGCACTACCACTCGCACATAGCCG
AGTCAGCATCGGCTTATGC
Found at i:9407587 original size:12 final size:11
Alignment explanation
Indices: 9407560--9407616 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
9407550 AACTAAGCTT
9407560 TTTCTTCCTTTC
1 TTTC-TCCTTTC
* *
9407572 TCTCT-TTTTC
1 TTTCTCCTTTC
9407582 TTTCTCCTTTC
1 TTTCTCCTTTC
*
9407593 TTTCT--TTCC
1 TTTCTCCTTTC
9407602 TTTCTCCTTTC
1 TTTCTCCTTTC
9407613 TTTC
1 TTTC
9407617 AACTGATCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
9 8 0.22
10 8 0.22
11 17 0.47
12 3 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTCTCCTTTC
Found at i:9407606 original size:20 final size:21
Alignment explanation
Indices: 9407560--9407616 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
9407550 AACTAAGCTT
* *
9407560 TTTCTTCCTTTCTCTCTTTTTC
1 TTTC-TCCTTTCTTTCTTTTCC
9407582 TTTCTCCTTTCTTTC-TTTCC
1 TTTCTCCTTTCTTTCTTTTCC
9407602 TTTCTCCTTTCTTTC
1 TTTCTCCTTTCTTTC
9407617 AACTGATCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.58
21 10 0.30
22 4 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTCTCCTTTCTTTCTTTTCC
Found at i:9409552 original size:21 final size:18
Alignment explanation
Indices: 9409526--9409566 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
9409516 AAACCAAGTC
9409526 AAAGAAAATGAAAGAAGAACT
1 AAAGAAAA-GAAA-AA-AACT
9409547 AAAGAAAAGAAAAAAACT
1 AAAGAAAAGAAAAAAACT
9409565 AA
1 AA
9409567 GATTTGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 2 0.10
20 4 0.20
21 8 0.40
ACGTcount: A:0.73, C:0.05, G:0.15, T:0.07
Consensus pattern (18 bp):
AAAGAAAAGAAAAAAACT
Found at i:9409899 original size:39 final size:39
Alignment explanation
Indices: 9409845--9409924 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
9409835 TTGTACTGCA
* *
9409845 CTGCTTCATCTTGTGACGTAATTTTCTCCTTCTTCTAAG
1 CTGCTCCATCTTGTGACATAATTTTCTCCTTCTTCTAAG
* *
9409884 CTGCTCCATCTTGTGACATGATTTTCTCCTTCTTTTAAG
1 CTGCTCCATCTTGTGACATAATTTTCTCCTTCTTCTAAG
9409923 CT
1 CT
9409925 AAACTGGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.15, C:0.26, G:0.12, T:0.46
Consensus pattern (39 bp):
CTGCTCCATCTTGTGACATAATTTTCTCCTTCTTCTAAG
Found at i:9412394 original size:13 final size:13
Alignment explanation
Indices: 9412376--9412400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9412366 TTCTAGAAAA
9412376 TTTATAAAATCAT
1 TTTATAAAATCAT
9412389 TTTATAAAATCA
1 TTTATAAAATCA
9412401 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9415596 original size:15 final size:15
Alignment explanation
Indices: 9415576--9415626 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
9415566 TTCTTAAAAC
9415576 AACTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
9415591 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
9415606 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
9415621 ATCTTT
1 AACTTT
9415627 GATCTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Done.