Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 170 of 297
Found at i:57123346 original size:46 final size:46
Alignment explanation
Indices: 57123220--57123431 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 46
57123210 GTATCGATTC
* * * * *
57123220 CATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTA-GTCTATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCG-AGGCCGATG
*
57123265 CATGTCCCAGACATGTCTTACACT-G-ACTTATGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTCGAGGCCGATG
* * * *
57123311 TATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGCCGATG
* * * * * *
57123357 CCATGTCCCAGACATGAACTTACACTGGCTCTC-ACAAT-GTGGCTGATG
1 -CATGTCCCAGACATG-TCTTACACTAGCACTCGTC--TCGAGGCCGATG
57123405 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
57123432 TCACAATAGC
Statistics
Matches: 135, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 13 0.10
45 14 0.10
46 55 0.41
47 32 0.24
48 20 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGCCGATG
Found at i:57126931 original size:43 final size:43
Alignment explanation
Indices: 57126791--57126953 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
57126781 ATCAAGATGT
* *
57126791 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGATA-TGA
** * *
57126834 GATTATGTGTAAGACCATGCCTAGGACATTGGCATC-ACTAAT-C
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGA-T-ATGA
* * * *
57126877 GATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGA
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGATATGA
* * *
57126920 GATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTAGGACATTGGCAT
57126954 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 8 0.08
43 85 0.88
44 3 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGATATGA
Found at i:57129544 original size:12 final size:12
Alignment explanation
Indices: 57129527--57129558 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
57129517 TCTAACTTGG
57129527 GTCACACGGCCA
1 GTCACACGGCCA
*
57129539 GTCACAAGGCCA
1 GTCACACGGCCA
57129551 GTCACACG
1 GTCACACG
57129559 CCCACGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.09
Consensus pattern (12 bp):
GTCACACGGCCA
Found at i:57131725 original size:46 final size:46
Alignment explanation
Indices: 57131675--57131850 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
57131665 TGGTTGAGCA
57131675 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57131721 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57131766 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57131814 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57131851 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57131831 original size:93 final size:93
Alignment explanation
Indices: 57131672--57131842 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57131662 GGATGGTTGA
* *
57131672 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57131737 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57131765 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57131830 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57131843 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57134813 original size:15 final size:15
Alignment explanation
Indices: 57134774--57134844 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
57134764 GTATCTTGGG
*
57134774 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
57134789 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
57134804 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
57134819 TTTCTGTA-TCTTGGA
1 TTTCTTTATTC-TGGA
57134834 TTTCTTTATTC
1 TTTCTTTATTC
57134845 GGTTTCCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
14 2 0.04
15 41 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:57134843 original size:30 final size:31
Alignment explanation
Indices: 57134764--57134844 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
57134754 GCATAGTATC
*
57134764 GTATCTTGGGTTTCTTTA-TCCTGGATCTCT
1 GTATCTTGGATTTCTTTATTCCTGGATCTCT
* * *
57134794 TTAT-TCTGGATTTCTTTATTCC-GGGTTTCT
1 GTATCT-TGGATTTCTTTATTCCTGGATCTCT
57134824 GTATCTTGGATTTCTTTATTC
1 GTATCTTGGATTTCTTTATTC
57134845 GGTTTCCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.02
30 38 0.88
31 4 0.09
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.54
Consensus pattern (31 bp):
GTATCTTGGATTTCTTTATTCCTGGATCTCT
Found at i:57140267 original size:12 final size:12
Alignment explanation
Indices: 57140250--57140280 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
57140240 ACATATGCCC
*
57140250 GTGTGTTGGGTT
1 GTGTGTTGGGCT
57140262 GTGTGTTGGGCT
1 GTGTGTTGGGCT
57140274 GTGTGTT
1 GTGTGTT
57140281 TCACACGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (12 bp):
GTGTGTTGGGCT
Found at i:57141422 original size:24 final size:24
Alignment explanation
Indices: 57141385--57141430 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
57141375 AGCAATCAAG
57141385 TAACAGGAAACTCG-AGAGAGCTTA
1 TAACAGGAAACTCGTA-AGAGCTTA
**
57141409 TAACAGGATGCTCGTAAGAGCT
1 TAACAGGAAACTCGTAAGAGCT
57141431 ATGGTGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (24 bp):
TAACAGGAAACTCGTAAGAGCTTA
Found at i:57143511 original size:14 final size:14
Alignment explanation
Indices: 57143492--57143519 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57143482 TCTTGCCTCA
57143492 TTACGTAGATCTTG
1 TTACGTAGATCTTG
57143506 TTACGTAGATCTTG
1 TTACGTAGATCTTG
57143520 CATGCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
TTACGTAGATCTTG
Found at i:57159939 original size:48 final size:48
Alignment explanation
Indices: 57159868--57160104 Score: 228
Period size: 48 Copynumber: 4.9 Consensus size: 48
57159858 GACATTGGGT
* * *
57159868 GATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGACCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
* **
57159916 GATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCGTC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCAC
* * * * *
57159964 AATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
* * ** *
57160012 -ATTATGAAAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG-GTATT
1 GA-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-C
* ** * * *
57160060 GAGACAAGAACTAGTGTAAGACCATGTCTAGGACATGGAATCGAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
57160105 AATTTACCCT
Statistics
Matches: 154, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
47 3 0.02
48 150 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
Found at i:57160033 original size:96 final size:96
Alignment explanation
Indices: 57159869--57160053 Score: 300
Period size: 96 Copynumber: 1.9 Consensus size: 96
57159859 ACATTGGGTG
*
57159869 ATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCTAGTGTA
1 ATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAAGCTAGTGTA
* *
57159934 AGACCATGTTTGGGACATGGCATCAGCGTCA
66 AGACCATGTCTAGGACATGGCATCAGCGTCA
* * *
57159965 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCAC-ATTATGAAAGCTAGTGT
1 ATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGACCACGA-TATGAAAGCTAGTGT
57160029 AAGACCATGTCTAGGACATGGCATC
65 AAGACCATGTCTAGGACATGGCATC
57160054 GGTATTGAGA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 1 0.01
96 81 0.99
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
ATATGTGTGCTAATGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAAGCTAGTGTA
AGACCATGTCTAGGACATGGCATCAGCGTCA
Found at i:57160074 original size:96 final size:95
Alignment explanation
Indices: 57159877--57160104 Score: 268
Period size: 96 Copynumber: 2.4 Consensus size: 95
57159867 TGATATGTGT
* *
57159877 GCTAATGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAGAGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAAGCTAGTGTAAGACCATG
* * * *
57159942 TTTGGGACATGGCATCAGCGTCAATATGTGT
66 TCTAGGACATGGCATCAGCGT-AATATGAGA
* *
57159973 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCAC-ATTATGAAAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGA-TATGAAAGCTAGTGTAAGACCAT
57160037 GTCTAGGACATGGCATC-G-GT-AT-TGAGACAA
65 GTCTAGGACATGGCATCAGCGTAATATGAG---A
* *
57160067 GAACTAGTGTAAGACCATGTCTAGGACATGGAATCGAC
1 G--CTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
57160105 AATTTACCCT
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
91 3 0.03
92 2 0.02
94 3 0.03
95 2 0.02
96 104 0.91
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAAGCTAGTGTAAGACCATG
TCTAGGACATGGCATCAGCGTAATATGAGA
Found at i:57166652 original size:20 final size:20
Alignment explanation
Indices: 57166627--57166674 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
57166617 GATTCTGATA
*
57166627 CACATGATATGTATGATATG
1 CACATGATATGTATAATATG
57166647 CACATGATATGTATAATATG
1 CACATGATATGTATAATATG
57166667 CACATGAT
1 CACATGAT
57166675 GTACTCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (20 bp):
CACATGATATGTATAATATG
Found at i:57166758 original size:26 final size:25
Alignment explanation
Indices: 57166722--57166789 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 25
57166712 AGGAAGTGCA
57166722 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTACC
*
57166747 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTACC
*
57166773 AACAGGGC-TTTGCCCCA
1 AAAAGGGCTTTTGCCCCA
57166790 ATTATTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 9 0.22
25 7 0.17
26 24 0.60
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTACC
Found at i:57166805 original size:24 final size:24
Alignment explanation
Indices: 57166722--57166805 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 24
57166712 AGGAAGTGCA
* *
57166722 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGC-TTTGCCCCAGATTATC
*
57166747 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGATTATC
* *
57166773 AACAGGGCTTTGCCCCA-ATTATT
1 AAAAGGGCTTTGCCCCAGATTATC
57166796 AAAAGAGGCT
1 AAAAG-GGCT
57166806 AGGTCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 8 0.15
24 13 0.25
25 7 0.13
26 24 0.46
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:57188051 original size:22 final size:22
Alignment explanation
Indices: 57188024--57188145 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
57188014 CATGCATATG
57188024 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
57188046 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
57188069 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * *
57188093 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
57188118 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
57188140 TGTGAT
1 TGTGAT
57188146 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 23 0.31
23 17 0.23
24 17 0.23
25 17 0.23
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:57188060 original size:47 final size:47
Alignment explanation
Indices: 57187991--57188257 Score: 498
Period size: 47 Copynumber: 5.7 Consensus size: 47
57187981 ACNNNNNNNN
57187991 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
57188038 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
*
57188085 ATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
*
57188132 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCGGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
* *
57188179 ATGGCCAATGTGATGAATCTGAACATGCGTATGTGTGATAAGGCCGA
1 ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
57188226 ATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGGCCAATGTGATGAATGTGAACATGCATAT
57188258 ATGNNNNNNN
Statistics
Matches: 212, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 212 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGA
Found at i:57188192 original size:22 final size:22
Alignment explanation
Indices: 57188071--57188192 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
57188061 CATGCATATG
*
57188071 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
* * * *
57188093 TGTGATGAATGTGAACAT-GCATATA
1 TGTGAT-AAGGCGGA-ATGGC-CA-A
*
57188118 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCGGAATGGCCAA
* * *
57188140 TGTGATGAATGTGAACAT-G-CATA
1 TGTGAT-AAGGCGGA-ATGGCCA-A
57188163 TGTGTGATAAGGCGGAATGGCCAA
1 --TGTGATAAGGCGGAATGGCCAA
57188187 TGTGAT
1 TGTGAT
57188193 GAATCTGAAC
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 18 0.25
25 15 0.21
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCGGAATGGCCAA
Found at i:57195503 original size:12 final size:11
Alignment explanation
Indices: 57195474--57195570 Score: 58
Period size: 12 Copynumber: 8.5 Consensus size: 11
57195464 TATATGCACA
57195474 AAATATAT-AT
1 AAATATATAAT
57195484 ATAATATATAAT
1 A-AATATATAAT
57195496 GAAATATATAAT
1 -AAATATATAAT
57195508 AAA-ATATAAT
1 AAATATATAAT
** *
57195518 TTATAGAT-A-
1 AAATATATAAT
*
57195527 AAATATACAAT
1 AAATATATAAT
57195538 AATATAATATAAT
1 AA-AT-ATATAAT
57195551 GGATAATATATATAT
1 --A-AATATATA-AT
57195566 AAATA
1 AAATA
57195571 AAAATAATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
9 4 0.06
10 11 0.16
11 15 0.22
12 18 0.27
13 8 0.12
14 5 0.07
15 5 0.07
16 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (11 bp):
AAATATATAAT
Found at i:57195566 original size:33 final size:32
Alignment explanation
Indices: 57195503--57195571 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
57195493 AATGAAATAT
**
57195503 ATAATAAAATATAATTTATAGATAAAATATACA
1 ATAATAAAATATAATGGATAGATAAAATATA-A
* *
57195536 ATAATATAATATAATGGATA-ATATATATATAA
1 ATAATAAAATATAATGGATAGATA-AAATATAA
57195568 ATAA
1 ATAA
57195572 AAATAATAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 8 0.26
33 23 0.74
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (32 bp):
ATAATAAAATATAATGGATAGATAAAATATAA
Found at i:57195616 original size:28 final size:29
Alignment explanation
Indices: 57195585--57195641 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
57195575 TAATAACTAA
* *
57195585 TATTTATAA-AAA-TAAATAATATAAAAAG
1 TATTTAAAATAAATTAAAAAATA-AAAAAG
57195613 TATTTAAAATAAATTAAAAAATAAAAAAG
1 TATTTAAAATAAATTAAAAAATAAAAAAG
57195642 GGATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.32
29 9 0.36
30 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (29 bp):
TATTTAAAATAAATTAAAAAATAAAAAAG
Found at i:57196093 original size:11 final size:10
Alignment explanation
Indices: 57196075--57196100 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
57196065 AAACCATTTC
57196075 AGAAAAAAAA
1 AGAAAAAAAA
57196085 AGAAAAAAAA
1 AGAAAAAAAA
57196095 AGAAAA
1 AGAAAA
57196101 GAGAGAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:57199073 original size:27 final size:26
Alignment explanation
Indices: 57199013--57199066 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
57199003 CATGCACCAC
*
57199013 ATATTTTTTATTTTCATTATTAATAT
1 ATATATTTTATTTTCATTATTAATAT
57199039 ATATATTTTAGTTTTACA-TATTAA-AT
1 ATATATTTTA-TTTT-CATTATTAATAT
57199065 AT
1 AT
57199067 GTTATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 13 0.52
27 10 0.40
28 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
ATATATTTTATTTTCATTATTAATAT
Found at i:57202985 original size:27 final size:26
Alignment explanation
Indices: 57202925--57202978 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
57202915 CATGCACCAC
*
57202925 ATATTTTTTATTTTCATTATTAATAT
1 ATATATTTTATTTTCATTATTAATAT
57202951 ATATATTTTAGTTTTACA-TATTAA-AT
1 ATATATTTTA-TTTT-CATTATTAATAT
57202977 AT
1 AT
57202979 GTTATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 13 0.52
27 10 0.40
28 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (26 bp):
ATATATTTTATTTTCATTATTAATAT
Found at i:57214365 original size:5 final size:5
Alignment explanation
Indices: 57214355--57214400 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
57214345 TAAGTAAATG
*
57214355 TTATA TTATA -T-TA TTATA TTATA TTACA -T-TA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
57214401 ATAAAAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.09
4 4 0.11
5 28 0.80
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:57214373 original size:13 final size:13
Alignment explanation
Indices: 57214358--57214399 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
57214348 GTAAATGTTA
57214358 TATTATATTAT-T
1 TATTATATTATAT
*
57214370 ATATTATATTACAT
1 -TATTATATTATAT
57214384 TATTATATTATAT
1 TATTATATTATAT
57214397 TAT
1 TAT
57214400 AATAAAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 25 0.96
14 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:57214376 original size:18 final size:18
Alignment explanation
Indices: 57214355--57214400 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
57214345 TAAGTAAATG
57214355 TTATATTATATTATTATA
1 TTATATTATATTATTATA
*
57214373 TTATATTACATTATTATA
1 TTATATTATATTATTATA
57214391 TTATATTATA
1 TTATATTATA
57214401 ATAAAAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATTATATTATTATA
Found at i:57222167 original size:46 final size:48
Alignment explanation
Indices: 57222053--57222217 Score: 145
Period size: 48 Copynumber: 3.5 Consensus size: 48
57222043 TGTGTGCCAA
** * * ** * *
57222053 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAACATCGAGACATACAAGCTAG
* * * *
57222101 TGTAAGACATGTATGAGACATGCATCAACATTGAGACA-A-GAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAACATCGAGACATACAAGCTAG
* ** * *
57222147 TGTAAGACATGTCTGGGACATTCATCGGCCTCGAGATATACAAGCTAG
1 TGTAAGACATGTCTGGGACATGCATCAACATCGAGACATACAAGCTAG
*
57222195 TGTAAGACCATGTCCGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
57222218 GTGTCGGCAT
Statistics
Matches: 92, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
46 34 0.37
47 1 0.01
48 44 0.48
49 13 0.14
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGCATCAACATCGAGACATACAAGCTAG
Found at i:57226397 original size:16 final size:16
Alignment explanation
Indices: 57226376--57226407 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57226366 TCCTTGCATA
57226376 CACAAACTCTACCTTT
1 CACAAACTCTACCTTT
*
57226392 CACAAACTCTATCTTT
1 CACAAACTCTACCTTT
57226408 GAACATTATA
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:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
CACAAACTCTACCTTT
Found at i:57230129 original size:22 final size:21
Alignment explanation
Indices: 57230091--57230131 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
57230081 CACTAGACAC
**
57230091 AGGGGCACACGTTCGTGTGGG
1 AGGGGCACACGCCCGTGTGGG
57230112 AGGGGCAACACGCCCGTGTG
1 AGGGGC-ACACGCCCGTGTG
57230132 ACCTATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGGG
Found at i:57240275 original size:40 final size:40
Alignment explanation
Indices: 57240231--57240342 Score: 152
Period size: 40 Copynumber: 2.8 Consensus size: 40
57240221 GGATATAGCT
* * * **
57240231 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATGTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
*
57240271 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
* *
57240311 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
57240343 TTATCATCCG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTA
Found at i:57244318 original size:164 final size:164
Alignment explanation
Indices: 57244047--57244380 Score: 650
Period size: 164 Copynumber: 2.0 Consensus size: 164
57244037 CCATTCATCA
57244047 TCATGCTCATAACACTAAAATAGGCATAAGCGCAACTTACTCGTCACTATCCAACACAATTTACA
1 TCATGCTCATAACACTAAAATAGGCATAAGCGCAACTTACTCGTCACTATCCAACACAATTTACA
57244112 TAGCATATACTAAGCTCACATCTCATGCATGTAACACCCCTTACCCATGTCCGACGCCGAAACAG
66 TAGCATATACTAAGCTCACATCTCATGCATGTAACACCCCTTACCCATGTCCGACGCCGAAACAG
57244177 GGTATGAGCCATTACATGACTTAAACATACACAT
131 GGTATGAGCCATTACATGACTTAAACATACACAT
*
57244211 TCATGCTCATAACACTAAAATAGGCATAAGTGCAACTTACTCGTCACTATCCAACACAATTTACA
1 TCATGCTCATAACACTAAAATAGGCATAAGCGCAACTTACTCGTCACTATCCAACACAATTTACA
*
57244276 TAGCATATACTAAGCTCACATCTCATGCATGTAACACCCCTTACCCATGTCCGACGTCGAAACAG
66 TAGCATATACTAAGCTCACATCTCATGCATGTAACACCCCTTACCCATGTCCGACGCCGAAACAG
57244341 GGTATGAGCCATTACATGACTTAAACATACACAT
131 GGTATGAGCCATTACATGACTTAAACATACACAT
57244375 TCATGC
1 TCATGC
57244381 AAAAACAAGG
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 168 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (164 bp):
TCATGCTCATAACACTAAAATAGGCATAAGCGCAACTTACTCGTCACTATCCAACACAATTTACA
TAGCATATACTAAGCTCACATCTCATGCATGTAACACCCCTTACCCATGTCCGACGCCGAAACAG
GGTATGAGCCATTACATGACTTAAACATACACAT
Found at i:57246474 original size:50 final size:50
Alignment explanation
Indices: 57246420--57246561 Score: 185
Period size: 50 Copynumber: 2.8 Consensus size: 50
57246410 AATCTTACAC
*
57246420 ATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCAT
1 ATATCGATGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCAT
* ** *
57246470 ATATCGAGGTTGATGCCATGTCCCAGATATGGTCTTACACTAGCTCTCAT
1 ATATCGATGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCAT
* * * * * *
57246520 CTCTCGGTGCCGATGCCATGTCCCAAACATGATCTTACACTG
1 ATATCGATGCCGATGCCATGTCCCAGATATGGTCTTACACTG
57246562 ACACATATCA
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (50 bp):
ATATCGATGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCTCAT
Found at i:57257044 original size:14 final size:15
Alignment explanation
Indices: 57257023--57257057 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
57257013 AGATGAGCAG
57257023 ATTTTTTTGGGTTTT
1 ATTTTTTTGGGTTTT
57257038 ATTTTTTTGGGTTTT
1 ATTTTTTTGGGTTTT
57257053 ATTTT
1 ATTTT
57257058 GTCTTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.17, T:0.74
Consensus pattern (15 bp):
ATTTTTTTGGGTTTT
Found at i:57257817 original size:94 final size:92
Alignment explanation
Indices: 57257696--57257868 Score: 219
Period size: 94 Copynumber: 1.9 Consensus size: 92
57257686 CATCATGTAG
57257696 CCGATGCATGTCCCAATCATGTCTTACACTGGCT-TACATCAA-GAAGCCGATGCATGTCCCAAA
1 CCGATGCATGTCCCAATCATGTCTTACACTGGCTCT-CAT-AATGAAGCCGATGCATGTCCCAAA
57257759 CATGGT-TTACACTAGCTCTCGTCTCAATA
64 CAT-GTCTTACACTAGCTCTCGTCTCAATA
* ** * *
57257788 CCGATGCAATGTCCCAGA-CATGGTCTTACATTGGCTCTCATAATGTGGCTGATGCATGTCCCAG
1 CCGATGC-ATGTCCCA-ATCAT-GTCTTACACTGGCTCTCATAATGAAGCCGATGCATGTCCCAA
57257852 ACATGTCTTACACTAGC
63 ACATGTCTTACACTAGC
57257869 GCACAGAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
92 7 0.10
93 15 0.21
94 47 0.67
95 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTCCCAATCATGTCTTACACTGGCTCTCATAATGAAGCCGATGCATGTCCCAAACA
TGTCTTACACTAGCTCTCGTCTCAATA
Found at i:57259994 original size:21 final size:20
Alignment explanation
Indices: 57259956--57260001 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
57259946 TTATCCTTTA
* *
57259956 ATTTTTTTTATTTTTTTCTT
1 ATTTTTGTTATTTCTTTCTT
*
57259976 CTTTTTGTTATTTCCTTTCTT
1 ATTTTTGTTATTT-CTTTCTT
57259997 ATTTT
1 ATTTT
57260002 CTAAATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (20 bp):
ATTTTTGTTATTTCTTTCTT
Found at i:57261893 original size:50 final size:50
Alignment explanation
Indices: 57261813--57262004 Score: 253
Period size: 50 Copynumber: 3.9 Consensus size: 50
57261803 CCGTGAGTAA
* * *
57261813 TGAGATCCCATGTAAAACCATGTTTGGGACATGGCATTGGCATCGATATG
1 TGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATG
*
57261863 TGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTGATATG
1 TGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATG
* * * * *
57261913 TGAGATCCCATGTAGGACCATGTTTGGGACATGGCATTGGCATCGGTATA
1 TGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATG
* * * *
57261963 T--GATCCCATGTAAGACCATATCTAGGATATGACCTTGGCATC
1 TGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC
57262005 TTATTGTGTG
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
48 34 0.27
50 91 0.73
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
TGAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATG
Found at i:57265094 original size:55 final size:55
Alignment explanation
Indices: 57265001--57265108 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
57264991 ACCTCCTTTT
* *
57265001 GGCCACACGGGCGTGTGCCATGTCCGTGCCTTAGAGTCAGTATTGTACACGAGTA
1 GGCCACACGGGCGTGTGCCATGGCCGTGCCTTAGAGTCAGTATTGCACACGAGTA
** *
57265056 GGCCACACGGGCGTGTGCCATGGCCGTGTGTT-GAAGTCAGTGTTGCACACGAG
1 GGCCACACGGGCGTGTGCCATGGCCGTGCCTTAG-AGTCAGTATTGCACACGAG
57265109 CTATGGGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 46 0.98
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.22
Consensus pattern (55 bp):
GGCCACACGGGCGTGTGCCATGGCCGTGCCTTAGAGTCAGTATTGCACACGAGTA
Found at i:57271487 original size:13 final size:13
Alignment explanation
Indices: 57271469--57271493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57271459 GCCTGGACTG
57271469 GTAATTCAGATCC
1 GTAATTCAGATCC
57271482 GTAATTCAGATC
1 GTAATTCAGATC
57271494 TGAGCTCTTT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
GTAATTCAGATCC
Found at i:57276148 original size:29 final size:29
Alignment explanation
Indices: 57276097--57276152 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
57276087 ACAAGTGATG
*
57276097 ATATGTGACAAATGTATGAGAAAATATGCA
1 ATATGTGACAAATGAATGAG-AAATATGCA
57276127 ATATGTG-CAAATGAATTG-GAAATATG
1 ATATGTGACAAATGAA-TGAGAAATATG
57276153 TGATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
29 8 0.33
30 9 0.38
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (29 bp):
ATATGTGACAAATGAATGAGAAATATGCA
Found at i:57276158 original size:28 final size:30
Alignment explanation
Indices: 57276095--57276158 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
57276085 GAACAAGTGA
*
57276095 TGATATGTGACAAATGTATGAGAAAATATG
1 TGATATGTGACAAATGAATGAGAAAATATG
**
57276125 CAATATGTG-CAAATGAATTG-G-AAATATG
1 TGATATGTGACAAATGAA-TGAGAAAATATG
57276153 TGATAT
1 TGATAT
57276159 ATATATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 11 0.39
29 8 0.29
30 9 0.32
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATGTGACAAATGAATGAGAAAATATG
Found at i:57276198 original size:54 final size:54
Alignment explanation
Indices: 57276137--57276245 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
57276127 ATATGTGCAA
57276137 ATGAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTT
1 ATGAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTT
57276191 ATGAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTT
1 ATGAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTT
57276245 A
1 A
57276246 GTTATGAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.42
Consensus pattern (54 bp):
ATGAATTGGAAATATGTGATATATATATTAATCATATGGTTGATGATAGTATTT
Found at i:57276848 original size:21 final size:23
Alignment explanation
Indices: 57276803--57276851 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
57276793 ATGATGTATG
*
57276803 ATTTGGTTGTAAAATGGTTGAGA
1 ATTTGGTTATAAAATGGTTGAGA
*
57276826 ATTTGG-TATAAAAT-GTTGTGA
1 ATTTGGTTATAAAATGGTTGAGA
57276847 ATTTG
1 ATTTG
57276852 ATGCTTGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 7 0.29
23 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.43
Consensus pattern (23 bp):
ATTTGGTTATAAAATGGTTGAGA
Found at i:57293794 original size:50 final size:48
Alignment explanation
Indices: 57293730--57293862 Score: 139
Period size: 50 Copynumber: 2.8 Consensus size: 48
57293720 TCACTATTTA
*
57293730 TGGACAAGCCACCACTGAGTTGTAGATAAACTGCCACTGATAACACTTTG
1 TGGA-AAGCCACCACTGAATTGTAGATAAACTGCCACTGA-AACACTTTG
* * * *
57293780 TGGAAAAGCCACCACT-AATATGCAAATATACTACCACTGAAACACTTTG
1 TGG-AAAGCCACCACTGAAT-TGTAGATAAACTGCCACTGAAACACTTTG
* *
57293829 T-G-AA-CAACCACTGATTTGTAGATAAACTGCCACT
1 TGGAAAGCCACCACTGAATTGTAGATAAACTGCCACT
57293863 TACTTCCACC
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
45 21 0.30
46 4 0.06
48 1 0.01
49 12 0.17
50 30 0.43
51 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (48 bp):
TGGAAAGCCACCACTGAATTGTAGATAAACTGCCACTGAAACACTTTG
Found at i:57295528 original size:65 final size:64
Alignment explanation
Indices: 57295402--57295536 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 64
57295392 GAAGTGGCCA
* *
57295402 CACACGTCCGTGTGCTAGGCCGTGTCCGATTAGGGGGTATACTGACTTATGCAACACGGCCAAGT
1 CACACGTCCGTGTGCTAGGCCGTGTCCGATTAGGGGGTATACTGACTTATACAACAAGGCC-AGT
* * *
57295467 CACACGTCCGTGTGCTAGGCCGTGTCCGATTAGGGGGTATACTGACTTGTACCATAAGGCCAGT
1 CACACGTCCGTGTGCTAGGCCGTGTCCGATTAGGGGGTATACTGACTTATACAACAAGGCCAGT
57295531 CACACG
1 CACACG
57295537 CCCATGGGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 9 0.14
65 56 0.86
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (64 bp):
CACACGTCCGTGTGCTAGGCCGTGTCCGATTAGGGGGTATACTGACTTATACAACAAGGCCAGT
Found at i:57304814 original size:28 final size:28
Alignment explanation
Indices: 57304782--57304863 Score: 119
Period size: 29 Copynumber: 2.9 Consensus size: 28
57304772 TACCTGTATT
* *
57304782 TGGCCCATTAAGCCCAATCATATTCATC
1 TGGCCCATTAGGCCCAATCATATTCATA
*
57304810 TGGCCCATTAGGCCCAAATCATATTTATA
1 TGGCCCATTAGGCCC-AATCATATTCATA
*
57304839 TGGCCCATTAGGCCCAATCACATTC
1 TGGCCCATTAGGCCCAATCATATTC
57304864 GTATTCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 22 0.46
29 26 0.54
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCATATTCATA
Found at i:57307373 original size:29 final size:29
Alignment explanation
Indices: 57307309--57307378 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
57307299 CTGTATTTGG
* * *
57307309 CCCATTAAGCCC-AATCATATTCATCTGG
1 CCCATTAGGCCCAAATCATATTCATATGA
*
57307337 CCCATTAGGCCCAAATCATATTTATATGA
1 CCCATTAGGCCCAAATCATATTCATATGA
*
57307366 CCCGTTAGGCCCA
1 CCCATTAGGCCCA
57307379 GTCACATTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCATATTCATATGA
Found at i:57309506 original size:956 final size:956
Alignment explanation
Indices: 57307654--57309566 Score: 3826
Period size: 956 Copynumber: 2.0 Consensus size: 956
57307644 ACGGATTCAT
57307654 AGTGTGTGTGCAATGTATGTACACACCTAGTAAGCAAACGTGATGCAATCTCCTTAGCCCAAACC
1 AGTGTGTGTGCAATGTATGTACACACCTAGTAAGCAAACGTGATGCAATCTCCTTAGCCCAAACC
57307719 TAAAATCGATATCACTCAAAGATTAATCACACGTACTTATCGATTACTTTACTAAAATCCAAAAT
66 TAAAATCGATATCACTCAAAGATTAATCACACGTACTTATCGATTACTTTACTAAAATCCAAAAT
57307784 CTCACATTAACCTTACCTAAACGCCAAGCCTTTACTAGTTTTTACTTTGATCACTAAACACGCGT
131 CTCACATTAACCTTACCTAAACGCCAAGCCTTTACTAGTTTTTACTTTGATCACTAAACACGCGT
57307849 ATTTCTCAAATTTGAAGAGCAAATCGGTAGGAATCCAAAACTGAAATCTGACACTAATTCCTTAC
196 ATTTCTCAAATTTGAAGAGCAAATCGGTAGGAATCCAAAACTGAAATCTGACACTAATTCCTTAC
57307914 CAAAGTCGATTAGAAAGAAGTGAGGGACTAAATACTCGATACTTATCAAAAACTGATTGGGGGAG
261 CAAAGTCGATTAGAAAGAAGTGAGGGACTAAATACTCGATACTTATCAAAAACTGATTGGGGGAG
57307979 CGAACACTTACACTAGAATCAACTGGTTGGAAAGAGTAGTGGCAGCACCAAGGGTATTCGGCTCT
326 CGAACACTTACACTAGAATCAACTGGTTGGAAAGAGTAGTGGCAGCACCAAGGGTATTCGGCTCT
57308044 TAGAGATTTGAATGGCAACAATTGATTACTCAGCACCAAAGAAGAGAGGAAGAAGAATCAACTAA
391 TAGAGATTTGAATGGCAACAATTGATTACTCAGCACCAAAGAAGAGAGGAAGAAGAATCAACTAA
57308109 AGCAAATAAAATATTGAGTAGAGGAGGGATAAGAATTCGGCACAAAGAAAGAAAAAAAAAAGGTT
456 AGCAAATAAAATATTGAGTAGAGGAGGGATAAGAATTCGGCACAAAGAAAGAAAAAAAAAAGGTT
57308174 TTCAGCTTTTTTTGAGAGAAGGGTTTCTGGCCCAAAGTGAAGGGAAATTCGTCATTAGCTTTTCA
521 TTCAGCTTTTTTTGAGAGAAGGGTTTCTGGCCCAAAGTGAAGGGAAATTCGTCATTAGCTTTTCA
57308239 ACCCTCCCATTCGGCACCTATTTATAGCCCTATAGCCGAATTCTTCAAGTCCAAGTTCCCAATTT
586 ACCCTCCCATTCGGCACCTATTTATAGCCCTATAGCCGAATTCTTCAAGTCCAAGTTCCCAATTT
57308304 GGCTCCACTTACTCCTCACTTCTCATCTCCTCGTTTTTCTCCCTGATAACCCATTGATCCTTTCC
651 GGCTCCACTTACTCCTCACTTCTCATCTCCTCGTTTTTCTCCCTGATAACCCATTGATCCTTTCC
57308369 TTAATTTTCTCTTCTGAACACTCCCCTTGGAGTCCATCTTCATGCCACTTCCATCATTCTAGAAG
716 TTAATTTTCTCTTCTGAACACTCCCCTTGGAGTCCATCTTCATGCCACTTCCATCATTCTAGAAG
57308434 GCCAAAATTAAACTCTAAAAATACTAAGCTAGGATTTGAACCTTGGACCCCATTTCTAGTTACTA
781 GCCAAAATTAAACTCTAAAAATACTAAGCTAGGATTTGAACCTTGGACCCCATTTCTAGTTACTA
57308499 ACGCCACCTCACTTAACCTTATGTGGAGTCACTTAGCCACTCCACCATAGGCTCTTTTTGTGTCC
846 ACGCCACCTCACTTAACCTTATGTGGAGTCACTTAGCCACTCCACCATAGGCTCTTTTTGTGTCC
57308564 AATTGTTTCTTCATTTATTCAAAAGCCCACCTACTTGTCAGCACTG
911 AATTGTTTCTTCATTTATTCAAAAGCCCACCTACTTGTCAGCACTG
57308610 AGTGTGTGTGCAATGTATGTACACACCTAGTAAGCAAACGTGATGCAATCTCCTTAGCCCAAACC
1 AGTGTGTGTGCAATGTATGTACACACCTAGTAAGCAAACGTGATGCAATCTCCTTAGCCCAAACC
57308675 TAAAATCGATATCACTCAAAGATTAATCACACGTACTTATCGATTACTTTACTAAAATCCAAAAT
66 TAAAATCGATATCACTCAAAGATTAATCACACGTACTTATCGATTACTTTACTAAAATCCAAAAT
57308740 CTCACATTAACCTTACCTAAACGCCAAGCCTTTACTAGTTTTTACTTTGATCACTAAACACGCGT
131 CTCACATTAACCTTACCTAAACGCCAAGCCTTTACTAGTTTTTACTTTGATCACTAAACACGCGT
57308805 ATTTCTCAAATTTGAAGAGCAAATCGGTAGGAATCCAAAACTGAAATCTGACACTAATTCCTTAC
196 ATTTCTCAAATTTGAAGAGCAAATCGGTAGGAATCCAAAACTGAAATCTGACACTAATTCCTTAC
57308870 CAAAGTCGATTAGAAAGAAGTGAGGGACTAAATACTCGATACTTATCAAAAACTGATTGGGGGAG
261 CAAAGTCGATTAGAAAGAAGTGAGGGACTAAATACTCGATACTTATCAAAAACTGATTGGGGGAG
57308935 CGAACACTTACACTAGAATCAACTGGTTGGAAAGAGTAGTGGCAGCACCAAGGGTATTCGGCTCT
326 CGAACACTTACACTAGAATCAACTGGTTGGAAAGAGTAGTGGCAGCACCAAGGGTATTCGGCTCT
57309000 TAGAGATTTGAATGGCAACAATTGATTACTCAGCACCAAAGAAGAGAGGAAGAAGAATCAACTAA
391 TAGAGATTTGAATGGCAACAATTGATTACTCAGCACCAAAGAAGAGAGGAAGAAGAATCAACTAA
57309065 AGCAAATAAAATATTGAGTAGAGGAGGGATAAGAATTCGGCACAAAGAAAGAAAAAAAAAAGGTT
456 AGCAAATAAAATATTGAGTAGAGGAGGGATAAGAATTCGGCACAAAGAAAGAAAAAAAAAAGGTT
57309130 TTCAGCTTTTTTTGAGAGAAGGGTTTCTGGCCCAAAGTGAAGGGAAATTCGTCATTAGCTTTTCA
521 TTCAGCTTTTTTTGAGAGAAGGGTTTCTGGCCCAAAGTGAAGGGAAATTCGTCATTAGCTTTTCA
57309195 ACCCTCCCATTCGGCACCTATTTATAGCCCTATAGCCGAATTCTTCAAGTCCAAGTTCCCAATTT
586 ACCCTCCCATTCGGCACCTATTTATAGCCCTATAGCCGAATTCTTCAAGTCCAAGTTCCCAATTT
57309260 GGCTCCACTTACTCCTCACTTCTCATCTCCTCGTTTTTCTCCCTGATAACCCATTGATCCTTTCC
651 GGCTCCACTTACTCCTCACTTCTCATCTCCTCGTTTTTCTCCCTGATAACCCATTGATCCTTTCC
57309325 TTAATTTTCTCTTCTGAACACTCCCCTTGGAGTCCATCTTCATGCCACTTCCATCATTCTAGAAG
716 TTAATTTTCTCTTCTGAACACTCCCCTTGGAGTCCATCTTCATGCCACTTCCATCATTCTAGAAG
57309390 GCCAAAATTAAACTCTAAAAATACTAAGCTAGGATTTGAACCTTGGACCCCATTTCTAGTTACTA
781 GCCAAAATTAAACTCTAAAAATACTAAGCTAGGATTTGAACCTTGGACCCCATTTCTAGTTACTA
57309455 ACGCCACCTCACTTAACCTTATGTGGAGTCACTTAGCCACTCCACCATAGGCTCTTTTTGTGTCC
846 ACGCCACCTCACTTAACCTTATGTGGAGTCACTTAGCCACTCCACCATAGGCTCTTTTTGTGTCC
57309520 AATTGTTTCTTCATTTATTCAAAAGCCCACCTACTTGTCAGCACTG
911 AATTGTTTCTTCATTTATTCAAAAGCCCACCTACTTGTCAGCACTG
57309566 A
1 A
57309567 TTCTTTCAAT
Statistics
Matches: 957, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
956 957 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (956 bp):
AGTGTGTGTGCAATGTATGTACACACCTAGTAAGCAAACGTGATGCAATCTCCTTAGCCCAAACC
TAAAATCGATATCACTCAAAGATTAATCACACGTACTTATCGATTACTTTACTAAAATCCAAAAT
CTCACATTAACCTTACCTAAACGCCAAGCCTTTACTAGTTTTTACTTTGATCACTAAACACGCGT
ATTTCTCAAATTTGAAGAGCAAATCGGTAGGAATCCAAAACTGAAATCTGACACTAATTCCTTAC
CAAAGTCGATTAGAAAGAAGTGAGGGACTAAATACTCGATACTTATCAAAAACTGATTGGGGGAG
CGAACACTTACACTAGAATCAACTGGTTGGAAAGAGTAGTGGCAGCACCAAGGGTATTCGGCTCT
TAGAGATTTGAATGGCAACAATTGATTACTCAGCACCAAAGAAGAGAGGAAGAAGAATCAACTAA
AGCAAATAAAATATTGAGTAGAGGAGGGATAAGAATTCGGCACAAAGAAAGAAAAAAAAAAGGTT
TTCAGCTTTTTTTGAGAGAAGGGTTTCTGGCCCAAAGTGAAGGGAAATTCGTCATTAGCTTTTCA
ACCCTCCCATTCGGCACCTATTTATAGCCCTATAGCCGAATTCTTCAAGTCCAAGTTCCCAATTT
GGCTCCACTTACTCCTCACTTCTCATCTCCTCGTTTTTCTCCCTGATAACCCATTGATCCTTTCC
TTAATTTTCTCTTCTGAACACTCCCCTTGGAGTCCATCTTCATGCCACTTCCATCATTCTAGAAG
GCCAAAATTAAACTCTAAAAATACTAAGCTAGGATTTGAACCTTGGACCCCATTTCTAGTTACTA
ACGCCACCTCACTTAACCTTATGTGGAGTCACTTAGCCACTCCACCATAGGCTCTTTTTGTGTCC
AATTGTTTCTTCATTTATTCAAAAGCCCACCTACTTGTCAGCACTG
Found at i:57311676 original size:8 final size:8
Alignment explanation
Indices: 57311663--57311689 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
57311653 CCTCATATAC
57311663 TTCCTCCG
1 TTCCTCCG
57311671 TTCCTCCG
1 TTCCTCCG
57311679 TTCCTCCG
1 TTCCTCCG
57311687 TTC
1 TTC
57311690 GCACCCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.11, T:0.41
Consensus pattern (8 bp):
TTCCTCCG
Found at i:57312162 original size:29 final size:29
Alignment explanation
Indices: 57312123--57312199 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
57312113 AATCATATTC
*
57312123 ATATGGCCCATTAGGCCTAAATCACCTAT
1 ATATGGCCCATTAGGCCTAAATCACATAT
* * * *
57312152 ATTTGGTCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCTAAATCACATAT
57312181 ATATGGCCCATTAGGCCTA
1 ATATGGCCCATTAGGCCTA
57312200 GTCACATTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCTAAATCACATAT
Found at i:57313389 original size:39 final size:39
Alignment explanation
Indices: 57313303--57313493 Score: 235
Period size: 38 Copynumber: 4.9 Consensus size: 39
57313293 GAATCTAGTC
* * ** *
57313303 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCGGATATAAT
* *
57313343 ACCAGCACTAGGCCTGCGGGACTTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
*
57313382 ACCAGCACGAAGCCTGCGGGA-TTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
57313420 ACCAGCACGAAGCCTGCGGGA-TTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
* * *
57313458 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGGACTTTAA-CCCGGATA
57313494 CACATCAAAT
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
37 1 0.01
38 69 0.51
39 33 0.24
40 32 0.24
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCGGATATAAT
Found at i:57328367 original size:40 final size:40
Alignment explanation
Indices: 57328302--57328420 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
57328292 NNNNNNNNNC
* * *
57328302 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAGAT
*
57328342 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAGAT
* * * * *
57328380 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGGACTTTAAACCCAGAT
57328420 A
1 A
57328421 CACATCAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 28 0.41
39 6 0.09
40 33 0.49
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (40 bp):
ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAGAT
Found at i:57333388 original size:24 final size:23
Alignment explanation
Indices: 57333356--57333418 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
57333346 TACCAATATA
*
57333356 TCAGTTCGTAAGAGCTCACTGTT
1 TCAGCTCGTAAGAGCTCACTGTT
** *
57333379 CTCAGCTCGTATCAGCTTACTGTT
1 -TCAGCTCGTAAGAGCTCACTGTT
* *
57333403 TCAGCTTGTCAGAGCT
1 TCAGCTCGTAAGAGCT
57333419 TACCTTTTCA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTCACTGTT
Found at i:57333418 original size:23 final size:22
Alignment explanation
Indices: 57333356--57333445 Score: 65
Period size: 23 Copynumber: 3.9 Consensus size: 22
57333346 TACCAATATA
* *
57333356 TCAGTTCGTAAGAGCTCACTGTT
1 TCAGCTCGT-AGAGCTTACTGTT
*
57333379 CTCAGCTCGTATCAGCTTACTGTT
1 -TCAGCTCGTA-GAGCTTACTGTT
*
57333403 TCAGCTTGTCAGAGCTTACCT-TT
1 TCAGCTCGT-AGAGCTTA-CTGTT
* *
57333426 TCAGCACAATAGAGCTTACT
1 TCAGCTC-GTAGAGCTTACT
57333446 ATCCATCAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.04
23 30 0.56
24 22 0.41
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (22 bp):
TCAGCTCGTAGAGCTTACTGTT
Found at i:57338636 original size:22 final size:22
Alignment explanation
Indices: 57338608--57338664 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
57338598 AAGCGGAGCC
57338608 ACACGCCCGTGTGGACATAAGG
1 ACACGCCCGTGTGGACATAAGG
57338630 ACACGCCCGTGTGGACATAAGG
1 ACACGCCCGTGTGGACATAAGG
* *
57338652 ACACACCCATGTG
1 ACACGCCCGTGTG
57338665 TCTTCAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGACATAAGG
Found at i:57343659 original size:7 final size:7
Alignment explanation
Indices: 57343647--57343673 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57343637 TTCTATTAGT
57343647 TAAAATG
1 TAAAATG
57343654 TAAAATG
1 TAAAATG
57343661 TAAAATG
1 TAAAATG
57343668 TAAAAT
1 TAAAAT
57343674 TTTACCTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (7 bp):
TAAAATG
Found at i:57346780 original size:50 final size:50
Alignment explanation
Indices: 57346656--57346904 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
57346646 GATAATAACA
* * ** * *
57346656 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
57346707 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
57346757 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
57346807 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
57346862 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
57346905 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:57346834 original size:100 final size:104
Alignment explanation
Indices: 57346655--57346904 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
57346645 TGATAATAAC
**
57346655 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
57346720 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
57346757 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
57346820 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
57346862 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57346905 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:57347020 original size:13 final size:13
Alignment explanation
Indices: 57346999--57347030 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
57346989 GCTTGGATCA
*
57346999 TCATCAAATAAAT
1 TCATAAAATAAAT
57347012 TCATAAAATAAAT
1 TCATAAAATAAAT
57347025 TCATAA
1 TCATAA
57347031 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:57347276 original size:29 final size:30
Alignment explanation
Indices: 57347242--57347298 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
57347232 CCTCGACTCT
*
57347242 AACTTTTTCAAAATTACA-ATTTGCCCCTA
1 AACTTTTACAAAATTACATATTTGCCCCTA
* *
57347271 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACATATTTGCCCC
57347299 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACATATTTGCCCCTA
Found at i:57353004 original size:48 final size:48
Alignment explanation
Indices: 57352949--57353074 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 48
57352939 GATAGGTACT
* * * * *
57352949 TATACCATGGCCTAAAGCCAAATCAAGGTAACTTATCCCCGGAGTATC
1 TATACCATGGCCCAAAGCCAAATCAAGGTAACTCAACCCCGAAATATC
* * * *
57352997 TATACCATGGCCCGAAGCCAAATTAAGGTAACTCAACTCTGAAATATC
1 TATACCATGGCCCAAAGCCAAATCAAGGTAACTCAACCCCGAAATATC
57353045 TATACCATGGCCCAAAGCCAAATCAAGGTA
1 TATACCATGGCCCAAAGCCAAATCAAGGTA
57353075 TAACTCGCAC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (48 bp):
TATACCATGGCCCAAAGCCAAATCAAGGTAACTCAACCCCGAAATATC
Found at i:57360313 original size:48 final size:49
Alignment explanation
Indices: 57360254--57360387 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 49
57360244 CTCACACGAT
* * **
57360254 AAGTACTTATACCATGGCCCAAAGCCAAATCAAGGTAACTTATC-CTCG
1 AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCTCTAA
* *
57360302 GAGTACCTATACCATGGCCCAAAGCCAAATTAAGGTAACTCATCTCTAA
1 AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCTCTAA
*
57360351 AAATACCTATACCATGGCCCAAAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTA
57360388 TAACTCGTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
48 40 0.53
49 36 0.47
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (49 bp):
AAGTACCTATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCTCTAA
Found at i:57360377 original size:49 final size:48
Alignment explanation
Indices: 57360261--57360387 Score: 191
Period size: 49 Copynumber: 2.6 Consensus size: 48
57360251 GATAAGTACT
* *** *
57360261 TATACCATGGCCCAAAGCCAAATCAAGGTAACTTATCCTCGGAGTACC
1 TATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCCTAAAAATACC
*
57360309 TATACCATGGCCCAAAGCCAAATTAAGGTAACTCATCTCTAAAAATACC
1 TATACCATGGCCCAAAGCCAAATCAAGGTAACTCATC-CTAAAAATACC
57360358 TATACCATGGCCCAAAGCCAAATCAAGGTA
1 TATACCATGGCCCAAAGCCAAATCAAGGTA
57360388 TAACTCGTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 35 0.49
49 36 0.51
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (48 bp):
TATACCATGGCCCAAAGCCAAATCAAGGTAACTCATCCTAAAAATACC
Found at i:57362399 original size:41 final size:41
Alignment explanation
Indices: 57362335--57362459 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
57362325 CTTAAAAGCC
* ** *
57362335 ATCGGTAGATCCATAGTCGTCAAGCAACCATGCGATCCTTA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
* *
57362376 ATCGGTGGATCCACGGTCATCAAGCACCCATGCGATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
** *
57362417 ATTAGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
57362458 AT
1 AT
57362460 TTCTTCCTCT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
Found at i:57362727 original size:27 final size:27
Alignment explanation
Indices: 57362697--57362762 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
57362687 TTTCACGTTA
* * *
57362697 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGATAAATCTACAAAC
* *
57362724 CAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTTCGATAAATCTACAAAC
*
57362751 CAATGGTATTTC
1 CAAGGGTATTTC
57362763 TGTAATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCGATAAATCTACAAAC
Found at i:57362768 original size:27 final size:27
Alignment explanation
Indices: 57362717--57363039 Score: 214
Period size: 27 Copynumber: 12.0 Consensus size: 27
57362707 TTGGTAAATC
*
57362717 TACAAACCAAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* *
57362744 TACAAACCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *
57362771 CTGA-AAGTCAAGGGTATTTTTGTAATTT
1 -T-ACAAATCAAGGGTATTTCTGTAATTT
** * * *
57362799 TGTAAATCAGGGGTATTTTTATAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* *
57362826 TCCAAATCAATGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* * *
57362853 TCCAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* **
57362880 TACAAATTAA-GGTATTTAGGTAATTT
1 TACAAATCAAGGGTATTTCTGTAATTT
* * *
57362906 TACAAGTCGAGGGTATTT-TAATAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
**
57362933 TACAGGTCAAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTCTG-TAATTT
* * *
57362960 CACAAATTAGGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
* *
57362987 TGCTAATCAAGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTCT-GTAATTT
** * *
57363014 TGGAAACCAAGGGTATTTCAGTAATT
1 TACAAATCAAGGGTATTTCTGTAATT
57363040 CTACCCTACA
Statistics
Matches: 238, Mismatches: 43, Indels: 30
0.77 0.14 0.10
Matches are distributed among these distances:
26 21 0.09
27 192 0.81
28 24 0.10
29 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCTGTAATTT
Found at i:57362932 original size:107 final size:108
Alignment explanation
Indices: 57362717--57363014 Score: 327
Period size: 107 Copynumber: 2.8 Consensus size: 108
57362707 TTGGTAAATC
* * ** ** *
57362717 TACAAACCAAGGGTATTTCGATAATTTTACAAACCAATGGTATTTCT-GTAATTTCTGA-AAGTC
1 TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTT-TGGTAATTT-T-ACAAATC
** ** * *
57362780 AAGGGTATTTTTGTAATTTTGTAAATC-AGGGGTATTTTTATAATTT
63 AAGGGTATTTAGGTAATTTTACAAGTCGA-GGGTATTTTAATAATTT
* * *
57362826 TCCAAATCAATGGTATTTCGATAATTTTC-CAAATTAGGGGTATTTTGGTAATTTTACAAATTAA
1 TACAAATCAAGGGTATTTCGATAA-TTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAA
57362890 -GGTATTTAGGTAATTTTACAAGTCGAGGGTATTTTAATAATTT
65 GGGTATTTAGGTAATTTTACAAGTCGAGGGTATTTTAATAATTT
** * *
57362933 TACAGGTCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTGCTAATCAAG
1 TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAAG
*
57362998 GGTATTTTGGTAATTTT
66 GGTATTTAGGTAATTTT
57363015 GGAAACCAAG
Statistics
Matches: 159, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
106 4 0.03
107 88 0.55
108 24 0.15
109 40 0.25
110 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (108 bp):
TACAAATCAAGGGTATTTCGATAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAATCAAG
GGTATTTAGGTAATTTTACAAGTCGAGGGTATTTTAATAATTT
Found at i:57363028 original size:54 final size:54
Alignment explanation
Indices: 57362697--57363031 Score: 273
Period size: 54 Copynumber: 6.2 Consensus size: 54
57362687 TTTCACGTTA
* * * * *
57362697 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
* * * **
57362751 CAATGGTATTTCT-GTAATTTCTGA-AAGTCAAGGGTATTTTTG-TAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTT-T-ACAAATCAAGGGTA-TTTCGATAATTTTACAAAT
* ** * * *
57362806 CAGGGGTATTTTTATAATTTTCCAAATCAATGGTATTTCGATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
* * * * * *
57362860 TAGGGGTATTTTGGTAATTTTACAAATTAA-GGTATTTAGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
* ** ** *
57362913 CGAGGGTATTTTAATAATTTTACAGGTCAAGGGTATTTCGATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
* * * * * * ** *
57362967 TAGGGGTATTTTGGTAATTTTGCTAATCAAGGGTATTTTGGTAATTTTGGAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
57363021 CAAGGGTATTT
1 CAAGGGTATTT
57363032 CAGTAATTCT
Statistics
Matches: 216, Mismatches: 57, Indels: 16
0.75 0.20 0.06
Matches are distributed among these distances:
53 45 0.21
54 129 0.60
55 37 0.17
56 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
Found at i:57363058 original size:27 final size:27
Alignment explanation
Indices: 57363028--57363105 Score: 102
Period size: 28 Copynumber: 2.9 Consensus size: 27
57363018 AACCAAGGGT
*
57363028 ATTTCAGTAATTCTACCCTACAGTGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
57363055 ATTTCAGCAAATTCTACCCTACAGGGGT
1 ATTTCAG-TAATTCTACCCTACAGGGGC
* *
57363083 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
57363106 ATATGAGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 20 0.45
28 24 0.55
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:57367368 original size:21 final size:21
Alignment explanation
Indices: 57367342--57367386 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
57367332 ATGCCTGGTA
57367342 AAAGGTATCGACACATTTTGG
1 AAAGGTATCGACACATTTTGG
57367363 AAAGGTATCGACACATTTTGG
1 AAAGGTATCGACACATTTTGG
57367384 AAA
1 AAA
57367387 TCATTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (21 bp):
AAAGGTATCGACACATTTTGG
Found at i:57367725 original size:93 final size:93
Alignment explanation
Indices: 57367562--57367849 Score: 454
Period size: 93 Copynumber: 3.1 Consensus size: 93
57367552 TTAACTTGAT
* * *
57367562 TTTATCAATTTTGCCTAATTTTGTTCAACTTTAA-TTTT-TCTCAAAAACATTTTTATTTGTTAT
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTAT-TCAAAAACATTTTAATTTGTTAT
*
57367625 ATCAAAACATATTATCAAATAAATCTTAG
65 ATCAAAACATATTATCAAATAAAACTTAG
* *
57367654 TTTAACAATTTTGCCCAATTTTTTTCAACATTAACTTTTATTCAAAAACATTTTAATTTGTTATA
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
*
57367719 TCAAAACATATTATCAAATAAAGCTTAG
66 TCAAAACATATTATCAAATAAAACTTAG
* * *
57367747 TTTAATAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAATACTTTAATTTGTTATA
1 TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
*
57367812 TCTAAACATATTATCAAATAAAACTTAG
66 TCAAAACATATTATCAAATAAAACTTAG
57367840 TTTAACAATT
1 TTTAACAATT
57367850 ATATAATGTT
Statistics
Matches: 180, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 30 0.17
93 149 0.83
94 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.45
Consensus pattern (93 bp):
TTTAACAATTTTGCCCAATTTTGTTCAACTTTAACTTTTATTCAAAAACATTTTAATTTGTTATA
TCAAAACATATTATCAAATAAAACTTAG
Found at i:57371497 original size:55 final size:53
Alignment explanation
Indices: 57371413--57371666 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 53
57371403 AGGGTTTAAA
* * *
57371413 GATACCATGTAAGACCATGCCAAGGCATGGAAGTTGGTAAGGTGTCTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCA-TTGGTAAGGT-TCTAAGGAAAG
* *
57371468 GATACCATGTAAGACCATGTCAAGACATGGCATTGATAA-GTTACTATAAGGAAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTT-C--TAAGG-AAAG
* * * *
57371524 G-TCCCATGTAAGACAATGCCAAGGCATGGCATTGGTGA-GTTCATAA-GATAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTC-TAAGGA-AAG
* * * *
57371576 GATACCATGTAAGACCATGTCAAGACATGGCAATGGT-ATGTT-TCA--AAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTCTAAGGAAAG
* * ** *
57371625 GATACCACGTAAGACCATGACAATTCATGGCAATGGTAAGGT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT
57371667 ACCCGTGTAT
Statistics
Matches: 169, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
49 36 0.21
50 4 0.02
51 3 0.02
52 7 0.04
53 40 0.24
54 7 0.04
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTCTAAGGAAAG
Found at i:57376778 original size:24 final size:24
Alignment explanation
Indices: 57376729--57376780 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
57376719 TTGTAGAAGG
* *
57376729 TATGTATGTATGTGCTTTTGTGTA
1 TATGTATGGATGTGCTTATGTGTA
*
57376753 TATGTATGGATGTG-TTCATGTTTA
1 TATGTATGGATGTGCTT-ATGTGTA
57376777 TATG
1 TATG
57376781 GGTATGAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (24 bp):
TATGTATGGATGTGCTTATGTGTA
Found at i:57382910 original size:15 final size:15
Alignment explanation
Indices: 57382860--57382938 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
57382850 GTATTGTAAT
*
57382860 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* *
57382875 TTGGACTTCTCTATC
1 TTGGATTTCTTTATC
* *
57382890 TGGGATTTCTTTATG
1 TTGGATTTCTTTATC
*
57382905 TTGGATTTTTTTAT-
1 TTGGATTTCTTTATC
* *
57382919 TCTGGGTTTCTCTATC
1 T-TGGATTTCTTTATC
57382935 TTGG
1 TTGG
57382939 TTTTGTGGTT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
14 1 0.02
15 48 0.96
16 1 0.02
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.54
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:57389613 original size:49 final size:49
Alignment explanation
Indices: 57389541--57389776 Score: 251
Period size: 49 Copynumber: 4.8 Consensus size: 49
57389531 AGCCGAAGCT
** * *
57389541 ATCTGGTATGCATAGTAGCCTGCACGTAGTACTACACATGCGACCAGTA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * *
57389590 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTCCACACAT--GATCACAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACT--ACACATGCGA-C-CAATA
* * * * ** *
57389641 TTCGGGTACGCATAGTAGCCTACACTTAGTACTACACATATGACCAACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* * * * *
57389690 GTTTGGTACACGTAGTAGCTTGCACTTAGTACTACACATGCGACCAATT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
57389739 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
57389777 CGTGACCTCA
Statistics
Matches: 153, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
49 111 0.73
50 2 0.01
51 40 0.26
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:57403358 original size:27 final size:27
Alignment explanation
Indices: 57403324--57403442 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
57403314 TGGATAAGTT
* *
57403324 GTAGAATTCCCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
57403351 GTAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57403378 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
57403405 GGAGAATTACCGAGATACCCTTGT-GG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57403431 GATAAAATTACC
1 G-TAGAATTACC
57403443 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.04
27 75 0.96
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:57403411 original size:54 final size:54
Alignment explanation
Indices: 57403324--57403426 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
57403314 TGGATAAGTT
* * *
57403324 GTAGAATTCCCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTATAGG
1 GTAGAAATACCGAAATACCCCTGTAAGGGAGAATTACCGAAATACCCTTATAGG
* *
57403378 GTAGAAATACCGAAATACCCCTGTAGGGGAGAATTACCGAGATACCCTT
1 GTAGAAATACCGAAATACCCCTGTAAGGGAGAATTACCGAAATACCCTT
57403427 GTGGGATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (54 bp):
GTAGAAATACCGAAATACCCCTGTAAGGGAGAATTACCGAAATACCCTTATAGG
Found at i:57404138 original size:27 final size:26
Alignment explanation
Indices: 57404094--57404145 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57404084 CTCGCTGCAA
*
57404094 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
57404121 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
57404146 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:57404222 original size:27 final size:27
Alignment explanation
Indices: 57404192--57404243 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
57404182 ATATATATGT
*
57404192 TCTGGTGGCCTAGCCACAATATCTGCA
1 TCTGGTGACCTAGCCACAATATCTGCA
* * *
57404219 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTAGCCACAATATCTG
57404244 GCAGCCTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (27 bp):
TCTGGTGACCTAGCCACAATATCTGCA
Found at i:57410900 original size:27 final size:27
Alignment explanation
Indices: 57410866--57410984 Score: 130
Period size: 27 Copynumber: 4.4 Consensus size: 27
57410856 TGGATAAGTT
*
57410866 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * **
57410893 GTAGAATTATCAAAAGACCATTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57410920 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
57410947 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57410974 GTAAAATTACC
1 GTAGAATTACC
57410985 ATTTTGCCCC
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:57411669 original size:27 final size:26
Alignment explanation
Indices: 57411625--57411676 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57411615 CTCGCTGCAA
*
57411625 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
57411652 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
57411677 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:57420753 original size:14 final size:13
Alignment explanation
Indices: 57420738--57420790 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
57420728 TCTATTTTTC
57420738 TTTTCTTTAATTT
1 TTTTCTTTAATTT
*
57420751 CTTTACTTTAATTT
1 -TTTTCTTTAATTT
*
57420765 TTTTCTTGTTATTT
1 TTTTCTT-TAATTT
*
57420779 TTATCTTTAATT
1 TTTTCTTTAATT
57420791 ACTTAATGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 10 0.30
14 23 0.70
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTTCTTTAATTT
Found at i:57423810 original size:20 final size:20
Alignment explanation
Indices: 57423754--57423810 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
57423744 AAGCTTATGC
*
57423754 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGTAAG
*
57423774 TAAGTAAATTGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
*
57423794 TAAGTAAATGGAGTGGT
1 TAAGTAAATGGAATGGT
57423811 TCATAATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:57426288 original size:46 final size:46
Alignment explanation
Indices: 57426134--57426495 Score: 202
Period size: 46 Copynumber: 7.6 Consensus size: 46
57426124 TTCGTGCGCT
* *
57426134 AGTGTAAGACATGTCT-GGAGCATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGA-CATGCATCGGCCACGA-GATGAGAGCC
* * * * * * *
57426180 AGCGTAAGACCATGTCTGGGACATGGCGTCAG-CATTGAGACGAGAACT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
**
57426228 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * *
57426274 AGTGTAAGACATGTCTGGGACATGCATCGGCCAGGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
* * * *
57426318 AGTGTAAGACCATGTCTAGGACATGGCATCGG-CACG-TATAGAGGTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGAT-GA-GAGCC
* * * *
57426366 AATGTAAGACCATGTCTGGGACATGGCATTGG-CACAGATATGTGAGACC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-GAGATGAGAG-CC
* * * * * ** * *
57426415 TAGTGTAAGACCATGTTTAGGACATAGCGTCGGCCTCAATTTCGATAGTC
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGAT-GAGAGCC
57426465 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
57426496 ACTTGATGGA
Statistics
Matches: 250, Mismatches: 46, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
44 13 0.05
45 16 0.06
46 63 0.25
47 27 0.11
48 62 0.25
49 31 0.12
50 33 0.13
51 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:57426438 original size:50 final size:48
Alignment explanation
Indices: 57426316--57426495 Score: 148
Period size: 48 Copynumber: 3.7 Consensus size: 48
57426306 AGGAGATGTG
***
57426316 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGGTG
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGACC
* * * *
57426364 TCAATGTAAGACCATGTCTGGGACATGGCATTGGCACAGATATGTGAGACC
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-G-TAT-AGAGACC
* * * * * * * * *
57426415 T-AGTGTAAGACCATGTTTAGGACATAGCGTCGGCCTCAATTTCGATA-G
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CAC-GTATAGAGACC
*
57426463 TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TCAGTGTAAGACCATGTCTAGGACATGGCATCG
57426496 ACTTGATGGA
Statistics
Matches: 104, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
48 35 0.34
49 31 0.30
50 31 0.30
51 7 0.07
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
TCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACGTATAGAGACC
Found at i:57428867 original size:22 final size:22
Alignment explanation
Indices: 57428842--57428885 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
57428832 ATTATGAAGA
57428842 TTGATATGT-TGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
57428864 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
57428886 CGTTATGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:57434264 original size:43 final size:43
Alignment explanation
Indices: 57434238--57434396 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
57434228 TATCACATAT
* * *
57434238 CGATGCCACTGTCCCAGACAGGGTCTTGCACGAAATCGATAAA
1 CGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCCATAAA
* *
57434281 CGATGCCAATGTCCCAGACATGGTCTTACAC-ATAAT-TATATAA
1 CGATGCCAATGTCCCAGACAGGGTCTTACACGA-AATCCATA-AA
** * * * * *
57434324 TAATACCAATGTCCCAAACATGGTCTTACACAAAATCACA-ATA
1 CGATGCCAATGTCCCAGACAGGGTCTTACACGAAATC-CATAAA
* * * *
57434367 CAATGCCAATGTTCGAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACAGGGTCTTACA
57434397 TGTAATCTCA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
42 4 0.04
43 89 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCCATAAA
Found at i:57440543 original size:49 final size:50
Alignment explanation
Indices: 57440421--57440557 Score: 188
Period size: 49 Copynumber: 2.8 Consensus size: 50
57440411 NNNNNNNNNN
** *
57440421 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAGGTCACA
* *
57440471 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-TGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTGAGGTCACA
* *
57440520 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
57440558 AGCTTCGGCT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 40 0.51
50 37 0.47
51 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTGAGGTCACA
Found at i:57445521 original size:49 final size:48
Alignment explanation
Indices: 57445380--57445525 Score: 184
Period size: 50 Copynumber: 3.0 Consensus size: 48
57445370 NNNNNNNNNN
**
57445380 TTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATG
1 TTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
* ** *
57445428 GTGAAGTCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTG
1 TTG--GTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TG
* * *
57445479 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
57445526 AGCTTCGGCT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.04
49 37 0.45
50 38 0.46
51 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
TTGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
Found at i:57452121 original size:12 final size:12
Alignment explanation
Indices: 57452089--57452122 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57452079 CACTCCCCTT
57452089 ATCTCTCCACAA
1 ATCTCTCCACAA
*
57452101 AACTCTCCACAA
1 ATCTCTCCACAA
*
57452113 ATCTTTCCAC
1 ATCTCTCCAC
57452123 TTTTCCCTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (12 bp):
ATCTCTCCACAA
Found at i:57456773 original size:43 final size:43
Alignment explanation
Indices: 57456723--57456860 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
57456713 TCCCAGGCAG
*
57456723 GGTCTTACACGAAATCGATAAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCGATAAACGATGCCAATGTCCCAAACAT
* * * * * ** *
57456766 GGCCTTACAAGTAATTG-TATAATGATTTCAATGTCTCAAACAT
1 GGTCTTACACGAAATCGATA-AACGATGCCAATGTCCCAAACAT
* * *
57456809 GGTCTTACACAAAATC-ACAATACAATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCGATAA-ACGATGCCAATGTCCCAAACAT
57456852 GGTCTTACA
1 GGTCTTACA
57456861 TGTAATCTCA
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
42 3 0.04
43 69 0.96
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCGATAAACGATGCCAATGTCCCAAACAT
Found at i:57472394 original size:46 final size:48
Alignment explanation
Indices: 57472270--57472492 Score: 205
Period size: 46 Copynumber: 4.8 Consensus size: 48
57472260 TCATTGGTGT
* *
57472270 GAGCCAGTGTAAGACCATGTCTGGGACATGGAAT-GGCAT-TGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCTGAGACGA
* * * *
57472317 GTGCTAGTGTAAGA-CATGTCTAGGACATGCATTGGCCTCT-AGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCTGAGACG-A
* *
57472364 -AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTATGAGA--T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCTGAGACGA
* * * *
57472407 GTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC-GATGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCTGA-GACGA
* *
57472456 TAGCCAGTGTAAGACCATGTCCGGGACATAGCATCGG
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG
57472493 TAACTTACCC
Statistics
Matches: 143, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.08
45 19 0.13
46 64 0.45
47 18 0.13
49 31 0.22
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCTGAGACGA
Found at i:57472468 original size:93 final size:94
Alignment explanation
Indices: 57472271--57472492 Score: 260
Period size: 92 Copynumber: 2.4 Consensus size: 94
57472261 CATTGGTGTG
* *
57472271 AGCCAGTGTAAGACCATGTCTGGGACATGGAAT-GGCATTGAGACGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATG
* *
57472335 TCTAGGACATGCATTGGCCTCTAGACGTA
66 TCTAGGACATGCATCGGCCTCGAGACGTA
* *
57472364 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATGAGATGTGT-C-AGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCAT-TGAGACGAGTGCTAGTGTAAGA-CA
* * *
57472424 TGTTTGGGACATGGCATCGGCCTCGATGATG-A
64 TGTCTAGGACAT-GCATCGGCCTCGA-GACGTA
*
57472456 TAGCCAGTGTAAGACCATGTCCGGGACATAGCATCGG
1 -AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGG
57472493 TAACTTACCC
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
90 9 0.08
91 17 0.15
92 37 0.33
93 29 0.26
94 13 0.12
95 7 0.06
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATG
TCTAGGACATGCATCGGCCTCGAGACGTA
Found at i:57480192 original size:19 final size:19
Alignment explanation
Indices: 57480170--57480207 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57480160 GAGCTTGCTA
57480170 AGCATGTAAATGCTTACCC
1 AGCATGTAAATGCTTACCC
57480189 AGCATGTAAATGCTTACCC
1 AGCATGTAAATGCTTACCC
57480208 CTCTCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCATGTAAATGCTTACCC
Found at i:57483433 original size:22 final size:22
Alignment explanation
Indices: 57483402--57483445 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57483392 TATCTCCGTG
57483402 GAAAAAGGTGTTGAGATTTGGT
1 GAAAAAGGTGTTGAGATTTGGT
*
57483424 GAAAAGGGTGTTGAGATTTGGT
1 GAAAAAGGTGTTGAGATTTGGT
57483446 CGGAAAGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.39, T:0.32
Consensus pattern (22 bp):
GAAAAAGGTGTTGAGATTTGGT
Found at i:57485236 original size:49 final size:49
Alignment explanation
Indices: 57484954--57485268 Score: 197
Period size: 47 Copynumber: 6.6 Consensus size: 49
57484944 AGAGCCAGTA
* * * * **
57484954 TAAGACCATGTCTGGGACATGGCATCGACATTGA-GACGAGGGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTAGTG
* * ** * *
57485002 TAAGA-CGTGTCTGGGACAT-GCATCAGCGAC-ATTACGATAGC-ATGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTA-GTG
* * ** * * *
57485048 TAAGACCATGTCCGGCACATGGCATCGGTGTAGA-GATGAGT-GCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGA-TAGCTAGTG
* * * * * * * *
57485096 TAAGA-CGTGTCTAGGACAT-ACATCGACCTCAATGATGGTAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTAGTG
* * * *
57485143 TAAGA-CATGTCTGGGACAT-GCATCAGCACT-TAT-ACATTAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGA-A-GATAGCTAGTG
57485191 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTAGTG
* *
57485240 TAAGGCCATGCCTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
57485269 AACTTAACCC
Statistics
Matches: 205, Mismatches: 46, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
45 2 0.01
46 29 0.14
47 69 0.34
48 39 0.19
49 55 0.27
50 10 0.05
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTAGTG
Found at i:57485243 original size:97 final size:98
Alignment explanation
Indices: 57485092--57485274 Score: 228
Period size: 97 Copynumber: 1.9 Consensus size: 98
57485082 GATGAGTGCC
* * * *
57485092 AGTGTAAGACGTGTCTAGGACATACATCGACCTCAATGATGGTAGCCAGTGTAA-GACATGTCTG
1 AGTGTAAGACATGTCTAGGACATACATCGACCTCAATGAAGATAGCCAGTGTAAGGACATGCCTG
57485156 GGACAT-GCATCAGC-ACTTATACATTAGAGCT
66 GGACATGGCATCAGCAACTTATACATTAGAGCT
* * * * * *
57485187 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCTAGTGTAAGGCCATGCC
1 AGTGTAAGA-CATGTCTAGGACAT-ACATCGACCTCAATGAAGATAGCCAGTGTAAGGACATGCC
*
57485252 TGGGACATGGCATCGGCAACTTA
64 TGGGACATGGCATCAGCAACTTA
57485275 ACCCATGTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
95 9 0.12
96 12 0.17
97 25 0.35
98 14 0.19
99 7 0.10
100 5 0.07
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (98 bp):
AGTGTAAGACATGTCTAGGACATACATCGACCTCAATGAAGATAGCCAGTGTAAGGACATGCCTG
GGACATGGCATCAGCAACTTATACATTAGAGCT
Found at i:57489602 original size:29 final size:29
Alignment explanation
Indices: 57489562--57489626 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
57489552 ACATCGCAAT
57489562 AATAGTTAGTTTCAAGAATGATTAATTATA
1 AATA-TTAGTTTCAAGAATGATTAATTATA
57489592 AATATTAGTTTCAAGAATGATTAATTATA
1 AATATTAGTTTCAAGAATGATTAATTATA
57489621 AATATT
1 AATATT
57489627 TAAAACTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 31 0.89
30 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (29 bp):
AATATTAGTTTCAAGAATGATTAATTATA
Found at i:57502678 original size:28 final size:28
Alignment explanation
Indices: 57502630--57502692 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
57502620 ATTTGCTAGA
* *
57502630 ATACCCCTATGTCTGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
57502658 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
57502686 ATACCCC
1 ATACCCC
57502693 GAGGGTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:57502858 original size:27 final size:27
Alignment explanation
Indices: 57502800--57502889 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
57502790 AGGAAGCGTC
57502800 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
57502828 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
57502855 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
57502884 CTGGTG
1 CTGGTG
57502890 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:57502908 original size:55 final size:56
Alignment explanation
Indices: 57502800--57502914 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
57502790 AGGAAGCGTC
* *
57502800 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
57502855 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
57502911 CTGG
1 CTGG
57502915 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:57503381 original size:18 final size:18
Alignment explanation
Indices: 57503342--57503382 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
57503332 TAATAAGGCC
* *
57503342 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
57503360 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
57503378 TTTTA
1 TTTTA
57503383 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:57512677 original size:46 final size:46
Alignment explanation
Indices: 57512566--57512839 Score: 173
Period size: 46 Copynumber: 5.8 Consensus size: 46
57512556 CATTGGTGTG
* * *
57512566 AGCCAGTGTAAGACAATGTCTGGGACATGGTATCGGCATTGAGATG-A
1 AGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
* * * *
57512613 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGTA
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
* *
57512660 AGCCAGTGTAAGACATGTTTAGGACATGCATCGG-CTACGAGATGT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA
* * * * * *
57512705 -GTCAGTGTATGACCATGTCTGGGACATGGCATCAG-CACGGGTATGCGA
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG-ATG-TA
* * * *
57512753 GAGCTAGTGTAAGACCGTGTTTGGGACATGGCATTGGCCTCGATGATG-A
1 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGTA
* * *
57512802 TAGCCAATGTAAGGCCATGTCCGGGACATGGCATCGGC
1 -AGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGC
57512840 AACTTACCCC
Statistics
Matches: 176, Mismatches: 38, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 58 0.33
47 14 0.08
48 12 0.07
49 29 0.16
50 29 0.16
51 6 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
Found at i:57517027 original size:19 final size:19
Alignment explanation
Indices: 57516998--57517036 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
57516988 ATGTTTTGTA
57516998 TTGAGATTTTGGA-TAAAT
1 TTGAGATTTTGGACTAAAT
57517016 TTGAGTATTTTGGACTAAAT
1 TTGAG-ATTTTGGACTAAAT
57517036 T
1 T
57517037 GTGAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (19 bp):
TTGAGATTTTGGACTAAAT
Found at i:57517679 original size:42 final size:43
Alignment explanation
Indices: 57517616--57517721 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
57517606 GAGATTTACA
57517616 TGTAAGACCATGTCTGGGACAGCAGCATCGA-ATTTGATTTTG
1 TGTAAGACCATGTCTGGGACAGCAGCATCGATATTTGATTTTG
* * ** ***
57517658 TGTACGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGCAGCATCGATATTTGATTTTG
*
57517701 TGTAAGACCACGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
57517722 TTGGCATTGT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGCAGCATCGATATTTGATTTTG
Found at i:57517695 original size:43 final size:42
Alignment explanation
Indices: 57517583--57517728 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 42
57517573 GTAATACCAC
*
57517583 GTCTGGGAC-GTTGGCATCG-ATTTGAGATTTACATGTAAGACCAT
1 GTCTGGGACAG-TGGCATCGAATTT--GA-TTACATGTAAGACCCT
** *** *
57517627 GTCTGGGACAGCAGCATCGAATTTGATTTTGTGTACGACCCT
1 GTCTGGGACAGTGGCATCGAATTTGATTACATGTAAGACCCT
57517669 GTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-
1 GTCTGGGACAGTGGCATCGA-ATTTGATTACATGTAAGACC-CT
*
57517712 GTCTGGGACATTGGCAT
1 GTCTGGGACAGTGGCAT
57517729 TGTACGAGAT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.35
43 34 0.40
44 16 0.19
45 5 0.06
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
GTCTGGGACAGTGGCATCGAATTTGATTACATGTAAGACCCT
Found at i:57519687 original size:35 final size:35
Alignment explanation
Indices: 57519617--57519687 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
57519607 TTCGCTTTTC
*
57519617 TTGATCTATATATAATCAATTTAACTTATTAAATT
1 TTGATCTATATATAACCAATTTAACTTATTAAATT
*
57519652 TTGATCTATATATAACCAATTTAACTTATTCAATT
1 TTGATCTATATATAACCAATTTAACTTATTAAATT
57519687 T
1 T
57519688 AACCCAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.03, T:0.48
Consensus pattern (35 bp):
TTGATCTATATATAACCAATTTAACTTATTAAATT
Found at i:57530849 original size:14 final size:14
Alignment explanation
Indices: 57530830--57530856 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57530820 TTTTAAAAAT
57530830 GAATTGACTTTAAC
1 GAATTGACTTTAAC
57530844 GAATTGACTTTAA
1 GAATTGACTTTAA
57530857 ACATAAGGTT
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:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
GAATTGACTTTAAC
Found at i:57533674 original size:160 final size:160
Alignment explanation
Indices: 57533494--57533813 Score: 615
Period size: 160 Copynumber: 2.0 Consensus size: 160
57533484 TAGCATTTTT
*
57533494 AGAGAGAGGGAGAGAGAAATAGCTATAACACGGATGGCAAAATTGAATAAACAAGCATTTTTT-A
1 AGAGAGAGAGAGAGAGAAATAGCTATAACACGGAT-GCAAAATTGAATAAACAAGCATTTTTTAA
57533558 AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
65 AAAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTC
57533623 AGCCACAGGCTTCTTCCCAGCATTACCTTTC
130 AGCCACAGGCTTCTTCCCAGCATTACCTTTC
57533654 AGAGAGAGAGAGAGAGAAATAGCTATAACACGGATGCAAAATTGAATAAACAAGCATTTTTTAAA
1 AGAGAGAGAGAGAGAGAAATAGCTATAACACGGATGCAAAATTGAATAAACAAGCATTTTTTAAA
57533719 AAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTCA
66 AAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTCA
57533784 GCCACAGGCTTCTTCCCAGCATTACCTTTC
131 GCCACAGGCTTCTTCCCAGCATTACCTTTC
57533814 CTACCAAGGA
Statistics
Matches: 158, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
159 27 0.17
160 131 0.83
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (160 bp):
AGAGAGAGAGAGAGAGAAATAGCTATAACACGGATGCAAAATTGAATAAACAAGCATTTTTTAAA
AAAAAATTAATCAGAGCCGTAGAGATCTGCTGAAAGCTTTCCAAGACATGGGATTTTGGGGGTCA
GCCACAGGCTTCTTCCCAGCATTACCTTTC
Found at i:57535644 original size:37 final size:35
Alignment explanation
Indices: 57535572--57535652 Score: 85
Period size: 37 Copynumber: 2.3 Consensus size: 35
57535562 ATGATTAAAC
* *
57535572 AATTCAATAATATAAATAGTAAAAAAATGTGAAATTT
1 AATTTAATAATATAAATAGTAAAAAAA-GT-AAAATT
*
57535609 AATTTAATAATATAAATAGTAGATATAAA-TAAAATT
1 AATTTAATAATATAAATAGTA-A-AAAAAGTAAAATT
57535645 -ATTTAATA
1 AATTTAATA
57535653 TTTAGGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 8 0.21
36 5 0.13
37 21 0.54
38 1 0.03
39 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (35 bp):
AATTTAATAATATAAATAGTAAAAAAAGTAAAATT
Found at i:57536247 original size:26 final size:26
Alignment explanation
Indices: 57536217--57536268 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
57536207 ACTCGTTTAT
57536217 CTAATAAAATTAAACGATTATTTTGA
1 CTAATAAAATTAAACGATTATTTTGA
57536243 CTAATAAAATTAAACGATTATTTTGA
1 CTAATAAAATTAAACGATTATTTTGA
57536269 TATAGTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (26 bp):
CTAATAAAATTAAACGATTATTTTGA
Found at i:57536962 original size:18 final size:20
Alignment explanation
Indices: 57536933--57536983 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 20
57536923 TTTTTATAAA
*
57536933 AAAAATCATAAAAATTTGA-
1 AAAAATGATAAAAATTTGAT
*
57536952 AAAAATG-T-AAAATTTTAT
1 AAAAATGATAAAAATTTGAT
57536970 AAAAATGATAAAAA
1 AAAAATGATAAAAA
57536984 ATTAACTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.30
18 8 0.30
19 7 0.26
20 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAATGATAAAAATTTGAT
Found at i:57537296 original size:18 final size:19
Alignment explanation
Indices: 57537236--57537281 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
57537226 TTTTTTGCGA
* *
57537236 TTTTATAAAAATTTACAAT
1 TTTTATATATATTTACAAT
57537255 TTTTATATATATTTACAAT
1 TTTTATATATATTTACAAT
57537274 TTTTATAT
1 TTTTATAT
57537282 TTTTTCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTATATATATTTACAAT
Found at i:57537428 original size:83 final size:84
Alignment explanation
Indices: 57537305--57537473 Score: 218
Period size: 83 Copynumber: 2.0 Consensus size: 84
57537295 TAATAAAAGC
* *
57537305 AAGGACTTAATTGTTTTATTTGAAAATGTTTGAGAGTCTTTTTGATGCAGTTTGAAAA-TTCAAG
1 AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGAGTCTTTTTGATGCA-TTTGAAAAGTTCAAA
* *
57537369 TATCCAATTGAGTGAAAAAA
65 TACCCAAATGAGTGAAAAAA
* * * * *
57537389 AAGGGCTTAATTGTTTT-TTTTAAAAGGTTTGA-AGGTCTTTTTGATGTATTTTAAAAGTTTAAA
1 AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGA-GTCTTTTTGATGCATTTGAAAAGTTCAAA
57537452 TACCCAAATGAGTGAAAAAA
65 TACCCAAATGAGTGAAAAAA
57537472 AA
1 AA
57537474 ACAAGGAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 8 0.11
83 50 0.68
84 16 0.22
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (84 bp):
AAGGACTTAATTGTTTTATTTGAAAAGGTTTGAGAGTCTTTTTGATGCATTTGAAAAGTTCAAAT
ACCCAAATGAGTGAAAAAA
Found at i:57539408 original size:22 final size:22
Alignment explanation
Indices: 57539364--57539408 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
57539354 TTTTTGAAAT
*
57539364 TGTCAAAGATTTTAGATTTTTC
1 TGTCAAAGATTTTAGATTGTTC
*
57539386 TGTCAATGAATTTTAG-TTGTTC
1 TGTCAAAG-ATTTTAGATTGTTC
57539408 T
1 T
57539409 TGAATGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.09, G:0.16, T:0.51
Consensus pattern (22 bp):
TGTCAAAGATTTTAGATTGTTC
Found at i:57541233 original size:23 final size:23
Alignment explanation
Indices: 57541207--57541250 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
57541197 TCTAGAATTT
57541207 TCTCTTCAGAGAATTTTCTCTAA
1 TCTCTTCAGAGAATTTTCTCTAA
57541230 TCTCTTCAGAGAATTTTCTCT
1 TCTCTTCAGAGAATTTTCTCT
57541251 CTACAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (23 bp):
TCTCTTCAGAGAATTTTCTCTAA
Found at i:57541384 original size:24 final size:23
Alignment explanation
Indices: 57541355--57541404 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
57541345 TAATCACTTT
57541355 AATATTAAATTAATATAATATTTA
1 AATATTAAATTAATATAATA-TTA
* *
57541379 AATATTAGATTAATTTAATATTA
1 AATATTAAATTAATATAATATTA
57541402 AAT
1 AAT
57541405 CTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AATATTAAATTAATATAATATTA
Found at i:57541490 original size:20 final size:18
Alignment explanation
Indices: 57541443--57541491 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
57541433 CAAGATAAAC
57541443 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
57541460 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
57541480 ATTAAATTAATA
1 ATTAAATTAATA
57541492 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:57544436 original size:27 final size:27
Alignment explanation
Indices: 57544405--57544582 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57544395 TAAATTGTAC
57544405 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57544432 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57544458 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57544486 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57544514 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57544541 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57544568 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57544583 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.