Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 393 of 444
Found at i:114069954 original size:26 final size:27
Alignment explanation
Indices: 114069906--114069959 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
114069896 TAGAAATTTA
114069906 TTTTAAAAATAAAATAAAATATT-TTG
1 TTTTAAAAATAAAATAAAATATTATTG
* *
114069932 TTTT-AAAATAAAATTTAATTATTATTG
1 TTTTAAAAATAAAA-TAAAATATTATTG
114069959 T
1 T
114069960 GGGCTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 11 0.46
27 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
TTTTAAAAATAAAATAAAATATTATTG
Found at i:114074091 original size:26 final size:25
Alignment explanation
Indices: 114074054--114074110 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
114074044 TGATACAAAT
114074054 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
114074080 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
114074105 TGATAA
1 TGATAA
114074111 GAATTTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 8 0.27
26 22 0.73
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:114075764 original size:27 final size:27
Alignment explanation
Indices: 114075723--114075860 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
114075713 GAGGAAGCGT
*
114075723 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
114075750 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
114075777 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
114075804 TCT-GTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
114075831 TCT-GTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
114075856 TCTGG
1 TCTGG
114075861 CAGCCATGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
25 3 0.03
26 28 0.28
27 68 0.69
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:114075834 original size:54 final size:53
Alignment explanation
Indices: 114075723--114075859 Score: 179
Period size: 53 Copynumber: 2.6 Consensus size: 53
114075713 GAGGAAGCGT
* * *
114075723 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACATATATCTGTTCT-GTGGCTCTGCCACAAATATCTGA
* *
114075777 TCTGGTGGCTCTGCCACATATATCTGTTCTGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGTGGCTCTGCCACAAATATCTG-A
* *
114075831 TCT-GTGACTCTGTCACAT-TATCTGTTCTG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTG
114075860 GCAGCCATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
52 11 0.15
53 33 0.44
54 31 0.41
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (53 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGTGGCTCTGCCACAAATATCTGA
Found at i:114079756 original size:26 final size:26
Alignment explanation
Indices: 114079720--114079829 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
114079710 TGATATAAAT
114079720 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
114079746 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
114079772 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
114079798 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
114079824 TGATAA
1 TGATAA
114079830 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:114081310 original size:28 final size:26
Alignment explanation
Indices: 114081268--114081338 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
114081258 AAAAGTAGCT
* * *
114081268 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
114081296 AAATTACTGTTATACCTCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
114081322 AAATTACCGTTATACCC
1 AAATTACTGTTATACCC
114081339 TTAGGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 18 0.50
27 1 0.03
28 17 0.47
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:114081530 original size:32 final size:27
Alignment explanation
Indices: 114081446--114081612 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
114081436 GAGGAAGCGT
*
114081446 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
114081473 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
114081500 TCTGGTGGCTCTGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
114081527 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
114081554 TCTGATGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
114081582 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
114081608 TCTGG
1 TCTGG
114081613 CAGCCATGCT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.04
27 106 0.85
28 14 0.11
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:114084921 original size:79 final size:80
Alignment explanation
Indices: 114084823--114085084 Score: 338
Period size: 79 Copynumber: 3.3 Consensus size: 80
114084813 TACTCATTCA
* * * *
114084823 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATTCCTTCGGGA-CTTA-ACTCG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTC-GGATCTTAGTC-CG
114084885 GATTTAGTGACTCGCACC
63 GATTTAGTGACTCGCACC
* * * *
114084903 AATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGTACAAATGCCTTCGGATCTTAGTCCGAAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGGAT
114084967 TTAGTGACTCGCACC
66 TTAGTGACTCGCACC
114084982 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGGAT
* * *
114085046 ATAGTCACTTAGCA-C
66 TTAGTGAC-TCGCACC
*
114085061 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
114085085 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
78 3 0.02
79 130 0.80
80 29 0.18
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCCGGAT
TTAGTGACTCGCACC
Found at i:114085078 original size:119 final size:119
Alignment explanation
Indices: 114084821--114085082 Score: 282
Period size: 119 Copynumber: 2.2 Consensus size: 119
114084811 GCTACTCATT
* * * *
114084821 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATTCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * * * * *
114084886 ATTTAGTGACTCGCACCAATGCCTTCGGGCTTAGCCCAGAATTAGTAACTCGTA
66 AATTAGTAACTCGCACAAATACCTTCGGGCTTAGCCCAGAATTAGTAACTAGCA
* * * *
114084940 CAAATGCCTTC-GGATCTTAGTCCGAATT-TAGTGACTCGCACCAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* * * *
114085002 GGAATTAGTAACTCGCACAAATACCTTCGGATCTTAGTCC-GGATATAGTCACTTAGCA
64 GGAATTAGTAACTCGCACAAATACCTTCGG-GCTTAGCCCAGAAT-TAGTAAC-TAGCA
114085060 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
114085083 GACATCATTC
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
118 38 0.32
119 68 0.58
120 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATACCTTCGGGCTTAGCCCAGAATTAGTAACTAGCA
Found at i:114085084 original size:40 final size:40
Alignment explanation
Indices: 114084821--114085084 Score: 263
Period size: 40 Copynumber: 6.7 Consensus size: 40
114084811 GCTACTCATT
* *
114084821 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
114084861 CAAATTCCTTCGGGACTTAACTCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
114084901 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
114084940 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTGACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
*
114084980 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
114085019 CAAATACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
114085060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
114085085 CATCATTCAA
Statistics
Matches: 179, Mismatches: 34, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
38 4 0.02
39 57 0.32
40 104 0.58
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:114086923 original size:22 final size:22
Alignment explanation
Indices: 114086893--114086936 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
114086883 ATGACAAAAA
* *
114086893 AATGCTATTTTTTTGTTATTTT
1 AATGATATTTTCTTGTTATTTT
*
114086915 AATGATATTTTCTTGTTGTTTT
1 AATGATATTTTCTTGTTATTTT
114086937 CTGCTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (22 bp):
AATGATATTTTCTTGTTATTTT
Found at i:114086966 original size:22 final size:22
Alignment explanation
Indices: 114086941--114086989 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
114086931 TGTTTTCTGC
114086941 TTATTTTGCTACCATTTCACTA
1 TTATTTTGCTACCATTTCACTA
* * * *
114086963 TTATGTTGCTACTATTTTATTA
1 TTATTTTGCTACCATTTCACTA
114086985 TTATT
1 TTATT
114086990 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATTTTGCTACCATTTCACTA
Found at i:114088510 original size:9 final size:9
Alignment explanation
Indices: 114088496--114088528 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
114088486 GTTAAACGAA
114088496 TCGAGTTAT
1 TCGAGTTAT
*
114088505 TCGAGTTAA
1 TCGAGTTAT
114088514 TCGAGTTAT
1 TCGAGTTAT
114088523 TCGAGT
1 TCGAGT
114088529 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:114088517 original size:18 final size:18
Alignment explanation
Indices: 114088494--114088528 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
114088484 GAGTTAAACG
114088494 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
114088512 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
114088529 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:114088607 original size:9 final size:9
Alignment explanation
Indices: 114088580--114088616 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
114088570 TGAGTTTTCG
114088580 AATTCGAAT
1 AATTCGAAT
* *
114088589 AACTCAAAT
1 AATTCGAAT
114088598 AATTCGAAT
1 AATTCGAAT
114088607 AATTCGAAT
1 AATTCGAAT
114088616 A
1 A
114088617 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:114089652 original size:5 final size:5
Alignment explanation
Indices: 114089642--114089667 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
114089632 CTCGAAAATT
114089642 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
114089668 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:114091597 original size:18 final size:18
Alignment explanation
Indices: 114091570--114091609 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
114091560 AAATTTATTA
114091570 TTTTTAT-TTTTT-AATT
1 TTTTTATATTTTTAAATT
114091586 TTTTTATATTTTTAAATT
1 TTTTTATATTTTTAAATT
114091604 TTTTTA
1 TTTTTA
114091610 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 10 0.45
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATATTTTTAAATT
Found at i:114095592 original size:2 final size:2
Alignment explanation
Indices: 114095585--114095612 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
114095575 TTGATATGAC
114095585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114095613 GTATGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114097386 original size:25 final size:25
Alignment explanation
Indices: 114097352--114097401 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
114097342 TCGAAATGTG
*
114097352 GATGTGATTGTTGTTATTATTATAC
1 GATGTGATTGTTATTATTATTATAC
114097377 GATGTGATTGTTATTATTATTATAC
1 GATGTGATTGTTATTATTATTATAC
114097402 TTCCTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (25 bp):
GATGTGATTGTTATTATTATTATAC
Found at i:114097717 original size:78 final size:77
Alignment explanation
Indices: 114097628--114097784 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 77
114097618 CCATATATTA
*
114097628 TTATTTTAAATTTCGTATTACTTTATCTTAAATCATTTTACATAGTATTTATTTTAAATTGTTTT
1 TTATTTTAAATTTCGTATCACTTTATCTTAAATCATTTTACATAGTATTTATTTTAAATTGTTTT
*
114097693 TTGTTGTCCCTT
66 GTGTTGTCCCTT
*
114097705 TTATTTTAAAATTTCGTATCACTTTATCTTAAATCGTTTTACATAGTATTTATTTTAAATTGTTT
1 TTATTTT-AAATTTCGTATCACTTTATCTTAAATCATTTTACATAGTATTTATTTTAAATTGTTT
114097770 TGTGTTGTCCCTT
65 TGTGTTGTCCCTT
114097783 TT
1 TT
114097785 TTAAAAATAT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 7 0.09
78 69 0.91
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (77 bp):
TTATTTTAAATTTCGTATCACTTTATCTTAAATCATTTTACATAGTATTTATTTTAAATTGTTTT
GTGTTGTCCCTT
Found at i:114105438 original size:81 final size:83
Alignment explanation
Indices: 114105312--114105469 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 83
114105302 TTTGAGCGAA
* * * * *
114105312 TATTCTTTCATTCTTTTCATTCGTAATTACACTATGCAAATAATTATTCTTAGACTCTTTTGTCC
1 TATTCTTTCATTC-TTTCATTCATAATCACACCATGCAAATAATTATTCTTAGACTATTTCGTCC
114105377 TTTGGA-CTTTCTTTCAAG
65 TTTGGATCTTTCTTTCAAG
* * *
114105395 TATTCTTTCATTC-TTCATTCATAATCATACCATGCAAATAATTATTCTTAGATTATTTCGTTCT
1 TATTCTTTCATTCTTTCATTCATAATCACACCATGCAAATAATTATTCTTAGACTATTTCGTCCT
114105459 TTGGATCTTTC
66 TTGGATCTTTC
114105470 CTTCGCTTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 48 0.73
82 5 0.08
83 13 0.20
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (83 bp):
TATTCTTTCATTCTTTCATTCATAATCACACCATGCAAATAATTATTCTTAGACTATTTCGTCCT
TTGGATCTTTCTTTCAAG
Found at i:114106117 original size:16 final size:16
Alignment explanation
Indices: 114106098--114106133 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
114106088 AACCTAACCC
*
114106098 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
114106113 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
114106129 AAAAA
1 AAAAA
114106134 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:114106148 original size:16 final size:17
Alignment explanation
Indices: 114106129--114106166 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
114106119 AAAGAAAAAG
*
114106129 AAAAACTTA-CCCCAAA
1 AAAAACTAACCCCCAAA
*
114106145 AAAACCTAACCCCCAAA
1 AAAAACTAACCCCCAAA
114106162 AAAAA
1 AAAAA
114106167 AGAAGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.61, C:0.32, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAACTAACCCCCAAA
Found at i:114106997 original size:11 final size:11
Alignment explanation
Indices: 114106979--114107008 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
114106969 GTGTATATTG
114106979 TATATATTATA
1 TATATATTATA
*
114106990 TTTATATTATA
1 TATATATTATA
114107001 TATATATT
1 TATATATT
114107009 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:114119848 original size:71 final size:70
Alignment explanation
Indices: 114119703--114119913 Score: 214
Period size: 71 Copynumber: 2.9 Consensus size: 70
114119693 GTTTTCCAAG
* * *
114119703 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAGCTCATATTGCGAGA-GTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTAT
*
114119768 GTTTCA
65 GTATCA
*
114119774 AAAAGCAGCTCATATTGCGAGAGTGAGTTGAGCCTC-GGGCACGCTGAGGTAATTTCAATTCCTA
1 AAAATCAGCTCATATTGCGAGAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATT--TA
114119838 T-TAAAT-A
64 TGT--ATCA
* *
114119845 AAAATCA-ATCATATTGCAGATATGGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 AAAATCAGCTCATATTGC-------GAG-AGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTC
114119909 AATTT
58 AATTT
114119914 CTACTTTTTA
Statistics
Matches: 119, Mismatches: 8, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
69 21 0.18
70 24 0.20
71 31 0.26
72 1 0.01
77 4 0.03
78 15 0.13
79 23 0.19
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (70 bp):
AAAATCAGCTCATATTGCGAGAGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTATG
TATCA
Found at i:114120061 original size:71 final size:71
Alignment explanation
Indices: 114119940--114120073 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
114119930 GTTTTCCAAG
* * *
114119940 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
114120005 GTTTCA
66 GTTTCA
* * *
114120011 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
114120074 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:114120227 original size:158 final size:160
Alignment explanation
Indices: 114119782--114120230 Score: 640
Period size: 158 Copynumber: 2.8 Consensus size: 160
114119772 CAAAAAGCAG
* * * * *
114119782 CTCATATTGCGAGA-GTGAGTTGAGCCTC-GGGCACGCTGAGGTAATTTCAATTCCTATTAAAT-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTT---TC
114119844 AAAAATCAA-TCATATTGCAGATATGGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
63 AAAAATCAACTCATATTGC-------GAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
*
114119908 CAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAG
121 CAATTTCTACTTTTTAATTCATGTTTTCCAAGAAAATCAA
*
114119948 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTTTCAAA
*
114120013 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTGC
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTAC
*
114120078 TTTTTAGTTCATG-TTTCCAAGAAAATCAA
131 TTTTTAATTCATGTTTTCCAAGAAAATCAA
*
114120107 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAA-TTCAATTCATGTTTCAAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTTTCAAA
* ** *
114120171 AATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATT
66 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATT
114120231 CCCATTAAAT
Statistics
Matches: 264, Mismatches: 15, Indels: 16
0.89 0.05 0.05
Matches are distributed among these distances:
158 73 0.28
159 60 0.23
160 60 0.23
165 1 0.00
166 23 0.09
167 23 0.09
168 24 0.09
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (160 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTCATGTTTCAAA
AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTAC
TTTTTAATTCATGTTTTCCAAGAAAATCAA
Found at i:114120260 original size:74 final size:70
Alignment explanation
Indices: 114120099--114120402 Score: 264
Period size: 70 Copynumber: 4.5 Consensus size: 70
114120089 TGTTTCCAAG
* * ** * * *
114120099 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTAA-TTCAATTCAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCT-TGGGCACGCTGAGGTAATTTCAATTCAT
*
114120163 GTTTCA
65 GTATCA
114120169 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGGCACGCTGAGGTAATTTCAATTCCC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTT-GGGCACGCTGAGGTAATTTCAATT--C
*
114120234 AT-TAAATCT
63 ATGT--ATCA
114120243 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTGAGGTAATTTCAA---A--
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTGAGGTAATTTCAATTCATG
114120303 T-T--
66 TATCA
* * *
114120305 AAAA-C--CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCACGCT-AGGTATTTTCAAATTCTA
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTGAGGTAATTTC-AATTC-A
114120366 T-T-T-A
64 TGTATCA
* * * *
114120370 AAGAGTCAATTCATATTACGAGAGGTGAGTTGA
1 AA-AATCAACTCATATTGCGAGAAGTGAGTTGA
114120403 GTCTTTAATT
Statistics
Matches: 202, Mismatches: 15, Indels: 35
0.80 0.06 0.14
Matches are distributed among these distances:
58 9 0.04
59 38 0.19
61 1 0.00
62 4 0.02
63 1 0.00
64 3 0.01
65 2 0.01
66 1 0.00
67 2 0.01
68 1 0.00
69 22 0.11
70 46 0.23
71 7 0.03
72 1 0.00
73 25 0.12
74 39 0.19
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTGAGGTAATTTCAATTCATG
TATCA
Found at i:114120343 original size:59 final size:58
Alignment explanation
Indices: 114120251--114120362 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 58
114120241 CTAAAATCAA
114120251 CTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTGAGGTAATTTCAAATTAAAAC
1 CTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCT-AGGTAATTTCAAATTAAAAC
* * *
114120310 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCACGCTAGGTATTTTCAAATT
1 CTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTAGGTAATTTCAAATT
114120363 CTATTTAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
58 14 0.28
59 36 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (58 bp):
CTCATATTGCGAGAAGTGAGTTGAACCTTGGGCACGCTAGGTAATTTCAAATTAAAAC
Found at i:114123287 original size:26 final size:26
Alignment explanation
Indices: 114123256--114123361 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
114123246 ATGAAATCCC
*
114123256 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
114123282 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114123308 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114123334 ATCAT--AACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114123358 ATCA
1 ATCA
114123362 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
24 21 0.28
26 54 0.72
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114130345 original size:26 final size:26
Alignment explanation
Indices: 114130315--114130422 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
114130305 TGAAATGCCC
114130315 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114130341 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114130367 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114130393 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114130419 ATCA
1 ATCA
114130423 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114139010 original size:11 final size:10
Alignment explanation
Indices: 114138991--114139057 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
114138981 AAATAATAAC
114138991 TAATTTAATCA
1 TAATTTAAT-A
*
114139002 TATTTTAATA
1 TAATTTAATA
114139012 TAATTTAATAA
1 TAATTTAAT-A
*
114139023 TAA-ATAA-A
1 TAATTTAATA
114139031 TAATTTAATA
1 TAATTTAATA
*
114139041 AAATTCTTAATA
1 TAA-T-TTAATA
114139053 TAATT
1 TAATT
114139058 ATCATTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 16 0.36
11 14 0.31
12 8 0.18
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (10 bp):
TAATTTAATA
Found at i:114139017 original size:21 final size:21
Alignment explanation
Indices: 114138991--114139057 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
114138981 AAATAATAAC
*
114138991 TAATTTAATCATATTTTAATA
1 TAATTTAATAATATTTTAATA
**
114139012 TAATTTAATAATA-AATAA-A
1 TAATTTAATAATATTTTAATA
*
114139031 TAATTTAATAAAATTCTTAATA
1 TAATTTAATAATATT-TTAATA
114139053 TAATT
1 TAATT
114139058 ATCATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
19 13 0.35
20 3 0.08
21 15 0.41
22 6 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTTAATAATATTTTAATA
Found at i:114139025 original size:39 final size:40
Alignment explanation
Indices: 114138962--114139058 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 40
114138952 TATTGTTATT
** * *
114138962 AAATTTTAATAGGATTAAAAAAT-AATAACTAATTTAATC
1 AAATTTTAATATAATTAAAAAATAAATAAATAATTTAATA
* * *
114139001 ATATTTTAATATAATTTAATAATAAATAAATAATTTAATA
1 AAATTTTAATATAATTAAAAAATAAATAAATAATTTAATA
114139041 AAATTCTTAATATAATTA
1 AAATT-TTAATATAATTA
114139059 TCATTAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 18 0.38
40 18 0.38
41 11 0.23
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (40 bp):
AAATTTTAATATAATTAAAAAATAAATAAATAATTTAATA
Found at i:114139908 original size:145 final size:147
Alignment explanation
Indices: 114139634--114139931 Score: 413
Period size: 145 Copynumber: 2.0 Consensus size: 147
114139624 TCCAAATCAC
* * **
114139634 ATTTTATAGATCTATTATTAAGAAATGGGGTTTAGTTTTAGTTTTAGTTTTTTTGTTATCTTTTG
1 ATTTTACAGATCTATTATTAAGAAAT--GG--TAGTTTTAGTTTTAGTTTTTTTATTATCTTCCG
* *
114139699 GAAATTGATTGAGAGTTGAAACTATTGAGAAATGATTTTTTATTCTTTCTTGTTATATTCTAGAA
62 GAAATTGATTGAGAGTTGAAACTATTGAGAAATAAATTTTTATTCTTTCTTGTTATATTCTAGAA
*
114139764 ATTGTTGGAGAGCAGAAGAGA
127 ATTGATGGAGAGCAGAAGAGA
*
114139785 ATTTTACAGATCTATTATTAAGAAAT-G-AGTTTTAGTTTTATTTTTTTTATTATCTTCCGGAAA
1 ATTTTACAGATCTATTATTAAGAAATGGTAGTTTTAGTTTTAGTTTTTTTATTATCTTCCGGAAA
** * *
114139848 TTGATTGAGAGTTGAAGGTGTTGAGAAATAAATTTTTATTCTTTCTTGTTATGCTT-TAGAAATT
66 TTGATTGAGAGTTGAAACTATTGAGAAATAAATTTTTATTCTTTCTTGTTAT-ATTCTAGAAATT
*
114139912 GATGGAGAGTAGAAGAGA
130 GATGGAGAGCAGAAGAGA
114139930 AT
1 AT
114139932 AAGGAGTAAG
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
145 105 0.79
146 2 0.02
148 1 0.01
151 25 0.19
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.45
Consensus pattern (147 bp):
ATTTTACAGATCTATTATTAAGAAATGGTAGTTTTAGTTTTAGTTTTTTTATTATCTTCCGGAAA
TTGATTGAGAGTTGAAACTATTGAGAAATAAATTTTTATTCTTTCTTGTTATATTCTAGAAATTG
ATGGAGAGCAGAAGAGA
Found at i:114144633 original size:31 final size:31
Alignment explanation
Indices: 114144593--114144657 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
114144583 AACAACACGA
*
114144593 TGATCTAAATAAAAAC-TTTGTAATAGTTTAG
1 TGATCTAAATAAAAACTTTTG-AATAGTATAG
* *
114144624 TGATGTAAATATAAACTTTTGAATAGTATAG
1 TGATCTAAATAAAAACTTTTGAATAGTATAG
114144655 TGA
1 TGA
114144658 ATATTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (31 bp):
TGATCTAAATAAAAACTTTTGAATAGTATAG
Found at i:114145766 original size:18 final size:18
Alignment explanation
Indices: 114145743--114145779 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
114145733 TTATGAAGTT
114145743 TAAATCTAAGCTTAGAAG
1 TAAATCTAAGCTTAGAAG
*
114145761 TAAATCTAAGCTTATAAG
1 TAAATCTAAGCTTAGAAG
114145779 T
1 T
114145780 GAGATTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
TAAATCTAAGCTTAGAAG
Found at i:114146760 original size:18 final size:18
Alignment explanation
Indices: 114146706--114146766 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
114146696 GTAAATTATA
* * *
114146706 TATTATTATGGCAAAGTG
1 TATTAATATGGCGAACTG
* * * *
114146724 TGTTAATTTGGTGATCTG
1 TATTAATATGGCGAACTG
114146742 TATTAATATGGCGAACTG
1 TATTAATATGGCGAACTG
114146760 TATTAAT
1 TATTAAT
114146767 TTGCCAAACA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (18 bp):
TATTAATATGGCGAACTG
Found at i:114148731 original size:21 final size:21
Alignment explanation
Indices: 114148706--114148746 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
114148696 TATATTTCTT
114148706 TATACTTTTAGAAAGAGATAA
1 TATACTTTTAGAAAGAGATAA
* *
114148727 TATACTTTTTGACAGAGATA
1 TATACTTTTAGAAAGAGATA
114148747 TGTAGCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (21 bp):
TATACTTTTAGAAAGAGATAA
Found at i:114150307 original size:13 final size:15
Alignment explanation
Indices: 114150177--114150308 Score: 81
Period size: 15 Copynumber: 9.3 Consensus size: 15
114150167 TTGTATTTGC
*
114150177 ATATATATTTTCATT
1 ATATATATTTTTATT
*
114150192 GTATATATTATTTATT
1 ATATATATT-TTTATT
114150208 -T-TACTATGTTTTATT
1 ATATA-TAT-TTTTATT
* * *
114150223 -TTTAAATTTTTATC
1 ATATATATTTTTATT
114150237 ATATATA--TTTA-T
1 ATATATATTTTTATT
114150249 ATATATA----TATT
1 ATATATATTTTTATT
114150260 AT-TCATATTTTTATT
1 ATAT-ATATTTTTATT
*
114150275 ATATATATTTTTAGT
1 ATATATATTTTTATT
114150290 ATATATTATTTTT-TT
1 ATATA-TATTTTTATT
114150305 ATAT
1 ATAT
114150309 GTTGTAAATT
Statistics
Matches: 95, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
10 3 0.03
11 6 0.06
12 7 0.07
13 4 0.04
14 8 0.08
15 51 0.54
16 16 0.17
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (15 bp):
ATATATATTTTTATT
Found at i:114150438 original size:5 final size:5
Alignment explanation
Indices: 114150428--114150508 Score: 53
Period size: 5 Copynumber: 16.6 Consensus size: 5
114150418 TTTTTCCTCA
* * * * *
114150428 TATAT TATAT TATA- TATAT TTTAT TATAT GTATTT TATTAC TATAC GAT-T
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TA-TAT TATAT TATAT
* *
114150478 TATAT TATAT TTTAT T-TA- TAAAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
114150509 GTTTCACCAT
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
3 1 0.02
4 9 0.15
5 42 0.71
6 7 0.12
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:114150444 original size:14 final size:14
Alignment explanation
Indices: 114150427--114150508 Score: 66
Period size: 14 Copynumber: 6.0 Consensus size: 14
114150417 ATTTTTCCTC
114150427 ATATATTATATTAT
1 ATATATTATATTAT
*
114150441 ATATATTTTATTAT
1 ATATATTATATTAT
* *
114150455 ATGTATTTTATTACT
1 ATATATTATATTA-T
*
114150470 ATACGATTTATATTAT
1 ATA-TA-TTATATTAT
114150486 AT-T-TTAT-TTAT
1 ATATATTATATTAT
114150497 A-A-ATTATATTAT
1 ATATATTATATTAT
114150509 GTTTCACCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
11 9 0.16
12 8 0.14
14 25 0.45
15 3 0.05
16 4 0.07
17 7 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
ATATATTATATTAT
Found at i:114150646 original size:2 final size:2
Alignment explanation
Indices: 114150639--114150666 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
114150629 ATGCTTTAAA
114150639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114150667 TCTTCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114151734 original size:35 final size:34
Alignment explanation
Indices: 114151687--114151760 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
114151677 TAGTTGTTCT
* *
114151687 AGAAATACTATAACAAGTTGTTTTCGCATTTTTAA
1 AGAAATACTATAACAAGTTGTTCT-GAATTTTTAA
* *
114151722 GGAAATGCTATAACAAGTTGTTCTGAATTTTTAA
1 AGAAATACTATAACAAGTTGTTCTGAATTTTTAA
114151756 AGAAA
1 AGAAA
114151761 ATCTATGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.38
35 21 0.62
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (34 bp):
AGAAATACTATAACAAGTTGTTCTGAATTTTTAA
Found at i:114152232 original size:24 final size:24
Alignment explanation
Indices: 114152204--114152256 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
114152194 TTTCTAGAAG
* *
114152204 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
114152228 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
114152252 ATTTA
1 ATTTA
114152257 ACCTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:114165940 original size:15 final size:14
Alignment explanation
Indices: 114165896--114165929 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
114165886 ATTAAAAGTA
*
114165896 GAAAA-TAAGTTTT
1 GAAAATTAAGTATT
114165909 GAAAATTAAGTATT
1 GAAAATTAAGTATT
114165923 GAAAATT
1 GAAAATT
114165930 TAATAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (14 bp):
GAAAATTAAGTATT
Found at i:114166198 original size:22 final size:20
Alignment explanation
Indices: 114166159--114166198 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
114166149 ATTAATTTGA
*
114166159 ATTAATTGAAAATGCTCTCC
1 ATTAAGTGAAAATGCTCTCC
114166179 ATTAAGTGATAAATAGCTCT
1 ATTAAGTGA-AAAT-GCTCT
114166199 TATCTACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTAAGTGAAAATGCTCTCC
Found at i:114167824 original size:40 final size:41
Alignment explanation
Indices: 114167752--114167838 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
114167742 TATAATCAAT
*
114167752 TTTTATTATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
* * * * *
114167793 TTTTAATATATTTTT-TATTTGTTTCTTGTTTTAATATTTG
1 TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
114167833 TTTTAA
1 TTTTAA
114167839 ATGTATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 26 0.65
41 14 0.35
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (41 bp):
TTTTAATATATTTTTCAATTTGTGTATTGTTTTAAGAATTG
Found at i:114172487 original size:27 final size:27
Alignment explanation
Indices: 114172457--114172508 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
114172447 GTTTAGTTGG
114172457 GGGTTGTTAGGGTTCTACAGGAAAATA
1 GGGTTGTTAGGGTTCTACAGGAAAATA
114172484 GGGTTGTTAGGGTTCTACAGGAAAA
1 GGGTTGTTAGGGTTCTACAGGAAAA
114172509 AAGCAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.29
Consensus pattern (27 bp):
GGGTTGTTAGGGTTCTACAGGAAAATA
Found at i:114178827 original size:35 final size:35
Alignment explanation
Indices: 114178781--114178850 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
114178771 TCCATAACTT
114178781 AGTGATTGGATCCTATAGTGGGTG-CACTCTTTAGA
1 AGTGATTGGATCCTATAGTGGGTGAC-CTCTTTAGA
114178816 AGTGATTGGATCCTATAGTGGGTGACCTCTTTAGA
1 AGTGATTGGATCCTATAGTGGGTGACCTCTTTAGA
114178851 TGGCCAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 33 0.97
36 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (35 bp):
AGTGATTGGATCCTATAGTGGGTGACCTCTTTAGA
Found at i:114180210 original size:14 final size:14
Alignment explanation
Indices: 114180175--114180285 Score: 78
Period size: 14 Copynumber: 7.9 Consensus size: 14
114180165 ACTTTTGTAG
*
114180175 ATTCATAAATGTGA
1 ATTCATACATGTGA
*
114180189 ATTCATACATGTGT
1 ATTCATACATGTGA
* *
114180203 ATTCATACGTGTGG
1 ATTCATACATGTGA
* * ** *
114180217 GTTCATAGATACGG
1 ATTCATACATGTGA
*
114180231 ATTCATATATGTGGA
1 ATTCATACATGT-GA
* *
114180246 TTTCATACATGCGA
1 ATTCATACATGTGA
* **
114180260 ATTCATAGATGCAA
1 ATTCATACATGTGA
114180274 ATTCATACATGT
1 ATTCATACATGT
114180286 AGATTATCCC
Statistics
Matches: 74, Mismatches: 22, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
14 64 0.86
15 10 0.14
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (14 bp):
ATTCATACATGTGA
Found at i:114182916 original size:36 final size:36
Alignment explanation
Indices: 114182869--114182938 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
114182859 AGATCTCGAT
*
114182869 ACATCTTAAGACTTCCTAGATGAAGTGCAAATGAAA
1 ACATCTTAAGACTTCCTAGATGAAGTCCAAATGAAA
114182905 ACATCTTAAGACTTCCTAGATGAAGTCCAAATGA
1 ACATCTTAAGACTTCCTAGATGAAGTCCAAATGA
114182939 TCTTTGATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (36 bp):
ACATCTTAAGACTTCCTAGATGAAGTCCAAATGAAA
Found at i:114186912 original size:31 final size:31
Alignment explanation
Indices: 114186874--114186934 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
114186864 TGATAACATC
114186874 TGGAGCCTCTGCGTCTTCCATGGCACGTATT
1 TGGAGCCTCTGCGTCTTCCATGGCACGTATT
* **
114186905 TGGAGCCTCTGTGTCTTCTTTGGCACGTAT
1 TGGAGCCTCTGCGTCTTCCATGGCACGTAT
114186935 CACATACGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.11, C:0.26, G:0.26, T:0.36
Consensus pattern (31 bp):
TGGAGCCTCTGCGTCTTCCATGGCACGTATT
Found at i:114191796 original size:18 final size:18
Alignment explanation
Indices: 114191756--114191797 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
114191746 TAGGTTACCA
114191756 ATTTTTCTTTTTCTTTGT
1 ATTTTTCTTTTTCTTTGT
* *
114191774 GTTTTTCATTTTT-TTTTT
1 ATTTTTC-TTTTTCTTTGT
114191792 ATTTTT
1 ATTTTT
114191798 AATCAAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.81
Consensus pattern (18 bp):
ATTTTTCTTTTTCTTTGT
Found at i:114193772 original size:47 final size:47
Alignment explanation
Indices: 114193674--114193801 Score: 157
Period size: 47 Copynumber: 2.7 Consensus size: 47
114193664 AATTGATAAG
* * * *
114193674 TACCTATACCATGACCCGTAGTCAAATCAAGGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGGAA
* * *
114193721 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCTGAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGGAA
* ** *
114193768 TACCTATAGCATGGGTCGTAGCTAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
114193802 TTATTCGCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCGGAA
Found at i:114201340 original size:15 final size:15
Alignment explanation
Indices: 114201311--114201353 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
114201301 TTATATTAAG
*
114201311 AATATTATTAAATTA
1 AATATTATTTAATTA
* *
114201326 TATATTATTTTATTA
1 AATATTATTTAATTA
*
114201341 AATTTTATTTAAT
1 AATATTATTTAAT
114201354 AATAACCTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATTATTTAATTA
Found at i:114201889 original size:3 final size:3
Alignment explanation
Indices: 114201881--114201922 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
114201871 TTCTTGACAT
114201881 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114201923 GTAAATTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:114202209 original size:21 final size:21
Alignment explanation
Indices: 114202185--114202229 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
114202175 ATCCTAGTTC
114202185 TAAA-AAATTCAAAGAAATATA
1 TAAATAAATTCAAA-AAATATA
**
114202206 TAAATATTTTCAAAAAATATA
1 TAAATAAATTCAAAAAATATA
114202227 TAA
1 TAA
114202230 CAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATAAATTCAAAAAATATA
Found at i:114202912 original size:32 final size:32
Alignment explanation
Indices: 114202876--114202946 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
114202866 TTTATTATTA
* *
114202876 ATTTTTTGAA-AAATATTTTTGTGTTGTTATAT
1 ATTTTTTCAACAAATATTTTT-TATTGTTATAT
* *
114202908 ATTTTTTCAACAATTATTTTTTATTTTTATAT
1 ATTTTTTCAACAAATATTTTTTATTGTTATAT
114202940 ATTTTTT
1 ATTTTTT
114202947 TAGATTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 25 0.74
33 9 0.26
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.65
Consensus pattern (32 bp):
ATTTTTTCAACAAATATTTTTTATTGTTATAT
Found at i:114203250 original size:28 final size:29
Alignment explanation
Indices: 114203194--114203253 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
114203184 TATTACATGG
* *
114203194 GTGCTTAAATTACAAATTTTTTATTTTAA
1 GTGCTTAAATGACAAATTTTTTATATTAA
114203223 GTGCTTAAATGA-AAA-TTTTTATAATTAA
1 GTGCTTAAATGACAAATTTTTTAT-ATTAA
114203251 GTG
1 GTG
114203254 ACTATATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 10 0.36
29 11 0.39
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (29 bp):
GTGCTTAAATGACAAATTTTTTATATTAA
Found at i:114203574 original size:30 final size:30
Alignment explanation
Indices: 114203539--114203623 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
114203529 ATTAGACCAT
*
114203539 TTTTAACTTAATTTAATTACATATATAACA
1 TTTTAATTTAATTTAATTACATATATAACA
* * *
114203569 TTTTAATTTTATTTAATCACATGATATAATA
1 TTTTAATTTAATTTAATTACAT-ATATAACA
* *
114203600 -TTCAATTTAATATAATTACCATAT
1 TTTTAATTTAATTTAATTA-CATAT
114203624 TATATATCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 35 0.78
31 10 0.22
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.48
Consensus pattern (30 bp):
TTTTAATTTAATTTAATTACATATATAACA
Found at i:114203956 original size:21 final size:21
Alignment explanation
Indices: 114203932--114203990 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
114203922 TTAGTGAAAC
114203932 ATTATAAAAA-AAATTAAATAG
1 ATTATAAAAATAAA-TAAATAG
114203953 ATTATAAAAATAAATAAAT-G
1 ATTATAAAAATAAATAAATAG
*
114203973 CATTTTAATAAATAAATA
1 -ATTATAA-AAATAAATA
114203991 CAATTGGCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.03
21 21 0.62
22 12 0.35
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (21 bp):
ATTATAAAAATAAATAAATAG
Found at i:114206093 original size:20 final size:21
Alignment explanation
Indices: 114206048--114206093 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
114206038 TAAAATTTAC
*
114206048 AAAAA-TTATTTTCATCACAT
1 AAAAATTTATTTTCATAACAT
* *
114206068 ATAAATTTATTTTCA-AACTT
1 AAAAATTTATTTTCATAACAT
114206088 AAAAAT
1 AAAAAT
114206094 AAATTTCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATTTATTTTCATAACAT
Found at i:114210056 original size:3 final size:3
Alignment explanation
Indices: 114210048--114210085 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
114210038 ATACAAAAAT
114210048 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
114210086 GCAAGGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:114211556 original size:26 final size:24
Alignment explanation
Indices: 114211515--114211562 Score: 60
Period size: 26 Copynumber: 1.9 Consensus size: 24
114211505 AAAAAAGATT
*
114211515 ATTTTTATTTTTATTTTAAAATTA
1 ATTTTCATTTTTATTTTAAAATTA
*
114211539 ATTTTCATTCTTTAATTTTTAAAT
1 ATTTTCATT-TTT-ATTTTAAAAT
114211563 GAAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 3 0.15
26 9 0.45
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTCATTTTTATTTTAAAATTA
Found at i:114219584 original size:26 final size:26
Alignment explanation
Indices: 114219553--114219660 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
114219543 TGAAATGCCC
*
114219553 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
114219579 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114219605 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114219631 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114219657 ATCA
1 ATCA
114219661 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114226588 original size:26 final size:26
Alignment explanation
Indices: 114226557--114226664 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
114226547 TGAAATGCCC
114226557 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
114226583 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
114226609 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
114226635 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
114226661 ATCA
1 ATCA
114226665 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:114229839 original size:3 final size:3
Alignment explanation
Indices: 114229831--114229860 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
114229821 AATATGTATA
114229831 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
114229861 GGTTTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:114231531 original size:24 final size:22
Alignment explanation
Indices: 114231487--114231533 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
114231477 ATTGGATTGT
*
114231487 TACTGAATAAATGATTGAATGA
1 TACTGAATAAATGATTAAATGA
114231509 TACTGAATAATAATGATTAAATGA
1 TACTGAAT-A-AATGATTAAATGA
114231533 T
1 T
114231534 TGTTATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
24 13 0.59
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:114232243 original size:15 final size:15
Alignment explanation
Indices: 114232223--114232253 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
114232213 TTGCTAAAAT
114232223 TGGATGGGTATTCAG
1 TGGATGGGTATTCAG
114232238 TGGATGGGTATTCAG
1 TGGATGGGTATTCAG
114232253 T
1 T
114232254 ATGTTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.39, T:0.35
Consensus pattern (15 bp):
TGGATGGGTATTCAG
Found at i:114237821 original size:15 final size:15
Alignment explanation
Indices: 114237784--114237821 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
114237774 GGAAAAATGT
114237784 ATTAAATTGAATTGAA
1 ATTAAA-TGAATTGAA
114237800 ATTAAATGAA-TGAA
1 ATTAAATGAATTGAA
114237814 ATTGAAAT
1 ATT-AAAT
114237822 TTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (15 bp):
ATTAAATGAATTGAA
Found at i:114238261 original size:24 final size:22
Alignment explanation
Indices: 114238216--114238261 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
114238206 TTGGACTGTC
* *
114238216 ACTGAATAAATGATTGACTGAT
1 ACTGAATAAATGATTAAATGAT
114238238 ACTGAATAATAATGATTAAATGAT
1 ACTGAAT-A-AATGATTAAATGAT
114238262 TGTTATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.33
Consensus pattern (22 bp):
ACTGAATAAATGATTAAATGAT
Found at i:114240020 original size:24 final size:24
Alignment explanation
Indices: 114239988--114240048 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
114239978 AAAATCCAAT
* * *
114239988 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAATA-A
114240012 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
114240036 GCACTATGTGTGC
1 GCACTATGTGTGC
114240049 AAATTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:114240668 original size:2 final size:2
Alignment explanation
Indices: 114240661--114240687 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
114240651 TTAATGAATG
114240661 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
114240688 AATTATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114246478 original size:16 final size:17
Alignment explanation
Indices: 114246437--114246478 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
114246427 AAGTAAATAA
* *
114246437 AAGAAAGAAAGAAACAG
1 AAGAAGGAACGAAACAG
*
114246454 AATAAGGAACGAAACAG
1 AAGAAGGAACGAAACAG
114246471 -AGAAGGAA
1 AAGAAGGAA
114246479 GGAAGGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.64, C:0.07, G:0.26, T:0.02
Consensus pattern (17 bp):
AAGAAGGAACGAAACAG
Found at i:114247297 original size:17 final size:18
Alignment explanation
Indices: 114247269--114247308 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
114247259 ATTTATTAAA
114247269 TTGAATTGAAATT-AAAT
1 TTGAATTGAAATTGAAAT
114247286 TATGAA-TGAAATTGAAAT
1 T-TGAATTGAAATTGAAAT
114247304 TTGAA
1 TTGAA
114247309 AGTTTACTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
TTGAATTGAAATTGAAAT
Found at i:114247710 original size:22 final size:22
Alignment explanation
Indices: 114247685--114247729 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
114247675 ACTGCTACCG
* *
114247685 AATGTTAGACTGTTACTGAATA
1 AATGATAGACTGATACTGAATA
*
114247707 AATGATGGACTGATACTGAATA
1 AATGATAGACTGATACTGAATA
114247729 A
1 A
114247730 TAATGATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (22 bp):
AATGATAGACTGATACTGAATA
Found at i:114251742 original size:40 final size:39
Alignment explanation
Indices: 114251562--114251712 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
114251552 AATGTTCGAG
114251562 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
114251600 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
114251639 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
114251678 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
114251713 GGTTACCATA
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 16 0.15
39 72 0.69
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:114259737 original size:40 final size:40
Alignment explanation
Indices: 114259575--114259751 Score: 234
Period size: 39 Copynumber: 4.5 Consensus size: 40
114259565 GTATGAATGT
114259575 TCCGGGCTAAGT-CCGAAGGCAATTGTGCGAGCTATGATA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATGATA
114259614 TCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGATA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATGATA
* * *
114259653 CCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATGATA
* * * * **
114259692 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATA
1 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATGATA
* *
114259732 ACCGGGCTATGTCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
114259752 TGTTTTGAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
39 83 0.67
40 40 0.33
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGCTATGATA
Found at i:114267837 original size:20 final size:21
Alignment explanation
Indices: 114267799--114267837 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
114267789 TGAATTGATT
114267799 AAATGTGTGATTAAATTAGTG
1 AAATGTGTGATTAAATTAGTG
*
114267820 AAATGTGT-ATTAATTTAG
1 AAATGTGTGATTAAATTAG
114267838 ATCAAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (21 bp):
AAATGTGTGATTAAATTAGTG
Found at i:114275366 original size:21 final size:20
Alignment explanation
Indices: 114275342--114275380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
114275332 TGAATTGATT
114275342 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
114275363 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
114275381 ATAAAGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:114279254 original size:18 final size:20
Alignment explanation
Indices: 114279206--114279255 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
114279196 TTTTCAATCG
*
114279206 AAAACCTTGAACACTTATAA
1 AAAACCTTAAACACTTATAA
*
114279226 AATATCC-TAAACA-TTA-AA
1 AA-AACCTTAAACACTTATAA
114279244 AAAACCTTAAAC
1 AAAACCTTAAAC
114279256 TAAAACCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 3 0.12
18 9 0.36
19 3 0.12
20 7 0.28
21 3 0.12
ACGTcount: A:0.54, C:0.20, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAACCTTAAACACTTATAA
Found at i:114281251 original size:12 final size:12
Alignment explanation
Indices: 114281234--114281261 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
114281224 ACATGCATTA
114281234 TCATCATTATCC
1 TCATCATTATCC
114281246 TCATCATTATCC
1 TCATCATTATCC
114281258 TCAT
1 TCAT
114281262 ATGTAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (12 bp):
TCATCATTATCC
Found at i:114282538 original size:290 final size:289
Alignment explanation
Indices: 114282019--114282571 Score: 858
Period size: 290 Copynumber: 1.9 Consensus size: 289
114282009 CATAAAAAAC
*
114282019 AGAATAGTTTGAACAACATTCCATTGTAAATTGAAGTAAAGTATGGACATAAGATTCTAGTGTCT
1 AGAATAGTTTGAACAACATTCCATTGTAAATTGAAATAAAGTATGGACATAAGATTCTAGTGTCT
* ** *
114282084 GACATGGCATCTCTAAAGATACAAGATAAAAATATGTTTATGTGGACATTAAATTTTGTTTGCAA
66 GACATAGCATCTCTAAAGATACAAGATAAAAATATGTTTATGTCAACATTAAATTTTGTTTACAA
* * * * *
114282149 TAGCAAAATGAACAAATCCTTATGTTTTGATTTTAGGGAACTCTTGATTCTTACATCCAACTAGA
131 TAGCAAAATAAACAAATCCTTATGTTTTGATTTCAAGGAACTCCTGATTCCTACATCCAACTAGA
* * * * *
114282214 ATCTTGTTTTGAGATTAATTTATACTGTGATTTGAAGATATCTAATACTTTAATATCTTACAGTA
196 ATCTTGTTTTGAAAATAATTTATACTGAGATTTGAAGATATCTAACACTTTAATATCTTACAATA
114282279 ATGGTTCATTTACCTTTAATAGTTTGAAT
261 ATGGTTCATTTACCTTTAATAGTTTGAAT
* *
114282308 AGAATAGTTTGGAA-AACATTCTATTGTAAATTGAAATAAAGTGTGGACATAAGCA-TCTAGTGT
1 AGAATAGTTT-GAACAACATTCCATTGTAAATTGAAATAAAGTATGGACATAAG-ATTCTAGTGT
*
114282371 CTGACATAGCATCTCTAAAGATACAAGATAAAAATCATGTTTATGTCAACATTAATTTTTGTTTA
64 CTGACATAGCATCTCTAAAGATACAAGATAAAAAT-ATGTTTATGTCAACATTAAATTTTGTTTA
*
114282436 CAATATCAAAATAAACAAATCCTTATGTTTTGATTTCAAGGAACTCCTGATTCCTACATCCAACT
128 CAATAGCAAAATAAACAAATCCTTATGTTTTGATTTCAAGGAACTCCTGATTCCTACATCCAACT
** * *
114282501 ATCATCTTGTTTTGAAAATAATTTATACTGAGATTTGAAGATATTTAACACTTTAATATCTTGCA
193 AGAATCTTGTTTTGAAAATAATTTATACTGAGATTTGAAGATATCTAACACTTTAATATCTTACA
114282566 ATAATG
258 ATAATG
114282572 ACTCGTTTGT
Statistics
Matches: 238, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
289 88 0.37
290 150 0.63
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (289 bp):
AGAATAGTTTGAACAACATTCCATTGTAAATTGAAATAAAGTATGGACATAAGATTCTAGTGTCT
GACATAGCATCTCTAAAGATACAAGATAAAAATATGTTTATGTCAACATTAAATTTTGTTTACAA
TAGCAAAATAAACAAATCCTTATGTTTTGATTTCAAGGAACTCCTGATTCCTACATCCAACTAGA
ATCTTGTTTTGAAAATAATTTATACTGAGATTTGAAGATATCTAACACTTTAATATCTTACAATA
ATGGTTCATTTACCTTTAATAGTTTGAAT
Found at i:114285026 original size:29 final size:28
Alignment explanation
Indices: 114284978--114285049 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
114284968 TGTGAATTGA
*
114284978 GCCTAGTGGGCCATAAGAATATGAACTGG
1 GCCTAGTGGGCCATAAGAATAAG-ACTGG
** *
114285007 GCC-AGATGGGCCATTTGAATAAGATTGG
1 GCCTAG-TGGGCCATAAGAATAAGACTGG
114285035 GCCTAGTGGGCCATA
1 GCCTAGTGGGCCATA
114285050 TGCATGTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (28 bp):
GCCTAGTGGGCCATAAGAATAAGACTGG
Found at i:114290626 original size:40 final size:40
Alignment explanation
Indices: 114290577--114290699 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 40
114290567 GCTATCTGCC
* * * * *
114290577 TTAAGTTACCATGGTGAATTAGGAATAAATCCTATTCACT
1 TTAAATTACCATAGTGAATCAGGAACAAATCCTATCCACT
114290617 TTAAATTACCATAGTGAATCAGGAACAAATCCTATCCACT
1 TTAAATTACCATAGTGAATCAGGAACAAATCCTATCCACT
* ** ** * * *
114290657 TTGAGGTATTATAGTAAATCAGGAACGAATCATATCCACT
1 TTAAATTACCATAGTGAATCAGGAACAAATCCTATCCACT
114290697 TTA
1 TTA
114290700 TATTCTCGAG
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (40 bp):
TTAAATTACCATAGTGAATCAGGAACAAATCCTATCCACT
Found at i:114295106 original size:185 final size:185
Alignment explanation
Indices: 114294794--114295162 Score: 684
Period size: 185 Copynumber: 2.0 Consensus size: 185
114294784 ATTTGTCGGT
114294794 AACATTAGATACTTTAACCCAATAGGATTCAAGAAGCATATGACATTTTCTGTCGAACACATGAT
1 AACATTAGATACTTTAACCCAATAGGATTCAAGAAGCATATGACATTTTCTGTCGAACACATGAT
*
114294859 ATCATCAAATTCACACCACAGACATAAAAGTGACTTTCTTTAAATTGATAATCGAACAGTTCTCT
66 ATCATCAAATTCACACCACAGACATAAAAGTGACTGTCTTTAAATTGATAATCGAACAGTTCTCT
114294924 TTTATTGTGACTTTAGCCGTCTGAAAGTACAAACTATTTCTTTACATTCTCGTAC
131 TTTATTGTGACTTTAGCCGTCTGAAAGTACAAACTATTTCTTTACATTCTCGTAC
* * *
114294979 AACATTAGATACTTTAACCCATTAGGATTCAAGAAGCATATGATATTTTCTTTCGAACACATGAT
1 AACATTAGATACTTTAACCCAATAGGATTCAAGAAGCATATGACATTTTCTGTCGAACACATGAT
114295044 ATCATCAAATTCACACCACAGACATAAAAGTGACTGTCTTTAAATTGATAATCGAACAGTTCTCT
66 ATCATCAAATTCACACCACAGACATAAAAGTGACTGTCTTTAAATTGATAATCGAACAGTTCTCT
* *
114295109 TTTATTGTGACTTTAGCTGTCTGAAAGTACAAACTGTTTCTTTACATTCTCGTA
131 TTTATTGTGACTTTAGCCGTCTGAAAGTACAAACTATTTCTTTACATTCTCGTA
114295163 TTAAATCTTA
Statistics
Matches: 178, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
185 178 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (185 bp):
AACATTAGATACTTTAACCCAATAGGATTCAAGAAGCATATGACATTTTCTGTCGAACACATGAT
ATCATCAAATTCACACCACAGACATAAAAGTGACTGTCTTTAAATTGATAATCGAACAGTTCTCT
TTTATTGTGACTTTAGCCGTCTGAAAGTACAAACTATTTCTTTACATTCTCGTAC
Found at i:114297307 original size:96 final size:96
Alignment explanation
Indices: 114297183--114297404 Score: 288
Period size: 96 Copynumber: 2.3 Consensus size: 96
114297173 GTCTCATAAT
* *
114297183 GATGCAATGTCCCAGACATGGTCTTACACGA-AATCACATATCAATGCCGATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACGAGAA-CACATATCAACGCCGATGCCATGTCCCAGA
* *
114297247 CATGGTCTTACACT-GGCTCACA-CGTCGAGGCC
65 CATGGTCTTACA-TGGGATCACATC-TAGAGGCC
* * * *
114297279 GATGCCATGTTCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACGAGAACACATATCAACGCCGATGCCATGTCCCAGAC
* * *
114297344 ATGGTCTTATATGGGATCTCATCTAGATGCC
66 ATGGTCTTACATGGGATCACATCTAGAGGCC
*
114297375 AATGCCATGTCCCAGACATGGTCTTACACG
1 GATGCCATGTCCCAGACATGGTCTTACACG
114297405 GGATCTCACA
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
95 1 0.01
96 105 0.97
97 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACGAGAACACATATCAACGCCGATGCCATGTCCCAGAC
ATGGTCTTACATGGGATCACATCTAGAGGCC
Found at i:114297412 original size:48 final size:48
Alignment explanation
Indices: 114297183--114297409 Score: 251
Period size: 48 Copynumber: 4.7 Consensus size: 48
114297173 GTCTCATAAT
* **
114297183 GATGCAATGTCCCAGACATGGTCTTACACGAAATCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCAATGCC
* * ** * *
114297231 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCAATGCC
* * * * *
114297279 GATGCCATGTTCCAAACATGGTCTTACACTAGCA-CACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-GGGATCACATATCAATGCC
* * * *
114297327 GATGCCATGTCCCAGACATGGTCTTATATGGGATCTCATCT-AGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCA-ATGCC
*
114297375 AATGCCATGTCCCAGACATGGTCTTACACGGGATC
1 GATGCCATGTCCCAGACATGGTCTTACACGGGATC
114297410 TCACATGTAC
Statistics
Matches: 146, Mismatches: 30, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
47 3 0.02
48 142 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCAATGCC
Found at i:114299428 original size:37 final size:37
Alignment explanation
Indices: 114299378--114299468 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
114299368 TTATTACGAA
114299378 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
114299415 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
114299452 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
114299469 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:114299566 original size:48 final size:48
Alignment explanation
Indices: 114299508--114299659 Score: 277
Period size: 48 Copynumber: 3.2 Consensus size: 48
114299498 TGTTACAACA
*
114299508 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
114299556 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
114299604 TTCACATTAGCCCTTCGGGTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
114299652 TTCACATT
1 TTCACATT
114299660 CATCACATCG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 101 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:114299713 original size:49 final size:49
Alignment explanation
Indices: 114299651--114300080 Score: 719
Period size: 49 Copynumber: 8.9 Consensus size: 49
114299641 CACACATATA
*
114299651 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * * *
114299700 CTTCACATTCATCACATCGGCCATTAGGCCTTAT-A-ACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
114299747 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
114299796 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
114299843 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
114299892 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
114299941 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
114299988 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
114300037 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
114300081 CATCTCATAC
Statistics
Matches: 357, Mismatches: 18, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 133 0.37
48 2 0.01
49 222 0.62
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:114299807 original size:145 final size:144
Alignment explanation
Indices: 114299651--114300080 Score: 745
Period size: 145 Copynumber: 3.0 Consensus size: 144
114299641 CACACATATA
* * *
114299651 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
* * *
114299716 TCGGCCATTAGGCCTTATAACA-TATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
64 TTGGCCATTAGGCCTTATCACAGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
*
114299780 TCACATGTATATACAC
129 TCACATATATATACAC
114299796 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
114299861 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 GGCCATTAGGCCTTATCACA-GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
114299926 CACATATATATACAC
130 CACATATATATACAC
114299941 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
*
114300006 GGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTAT
66 GGCCATTAGGCCTTATCACA-GTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
114300071 CACATATATA
130 CACATATATA
114300081 CATCTCATAC
Statistics
Matches: 275, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
143 44 0.16
145 231 0.84
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (144 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACAGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
ACATATATATACAC
Found at i:114300081 original size:96 final size:94
Alignment explanation
Indices: 114299651--114300082 Score: 702
Period size: 96 Copynumber: 4.5 Consensus size: 94
114299641 CACACATATA
* *
114299651 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* * *
114299716 TCGGCCATTAGGCCTTATAACATATATACTC
64 TTGGCCATTAGGCCTTATCACATATATACAC
114299747 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACA
*
114299812 TTGGCCATTAGGCCTTATCACATATATACTC
64 TTGGCCATTAGGCCTTATCACATATATACAC
114299843 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACA
114299908 TTGGCCATTAGGCCTTATCACATATATATACAC
64 TTGGCCATTAGGCCTTATCAC--ATATATACAC
*
114299941 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
114300006 GGCCATTAGGCCTTATCACATGTATATACAC
66 GGCCATTAGGCCTTATCACA--TATATACAC
*
114300037 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
114300083 TCTCATACAT
Statistics
Matches: 322, Mismatches: 8, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
94 2 0.01
96 273 0.85
98 47 0.15
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (94 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACATATATACAC
Found at i:114303455 original size:2 final size:2
Alignment explanation
Indices: 114303448--114303485 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
114303438 TCAGAATTTC
114303448 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114303486 CCCATGTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114304045 original size:2 final size:2
Alignment explanation
Indices: 114304038--114304068 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114304028 TTAATTAAGC
114304038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114304069 ATTCACATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114306406 original size:61 final size:58
Alignment explanation
Indices: 114306283--114306419 Score: 134
Period size: 61 Copynumber: 2.3 Consensus size: 58
114306273 ATTCATATTT
* * * * *
114306283 TAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATT
1 TAATAATAATTATATTAAGAATATAATTAAATTATATATTATTTTATTAAAATATATC
* * *
114306341 TAATAATAATTATGTTAA-AATATAATTATATTATTTATTTTTATTGTTATTAAAATATATC
1 TAATAATAATTATATTAAGAATATAATTAAATTA--TA-TATTATT-TTATTAAAATATATC
*
114306402 TAATAGTAATCT-TATTAA
1 TAATAATAAT-TATATTAA
114306420 ATTTAATAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
57 12 0.19
58 17 0.27
59 2 0.03
60 6 0.09
61 26 0.41
62 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATATAATTAAATTATATATTATTTTATTAAAATATATC
Found at i:114306612 original size:16 final size:15
Alignment explanation
Indices: 114306588--114306656 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 15
114306578 TGAGTTACTA
*
114306588 ATTATAGCTCTATTC
1 ATTACAGCTCTATTC
114306603 GATTACAGCTCTATTTC
1 -ATTACAGCTCTA-TTC
* *
114306620 ATTACAACTCTATTTA
1 ATTACAGCTCTA-TTC
*
114306636 ATTACAGCCCTATTC
1 ATTACAGCTCTATTC
114306651 TATTAC
1 -ATTAC
114306657 GGTGAACCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 2 0.04
16 40 0.89
17 3 0.07
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTACAGCTCTATTC
Found at i:114307584 original size:24 final size:24
Alignment explanation
Indices: 114307557--114307603 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
114307547 TGAATAAAGC
*
114307557 CATATAAATATTTAAGAAAATTAT
1 CATAAAAATATTTAAGAAAATTAT
*
114307581 CATAAAAATATTTAAGATAATTA
1 CATAAAAATATTTAAGAAAATTA
114307604 AAATTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
CATAAAAATATTTAAGAAAATTAT
Found at i:114307845 original size:19 final size:20
Alignment explanation
Indices: 114307821--114307860 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
114307811 AGATACATAC
*
114307821 ATACATAAT-GATAATGTGA
1 ATACATAATGGATAATATGA
*
114307840 ATACATTATGGATAATATGA
1 ATACATAATGGATAATATGA
114307860 A
1 A
114307861 ATTTTGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (20 bp):
ATACATAATGGATAATATGA
Found at i:114308264 original size:13 final size:13
Alignment explanation
Indices: 114308246--114308272 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
114308236 AGATTAAATT
114308246 AAATAAATTCAAA
1 AAATAAATTCAAA
114308259 AAATAAATTCAAA
1 AAATAAATTCAAA
114308272 A
1 A
114308273 GAAATTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAATTCAAA
Found at i:114311723 original size:33 final size:33
Alignment explanation
Indices: 114311686--114311792 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
114311676 CAATTAGACC
114311686 ATTAATTGCTTGAGTGGACCATTATGGACATGT
1 ATTAATTGCTTGAGTGGACCATTATGGACATGT
* * ** ** * *
114311719 ATTAATTAGTTTTCATGTTTTATAACTATGGAC---C
1 ATTAATT-G-CTTGA-G-TGGACCATTATGGACATGT
114311753 ATTAATTGCTTGAGTGGACCATTATGGACATGT
1 ATTAATTGCTTGAGTGGACCATTATGGACATGT
114311786 ATTAATT
1 ATTAATT
114311793 AGTTTTCATG
Statistics
Matches: 51, Mismatches: 16, Indels: 14
0.63 0.20 0.17
Matches are distributed among these distances:
30 10 0.20
31 1 0.02
32 3 0.06
33 15 0.29
34 8 0.16
35 3 0.06
36 1 0.02
37 10 0.20
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (33 bp):
ATTAATTGCTTGAGTGGACCATTATGGACATGT
Found at i:114311751 original size:37 final size:37
Alignment explanation
Indices: 114311708--114311816 Score: 97
Period size: 37 Copynumber: 3.1 Consensus size: 37
114311698 AGTGGACCAT
114311708 TATGGACATGTATTAATTAGTTTTCATGTTTTATAAC
1 TATGGACATGTATTAATTAGTTTTCATGTTTTATAAC
* * * ** ** *
114311745 TATGGAC---CATTAATT-G-CTTGA-G-TGGACCAT
1 TATGGACATGTATTAATTAGTTTTCATGTTTTATAAC
114311775 TATGGACATGTATTAATTAGTTTTCATGTTTTATAAC
1 TATGGACATGTATTAATTAGTTTTCATGTTTTATAAC
114311812 TATGG
1 TATGG
114311817 TTAAAATAGT
Statistics
Matches: 49, Mismatches: 16, Indels: 14
0.62 0.20 0.18
Matches are distributed among these distances:
30 10 0.20
31 1 0.02
32 3 0.06
33 8 0.16
34 8 0.16
35 3 0.06
36 1 0.02
37 15 0.31
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (37 bp):
TATGGACATGTATTAATTAGTTTTCATGTTTTATAAC
Found at i:114311755 original size:67 final size:67
Alignment explanation
Indices: 114311682--114311816 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
114311672 GTTGCAATTA
114311682 GACCATTAATTGCTTGAGTGGACCATTATGGACATGTATTAATTAGTTTTCATGTTTTATAACTA
1 GACCATTAATTGCTTGAGTGGACCATTATGGACATGTATTAATTAGTTTTCATGTTTTATAACTA
114311747 TG
66 TG
114311749 GACCATTAATTGCTTGAGTGGACCATTATGGACATGTATTAATTAGTTTTCATGTTTTATAACTA
1 GACCATTAATTGCTTGAGTGGACCATTATGGACATGTATTAATTAGTTTTCATGTTTTATAACTA
114311814 TG
66 TG
114311816 G
1 G
114311817 TTAAAATAGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (67 bp):
GACCATTAATTGCTTGAGTGGACCATTATGGACATGTATTAATTAGTTTTCATGTTTTATAACTA
TG
Found at i:114312755 original size:43 final size:43
Alignment explanation
Indices: 114312707--114312869 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
114312697 ATCGAAATGT
* *
114312707 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * * *
114312750 GATTACGTATAAGACCATGTCTGGGACATTAGCATCGTTACTCA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * * * *
114312794 -ATTTCGTGTAAGACCCTGTCTGGGACAATGGTATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * *
114312836 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
114312870 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 83 0.88
44 4 0.04
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:114329279 original size:40 final size:40
Alignment explanation
Indices: 114329230--114329376 Score: 158
Period size: 40 Copynumber: 3.7 Consensus size: 40
114329220 CGGAATTTAA
** *
114329230 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCAGGACATAAC
* * *
114329270 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
* * * *
114329310 CCGGATTTAGTAACTCGCAC-AATGCCTTC-GGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
114329348 CCGGA-ATTAGTAACTCGCACAAATGCCTT
1 CCGGATA-TAGTAACTCGCACAAATGCCTT
114329377 TGGATCTTAG
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 25 0.27
39 18 0.19
40 50 0.54
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCAGGACATAAC
Found at i:114329368 original size:78 final size:80
Alignment explanation
Indices: 114329251--114329432 Score: 237
Period size: 78 Copynumber: 2.3 Consensus size: 80
114329241 TACTCGTTCA
* * *
114329251 AATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTC-GGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTT-GGGATCTTAACCCGG
*
114329314 ATTTAGTAAC-TCGCAC
64 ATTTAGTAACTTAGCAC
* *
114329330 AATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTTGGATCTTAGCCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGGAT
*
114329394 TTAGTCACTTAGCAC
66 TTAGTAACTTAGCAC
*
114329409 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
114329433 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 51 0.56
79 26 0.29
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGGAT
TTAGTAACTTAGCAC
Found at i:114329398 original size:40 final size:40
Alignment explanation
Indices: 114329249--114329432 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
114329239 GCTACTCGTT
* *
114329249 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
114329289 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
114329329 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
114329367 CAAATGCCTT-TGGATCTTAGCCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
114329408 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
114329433 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 26 0.20
39 20 0.16
40 69 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:114338313 original size:18 final size:19
Alignment explanation
Indices: 114338290--114338330 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
114338280 TAAAATATTA
*
114338290 TTTTTAATT-AATTTTTTC
1 TTTTTAATTAAATATTTTC
114338308 TTTTTAATTAAATATTTTC
1 TTTTTAATTAAATATTTTC
114338327 TTTT
1 TTTT
114338331 CTTATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTAATTAAATATTTTC
Found at i:114338413 original size:26 final size:24
Alignment explanation
Indices: 114338375--114338439 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
114338365 AAACATAAAG
114338375 AATTTAATA-TATAT-TTAATATTT
1 AATTTAATATTATATATTAA-ATTT
*
114338398 ACATTATAATATTATATATTTAATTT
1 A-ATT-TAATATTATATATTAAATTT
*
114338424 AATTTAATTTTATATA
1 AATTTAATATTATATA
114338440 AAATACATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.03
24 14 0.39
25 8 0.22
26 10 0.28
27 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTAATATTATATATTAAATTT
Found at i:114344480 original size:32 final size:32
Alignment explanation
Indices: 114344444--114344508 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
114344434 GACTAGTAAC
114344444 TAAGACTAGTGTTCCACATCAAAACCAACTCT
1 TAAGACTAGTGTTCCACATCAAAACCAACTCT
*
114344476 TAAGACTAGTGTTCCACATCAAAACCAATTCT
1 TAAGACTAGTGTTCCACATCAAAACCAACTCT
114344508 T
1 T
114344509 TCAGTACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (32 bp):
TAAGACTAGTGTTCCACATCAAAACCAACTCT
Found at i:114346738 original size:2 final size:2
Alignment explanation
Indices: 114346731--114346764 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
114346721 TGGTAGAACA
*
114346731 AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114346765 CTTTGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:114349156 original size:2 final size:2
Alignment explanation
Indices: 114349149--114349181 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
114349139 ACTAATATTT
114349149 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114349182 GTGTATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114349616 original size:16 final size:17
Alignment explanation
Indices: 114349595--114349627 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
114349585 AAGTGATTTT
*
114349595 GAATCAGTA-AAATCGA
1 GAATCAATACAAATCGA
114349611 GAATCAATACAAATCGA
1 GAATCAATACAAATCGA
114349628 TTGAATTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (17 bp):
GAATCAATACAAATCGA
Found at i:114351074 original size:20 final size:21
Alignment explanation
Indices: 114351049--114351102 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
114351039 AAAATTACAA
114351049 AAAAATTTAAAATAATT-T-T
1 AAAAATTTAAAATAATTATAT
* *
114351068 CAAAAATTCAAAATACTTATAT
1 -AAAAATTTAAAATAATTATAT
114351090 AAAAATTTAAAAT
1 AAAAATTTAAAAT
114351103 TTATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.52
21 13 0.45
22 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTTAAAATAATTATAT
Found at i:114351151 original size:43 final size:43
Alignment explanation
Indices: 114351047--114351151 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
114351037 CAAAAATTAC
114351047 AAAAAAATTT-AAAATA-ATTTTCAAAAATTCAAAATACTTAT
1 AAAAAAATTTAAAAATATATTTTCAAAAATTCAAAATACTTAT
* * * ** *
114351088 ATAAAAATTTAAAATTTATATTTTTAAAAATTCTCAA-ACTTCT
1 AAAAAAATTTAAAA-ATATATTTTCAAAAATTCAAAATACTTAT
114351131 AAAAAAATTCTAAAAATATAT
1 AAAAAAATT-TAAAAATATAT
114351152 ATAAAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
41 9 0.17
42 3 0.06
43 20 0.38
44 20 0.38
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (43 bp):
AAAAAAATTTAAAAATATATTTTCAAAAATTCAAAATACTTAT
Found at i:114351283 original size:16 final size:16
Alignment explanation
Indices: 114351264--114351294 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114351254 TTGATTTTTT
114351264 TTTCAAATATATGTGG
1 TTTCAAATATATGTGG
*
114351280 TTTCAAATTTATGTG
1 TTTCAAATATATGTG
114351295 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATGTGG
Found at i:114352437 original size:12 final size:12
Alignment explanation
Indices: 114352420--114352452 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
114352410 CAGCCCACCC
114352420 ATATTAATTTTT
1 ATATTAATTTTT
114352432 ATATT-ATTTTT
1 ATATTAATTTTT
114352443 ATA-TAATTTT
1 ATATTAATTTT
114352453 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:114352610 original size:30 final size:30
Alignment explanation
Indices: 114352574--114352636 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
114352564 ACTTGACAAG
114352574 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
114352604 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
114352634 CAA
1 CAA
114352637 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:114354504 original size:19 final size:19
Alignment explanation
Indices: 114354482--114354518 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
114354472 ATATTTGGTT
114354482 TTAATCTAT-ATTAATTATC
1 TTAAT-TATGATTAATTATC
114354501 TTAATTATGATTAATTAT
1 TTAATTATGATTAATTAT
114354519 TGAATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TTAATTATGATTAATTATC
Done.