Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 268 of 349
Found at i:89627163 original size:27 final size:26
Alignment explanation
Indices: 89627084--89627166 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
89627074 TCGATCGGTC
* * *
89627084 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
89627110 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
89627137 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
89627164 AAC
1 AAC
89627167 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:89627395 original size:27 final size:27
Alignment explanation
Indices: 89627365--89627560 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
89627355 GGGGCAAAAT
* * * *
89627365 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89627392 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89627419 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89627446 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
89627473 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
89627500 TGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89627527 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
89627554 AGTAATT
1 GGTAATT
89627561 TCTCAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:89627595 original size:27 final size:27
Alignment explanation
Indices: 89627565--89628274 Score: 864
Period size: 27 Copynumber: 26.3 Consensus size: 27
89627555 GTAATTTCTC
*
89627565 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
89627592 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
89627619 AA-CTGAGGGTAAACCAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
89627646 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
89627673 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
89627700 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
89627727 AA-CTGAGGGTAAAATGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
89627754 AATTGAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
89627780 AACCTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
89627808 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
89627835 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
89627862 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
89627889 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
89627916 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
89627943 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
89627970 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
89627997 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
89628024 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
89628051 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
89628078 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
89628105 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
89628132 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
89628159 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
89628186 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
89628213 AA-CTGA-GGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
89628239 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
89628266 AATCGAGGG
1 AATCGAGGG
89628275 CATTTTAGTA
Statistics
Matches: 598, Mismatches: 66, Indels: 38
0.85 0.09 0.05
Matches are distributed among these distances:
26 32 0.05
27 557 0.93
28 9 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:89628981 original size:82 final size:82
Alignment explanation
Indices: 89628844--89629010 Score: 325
Period size: 82 Copynumber: 2.0 Consensus size: 82
89628834 CTCAAATGCT
*
89628844 CCACACGCCATTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
1 CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
89628909 AGGCCTACCTACTACAC
66 AGGCCTACCTACTACAC
89628926 CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
1 CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
89628991 AGGCCTACCTACTACAC
66 AGGCCTACCTACTACAC
89629008 CCA
1 CCA
89629011 GGGTTTGATT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (82 bp):
CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
AGGCCTACCTACTACAC
Found at i:89632851 original size:27 final size:26
Alignment explanation
Indices: 89632790--89632901 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 26
89632780 GGAAGCGTCT
* *
89632790 TGGTGGCTATGCCACAAATTATCTGATC
1 TGGTGGCTCTGCCAC--ATTATCTGTTC
89632818 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
** *
89632845 TAATGGCTCTGCCATGATTATCTGTATC
1 TGGTGGCTCTGCCA-CATTATCTGT-TC
* *
89632873 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
89632899 TGG
1 TGG
89632902 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.51
28 28 0.39
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:89640402 original size:27 final size:26
Alignment explanation
Indices: 89640344--89640456 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
89640334 AGGAAGCGTC
* *
89640344 CTGGTGGCTATGCCACAAATTATCTAAT
1 CTGGTGGCTCTGCCAC--ATTATCTATT
*
89640372 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
89640399 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTAT-T
* *
89640427 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTATT
89640453 CTGG
1 CTGG
89640457 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 32 0.42
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:89640429 original size:55 final size:54
Alignment explanation
Indices: 89640344--89640456 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
89640334 AGGAAGCGTC
* *
89640344 CTGGTGGCTATGCCACAAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTAATCTGGTGACTCTGCCACAT-TATCTATT
* * * *
89640399 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTATGCCACAAATTATCT-AATCTGGTGACTCTGCCACATTATCTATT
89640453 CTGG
1 CTGG
89640457 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTAATCTGGTGACTCTGCCACATTATCTATT
Found at i:89643635 original size:14 final size:15
Alignment explanation
Indices: 89643618--89643646 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89643608 GCACGAAAAT
89643618 TTCACACAA-ATAAA
1 TTCACACAATATAAA
89643632 TTCACACAATATAAA
1 TTCACACAATATAAA
89643647 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACAATATAAA
Found at i:89650856 original size:55 final size:55
Alignment explanation
Indices: 89650788--89650913 Score: 171
Period size: 55 Copynumber: 2.3 Consensus size: 55
89650778 TGCGATATGC
* * *
89650788 CCATGGTCAAGCCTGTCAAAACAACACGGGCGTACGACACGCCCGTGTGGAAGAA
1 CCATGGTCGAGCCTGTCAAAACAACACGGGCGTACAACACGCCCGTGTGGAACAA
* * * *
89650843 CCATGGTCGAGCCTGCCAAAACAGCACGGGCGTTCAACACGCCCGTGTGGAACAC
1 CCATGGTCGAGCCTGTCAAAACAACACGGGCGTACAACACGCCCGTGTGGAACAA
* *
89650898 CCGTGGTCGAACCTGT
1 CCATGGTCGAGCCTGT
89650914 TAAATTAACA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (55 bp):
CCATGGTCGAGCCTGTCAAAACAACACGGGCGTACAACACGCCCGTGTGGAACAA
Found at i:89654645 original size:19 final size:21
Alignment explanation
Indices: 89654621--89654660 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
89654611 CGAAAGGAAT
89654621 GAGAAA-TGGGCCAAA-AACG
1 GAGAAACTGGGCCAAAGAACG
89654640 GAGAAACTGGGCCAAAGAACG
1 GAGAAACTGGGCCAAAGAACG
89654661 AAATTAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.45, C:0.17, G:0.33, T:0.05
Consensus pattern (21 bp):
GAGAAACTGGGCCAAAGAACG
Found at i:89657572 original size:25 final size:23
Alignment explanation
Indices: 89657540--89657601 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
89657530 AATAGCCATG
*
89657540 AATCGGTAAGCTCTTCTGAGCTGTA
1 AATCGGTAAGCTCTAC-GAGCTG-A
* *
89657565 AATTGGTAAGCTAATACGAGCTGA
1 AATCGGTAAGCT-CTACGAGCTGA
89657589 AATCGGTAAGCTC
1 AATCGGTAAGCTC
89657602 ATATGAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 12 0.39
25 17 0.55
26 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
AATCGGTAAGCTCTACGAGCTGA
Found at i:89657596 original size:24 final size:25
Alignment explanation
Indices: 89657540--89657608 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
89657530 AATAGCCATG
* *
89657540 AATCGGTAAGCTCTTCTGAGCTGTA
1 AATCGGTAAGCTATACTGAGCTGTA
*
89657565 AATTGGTAAGCTAATAC-GAGCTG-A
1 AATCGGTAAGCT-ATACTGAGCTGTA
89657589 AATCGGTAAGCTCATA-TGAG
1 AATCGGTAAGCT-ATACTGAG
89657609 TTGAGAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 18 0.49
25 17 0.46
26 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (25 bp):
AATCGGTAAGCTATACTGAGCTGTA
Found at i:89659687 original size:27 final size:27
Alignment explanation
Indices: 89659657--89659735 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
89659647 ACTTAATCGA
89659657 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
** **
89659684 TAAAATGACTGA-AATG-CCTCTACATGG
1 TAAAATGACT-ATTTTGCCCT-TATGTGG
*
89659711 TAAAATGACT-TTTTGCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
89659736 ATGTATATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
26 9 0.23
27 29 0.74
28 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:89662876 original size:14 final size:14
Alignment explanation
Indices: 89662859--89662886 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
89662849 CAAGTATCAC
89662859 AAGGTTAGTGAGTT
1 AAGGTTAGTGAGTT
89662873 AAGGTTAGTGAGTT
1 AAGGTTAGTGAGTT
89662887 CATATATAAA
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:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
AAGGTTAGTGAGTT
Found at i:89663049 original size:27 final size:26
Alignment explanation
Indices: 89663019--89663069 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
89663009 AAATGTCTCT
**
89663019 TTTCACATATCTATATTCATATAAATA
1 TTTCACATAAATAT-TTCATATAAATA
*
89663046 TTTCATATAAATATTTCATATAAA
1 TTTCACATAAATATTTCATATAAA
89663070 CACTTCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTCACATAAATATTTCATATAAATA
Found at i:89663052 original size:13 final size:13
Alignment explanation
Indices: 89663034--89663114 Score: 83
Period size: 13 Copynumber: 6.2 Consensus size: 13
89663024 CATATCTATA
*
89663034 TTCATATAAATAT
1 TTCATATAAACAT
*
89663047 TTCATATAAATAT
1 TTCATATAAACAT
*
89663060 TTCATATAAACAC
1 TTCATATAAACAT
* *
89663073 TTCTTATAACCAT
1 TTCATATAAACAT
*
89663086 TTCATAT-ATCTAT
1 TTCATATAAAC-AT
89663099 TTCCATATAAACAT
1 TT-CATATAAACAT
89663113 TT
1 TT
89663115 AATACATCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
12 2 0.04
13 44 0.77
14 9 0.16
15 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:89663126 original size:40 final size:39
Alignment explanation
Indices: 89663045--89663132 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 39
89663035 TCATATAAAT
*
89663045 ATTTCATATAAATATTTCATATAAACACTTCTTATAACC
1 ATTTCATATAAATATTTCATATAAACACTTCTAATAACC
**
89663084 ATTTCATATATCTATTTCCATATAAACA-TT-TAATACATCC
1 ATTTCATATAAATATTT-CATATAAACACTTCTAATA-A-CC
89663124 ATTTCATAT
1 ATTTCATAT
89663133 TACCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 4 0.09
39 18 0.42
40 21 0.49
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (39 bp):
ATTTCATATAAATATTTCATATAAACACTTCTAATAACC
Found at i:89663141 original size:40 final size:40
Alignment explanation
Indices: 89663058--89663142 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 40
89663048 TCATATAAAT
* *
89663058 ATTT-CATATAAACACTTCTTATAACCATTTCATATATCT
1 ATTTCCATATAAACACTTCTAATAACCATTTCATATATCC
89663097 ATTTCCATATAAACA-TT-TAATACATCCATTTCATAT-TACC
1 ATTTCCATATAAACACTTCTAATA-A-CCATTTCATATAT-CC
89663137 ATTTCC
1 ATTTCC
89663143 GTTTACTCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 4 0.10
39 8 0.20
40 28 0.70
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.42
Consensus pattern (40 bp):
ATTTCCATATAAACACTTCTAATAACCATTTCATATATCC
Found at i:89663267 original size:25 final size:25
Alignment explanation
Indices: 89663200--89663269 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
89663190 ACGTAGGAAC
* * * *
89663200 AATGCTCACACAAGCTATAATGGTA
1 AATGCTCACACGAGCTGTGATTGTA
* *
89663225 AATGCTCACATGATCTGTGATTGTA
1 AATGCTCACACGAGCTGTGATTGTA
89663250 AATGCTCA-ACCGAGCTGTGA
1 AATGCTCACA-CGAGCTGTGA
89663270 AATGGGCCTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
AATGCTCACACGAGCTGTGATTGTA
Found at i:89665898 original size:38 final size:38
Alignment explanation
Indices: 89665850--89666058 Score: 262
Period size: 38 Copynumber: 5.5 Consensus size: 38
89665840 GGCTCAAAGG
* * *
89665850 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
*
89665888 CCCGGATATAATACTAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
* * * *
89665926 CCCGGATAT-ATACCCAGCATGAAGCCTGCAGGATTTAT
1 CCCGGATATAATA-CCAGCACGAAGCCTACGGGATTTAA
*
89665964 CCCGGATATAATACTAGCACGAAGCCTGA-GGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCT-ACGGGATTTAA
* *
89666002 CCCGGATATATTACCAGCACGAAGCC-AGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTA-CGGGATTTAA
*
89666040 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
89666059 TATAGCCTGC
Statistics
Matches: 147, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 140 0.95
39 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:89666057 original size:114 final size:113
Alignment explanation
Indices: 89665850--89666072 Score: 301
Period size: 114 Copynumber: 2.0 Consensus size: 113
89665840 GGCTCAAAGG
* * *
89665850 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAACCCGGATATAATACTAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
89665915 ACGGGATTTAACCCGGATATATACCCAGCATGA-AGCCTGCAGGATTTAT
66 ACGGGATTTAACCCGGATATATACCCAGCAT-ATAGCCTGC-GGATTTAT
* * *
89665964 CCCGGATATAATACTAGCACGAAGCCTGA-GGGATTTAACCCGGATATATTACCAGCACGAAGCC
1 CCCGAATATAATACCAGCACGAAGCCT-ACGGGATTTAACCCGGATATAATACCAGCACGAAGCC
* *
89666028 -AGCGGGATTTATCCCGGATATA-ATTCCAGCATATAGCCTGCGGAT
65 TA-CGGGATTTAACCCGGATATATA-CCCAGCATATAGCCTGCGGAT
89666073 CTTTAAGCCC
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
113 7 0.07
114 89 0.92
115 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (113 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
ACGGGATTTAACCCGGATATATACCCAGCATATAGCCTGCGGATTTAT
Found at i:89674652 original size:37 final size:37
Alignment explanation
Indices: 89674611--89674688 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
89674601 TGCTATGAAA
89674611 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
1 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
89674648 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
1 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
89674685 GTAT
1 GTAT
89674689 TGATAATGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (37 bp):
GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
Found at i:89675074 original size:20 final size:21
Alignment explanation
Indices: 89675019--89675076 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
89675009 ATTCGAAATT
89675019 TGTATATGTATAAG-TATATAA
1 TGTATATG-ATAAGATATATAA
* * *
89675040 TGT-TTTGATATGATAT-TTA
1 TGTATATGATAAGATATATAA
89675059 TGTATATGATAAGATATA
1 TGTATATGATAAGATATA
89675077 CTTGTAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.31
20 17 0.59
21 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (21 bp):
TGTATATGATAAGATATATAA
Found at i:89685189 original size:20 final size:20
Alignment explanation
Indices: 89685134--89685197 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
89685124 ATTCGGCATT
*
89685134 TGTATATGTATAAG-TATATAA
1 TGTATATG-ATAAGATAT-TTA
* *
89685155 TGT-TTTGATATGATATTTA
1 TGTATATGATAAGATATTTA
*
89685174 TGTATATGATAAGATATTTT
1 TGTATATGATAAGATATTTA
89685194 TGTA
1 TGTA
89685198 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 9 0.26
20 23 0.66
21 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (20 bp):
TGTATATGATAAGATATTTA
Found at i:89688853 original size:38 final size:38
Alignment explanation
Indices: 89688802--89688963 Score: 261
Period size: 38 Copynumber: 4.3 Consensus size: 38
89688792 ATATTCGATG
*
89688802 TATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
89688840 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
89688878 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
89688916 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
89688954 TATATTCGGG
1 TATATCCGGG
89688964 CCTTCGTGCC
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 115 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:89689017 original size:43 final size:43
Alignment explanation
Indices: 89688935--89689066 Score: 196
Period size: 43 Copynumber: 3.1 Consensus size: 43
89688925 GATAAATCCC
* * *
89688935 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
89688976 GCAGGCTTCGTGCTGGTGATGTGTATTCAGGCCTTCATGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
89689019 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
89689062 GCAGG
1 GCAGG
89689067 TGTAATGCCG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 15 0.19
42 2 0.02
43 64 0.79
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:89689464 original size:45 final size:42
Alignment explanation
Indices: 89689397--89689504 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
89689387 TTGAGTTGAT
* *
89689397 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
89689442 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
89689484 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
89689505 ACAGGCGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:89692531 original size:44 final size:44
Alignment explanation
Indices: 89692350--89692519 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 44
89692340 CTCATACAAC
* * * *
89692350 GCCAACGTCCCAGACGTGGTCTTACATG-TAATCA-AATATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAAATCACAA-ATCGAT
* ** * * * *
89692393 GCCACTGTCTTAGATAGGGTCTTACATG-AAATCA-AAGA-CAAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAAATCACAA-ATCGAT
* * * *
89692435 GCCGATGTCCCATACATGGTCTTACACGTAAATCTCAAATCGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAAATCACAAATCGAT
* *
89692479 GCCAATGTCCCAGACGTGGTCTTACAC-AAAATCACATATCG
1 GCCAATGTCCCAGACATGGTCTTACACGAAAATCACAAATCG
89692520 GAATCCTATG
Statistics
Matches: 98, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
42 23 0.23
43 46 0.47
44 29 0.30
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAAATCACAAATCGAT
Found at i:89695101 original size:49 final size:47
Alignment explanation
Indices: 89695045--89695211 Score: 140
Period size: 49 Copynumber: 3.4 Consensus size: 47
89695035 TGTTGTGTGA
*
89695045 CAGTGTAAGACTTGTCTAGGACATGGTATCGACACTGATAGATGAGAGC
1 CAGTGTAAGACTTGTCTAGGACATGGCATCGAC-CTGATAGATGA-AGC
* * * * * *
89695094 CAGTGTAAGACCTGTCTGGGACACGGCATCGACCTCCATATATGAATGT
1 CAGTGTAAGACTTGTCTAGGACATGGCATCGACCT-GATAGATGAA-GC
* * * * *
89695143 CAGTGTAAGACTTTTCTAGGATATGGCATCAACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACTTGTCTAGGACATGGCATCGAC-CTGATAGATG-AAGC
*
89695190 CAGTGTAAGACCATGTCTAGGA
1 CAGTGTAAGA-CTTGTCTAGGA
89695212 TAAGGCGTCG
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
47 13 0.14
48 13 0.14
49 66 0.71
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (47 bp):
CAGTGTAAGACTTGTCTAGGACATGGCATCGACCTGATAGATGAAGC
Found at i:89698721 original size:25 final size:25
Alignment explanation
Indices: 89698692--89698752 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
89698682 TAGAATAAAC
89698692 ATACATGAAATTCATAAAAATGATG
1 ATACATGAAATTCATAAAAATGATG
89698717 ATACATGAAATTCATAAAAATGATG
1 ATACATGAAATTCATAAAAATGATG
89698742 ATACATGAAAT
1 ATACATGAAAT
89698753 ATTGATATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28
Consensus pattern (25 bp):
ATACATGAAATTCATAAAAATGATG
Found at i:89699368 original size:40 final size:40
Alignment explanation
Indices: 89699331--89699594 Score: 347
Period size: 40 Copynumber: 6.6 Consensus size: 40
89699321 GCTACTCGTT
* *
89699331 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
89699371 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
89699411 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
89699451 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
89699491 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
89699530 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
89699571 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGG
89699595 TCATCATTCG
Statistics
Matches: 202, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
38 2 0.01
39 32 0.16
40 155 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:89699586 original size:119 final size:120
Alignment explanation
Indices: 89699331--89699595 Score: 360
Period size: 119 Copynumber: 2.2 Consensus size: 120
89699321 GCTACTCGTT
* *
89699331 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* * *
89699396 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
66 AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGATATAGTAACTAGCA
* *
89699451 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
89699514 AAATTAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTCCGGATATGGTCACTTAGCA
65 AAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CGGATATAGTAAC-TAGCA
89699571 CAAA-GCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
89699596 CATCATTCGA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
118 6 0.05
119 64 0.50
120 57 0.44
121 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGATATAGTAACTAGCA
Found at i:89702290 original size:40 final size:39
Alignment explanation
Indices: 89702253--89702429 Score: 180
Period size: 39 Copynumber: 4.5 Consensus size: 39
89702243 ATATCCGGAC
89702253 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
89702293 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAAT-CGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
89702332 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * *
89702372 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
89702411 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
89702430 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
39 67 0.56
40 49 0.41
41 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:89702342 original size:39 final size:40
Alignment explanation
Indices: 89702206--89702429 Score: 217
Period size: 40 Copynumber: 5.7 Consensus size: 40
89702196 TTGAATGCTG
* * * *
89702206 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
89702246 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
89702285 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
89702326 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
89702365 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
89702404 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
89702430 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
39 70 0.45
40 73 0.46
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:89702354 original size:79 final size:79
Alignment explanation
Indices: 89702259--89702427 Score: 207
Period size: 79 Copynumber: 2.1 Consensus size: 79
89702249 GGACTAAGAT
* *
89702259 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
89702323 -AAATCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
89702338 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
89702403 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
89702417 CCGAAGGCATT
1 CCGAAGGCATT
89702428 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 13 0.17
79 61 0.79
80 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:89709465 original size:39 final size:40
Alignment explanation
Indices: 89709413--89709583 Score: 181
Period size: 39 Copynumber: 4.3 Consensus size: 40
89709403 GGACTAAGAT
89709413 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
*
89709452 CCGAAGGCCTTTGTGCGAGATACTAAATT-CGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGTC
* * * *
89709492 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGTC
* * * * * *
89709532 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACTGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGTC
89709571 CCGAAGGCATTTG
1 CCGAAGGCATTTG
89709584 AACGAGGAGC
Statistics
Matches: 114, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 64 0.56
40 50 0.44
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGTC
Found at i:89709496 original size:79 final size:79
Alignment explanation
Indices: 89709413--89709583 Score: 204
Period size: 79 Copynumber: 2.2 Consensus size: 79
89709403 GGACTAAGAT
*
89709413 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACT
* *
89709476 -AAATTCGGGTTAAGTC
64 AAAACT-GGGCTAAGTC
* * * * * *
89709492 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAA
*
89709557 AACTGGGCTATGTC
66 AACTGGGCTAAGTC
89709571 CCGAAGGCATTTG
1 CCGAAGGCATTTG
89709584 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 63 0.81
80 15 0.19
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAA
AACTGGGCTAAGTC
Found at i:89711124 original size:53 final size:56
Alignment explanation
Indices: 89711007--89711179 Score: 316
Period size: 56 Copynumber: 3.1 Consensus size: 56
89710997 TATTAGTTTA
89711007 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
89711063 TTGCCCATGCTTCTTATTTTATTCTTCCATT-A-AC-ACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
89711116 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
89711172 TTGCCCAT
1 TTGCCCAT
89711180 CATCCCTTGT
Statistics
Matches: 113, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
53 49 0.43
54 3 0.03
55 3 0.03
56 58 0.51
ACGTcount: A:0.22, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:89720075 original size:16 final size:17
Alignment explanation
Indices: 89720044--89720076 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
89720034 ATAAATTTCA
89720044 AAAATATTAATTTAATAT
1 AAAATATT-ATTTAATAT
89720062 AAAATATT-TTTAATA
1 AAAATATTATTTAATA
89720077 CTATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATTATTTAATAT
Found at i:89727266 original size:46 final size:46
Alignment explanation
Indices: 89727175--89727341 Score: 135
Period size: 46 Copynumber: 3.6 Consensus size: 46
89727165 ACATTATAAG
* * *
89727175 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-A
1 AGCCAATGTAAGA-CATATCTGGGACAT-GCATCGGCATCGAGACGTA
* * * * *
89727222 GTGCTAATGTAAGACATTTCTGGGACATGCTTCGGCCTCGAGACGTA
1 -AGCCAATGTAAGACATATCTGGGACATGCATCGGCATCGAGACGTA
* * *
89727269 AGCCAGTGTAAGACATATCTGGGACATGCATTGGC-TACGAGATGT-
1 AGCCAATGTAAGACATATCTGGGACATGCATCGGCAT-CGAGACGTA
* * *
89727314 -GTCAGTGTAAGACCATGTCTGGGACATG
1 AGCCAATGTAAGA-CATATCTGGGACATG
89727342 GCATGGGTAC
Statistics
Matches: 100, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 50 0.50
47 14 0.14
48 10 0.10
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
AGCCAATGTAAGACATATCTGGGACATGCATCGGCATCGAGACGTA
Found at i:89732428 original size:14 final size:15
Alignment explanation
Indices: 89732404--89732434 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
89732394 TTTCTTTGTT
89732404 TATTTTGGAACTTTA
1 TATTTTGGAACTTTA
89732419 TATTTT-GAACTTTA
1 TATTTTGGAACTTTA
89732433 TA
1 TA
89732435 CTTCATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (15 bp):
TATTTTGGAACTTTA
Found at i:89734457 original size:26 final size:26
Alignment explanation
Indices: 89734428--89734483 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
89734418 TGGTACAAAT
89734428 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGCAAATGTTCCA
* *
89734454 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGCAAATGTTCCA
89734480 TGAT
1 TGAT
89734484 GGGCATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGCAAATGTTCCA
Found at i:89743359 original size:14 final size:14
Alignment explanation
Indices: 89743340--89743370 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
89743330 AGCTAAACAA
89743340 TAACAACAAAATAG
1 TAACAACAAAATAG
*
89743354 TAACAACATAATAG
1 TAACAACAAAATAG
89743368 TAA
1 TAA
89743371 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:89751286 original size:17 final size:17
Alignment explanation
Indices: 89751264--89751297 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89751254 CTTAGTCGCT
89751264 AAGACTACACAGCCGCC
1 AAGACTACACAGCCGCC
89751281 AAGACTACACAGCCGCC
1 AAGACTACACAGCCGCC
89751298 GAGAGGGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.41, G:0.18, T:0.06
Consensus pattern (17 bp):
AAGACTACACAGCCGCC
Found at i:89756061 original size:14 final size:15
Alignment explanation
Indices: 89756042--89756070 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89756032 CGCCCGAGTC
89756042 AACTGGCATG-TTAT
1 AACTGGCATGATTAT
89756056 AACTGGCATGATTAT
1 AACTGGCATGATTAT
89756071 CTAATCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (15 bp):
AACTGGCATGATTAT
Found at i:89759970 original size:2 final size:2
Alignment explanation
Indices: 89759965--89759995 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89759955 ATGAAATCAA
89759965 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
89759996 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:89768473 original size:19 final size:19
Alignment explanation
Indices: 89768449--89768488 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
89768439 ATAATATAAT
89768449 ATCCTTTGTAAAAACAATG
1 ATCCTTTGTAAAAACAATG
89768468 ATCCTTTGTAAAAACAATG
1 ATCCTTTGTAAAAACAATG
89768487 AT
1 AT
89768489 ATTTTAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
ATCCTTTGTAAAAACAATG
Found at i:89783193 original size:18 final size:17
Alignment explanation
Indices: 89783170--89783222 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
89783160 TTTTAACTAA
89783170 TATATATTTGTTATTTTG
1 TATATATTT-TTATTTTG
*
89783188 TATATATATTTTATTTATT
1 TATATAT-TTTTATTT-TG
*
89783207 TATTTATTTTTATTTT
1 TATATATTTTTATTTT
89783223 TTCTTTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 1 0.03
18 21 0.68
19 9 0.29
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
TATATATTTTTATTTTG
Found at i:89785605 original size:93 final size:94
Alignment explanation
Indices: 89785418--89785625 Score: 239
Period size: 93 Copynumber: 2.2 Consensus size: 94
89785408 TTTGTGCGCC
* * *
89785418 AGTGTAAGACATGT-TGGGACATGCTTCGGTCACATTATGAGAGCCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGTATAAGACCATGTCTAG
*
89785482 GACATGGCATCGACATCCAGACGAGGGCT
66 GACATGGCATCGACATCCAGACGAGAGCT
* *
89785511 AGTGTAAGACATGTCTGAGACATGCTTCAGCCATATTATGA-ATGCCAG-AGTAAGA-CATGTCT
1 AGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGA-GCCAGTA-TAAGACCATGTCT
* * * *
89785573 AGGACAT-GCATTGGCCTCGACAGA-GATAGCT
64 AGGACATGGCATCGACATC--CAGACGAGAGCT
*
89785604 AGTGTAAGACGTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
89785626 CACATCGGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
92 8 0.08
93 54 0.55
94 36 0.37
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGTATAAGACCATGTCTAG
GACATGGCATCGACATCCAGACGAGAGCT
Found at i:89787284 original size:13 final size:13
Alignment explanation
Indices: 89787266--89787292 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89787256 AACTGCAATA
89787266 GGACTGTACAACG
1 GGACTGTACAACG
89787279 GGACTGTACAACG
1 GGACTGTACAACG
89787292 G
1 G
89787293 ATTACCTCAT
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:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (13 bp):
GGACTGTACAACG
Found at i:89793747 original size:21 final size:21
Alignment explanation
Indices: 89793706--89793747 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
89793696 CAAATTTCGA
**
89793706 TTTAAGTTTTATTCATTTTAT
1 TTTAAGTTTTATTCAGCTTAT
89793727 TTTAAGTTTTATTTC-GCTTAT
1 TTTAAGTTTTA-TTCAGCTTAT
89793748 ATATATACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTAAGTTTTATTCAGCTTAT
Found at i:89797310 original size:20 final size:20
Alignment explanation
Indices: 89797257--89797311 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
89797247 AAGAACAAGA
*
89797257 TGTATGGGTAGAAGTGGACT
1 TGTATGGGTAGAAGTGAACT
* * *
89797277 TGCATCGATAGAAGTGAACT
1 TGTATGGGTAGAAGTGAACT
*
89797297 TGTATGGGTGGAAGT
1 TGTATGGGTAGAAGT
89797312 CCCCCTATGT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.29
Consensus pattern (20 bp):
TGTATGGGTAGAAGTGAACT
Found at i:89802473 original size:13 final size:13
Alignment explanation
Indices: 89802455--89802482 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
89802445 AAACTATTTC
89802455 TTGTTTAGATTAA
1 TTGTTTAGATTAA
89802468 TTGTTTAGATTAA
1 TTGTTTAGATTAA
89802481 TT
1 TT
89802483 AGAATTGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGTTTAGATTAA
Found at i:89802849 original size:24 final size:23
Alignment explanation
Indices: 89802805--89802850 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
89802795 ATCTTCCACT
*
89802805 TTATTTTTTTTAATTTCTATTTC
1 TTATTTTTTATAATTTCTATTTC
*
89802828 TTATTTATTTATAATTTTTATTT
1 TTATTT-TTTATAATTTCTATTT
89802851 GTTCTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
TTATTTTTTATAATTTCTATTTC
Found at i:89806938 original size:2 final size:2
Alignment explanation
Indices: 89806926--89806959 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
89806916 TTAAGAATTA
89806926 AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
89806960 AGAAGAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:89809424 original size:38 final size:38
Alignment explanation
Indices: 89809345--89809477 Score: 144
Period size: 38 Copynumber: 3.5 Consensus size: 38
89809335 TTACCGATTG
* *
89809345 CATGTTCAA-CATGCCTGCTGTTATTGTTGAACCGAGA-A
1 CATGTT-AAGCATGCCTACTGTTACTGTTGAACCGA-ATA
*
89809383 CATGTTAAGCATGCCTACTGTTACTGTTGAACCCAATA
1 CATGTTAAGCATGCCTACTGTTACTGTTGAACCGAATA
* * * * **
89809421 CATGTTAAGCATGTCTATTGCTACTATTGAATTGAATA
1 CATGTTAAGCATGCCTACTGTTACTGTTGAACCGAATA
*
89809459 CATGTTAAGCATGTCTACT
1 CATGTTAAGCATGCCTACT
89809478 ATTTTTACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 3 0.04
38 79 0.96
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (38 bp):
CATGTTAAGCATGCCTACTGTTACTGTTGAACCGAATA
Found at i:89814061 original size:50 final size:50
Alignment explanation
Indices: 89814002--89814100 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
89813992 GTGAACCTCA
* *
89814002 AATCCCTATCTGACACAATGGATGAGGGAATCCCATGGAGGCGTACTATG
1 AATCCCTATCTAACACAATGGATGAAGGAATCCCATGGAGGCGTACTATG
89814052 AATCCCTATCTAACACAATGGATGAAGGAATCCCATGGAGGCGTACTAT
1 AATCCCTATCTAACACAATGGATGAAGGAATCCCATGGAGGCGTACTAT
89814101 CTCTATAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (50 bp):
AATCCCTATCTAACACAATGGATGAAGGAATCCCATGGAGGCGTACTATG
Found at i:89821881 original size:5 final size:5
Alignment explanation
Indices: 89821873--89821955 Score: 58
Period size: 5 Copynumber: 15.4 Consensus size: 5
89821863 GGATTGGATT
* * * * *
89821873 TCATA TCATG GCATA GCATA TGCCATA TCATA TCTCATA GCATA TCACA
1 TCATA TCATA TCATA TCATA T--CATA TCATA --TCATA TCATA TCATA
*
89821922 TCATA TCTCTTA TCATA TCATA TCATA TCATA TC
1 TCATA --TCATA TCATA TCATA TCATA TCATA TC
89821956 TCATCTATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
5 48 0.77
7 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (5 bp):
TCATA
Found at i:89821904 original size:12 final size:11
Alignment explanation
Indices: 89821884--89821955 Score: 60
Period size: 12 Copynumber: 6.5 Consensus size: 11
89821874 CATATCATGG
*
89821884 CATAGCATATGC
1 CATATCATAT-C
89821896 CATATCATATC
1 CATATCATATC
*
89821907 TCATAGCATAT-
1 -CATATCATATC
*
89821918 CACATCATATC
1 CATATCATATC
*
89821929 TCTTATCATAT-
1 -CATATCATATC
89821940 CATATCATAT-
1 CATATCATATC
89821950 CATATC
1 CATATC
89821956 TCATCTATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 23 0.46
11 1 0.02
12 26 0.52
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (11 bp):
CATATCATATC
Found at i:89821926 original size:27 final size:27
Alignment explanation
Indices: 89821896--89821959 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 27
89821886 TAGCATATGC
89821896 CATATCATATCTCATAGCATATCACAT
1 CATATCATATCTCATAGCATATCACAT
* *
89821923 CATATC---TCT--TATCATATCATAT
1 CATATCATATCTCATAGCATATCACAT
89821945 CATATCATATCTCAT
1 CATATCATATCTCAT
89821960 CTATTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
22 17 0.57
24 3 0.10
25 3 0.10
27 7 0.23
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (27 bp):
CATATCATATCTCATAGCATATCACAT
Found at i:89821959 original size:22 final size:22
Alignment explanation
Indices: 89821884--89821950 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
89821874 CATATCATGG
89821884 CATAGCATATGCCATATCATATCT
1 CATAGCATAT--CATATCATATCT
*
89821908 CATAGCATATCACATCATATCT
1 CATAGCATATCATATCATATCT
* *
89821930 CTTATCATATCATATCATATC
1 CATAGCATATCATATCATATC
89821951 ATATCTCATC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 29 0.74
24 10 0.26
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.36
Consensus pattern (22 bp):
CATAGCATATCATATCATATCT
Found at i:89823248 original size:48 final size:48
Alignment explanation
Indices: 89823177--89823448 Score: 234
Period size: 48 Copynumber: 5.7 Consensus size: 48
89823167 TATGTATGCT
89823177 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * *
89823225 AGTGTAAGGCCATGTCTGGGACATGGCATCGG-CA-TTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT--TATGAGAGCC
* *** **
89823273 AGTGTAAGACTATGTCTGGGACATAATATCAACCACATTATGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * *
89823320 AATGTAAAACCATGTCTGGGACATGGCATC-G--ACATTGAAACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* * *
89823368 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
* * * * *
89823416 AATGTAAGATCATGTCTAGAACATGGAATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
89823449 AATTTACCTT
Statistics
Matches: 175, Mismatches: 37, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
44 5 0.03
46 1 0.01
47 32 0.18
48 131 0.75
49 3 0.02
50 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:89823373 original size:95 final size:96
Alignment explanation
Indices: 89823174--89823391 Score: 303
Period size: 95 Copynumber: 2.3 Consensus size: 96
89823164 TGATATGTAT
** ** * **
89823174 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGGCCATG
1 GCTAGTGTAAGACCATGTCTGGGACATAACATCAACCACATTATGAGAGCCAATGTAAAACCATG
* * * * *
89823239 TCTGGGACATGGCATCGGCATTGATATGTGT
66 TCTGGGACATGGCATCGACATTGAAACGAGA
* *
89823270 GCTAGTGTAAGACTATGTCTGGGACATAATATCAACCACATTATGAGAG-CAATGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATAACATCAACCACATTATGAGAGCCAATGTAAAACCATG
89823334 TCTGGGACATGGCATCGACATTGAAACGAGA
66 TCTGGGACATGGCATCGACATTGAAACGAGA
89823365 GCTAGTGTAAGACCATGTCTGGGACAT
1 GCTAGTGTAAGACCATGTCTGGGACAT
89823392 GGCATCGGCC
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 64 0.60
96 43 0.40
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATAACATCAACCACATTATGAGAGCCAATGTAAAACCATG
TCTGGGACATGGCATCGACATTGAAACGAGA
Found at i:89826227 original size:50 final size:50
Alignment explanation
Indices: 89826144--89826531 Score: 309
Period size: 50 Copynumber: 7.7 Consensus size: 50
89826134 GTGAGCCACG
* * *
89826144 TGTGTAGTATTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACA
* * * * * * * * * *
89826194 TTTGTAGTACTAAGTACAGGTTACTATGCGTACC-CATTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACA
* * * * * * *
89826245 TGTGTAGTACTAAGTGCAGGATACTACGTGTATCAAATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACA
* *
89826295 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACA
* ** * * * *
89826345 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAGGTCACA
* * * * *
89826396 TGTGTAGTACTATGTGCA-GCTACTACGTATATCAGA-TGATTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA-TAGGTCACA
* * **
89826445 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACA
* * * *
89826495 TTTATAGTACTAAGTGCA-GCATACTATGAGTACCAGA
1 TGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGA
89826532 GAGCTTCAGT
Statistics
Matches: 262, Mismatches: 67, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
49 32 0.12
50 169 0.65
51 59 0.23
52 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACA
Found at i:89826328 original size:101 final size:101
Alignment explanation
Indices: 89826140--89826328 Score: 234
Period size: 101 Copynumber: 1.9 Consensus size: 101
89826130 TATTGTGAGC
* * * * * * * *
89826140 CACGTGTGTAGTATTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGTCGCATTTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAAATGGATAAGTCACATGTGTAGTACT
* * *
89826205 AAGTACAGGTTACTATGCGTACCCATTAACTTCGAT
66 AAATACAGGCTACTACGCGTACCCATTAACTTCGAT
* * *
89826241 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAAATGGTTAAGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAAATGGATAAGTCACATGTGTAGTACT
* *
89826306 AAATGCAGGCTACTACGTGTACC
66 AAATACAGGCTACTACGCGTACC
89826329 AGATTGATAG
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAAATGGATAAGTCACATGTGTAGTACT
AAATACAGGCTACTACGCGTACCCATTAACTTCGAT
Found at i:89826503 original size:150 final size:151
Alignment explanation
Indices: 89826140--89826522 Score: 581
Period size: 151 Copynumber: 2.5 Consensus size: 151
89826130 TATTGTGAGC
* *
89826140 CACGTGTGTAGTATTAAGTGCAGGCTATTACGTGTACCAGATTGATAGGTCGCATTTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATTTGTAGTACT
* * * *
89826205 AAGTACAGGTTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGATACT
66 AAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACATGTGTAGTACTAAGTGCAGGATACT
* *
89826270 ACGTGTATCAAATGGTTAAGT
131 ACGTATATCAAATGATTAAGT
* *
89826291 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATTTGTAGTACT
* * *
89826356 AAGTGCAGGCTACTATGCATACCCGTTAACTTCGATCACATGTGTAGTACTATGTGCA-GCTACT
66 AAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACATGTGTAGTACTAAGTGCAGGATACT
*
89826420 ACGTATATCAGATGATTAAGT
131 ACGTATATCAAATGATTAAGT
* * * *
89826441 CACGTGTGTAGTACTAAGTGCAGGCTACTACATATACCAGATTGATAGGTTGCATTTATAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATTTGTAGTACT
89826506 AAGTGCA-GCATACTATG
66 AAGTGCAGGC-TACTATG
89826523 AGTACCAGAG
Statistics
Matches: 211, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
149 2 0.01
150 96 0.45
151 113 0.54
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (151 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATTTGTAGTACT
AAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACATGTGTAGTACTAAGTGCAGGATACT
ACGTATATCAAATGATTAAGT
Found at i:89831654 original size:55 final size:55
Alignment explanation
Indices: 89831593--89831769 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
89831583 ATATTAAGTC
* * *
89831593 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
89831648 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
89831703 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
89831759 CGCACACTTAG
1 CGCACACTTAG
89831770 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 93 0.85
56 17 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:89831657 original size:28 final size:27
Alignment explanation
Indices: 89831593--89831769 Score: 237
Period size: 27 Copynumber: 6.4 Consensus size: 27
89831583 ATATTAAGTC
* *
89831593 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
89831620 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
89831648 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
89831675 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
89831703 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
89831730 CGCACACTTAGTGCTGCACAATTTAAACT
1 CGCACACTTAGTGCTACATAA--TCAACT
89831759 CGCACACTTAG
1 CGCACACTTAG
89831770 CGCCAATCTC
Statistics
Matches: 136, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
27 69 0.51
28 52 0.38
29 15 0.11
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89833444 original size:15 final size:15
Alignment explanation
Indices: 89833420--89833459 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
89833410 GGCTGTTACA
*
89833420 TTGGATTTCTCTATC
1 TTGGACTTCTCTATC
89833435 TTGGACTTCTCTATC
1 TTGGACTTCTCTATC
*
89833450 ATGGACTTCT
1 TTGGACTTCT
89833460 TAATCCTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (15 bp):
TTGGACTTCTCTATC
Found at i:89836055 original size:50 final size:50
Alignment explanation
Indices: 89835972--89836359 Score: 347
Period size: 50 Copynumber: 7.7 Consensus size: 50
89835962 GTGAGCCACG
*
89835972 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCACA
* * * * * * * *
89836022 TTTGTAGTACTAAGTGCAGGTTACTATGCGTACC-CATTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAA--TAGGTCACA
* * *** *
89836073 TGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATGGTTAAGTCA-A
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCACA
* * *
89836122 GTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCACA
* ** * *
89836173 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTC-G-TTAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTAA--TAGGTCACA
* * * * *
89836224 TGTGTAGTACTAAGTGCA-GCTACTACGTGTATCAGATGATTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCACA
* * * * * *
89836273 TGTGTAATACTAAGTGCAAGCTACTACATATACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCACA
* *
89836323 TGTGTAGTACTAAGTGCA-GCATACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGA
89836360 GAGCTTCAGT
Statistics
Matches: 264, Mismatches: 62, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
49 33 0.12
50 167 0.63
51 62 0.23
52 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCACA
Found at i:89836156 original size:101 final size:101
Alignment explanation
Indices: 89835968--89836156 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 101
89835958 TGTTGTGAGC
* * * * *
89835968 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCGCATTTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGAATAAGTCGAATGTGTAGTACT
* * *
89836033 AAGTGCAGGTTACTATGCGTACCCATTAACTTCGAT
66 AAATGCAGGCTACTACGCGTACCCATTAACTTCGAT
* **
89836069 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATGGTTAAGTC-AAGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGAATAAGTCGAA-TGTGTAGTAC
*
89836133 TAAATGCAGGCTACTACGTGTACC
65 TAAATGCAGGCTACTACGCGTACC
89836157 AGATTGATAG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
100 1 0.01
101 74 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGATACTACGTGTACCAGATGAATAAGTCGAATGTGTAGTACT
AAATGCAGGCTACTACGCGTACCCATTAACTTCGAT
Found at i:89836324 original size:150 final size:151
Alignment explanation
Indices: 89835968--89836356 Score: 611
Period size: 151 Copynumber: 2.6 Consensus size: 151
89835958 TGTTGTGAGC
* *
89835968 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAGGTCGCATTTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* * *
89836033 AAGTGCAGGTTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGATACT
66 AAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACATGTGTAGTACTAAGTGCAGGATACT
*
89836098 ACGTGTATCAGATGGTTAAGT
131 ACGTGTATCAGATGATTAAGT
* *
89836119 CAAGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
* * *
89836184 AAGTGCAGGCTACTATGCATACTCGTTAACTTCGATCACATGTGTAGTACTAAGTGCA-GCTACT
66 AAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACATGTGTAGTACTAAGTGCAGGATACT
89836248 ACGTGTATCAGATGATTAAGT
131 ACGTGTATCAGATGATTAAGT
* * * *
89836269 CACGTGTGTAATACTAAGTGCAAGCTACTACATATACCAGATTGATAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
*
89836334 AAGTGCA-GCATACTATGCGTACC
66 AAGTGCAGGC-TACTATGCATACC
89836357 AGAGAGCTTC
Statistics
Matches: 218, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
149 2 0.01
150 102 0.47
151 114 0.52
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (151 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACATGTGTAGTACTAAGTGCAGGATACT
ACGTGTATCAGATGATTAAGT
Found at i:89841363 original size:17 final size:17
Alignment explanation
Indices: 89841322--89841364 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
89841312 GAATTTAAAT
*
89841322 AACTAAAATAAATAAAC
1 AACTAAAATAAAAAAAC
**
89841339 AAGAAAAATAAAAAAAC
1 AACTAAAATAAAAAAAC
*
89841356 GACTAAAAT
1 AACTAAAAT
89841365 CAGTAAACCA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (17 bp):
AACTAAAATAAAAAAAC
Found at i:89844339 original size:6 final size:6
Alignment explanation
Indices: 89844330--89844357 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
89844320 TTTTAATAGA
89844330 TTTTAG TTTTAG TTTTAG TTTTAG TTTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTT
89844358 TTTTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTAG
Found at i:89845910 original size:20 final size:20
Alignment explanation
Indices: 89845885--89845923 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
89845875 AAAGAAAGTT
89845885 AAGTTACCTTAAAAATATGA
1 AAGTTACCTTAAAAATATGA
89845905 AAGTTACCTTAAAAATATG
1 AAGTTACCTTAAAAATATG
89845924 TTCTAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
AAGTTACCTTAAAAATATGA
Found at i:89847387 original size:18 final size:19
Alignment explanation
Indices: 89847364--89847400 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89847354 GATATGATAC
*
89847364 TAAAAT-TATTAAAAAAAT
1 TAAAATATATAAAAAAAAT
89847382 TAAAATATATAAAAAAAAT
1 TAAAATATATAAAAAAAAT
89847401 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAATATATAAAAAAAAT
Found at i:89847689 original size:22 final size:21
Alignment explanation
Indices: 89847654--89847729 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
89847644 AAAAGGTATC
* *
89847654 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
89847675 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
89847698 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
89847717 TGC-AATCATATCT
1 TACAAATCATATCT
89847730 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:89847746 original size:35 final size:37
Alignment explanation
Indices: 89847683--89847780 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
89847673 ATTACAAAAT
89847683 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
89847719 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
89847754 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
89847781 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:89847788 original size:17 final size:19
Alignment explanation
Indices: 89847690--89847780 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
89847680 AATCATATCT
89847690 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
89847709 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
89847727 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
89847744 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
89847763 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
89847781 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:89848452 original size:45 final size:44
Alignment explanation
Indices: 89848318--89848555 Score: 210
Period size: 44 Copynumber: 5.3 Consensus size: 44
89848308 GAAGAATATG
*
89848318 GAGATGCCAAATCTGTTTCTTCGATTTGTTCCCCGTCTAATACA
1 GAGATGCCAAATCTGTTTCTTCGATTTGCTCCCCGTCTAATACA
* * * * * *
89848362 GAGACGTCAAATCTGCTTCTTCAATCTGCTCCCTGTCTAATACA
1 GAGATGCCAAATCTGTTTCTTCGATTTGCTCCCCGTCTAATACA
* *
89848406 GAGATGCCAAATATGTTATCTCCGATTTGCTCCCCGTCTAATACA
1 GAGATGCCAAATCTGTT-TCTTCGATTTGCTCCCCGTCTAATACA
* * * * * *
89848451 GAGATGCCAAATCTGTCATCTTGGATCTGCT-TCGGTGTAA-ACA
1 GAGATGCCAAATCTGT-TTCTTCGATTTGCTCCCCGTCTAATACA
* * * * *
89848494 CATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACA
1 GA-G-ATGCCAAATCTG-T-T-TCTTCGATTTGCTCCCCGTCTAATACA
*
89848543 GAGATACCAAATC
1 GAGATGCCAAATC
89848556 ATCTTGGATC
Statistics
Matches: 148, Mismatches: 38, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
43 4 0.03
44 57 0.39
45 57 0.39
46 1 0.01
47 18 0.12
48 7 0.05
49 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
GAGATGCCAAATCTGTTTCTTCGATTTGCTCCCCGTCTAATACA
Found at i:89848624 original size:78 final size:78
Alignment explanation
Indices: 89848495--89849022 Score: 788
Period size: 78 Copynumber: 6.8 Consensus size: 78
89848485 GTGTAAACAC
*
89848495 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
89848560 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
89848573 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAACCGTC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
89848637 TTGGATCTACTTCA
65 TTGGATCTGCTTCA
*
89848651 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
89848716 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
89848729 ATGAAGGTCAGATCTGCTATGTCTTCGATCTACTCTCTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
89848794 TGGATTTGCTTCA
66 TGGATCTGCTTCA
* * *
89848807 TTGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
89848872 TAGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * * * *
89848885 ATGAAGGTCAGATCTGTTGTATCTTTGATTTGCTCTCCGTCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
89848950 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * **
89848963 ATGAAGGTCAGATCTGCTATGTCTTCAATCTGCTCTCCATCGAATATGGAGATGCCAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
89849023 TTGTTTCTTC
Statistics
Matches: 405, Mismatches: 43, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
77 2 0.00
78 401 0.99
79 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:89848927 original size:234 final size:234
Alignment explanation
Indices: 89848422--89849022 Score: 835
Period size: 234 Copynumber: 2.5 Consensus size: 234
89848412 CCAAATATGT
* *
89848422 TATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCGGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTGGATCTG---C--T
* *
89848487 GTAAACACATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCA
57 -T---CA-ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCA
89848552 AATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAA
117 AATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAA
* * *
89848617 TACAGAGATGTCAAACCGTCTTGGATCTACTTCAATGAAGGTCAGATCTGCTG
182 TACAGAGATGCCAAACCATCTTAGATCTACTTCAATGAAGGTCAGATCTGCTG
*
89848670 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
* * *
89848735 GTCAGATCTGCTATGTCTTCGATCTACTCTCTGTCTAATACAGAGATGCCAAATCATCTTGGATT
66 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
* *
89848800 TGCTTCATTGAAGGT-CAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCA
131 TGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCA
* * *
89848864 AATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGTTG
195 AACCATCTTAGATCTACTTCAATGAAGGTCAGATCTGCTG
* * * *
89848904 TATCTTTGATTTGCTCTCCGTCTAATACAGAGATGCTAAATCATCTTGGATCTGCTTCAATGAAG
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
* * * **
89848969 GTCAGATCTGCTATGTCTTCAATCTGCTCTCCATCGAATATGGAGATGCCAAAT
66 GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAAT
89849023 TTGTTTCTTC
Statistics
Matches: 324, Mismatches: 28, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
233 2 0.01
234 266 0.82
235 2 0.01
238 1 0.00
239 1 0.00
241 1 0.00
244 14 0.04
248 37 0.11
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (234 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAG
GTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
TGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
ACCATCTTAGATCTACTTCAATGAAGGTCAGATCTGCTG
Found at i:89849151 original size:87 final size:89
Alignment explanation
Indices: 89849055--89849217 Score: 224
Period size: 89 Copynumber: 1.9 Consensus size: 89
89849045 GACAGTACAG
* *
89849055 AGATGCCAAATCATCTTAGATCTGCTTC-A-GCGTAAACA-CATGAAAGCCAAATCTGCTATGTC
1 AGATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATC-TGAAAGCCAAATCTGCTATGTC
89849117 TTCGATCTGCTCCTTGTCAACGCAA
65 TTCGATCTGCTCCTTGTCAACGCAA
* * * ** *
89849142 AGATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCTGAAGGTTAGATCTGCTATGTCT
1 AGATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATCTGAAAGCCAAATCTGCTATGTCT
89849207 TCGATCTGCTC
66 TCGATCTGCTC
89849218 TCCATCGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
87 26 0.40
88 1 0.02
89 37 0.57
90 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (89 bp):
AGATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATCTGAAAGCCAAATCTGCTATGTCT
TCGATCTGCTCCTTGTCAACGCAA
Found at i:89854688 original size:29 final size:29
Alignment explanation
Indices: 89854656--89854744 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
89854646 GAATGAATTT
89854656 AAGAATGATTATTAATGTGCTACGAATGA
1 AAGAATGATTATTAATGTGCTACGAATGA
* * * **
89854685 AAGAAT-A--A-GAAT-TGCAAAAGAATTT
1 AAGAATGATTATTAATGTGC-TACGAATGA
89854710 AAGAATGATTATTAATGTGCTACGAATGA
1 AAGAATGATTATTAATGTGCTACGAATGA
89854739 AAGAAT
1 AAGAAT
89854745 AAGAATTGCA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
24 3 0.07
25 14 0.32
26 2 0.05
28 2 0.05
29 20 0.45
30 3 0.07
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (29 bp):
AAGAATGATTATTAATGTGCTACGAATGA
Found at i:89854712 original size:54 final size:54
Alignment explanation
Indices: 89854650--89854758 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
89854640 AAGAATGAAT
89854650 GAATTTAAGAATGATTATTAATGTGCTACGAATGAAAGAATAAGAATTGCAAAA
1 GAATTTAAGAATGATTATTAATGTGCTACGAATGAAAGAATAAGAATTGCAAAA
89854704 GAATTTAAGAATGATTATTAATGTGCTACGAATGAAAGAATAAGAATTGCAAAA
1 GAATTTAAGAATGATTATTAATGTGCTACGAATGAAAGAATAAGAATTGCAAAA
89854758 G
1 G
89854759 TTTAACGGAA
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:0.48, C:0.06, G:0.19, T:0.28
Consensus pattern (54 bp):
GAATTTAAGAATGATTATTAATGTGCTACGAATGAAAGAATAAGAATTGCAAAA
Found at i:89858282 original size:17 final size:17
Alignment explanation
Indices: 89858260--89858292 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
89858250 GATATGATAC
89858260 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
89858277 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
89858293 AATCAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:89858293 original size:18 final size:17
Alignment explanation
Indices: 89858260--89858293 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
89858250 GATATGATAC
*
89858260 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
89858277 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
89858294 ATCAAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:89858584 original size:22 final size:21
Alignment explanation
Indices: 89858549--89858624 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
89858539 AAAAGGTATC
* *
89858549 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
89858570 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
89858593 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
89858612 TGC-AATCATATCT
1 TACAAATCATATCT
89858625 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:89858609 original size:19 final size:19
Alignment explanation
Indices: 89858585--89858675 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
89858575 AATCATATCT
89858585 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
89858604 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
89858622 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
89858639 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
89858658 TCTAATATTGCATATCAT
1 TCTAAGATTGCATATCAT
89858676 TGAAGATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:89858641 original size:35 final size:37
Alignment explanation
Indices: 89858578--89858675 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
89858568 ATTACAAAAT
89858578 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
89858614 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
*
89858649 CATATCATATCTAATATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
89858676 TGAAGATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:89858654 original size:14 final size:15
Alignment explanation
Indices: 89858599--89858654 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
89858589 AGATTGCATA
89858599 TCATATCTAAGATTG
1 TCATATCTAAGATTG
89858614 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
89858632 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
89858649 -CATATC
1 TCATATC
89858655 ATATCTAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:89858824 original size:21 final size:20
Alignment explanation
Indices: 89858795--89858834 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
89858785 TAGACTTCAG
*
89858795 TTTTTTTTTGGGATTTATTA
1 TTTTTTTTTGGGACTTATTA
*
89858815 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTGGGACTTATT
89858835 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTGGGACTTATTA
Found at i:89859833 original size:22 final size:22
Alignment explanation
Indices: 89859808--89859850 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
89859798 TTCGGTACTA
*
89859808 ACATTTGTTGTCCCTAGTACCG
1 ACATTTGCTGTCCCTAGTACCG
*
89859830 ACATTTGCTGTCTCTAGTACC
1 ACATTTGCTGTCCCTAGTACC
89859851 AATATTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (22 bp):
ACATTTGCTGTCCCTAGTACCG
Found at i:89863091 original size:50 final size:49
Alignment explanation
Indices: 89862974--89863200 Score: 233
Period size: 50 Copynumber: 4.6 Consensus size: 49
89862964 TGATACGCAC
* * *
89862974 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATTCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATT-GATACACGT
* *
89863023 AGTAACCTGCACTTAGTACTACACACGCGACCTCACCATCTGATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCAT-TGATACACGT
* * * * * *
89863073 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCATTGAGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CCATTGA-TACACGT
* * * * * *
89863124 AGTAGCTTGCACTTAATACTACACATGTGACTTAA-CAGTATGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCA-T-TGATACACGT
89863174 AGTAGCCTGCACTTAGTACTACACACG
1 AGTAGCCTGCACTTAGTACTACACACG
89863201 TGTATTCACA
Statistics
Matches: 147, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
49 32 0.22
50 75 0.51
51 40 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATTGATACACGT
Found at i:89865547 original size:59 final size:58
Alignment explanation
Indices: 89865341--89865547 Score: 203
Period size: 58 Copynumber: 3.6 Consensus size: 58
89865331 AAGCTATTTC
* * * * *
89865341 ATACTGAAGAAAATTTTGAAAGATAACATAGCT---GAT-TTACTCCGCGAGTTGTTTT
1 ATACTTAAGAAAATTTTGAAA-ATAACACAACTGGGGATGTTACTCAGTGAGTTGTTTT
* * *
89865396 ATACTTAA-AAAATTTTGAAAGATAACACAGA-TAGGGATGTTACTCAATAAGTTG-TTT
1 ATACTTAAGAAAATTTTGAAA-ATAACACA-ACTGGGGATGTTACTCAGTGAGTTGTTTT
* * * *
89865453 ATAATTAAGAAAATTTTGACAAATAACATAGCTGGGGATGTTACTCTGTGAGTTGTTTT
1 ATACTTAAGAAAATTTTGA-AAATAACACAACTGGGGATGTTACTCAGTGAGTTGTTTT
*
89865512 ATACTTAAGAAAATTTTGAAATATAAGACAACTGGG
1 ATACTTAAGAAAATTTTGAAA-ATAACACAACTGGG
89865548 AGTTTTTAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
54 21 0.17
55 7 0.06
57 13 0.10
58 49 0.40
59 34 0.27
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.34
Consensus pattern (58 bp):
ATACTTAAGAAAATTTTGAAAATAACACAACTGGGGATGTTACTCAGTGAGTTGTTTT
Found at i:89865864 original size:69 final size:68
Alignment explanation
Indices: 89865600--89866161 Score: 326
Period size: 69 Copynumber: 8.2 Consensus size: 68
89865590 CGCTTATGAG
* ** * ** * **
89865600 CCTTAATATGACAATTGGGAACTTTGCTCTTGCTAACTGTGTT-GAGGCTGCGGCTCTT-CATCT
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTCTTGC--CT
*
89865663 GCGAG
64 GCGAA
* * ** * * * *
89865668 CATTAATATGAAAATTGGGAGCTTTTCTTTCACTAACTCTGTTCAAA-GCTATGGCTCTTAGCTT
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTT-AAAGGCTATGGCTCTT-GCCT
89865732 GCGAA
64 GCGAA
** * * * * * *
89865737 CCTTAATATGATAGCTAAGAGATTTGCT-TCCGCTAATTGTGTTAAAGGCTACGACTCTTCGCGT
1 CCTTAATATGATAGCTGGGAGCTTTGCTCT-CACTAACTGTGTTAAAGGCTATGGCTCTT-GCCT
*
89865801 GTGAA
64 GCGAA
* * * *
89865806 TCTTAATATAATAGTTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTCTTGTCCTA
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTCTTG-CCTG
**
89865871 CGTG
65 CGAA
* * ** ** * * * * * *
89865875 CCTTAATATGACAACTGGGAGCTTTGCTCTTGCTAACTGTGTTGGATGTTGTGGCTTTTCTCCTA
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTCTT-GCCTG
89865940 CGAA
65 CGAA
* * * * * * * ** *
89865944 CCTTAATATGATAGTTGGGAGCTTTGCTCTCGCTAAATCTATTAGAGGATGCGGCTCTTTGCCTA
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTC-TTGCCTG
*
89866009 CAAA
65 CGAA
* * * *** *
89866013 CCTTAATATGACAGCTGGGAGCTTTGCTCTCATTAACTGTGTTAGAGGCTGCAGCACTT-CATCT
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTCTTGC--CT
*
89866077 GC-ATG
64 GCGA-A
* * * * *
89866082 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAATTGTGTTGAAGGCTATGACACTTTGCTTG
1 CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTC-TTGCCTG
*
89866147 CGAG
65 CGAA
*
89866151 CCTTAGTATGA
1 CCTTAATATGA
89866162 CACGAATGTT
Statistics
Matches: 381, Mismatches: 97, Indels: 31
0.75 0.19 0.06
Matches are distributed among these distances:
67 1 0.00
68 43 0.11
69 328 0.86
70 7 0.02
71 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (68 bp):
CCTTAATATGATAGCTGGGAGCTTTGCTCTCACTAACTGTGTTAAAGGCTATGGCTCTTGCCTGC
GAA
Found at i:89866155 original size:138 final size:137
Alignment explanation
Indices: 89865558--89866163 Score: 495
Period size: 138 Copynumber: 4.4 Consensus size: 137
89865548 AGTTTTTAAT
* * * * * * * * *
89865558 TCTCACTAACTATATTGAAGGCTGTTGCTCTTCGCTTATGAGCCTTAATATGACAATTGGGAACT
1 TCTCACTAACTCTGTT-AAGGCTATGGCTCTTTGCCTACGAGCCTTAATATGACAACTGGGAGCT
* * * *
89865623 TTGCTCTTGCTAACTGTGTT-GAGGCTGCGGCTCTTCATCTGCGAGCATTAATATGAAAATTGGG
65 TTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCATCTGCGAGCCTTAATATGATAGTTGGG
*
89865687 AGCTTTTC
130 AGCTTTGC
* * * * * * * * ** *
89865695 TTTCACTAACTCTGTTCAAAGCTATGGCTCTTAGCTTGCGAACCTTAATATGATAGCTAAGAGAT
1 TCTCACTAACTCTGTT-AAGGCTATGGCTCTTTGCCTACGAGCCTTAATATGACAACTGGGAGCT
* * * * * * ** *
89865760 TTGCT-TCCGCTAATTGTGTTAAAGGCTACGACTCTTC-GCGTGTGAATCTTAATATAATAGTTG
65 TTGCTCT-CGCTAACTGTGTTAGAGGCTGCGGCTCTTCATC-TGCGAGCCTTAATATGATAGTTG
89865823 GGAGCTTTGC
128 GGAGCTTTGC
* *
89865833 TCTCACTAACTGTGTTAAAGGCTATGGCTC-TTGTCCTACGTGCCTTAATATGACAACTGGGAGC
1 TCTCACTAACTCTGTT-AAGGCTATGGCTCTTTG-CCTACGAGCCTTAATATGACAACTGGGAGC
* * * * * * * *
89865897 TTTGCTCTTGCTAACTGTGTTGGATGTTGTGGCTTTTC-TCCTACGAACCTTAATATGATAGTTG
64 TTTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCAT-CTGCGAGCCTTAATATGATAGTTG
89865961 GGAGCTTTGC
128 GGAGCTTTGC
* * * * ** * * *
89865971 TCTCGCTAAATCTATTAGAGGATGCGGCTCTTTGCCTACAAACCTTAATATGACAGCTGGGAGCT
1 TCTCACTAACTCTGTTA-AGGCTATGGCTCTTTGCCTACGAGCCTTAATATGACAACTGGGAGCT
** * * *
89866036 TTGCTCTCATTAACTGTGTTAGAGGCTGCAGCACTTCATCTGC-ATGCCTTAATATGATAGCTGG
65 TTGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCATCTGCGA-GCCTTAATATGATAGTTGG
89866100 GAGCTTTGC
129 GAGCTTTGC
* * * * * * *
89866109 TCTCACTAATTGTGTTGAAGGCTATGACACTTTGCTTGCGAGCCTTAGTATGACA
1 TCTCACTAACTCTGTT-AAGGCTATGGCTCTTTGCCTACGAGCCTTAATATGACA
89866164 CGAATGTTAT
Statistics
Matches: 359, Mismatches: 99, Indels: 21
0.75 0.21 0.04
Matches are distributed among these distances:
136 1 0.00
137 68 0.19
138 283 0.79
139 7 0.02
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (137 bp):
TCTCACTAACTCTGTTAAGGCTATGGCTCTTTGCCTACGAGCCTTAATATGACAACTGGGAGCTT
TGCTCTCGCTAACTGTGTTAGAGGCTGCGGCTCTTCATCTGCGAGCCTTAATATGATAGTTGGGA
GCTTTGC
Found at i:89866199 original size:24 final size:24
Alignment explanation
Indices: 89866167--89866214 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
89866157 TATGACACGA
89866167 ATGTTATTTGG-AAATTTTTGTCAT
1 ATGTTATTTGGAAAATTTTT-TCAT
89866191 ATGTTATTTGGAAAATTTTTTCAT
1 ATGTTATTTGGAAAATTTTTTCAT
89866215 TCATTAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (24 bp):
ATGTTATTTGGAAAATTTTTTCAT
Found at i:89875624 original size:28 final size:28
Alignment explanation
Indices: 89875567--89875746 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
89875557 TAAATTGTGC
*
89875567 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
89875594 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
89875622 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
89875650 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
89875677 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
89875705 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
89875732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89875747 GACTTAATAT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:89875631 original size:55 final size:55
Alignment explanation
Indices: 89875567--89875746 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
89875557 TAAATTGTGC
*
89875567 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
89875622 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * *
89875677 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
89875732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89875747 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:89875706 original size:83 final size:82
Alignment explanation
Indices: 89875567--89875746 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
89875557 TAAATTGTGC
89875567 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
89875632 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
89875650 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
89875715 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
89875732 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89875747 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 22 0.24
83 70 0.76
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:89883938 original size:27 final size:27
Alignment explanation
Indices: 89883748--89883925 Score: 302
Period size: 27 Copynumber: 6.6 Consensus size: 27
89883738 TAAATTGTGC
*
89883748 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
89883775 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
89883803 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
89883830 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
89883857 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
89883884 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
89883911 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89883926 GACTTAATAT
Statistics
Matches: 146, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
27 119 0.82
28 27 0.18
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:89901225 original size:24 final size:24
Alignment explanation
Indices: 89901180--89901241 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
89901170 TCGAAGAAAT
* ** * *
89901180 TGATAGTAATAGCGGGAGCTATTA
1 TGATAGTAATAGTGCAAACTATGA
89901204 TGATAGTAATAGTGCAAACTATGA
1 TGATAGTAATAGTGCAAACTATGA
*
89901228 TGATAGTGATAGTG
1 TGATAGTAATAGTG
89901242 AGCTTTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (24 bp):
TGATAGTAATAGTGCAAACTATGA
Found at i:89901596 original size:13 final size:13
Alignment explanation
Indices: 89901578--89901602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89901568 AACCTTAACT
89901578 TGAATTTGTCTAG
1 TGAATTTGTCTAG
89901591 TGAATTTGTCTA
1 TGAATTTGTCTA
89901603 TTAATAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (13 bp):
TGAATTTGTCTAG
Found at i:89901893 original size:4 final size:4
Alignment explanation
Indices: 89901884--89901916 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
89901874 TTAAATTTTG
*
89901884 TTTA TTTA TTTA TTTA -TTC TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
89901917 CTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 2 0.08
4 24 0.92
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:89901906 original size:15 final size:15
Alignment explanation
Indices: 89901888--89901934 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
89901878 ATTTTGTTTA
89901888 TTTATTTATTTATTC
1 TTTATTTATTTATTC
89901903 TTTATTTATTTATTC
1 TTTATTTATTTATTC
*
89901918 TTTATTT-TTAATTC
1 TTTATTTATTTATTC
89901932 TTT
1 TTT
89901935 TTGTTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTATTTATTC
Found at i:89902881 original size:25 final size:25
Alignment explanation
Indices: 89902812--89902886 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
89902802 GGCCCGTGAA
89902812 AACATGAAAACAACTTTATTTAT-T
1 AACATGAAAACAACTTTATTTATCT
* *
89902836 ATATAT-ACAAATAA-TTATATTTATCT
1 A-ACATGA-AAACAACTT-TATTTATCT
89902862 AACATGAAAACAACTTTATTTATCT
1 AACATGAAAACAACTTTATTTATCT
89902887 GTTTGTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
24 4 0.10
25 32 0.78
26 5 0.12
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (25 bp):
AACATGAAAACAACTTTATTTATCT
Found at i:89905324 original size:27 final size:26
Alignment explanation
Indices: 89905306--89905358 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
89905296 AAATTTGAGA
89905306 TTTAATTTTTATATTTAAAAATTAAT
1 TTTAATTTTTATATTTAAAAATTAAT
* *
89905332 TTTTATTTTTTTATTTAAAAATCTAAT
1 TTTAATTTTTATATTTAAAAAT-TAAT
89905359 AGTAAGTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTAATTTTTATATTTAAAAATTAAT
Found at i:89906725 original size:23 final size:23
Alignment explanation
Indices: 89906699--89906747 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
89906689 AAAAATACTT
89906699 ACCCTGAAAAATAATTAAAACTC
1 ACCCTGAAAAATAATTAAAACTC
89906722 ACCCTGAAAAATAATTAAAACTC
1 ACCCTGAAAAATAATTAAAACTC
89906745 ACC
1 ACC
89906748 ATTTTTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (23 bp):
ACCCTGAAAAATAATTAAAACTC
Found at i:89921256 original size:27 final size:27
Alignment explanation
Indices: 89921226--89921284 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
89921216 ATTTTTGAAT
89921226 TTTAAA-TAATTT-TTTAAAATTTAAAAA
1 TTTAAATTAATTTATTTAAAA--TAAAAA
**
89921253 TTTAAATTTTTTTATTTAAAATAAAAA
1 TTTAAATTAATTTATTTAAAATAAAAA
89921280 TTTAA
1 TTTAA
89921285 TCTAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.61
28 4 0.14
29 7 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAAATTAATTTATTTAAAATAAAAA
Found at i:89926102 original size:14 final size:13
Alignment explanation
Indices: 89926079--89926120 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
89926069 TAATCTTTGA
89926079 TTTATTATTTTAT
1 TTTATTATTTTAT
89926092 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
89926105 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
89926119 TT
1 TT
89926121 GACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:89928128 original size:47 final size:46
Alignment explanation
Indices: 89928053--89928316 Score: 232
Period size: 47 Copynumber: 5.7 Consensus size: 46
89928043 GGTAAGTTAC
89928053 CGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAGT
* * *
89928100 CGATGCCATGTCCCAGACATGGTTTTACACTGACT-ATCATCTCATAGA
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCA-CATCTCA-AGT
* * * * * *
89928148 CGATG-CATGTCCCAGATATGTCTTACACTGACTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTC-AAGT
* * * *
89928194 CAATG-CATGTCCCAGACATGTCTTACACTAGTTCTCATCTCAATGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAA-GT
* * * * * *
89928240 TGATGCCATGTCCCAGACACGGTCTTACACTGGCTCTCATAAT-ATGG
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCACAT-CTCAAGT
*
89928287 CTGATG-CGTGTCCCAGACATGTCTTACACT
1 C-GATGCCATGTCCCAGACATGTCTTACACT
89928317 AGCTACAATA
Statistics
Matches: 178, Mismatches: 30, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.38
47 80 0.45
48 29 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGT
Found at i:89928311 original size:140 final size:140
Alignment explanation
Indices: 89928059--89928316 Score: 360
Period size: 140 Copynumber: 1.8 Consensus size: 140
89928049 TTACCGATGC
* * *
89928059 CATGTCCCAGACATAGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATGGTT
1 CATGTCCCAGACATAGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAGACACGGTC
* *
89928124 TTACACTGACTATCATCTCATAGACGATGCATGTCCCAGATATGTCTTACACTGACTTACGTCTC
66 TTACACTGACTATCATATCATAGACGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTC
89928189 GAGGCCAATG
131 GAGGCCAATG
* * *
89928199 CATGTCCCAGACAT-GTCTTACACTAGTTCTCATCTCAATGTTGATGCCATGTCCCAGACACGGT
1 CATGTCCCAGACATAGTCTTACACTAGCTCACATCTCAA-GTCGATGCCATGTCCCAGACACGGT
* * * *
89928263 CTTACACTGGCTCTCATA--ATATGGCTGATGCGTGTCCCAGACATGTCTTACACT
65 CTTACACTGACTATCATATCATA-GAC-GATGCATGTCCCAGACATGTCTTACACT
89928317 AGCTACAATA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
138 3 0.03
139 23 0.22
140 77 0.75
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATAGTCTTACACTAGCTCACATCTCAAGTCGATGCCATGTCCCAGACACGGTC
TTACACTGACTATCATATCATAGACGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTC
GAGGCCAATG
Found at i:89931732 original size:27 final size:27
Alignment explanation
Indices: 89931701--89931758 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
89931691 GTATACCTAG
*
89931701 GCCCCAGAT-TGATAAAATAACTGTTAT
1 GCCCC-GATGTGATAAAATAACTATTAT
* *
89931728 GCCCCTATGTGGTAAAATAACTATTAT
1 GCCCCGATGTGATAAAATAACTATTAT
89931755 GCCC
1 GCCC
89931759 TTATGGGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (27 bp):
GCCCCGATGTGATAAAATAACTATTAT
Found at i:89935046 original size:82 final size:81
Alignment explanation
Indices: 89934930--89935085 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
89934920 AAATTGTACA
* * * *
89934930 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
89934994 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89935011 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
89935076 TGCGAGTTGA
65 TGCGAATTGA
89935086 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89935053 original size:55 final size:52
Alignment explanation
Indices: 89934929--89935082 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
89934919 TAAATTGTAC
* *
89934929 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
89934982 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
89935037 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
89935083 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:89935087 original size:27 final size:27
Alignment explanation
Indices: 89934930--89935085 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
89934920 AAATTGTACA
*
89934930 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
89934957 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
89934984 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
89935011 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
89935039 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
89935066 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
89935086 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:89935096 original size:27 final size:27
Alignment explanation
Indices: 89934922--89935106 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
89934912 GCGGGATTAA
*
89934922 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
89934949 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
89934976 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
89935003 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
89935031 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
89935058 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
89935085 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
89935107 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:89935097 original size:82 final size:81
Alignment explanation
Indices: 89934922--89935106 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
89934912 GCGGGATTAA
* * * *
89934922 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
89934987 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
89935003 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
89935067 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
89935085 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
89935107 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:89937071 original size:45 final size:44
Alignment explanation
Indices: 89937007--89937097 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 44
89936997 TAAAATGTGC
89937007 TGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTAGGAGGACCT
1 TGTATCTTTGTTGCGAGACTCAGCCTACTATTGGT-GGAGGACCT
89937052 TGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACCT
1 TGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACCT
89937096 TG
1 TG
89937098 ATTCCATAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 11 0.24
45 35 0.76
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTATCTTTGTTGCGAGACTCAGCCTACTATTGGTGGAGGACCT
Done.