Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 3 of 161
Found at i:645139 original size:14 final size:14
Alignment explanation
Indices: 645120--645146 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
645110 AGGATGAGCA
645120 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
645134 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
645147 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:645683 original size:49 final size:49
Alignment explanation
Indices: 645624--645721 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
645614 CTTCCCGACT
*
645624 AGGGTCAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCG
1 AGGGTAAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCG
* *
645673 AGGGTAAATTTTGGGCTGTTACAACTCTCCCCCACTTGAGAAATTTTCG
1 AGGGTAAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCG
645722 TCCCCGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (49 bp):
AGGGTAAATTTTGGGCTGTCACAACTCTCCCCCACTTAAGAAATTTTCG
Found at i:651479 original size:40 final size:40
Alignment explanation
Indices: 651435--651696 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
651425 GCTCCTCGTT
* *
651435 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
651475 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
651515 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
651554 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
651593 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
651632 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
651673 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
651697 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:652793 original size:13 final size:13
Alignment explanation
Indices: 652775--652799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
652765 GGATGAGCAT
652775 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
652788 TTTTTTTTCTTT
1 TTTTTTTTCTTT
652800 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:658800 original size:50 final size:49
Alignment explanation
Indices: 658686--658956 Score: 222
Period size: 50 Copynumber: 5.6 Consensus size: 49
658676 CAGGAAGCTG
* * * * *
658686 ATGCCATGTCCTAGACATGGTTTTACACT-AGC-TCACGTATCAAAG-TA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CATCATGTATCGAGGCTA
*
658733 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 -ATGCCATGTCCCAGACATGGTCTTACACTGAC-ATCATGTATCGAGGCTA
* * * * *
658784 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTTGTCCATCTGTGTC-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGACATCATGT--ATC-GAGGCTA
* * *
658834 ATGACATGTCCTAGACATGGTCTTACACTGACA-CATCTCAT--A-GC-A
1 ATGCCATGTCCCAGACATGGTCTTACACTGACATCATGT-ATCGAGGCTA
* *
658879 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATATCGAGG-TCG
1 -ATGCCATGTCCCAGACATGGTCTTACACTGAC-ATCATGTATCGAGGCT-A
*
658930 ACGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
658957 TTAGCTCTCG
Statistics
Matches: 184, Mismatches: 23, Indels: 30
0.78 0.10 0.13
Matches are distributed among these distances:
45 1 0.01
46 30 0.16
47 3 0.02
48 38 0.21
49 5 0.03
50 102 0.55
51 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACATCATGTATCGAGGCTA
Found at i:658864 original size:100 final size:96
Alignment explanation
Indices: 658685--658909 Score: 269
Period size: 98 Copynumber: 2.3 Consensus size: 96
658675 GCAGGAAGCT
* * * ** *** * *
658685 GATGCCATGTCCTAGACATGGTTTTACACTAGCTCACGT--ATCAAAGTAGATGCCATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCCATCTGTGTCGATGACATGTCCTAG
*
658748 ACATGGTCTTACACTGACTATCATGT-ATCGAGGCTA
66 ACATGGTCTTACACTGAC-A-CATCTCAT--A-GC-A
658784 -ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCCATCTGTGTCGATGACATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCCATCTGTGTCGATGACATGTCCTAG
658848 ACATGGTCTTACACTGACACATCTCATAGCA
66 ACATGGTCTTACACTGACACATCTCATAGCA
658879 GATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
658910 ACTATCATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
95 1 0.01
96 32 0.29
97 1 0.01
98 37 0.33
99 3 0.03
100 37 0.33
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTCCATCTGTGTCGATGACATGTCCTAG
ACATGGTCTTACACTGACACATCTCATAGCA
Found at i:658930 original size:96 final size:99
Alignment explanation
Indices: 658685--658956 Score: 276
Period size: 96 Copynumber: 2.8 Consensus size: 99
658675 GCAGGAAGCT
* * ** * *
658685 GATGCCATGTCCTAGACATGGTTTTACACT-AGC-TCACGTATCAAAGTAGATGCCATGTCCTAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTTCATATATCGAAGTCGATGCCATGTCCTAG
*
658748 ACATGGTCTTACACTGACTATCATGTATCGAGGCTA
65 ACATGGTCTTACACTGACTATCATCTATC-AGGCTA
* * * * *
658784 -ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTTGTCCATCTG-TGTCGATGACATGTCCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTTCATAT--ATC-GAAGTCGATGCCATGTCCT
658846 AGACATGGTCTTACACTGAC-A-CATCTCAT-A-GC-A
63 AGACATGGTCTTACACTGACTATCATCT-ATCAGGCTA
* * *
658879 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATATCGAGGTCGACGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-TCATATATCGAAGTCGATGCCATGTCCTAG
658944 ACATGGTCTTACA
65 ACATGGTCTTACA
658957 TTAGCTCTCG
Statistics
Matches: 147, Mismatches: 17, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
95 2 0.01
96 64 0.44
97 1 0.01
98 40 0.27
99 3 0.02
100 37 0.25
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (99 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTTCATATATCGAAGTCGATGCCATGTCCTAGA
CATGGTCTTACACTGACTATCATCTATCAGGCTA
Found at i:658956 original size:146 final size:148
Alignment explanation
Indices: 658685--658956 Score: 415
Period size: 146 Copynumber: 1.9 Consensus size: 148
658675 GCAGGAAGCT
* * * * * *
658685 GATGCCATGTCCTAGACATGGTTTTACACTAGCTCACGTATCAAAGTAGATGCCATGTCCTAGAC
1 GATGACATGTCCTAGACATGGTCTTACACTAGCACACATATCAAAGCAGATGCCATGTCCCAGAC
* *
658750 ATGGTCTTACACTGACTATCATGTATCGAGGCTAATGCCATGTCCCAGACATGGTCTTACACTGG
66 ATGGTCTTACACTGACTATCATATATCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACTGG
658815 CTCTTGTCCATCTGTGTC
131 CTCTTGTCCATCTGTGTC
* *
658833 GATGACATGTCCTAGACATGGTCTTACACT-G-ACACATCTCATAGCAGATGCCATGTCCCAGAC
1 GATGACATGTCCTAGACATGGTCTTACACTAGCACACATATCAAAGCAGATGCCATGTCCCAGAC
*
658896 ATGGTCTTACACTGACTATCATATATCGAGG-TCGACGCCATGTCCCAGACATGGTCTTACA
66 ATGGTCTTACACTGACTATCATATATCGAGGCT-AACGCCATGTCCCAGACATGGTCTTACA
658957 TTAGCTCTCG
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
145 1 0.01
146 82 0.73
147 1 0.01
148 28 0.25
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (148 bp):
GATGACATGTCCTAGACATGGTCTTACACTAGCACACATATCAAAGCAGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATATATCGAGGCTAACGCCATGTCCCAGACATGGTCTTACACTGG
CTCTTGTCCATCTGTGTC
Found at i:664858 original size:50 final size:50
Alignment explanation
Indices: 664744--665914 Score: 2062
Period size: 50 Copynumber: 23.5 Consensus size: 50
664734 CAGGAAGCTG
* * * * *
664744 ATGCCATGTCCTAGACATGGTTTTACACT-AGC--TCACGTATCAAAG-TA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATGTATCGAGGCTA
*
664791 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 -ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
* * * * *
664842 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTTGTCCATCTGTGTC-G
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGT--ATC-GAGGCTA
* * *
664892 ATGACATGTCCTAGACATGGTCTTACACTGAC-A-CATCTCAT--A-GC-A
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGT-ATCGAGGCTA
664937 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 -ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
664988 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665038 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665088 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665138 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665188 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665238 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665288 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665338 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665388 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665438 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665488 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665538 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665588 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665638 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665688 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665738 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665788 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665838 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
665888 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
665915 TTAGCTCTCG
Statistics
Matches: 1087, Mismatches: 21, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
45 1 0.00
46 30 0.03
47 3 0.00
48 38 0.03
49 5 0.00
50 1004 0.92
51 6 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCGAGGCTA
Found at i:668424 original size:40 final size:40
Alignment explanation
Indices: 668272--668417 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
668262 TTGAATGATG
* * * *
668272 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
668312 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
668352 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
668393 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
668418 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:668424 original size:80 final size:80
Alignment explanation
Indices: 668272--668450 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
668262 TTGAATGATG
* *
668272 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
668337 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
668352 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
668415 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
668432 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
668451 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:673849 original size:18 final size:19
Alignment explanation
Indices: 673826--673874 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
673816 GTTGTAAAGT
*
673826 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
673844 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
673863 TTTAATTTTTAT
1 TTT-ATTTTTAT
673875 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:673854 original size:22 final size:22
Alignment explanation
Indices: 673825--673874 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
673815 AGTTGTAAAG
* *
673825 TTTTATTTTTATTTA-TTTATT
1 TTTTATTTTTACTTAGTTTAAT
673846 TATTTATTTTTACTTAGTTTAAT
1 T-TTTATTTTTACTTAGTTTAAT
673869 TTTTAT
1 TTTTAT
673875 GTAAATATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.72
23 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTACTTAGTTTAAT
Found at i:680612 original size:25 final size:25
Alignment explanation
Indices: 680557--680604 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
680547 TTACCGATTA
680557 CAGCTCGTGAGAGCTTACTGATTCT
1 CAGCTCGTGAGAGCTTACTGATTCT
*
680582 CAGCTCGT-ATGAGCTTATTGATT
1 CAGCTCGTGA-GAGCTTACTGATT
680605 TGTAGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (25 bp):
CAGCTCGTGAGAGCTTACTGATTCT
Found at i:680836 original size:30 final size:30
Alignment explanation
Indices: 680797--680858 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
680787 TACATGAAAT
*
680797 ACATGGAAATTA-TATTACATGATATATTGAA
1 ACATGGAAATGAGTATTACATG-TATA-TGAA
*
680828 ACAT-GAAATGAGTGTTACATGTATATGAA
1 ACATGGAAATGAGTATTACATGTATATGAA
680857 AC
1 AC
680859 TTGCTTAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 12 0.43
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (30 bp):
ACATGGAAATGAGTATTACATGTATATGAA
Found at i:684865 original size:37 final size:37
Alignment explanation
Indices: 684815--684893 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
684805 GTGTCGAGGT
* *
684815 GTGTTATTGGTTGGATTAGCTCTCATGAGCGTTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCATTTGGC
*
684852 GTGTTATTGGTTGGATTAGCACTTATGAGCATTTGGC
1 GTGTTATTGGTTGGATTAGCACTCATGAGCATTTGGC
684889 GTGTT
1 GTGTT
684894 TCTGTTGGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.15, C:0.11, G:0.32, T:0.42
Consensus pattern (37 bp):
GTGTTATTGGTTGGATTAGCACTCATGAGCATTTGGC
Found at i:689288 original size:45 final size:45
Alignment explanation
Indices: 689219--689355 Score: 143
Period size: 45 Copynumber: 3.1 Consensus size: 45
689209 TACTACGTGT
* * *
689219 ACCGGGTACCATTGATTATAAAGGTGATTGTTGTGTACTGATTCC
1 ACCGGGTACCATTGACTATAAAGGTGATTGCTATGTACTGATTCC
* * *
689264 ACCGGGTACTATTGACTATGAAGGTGGTTGCTATGTACTGATTCC
1 ACCGGGTACCATTGACTATAAAGGTGATTGCTATGTACTGATTCC
** * ** * *
689309 ACCAAGTATCATTGACTATAGGGGTG-GTGCTATGTGCTGA-TCC
1 ACCGGGTACCATTGACTATAAAGGTGATTGCTATGTACTGATTCC
689352 ACCG
1 ACCG
689356 TGTATCTGTT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 6 0.08
44 12 0.16
45 58 0.76
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
ACCGGGTACCATTGACTATAAAGGTGATTGCTATGTACTGATTCC
Found at i:703224 original size:21 final size:21
Alignment explanation
Indices: 703198--703248 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
703188 TTGAATGACA
*
703198 GTTTTGTTAAGAAATTTTAAC
1 GTTTTGATAAGAAATTTTAAC
*
703219 GTTTTGATAAGAAATTTTAAT
1 GTTTTGATAAGAAATTTTAAC
*
703240 GTTTCGATA
1 GTTTTGATA
703249 GTTAATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (21 bp):
GTTTTGATAAGAAATTTTAAC
Found at i:706717 original size:42 final size:42
Alignment explanation
Indices: 706671--706755 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
706661 GTATTCGTTA
*
706671 TCCCATTATTATTTAAATATAGGTAATTTTAAATCTAATATT
1 TCCCATTATTATTTAAATATAGGGAATTTTAAATCTAATATT
706713 TCCCATTATTATTTAAATATAGGGAATTTTAAATCTAATATT
1 TCCCATTATTATTTAAATATAGGGAATTTTAAATCTAATATT
706755 T
1 T
706756 TTTTAATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (42 bp):
TCCCATTATTATTTAAATATAGGGAATTTTAAATCTAATATT
Found at i:706951 original size:24 final size:23
Alignment explanation
Indices: 706915--706984 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
706905 CATATTTTCG
* *
706915 AAATCATTGTGTATTATTATTCTA
1 AAATTATTATGTATTATTATT-TA
*
706939 AAATTATTATGTATTATTACTTA
1 AAATTATTATGTATTATTATTTA
*
706962 AAAGTTA-TATTATATTATTATTT
1 AAA-TTATTA-TGTATTATTATTT
706985 TTTCATTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 7 0.18
24 32 0.82
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (23 bp):
AAATTATTATGTATTATTATTTA
Found at i:712661 original size:6 final size:7
Alignment explanation
Indices: 712644--712678 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
712634 TCTGAGTAAA
712644 AAAAATG
1 AAAAATG
712651 AAAAATG
1 AAAAATG
712658 -AAAATG
1 AAAAATG
712664 AAGAAATG
1 AA-AAATG
712672 AAAAATG
1 AAAAATG
712679 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:714217 original size:44 final size:44
Alignment explanation
Indices: 714154--714242 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
714144 TAGATCGCAT
* *
714154 CAGATTGAAGCCAGAAATCTTACCTCCCTAAGATTATAGCGGAG
1 CAGATGGAAGCCAGAAATCTTACCTCCCTAAGATTACAGCGGAG
* * * * *
714198 CAGATGGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATGGAAGCCAGAAATCTTACCTCCCTAAGATTACAGCGGAG
714242 C
1 C
714243 GGATTTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (44 bp):
CAGATGGAAGCCAGAAATCTTACCTCCCTAAGATTACAGCGGAG
Found at i:714276 original size:142 final size:142
Alignment explanation
Indices: 714026--715006 Score: 1692
Period size: 142 Copynumber: 6.9 Consensus size: 142
714016 CTGAAGAAGC
* * *
714026 AAATCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAGCGAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
714091 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
714156 GATTGAAGCCAG
131 GATTGAAGCCAG
* * * * *
714168 AAATCTTACCTCCCTAAGATTATAGCGGAGCAGATGGAAGCTAGTAATCTTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
714233 ACAGTGGAGCGGATTTAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAAAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
714298 GATTGAAGCCAG
131 GATTGAAGCCAG
* * * * * *
714310 ACATCTTATCTCTCTGAGATTATAGCCGAGCAGATGGAAGCTAGTAATCCTATCTCCCTAAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
714375 ATAGTGGAGCGGATTTAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
714440 GATTGAAGCCAG
131 GATTGAAGCCAG
*
714452 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
714517 ATAGTGGAGCGGATTTAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
714582 GATTGAAGCCAG
131 GATTGAAGCCAG
714594 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
714659 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
714724 GATTGAAGCCAG
131 GATTGAAGCCAG
714736 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
714801 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
714866 GATTGAAGCCAG
131 GATTGAAGCCAG
714878 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
714943 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATC
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
715007 GGGTCTTATC
Statistics
Matches: 806, Mismatches: 33, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 806 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GATTGAAGCCAG
Found at i:714506 original size:44 final size:44
Alignment explanation
Indices: 714438--714957 Score: 307
Period size: 44 Copynumber: 11.1 Consensus size: 44
714428 TAGATCGCAT
*
714438 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * * * *
714482 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTATAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * * * * *
714526 CGGATTTAA-ATA-AAGGATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
*
714577 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * *
714624 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * ** *
714668 CGGATT-AAAATAAAAGATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA-ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
*
714719 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * *
714766 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* ** * ** *
714810 CGGATT-AAAATAAAAGATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCTAGAA-ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G
*
714861 CATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 ---CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * *
714908 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
*
714952 CGGATT
1 CAGATT
714958 AAAATAAAAG
Statistics
Matches: 362, Mismatches: 70, Indels: 88
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.00
43 15 0.04
44 226 0.62
47 12 0.03
49 12 0.03
51 12 0.03
54 68 0.19
55 14 0.04
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
Found at i:714661 original size:98 final size:96
Alignment explanation
Indices: 714546--714947 Score: 277
Period size: 98 Copynumber: 4.2 Consensus size: 96
714536 TAAAGGATTT
*
714546 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
1 TATCTCCCTGAGA-TTACAGTAGAG-AGA-CGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
*
714610 AGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
63 AGATTACAGCGGAGCAGATTGAAGCTAGAAATCC
* * * * * **
714644 TATCTCCCTGAGATTACAGT-G-GAG-CGGATTAAAAT-AA---A-AGATCTTATCTCTTTGA-A
1 TATCTCCCTGAGATTACAGTAGAGAGACGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGA
* * *
714700 GTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCT
66 -TTAC---AGCG--GA--G---CAGATTGAAGCTAGAAATCC
* * * *
714742 TATCTCCCTGAGATTAC---AGCG-GA-G---CAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TATCTCCCTGAGATTACAGTAGAGAGACGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGA
* * ** * *
714799 TTACAGTGGAGCGGATT-AAAATAAAAGATCT
66 TTACAGCGGAGCAGATTGAAGCTAGAA-ATCC
**
714830 TATCTCTTTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
1 TATCTCCCTGAGA-TTACAGTAGAG-AGA-CGCATCAGATTGAAGCCAGAAATCTTATCTCCCTG
*
714894 AGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
63 AGATTACAGCGGAGCAGATTGAAGCTAGAAATCC
714928 TATCTCCCTGAGATTACAGT
1 TATCTCCCTGAGATTACAGT
714948 GGAGCGGATT
Statistics
Matches: 228, Mismatches: 41, Indels: 70
0.67 0.12 0.21
Matches are distributed among these distances:
87 7 0.03
88 40 0.18
89 1 0.00
91 7 0.03
92 2 0.01
93 16 0.07
94 2 0.01
95 7 0.03
96 4 0.02
97 3 0.01
98 131 0.57
99 8 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (96 bp):
TATCTCCCTGAGATTACAGTAGAGAGACGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGA
TTACAGCGGAGCAGATTGAAGCTAGAAATCC
Found at i:714976 original size:44 final size:44
Alignment explanation
Indices: 714878--714977 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 44
714868 TTGAAGCCAG
** *
714878 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
* * * *
714922 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAA
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
714965 AAGATCTTATCTC
1 AA-ATCTTATCTC
714978 TTTGAAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 5 0.11
44 41 0.89
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAAATAA
Found at i:715128 original size:50 final size:50
Alignment explanation
Indices: 715074--715448 Score: 376
Period size: 50 Copynumber: 7.5 Consensus size: 50
715064 TCCCTAGCGG
* * *
715074 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* * * * * * **
715124 TGCAGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACTT-CCCTAGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGA-CAT
* *
715174 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* * * * * * * * **
715224 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCTCTGGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* *
715274 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* * * * * * **
715324 TGCAGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTACTT-CCCTAGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGA-CAT
* * *
715374 TGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCTCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
* *
715424 TACAGTTAAAAAGATTAAAGCCACA
1 TGCAGTGAAAAAGATTAAAGCCACA
715449 ATGGCGAATC
Statistics
Matches: 251, Mismatches: 70, Indels: 8
0.76 0.21 0.02
Matches are distributed among these distances:
49 8 0.03
50 236 0.94
51 7 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGAAAAAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
Found at i:715235 original size:100 final size:100
Alignment explanation
Indices: 715054--715464 Score: 723
Period size: 100 Copynumber: 4.1 Consensus size: 100
715044 AAGAATTACA
*
715054 AATCTTATCTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC
1 AATCTTA-CTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCC
*
715119 GACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
65 GACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
715155 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
715220 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
* *
715255 AATCTTACTTCTCTGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
1 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
*
715320 ACATTGCAGTTAAAAAGATTAAAGCTACAGCAGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
*
715355 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCTCG
1 AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
* * **
715420 ACATTACAGTTAAAAAGATTAAAGCCACAATGGCG
66 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
715455 AATCTTACTT
1 AATCTTACTT
715465 TCCAAAAGTT
Statistics
Matches: 297, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
100 290 0.98
101 7 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (100 bp):
AATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCG
ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCG
Found at i:717191 original size:24 final size:24
Alignment explanation
Indices: 717137--717191 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
717127 CATATTTTCG
* * *
717137 AAATCATTGTGTATTATTATTCTA
1 AAATTATTATGTATTATTACTCTA
717161 AAATTATTATGTATTATTACT-TA
1 AAATTATTATGTATTATTACTCTA
717184 AAAGTTAT
1 AAA-TTAT
717192 ACTATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (24 bp):
AAATTATTATGTATTATTACTCTA
Found at i:720723 original size:21 final size:22
Alignment explanation
Indices: 720680--720723 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
720670 ATTCATGACA
*
720680 GAAACTAAGAGAAACACTTACC
1 GAAACTAAGAGAAACACTAACC
* *
720702 GAAACTAAGCG-AGCACTAACC
1 GAAACTAAGAGAAACACTAACC
720723 G
1 G
720724 CGTATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (22 bp):
GAAACTAAGAGAAACACTAACC
Found at i:724932 original size:18 final size:18
Alignment explanation
Indices: 724911--724945 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
724901 TTTTTCTTTT
724911 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
724929 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
724946 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:725893 original size:11 final size:12
Alignment explanation
Indices: 725879--725915 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
725869 TTTTTTTTCC
725879 TTTTTTTCG-AT
1 TTTTTTTCGAAT
725890 TTTTTTT-GAAT
1 TTTTTTTCGAAT
725901 TTTTTTTCTGAAT
1 TTTTTTTC-GAAT
725914 TT
1 TT
725916 CTTCTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 16 0.70
13 6 0.26
ACGTcount: A:0.14, C:0.05, G:0.08, T:0.73
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:735577 original size:20 final size:20
Alignment explanation
Indices: 735554--735592 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
735544 GCTACTCATA
735554 TTTTTA-AAAACTTACTAGAG
1 TTTTTAGAAAACTTA-TAGAG
*
735574 TTTTTAGAACACTTATAGA
1 TTTTTAGAAAACTTATAGA
735593 ACCGGCGCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTTAGAAAACTTATAGAG
Found at i:741179 original size:27 final size:27
Alignment explanation
Indices: 741147--741206 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
741137 ATAAGTTAAA
741147 TTAATTATTTTAAGTTATTTGAATGGT
1 TTAATTATTTTAAGTTATTTGAATGGT
741174 TTAATTATTTTAAGTTATTTGAATGGT
1 TTAATTATTTTAAGTTATTTGAATGGT
741201 TTAATT
1 TTAATT
741207 GAGTGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (27 bp):
TTAATTATTTTAAGTTATTTGAATGGT
Found at i:749411 original size:53 final size:52
Alignment explanation
Indices: 749327--749641 Score: 339
Period size: 53 Copynumber: 6.0 Consensus size: 52
749317 ACATGCCAAA
* * *
749327 AAATGGAAGCCTTTGTAGCAATCTATGAAATGGAAGTCTTTGTGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-TATCTG
* *
749380 AAATGGAAGCCTTTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTATC--TG
* * * *
749434 AAATGGAAACC-TTATGGC-ATATCTGAAATGGAAGCCTTTGTGGCAATCCATG
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTAT-C-TG
* * * *
749486 AAATGAAAGCCTTTGTGGC-ATATTTGAAATGGAAGTCTTTGTGGCATATCTA
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-TATCTG
* * * *
749538 AAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTTTGTGTCATATCTA
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGC-TATCTG
* * * * * *
749591 AAATGGAAGACTTTTTGGCAATTTATGAAATGAAAGCCTTTATGGCGATCT
1 AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTATCT
749642 ATGGAAAGGG
Statistics
Matches: 226, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
52 65 0.29
53 147 0.65
54 14 0.06
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (52 bp):
AAATGGAAGCCTTTGTGGCAATATATGAAATGGAAGCCTTTGTGGCTATCTG
Found at i:749496 original size:79 final size:81
Alignment explanation
Indices: 749327--749644 Score: 391
Period size: 79 Copynumber: 4.0 Consensus size: 81
749317 ACATGCCAAA
* * * *
749327 AAATGGAAGCCTTTGTAGCA-ATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCC
1 AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
* *
749391 TTTGTGGCAATATATC
66 TTTGTGGCAATCTATG
* * *
749407 AAATGGAAGCCTTTGTGGCA-ATCTATGAAATGGAA-ACCTTATGGCATATCTGAAATGGAAGCC
1 AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
*
749470 TTTGTGGCAATCCATG
66 TTTGTGGCAATCTATG
* *
749486 AAATGAAAGCCTTTGTGGCATAT-T-TGAAATGGAAGTCTTTGTGGCATATCTAAAATGGAAGCC
1 AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
749549 TTTGTGGCAATCTATG
66 TTTGTGGCAATCTATG
* * * * *
749565 AAAT-AGAAGCCTTTGTGTCATATCTA--AAATGGAAGACTTTTTGGCAATTTATGAAATGAAAG
1 AAATGA-AAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGC-ATATCTGAAATGGAAG
* *
749627 CCTTTATGGCGATCTATG
64 CCTTTGTGGCAATCTATG
749645 GAAAGGGTTA
Statistics
Matches: 209, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
78 11 0.05
79 133 0.64
80 65 0.31
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (81 bp):
AAATGAAAGCCTTTGTGGCATATCTATGAAATGGAAGACTTTGTGGCATATCTGAAATGGAAGCC
TTTGTGGCAATCTATG
Found at i:749587 original size:132 final size:132
Alignment explanation
Indices: 749326--749636 Score: 446
Period size: 132 Copynumber: 2.4 Consensus size: 132
749316 AACATGCCAA
* * * *
749326 AAAATGGAAGCCTTTGTAGCAATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCC
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
* *
749391 TTTGTGGCAATATATCAAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAACCTTATGGCATAT
66 TTTGTGGCAATATATAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATGGCATAT
749456 CT
131 CT
* * * *
749458 GAAATGGAAGCCTTTGTGGCAATCCATGAAATGAAAGCCTTTGTGGCATATTTGAAATGGAAGTC
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
* *
749523 TTTGTGGC-ATATCTAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAGCCTT-TGTGTCAT
66 TTTGTGGCAATATATAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATG-G-CAT
749586 ATCT
129 ATCT
* * * *
749590 AAAATGGAAGACTTTTTGGCAATTTATGAAATGAAAGCCTTTATGGC
1 AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGC
749637 GATCTATGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 44 0.28
132 113 0.71
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (132 bp):
AAAATGGAAGCCTTTGTGGCAATCTATGAAATGAAAGCCTTTGTGGCATATCTGAAATGGAAGCC
TTTGTGGCAATATATAAAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTATGGCATAT
CT
Found at i:749644 original size:27 final size:27
Alignment explanation
Indices: 749327--749644 Score: 352
Period size: 27 Copynumber: 12.0 Consensus size: 27
749317 ACATGCCAAA
*
749327 AAATGGAAGCCTTTGTAGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
749354 AAATGGAAGTCTTTGTGGCGTATC--TG
1 AAATGGAAGCCTTTGTGGC-AATCTATG
* *
749380 AAATGGAAGCCTTTGTGGCAATATATC
1 AAATGGAAGCCTTTGTGGCAATCTATG
749407 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
749434 AAATGGAAACC-TTATGGCATATC--TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
*
749459 AAATGGAAGCCTTTGTGGCAATCCATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
*
749486 AAATGAAAGCCTTTGTGGCATAT-T-TG
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
*
749512 AAATGGAAGTCTTTGTGGCATATCTA--
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
749538 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
749565 AAATAGAAGCCTTTGTGTCATATCTA--
1 AAATGGAAGCCTTTGTGGCA-ATCTATG
* * *
749591 AAATGGAAGACTTTTTGGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* * *
749618 AAATGAAAGCCTTTATGGCGATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
749645 GAAAGGGTTA
Statistics
Matches: 246, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
25 26 0.11
26 92 0.37
27 118 0.48
28 10 0.04
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:749836 original size:27 final size:27
Alignment explanation
Indices: 749806--749876 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
749796 TGGTATGGCA
*
749806 AACACTAAAGGAATAGTACATATAGAG
1 AACACTGAAGGAATAGTACATATAGAG
* * *
749833 AACATTGAAGGAAT-GATACATATGGCG
1 AACACTGAAGGAATAG-TACATATAGAG
*
749860 AACACTGTAGGAATAGT
1 AACACTGAAGGAATAGT
749877 GTGTATGGCG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.03
27 34 0.94
28 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (27 bp):
AACACTGAAGGAATAGTACATATAGAG
Found at i:754845 original size:50 final size:52
Alignment explanation
Indices: 754782--754928 Score: 201
Period size: 50 Copynumber: 2.9 Consensus size: 52
754772 AGTGAAAGTG
* *
754782 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGAT-
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGATA
* ** *
754833 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTATTG-AATGGTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGATA
* *
754883 ATGGTCACATGTGTAGTACTATGTGCAAGCTACTATGTGAACCGAA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
754929 CATCATTGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 5 0.06
50 38 0.46
51 38 0.46
52 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (52 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAATGATA
Found at i:754870 original size:26 final size:26
Alignment explanation
Indices: 754840--754921 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
754830 GATAGGTCGC
754840 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
754866 ATGTGTATTGA--ATG-GTAATGG-TCAC-
1 ATGTGTAGT-ACTATGTG-CA-GGCT-ACT
*
754891 ATGTGTAGTACTATGTGCAAGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
754917 ATGTG
1 ATGTG
754922 AACCGAACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 18
0.65 0.08 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.38
26 22 0.52
27 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:754979 original size:45 final size:45
Alignment explanation
Indices: 754928--755014 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
754918 TGTGAACCGA
* *
754928 ACATCATTGATTAGTAAAGTGGTTCCTATGTGCTGATTCCACTGG
1 ACATCATTGATTAATAAAGTGGTTCCTATGTGCTGAATCCACTGG
* * *
754973 ACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCCAC
1 ACATCATTGATTAATAAAGTGGTTCCTATGTGCTGAATCCAC
755015 CGAGTATCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (45 bp):
ACATCATTGATTAATAAAGTGGTTCCTATGTGCTGAATCCACTGG
Found at i:757607 original size:3 final size:3
Alignment explanation
Indices: 757587--757676 Score: 76
Period size: 3 Copynumber: 30.3 Consensus size: 3
757577 AATACTAAAT
* * * * * *
757587 ATA ATA ATG ATA ACA ATA ATA AGA ATA AGT- ATA ATA ACA CTA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA
* * *
757632 ATA ATA ATA ATA ATA AGA ATA TTA ATA A-A ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
757677 GGACTAATTT
Statistics
Matches: 66, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
2 3 0.05
3 62 0.94
4 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:757645 original size:15 final size:14
Alignment explanation
Indices: 757570--757670 Score: 69
Period size: 15 Copynumber: 6.9 Consensus size: 14
757560 ATGAATATAC
*
757570 AAAAT-ATAATACT
1 AAAATAATAATAAT
*
757583 AAATATAATAATGAT
1 AAA-ATAATAATAAT
*
757598 AACAATAATAAGAAT
1 AA-AATAATAATAAT
* * *
757613 AAGTATAATAACACT
1 AA-AATAATAATAAT
*
757628 AATGATAATAATAAT
1 AA-AATAATAATAAT
* *
757643 AATAAGAATATTAAT
1 AA-AATAATAATAAT
757658 AAAATAATAATAA
1 AAAATAATAATAA
757671 AAATAAGGAC
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
13 3 0.04
14 11 0.16
15 53 0.78
16 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:759104 original size:35 final size:35
Alignment explanation
Indices: 759047--759156 Score: 168
Period size: 35 Copynumber: 3.1 Consensus size: 35
759037 AATCCAACTG
759047 AAACACACCAGATGCTCATAAGAGCTAATCCATCCA
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCCA
* * *
759083 GAACACATCAATGCTCATAAGAGCTAATCCATCTA
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCA
*
759118 AAACACACCAATGCTCATAAGAGAT-ATCCATCCA
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCA
759152 AAACA
1 AAACA
759157 TGCCAAAACA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 13 0.19
35 46 0.69
36 8 0.12
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCA
Found at i:762205 original size:51 final size:50
Alignment explanation
Indices: 762143--762331 Score: 247
Period size: 51 Copynumber: 3.7 Consensus size: 50
762133 ATACTCGGTT
* *
762143 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATCTGGTA
* * *
762194 CACGTAGTAGCCTGCACATAGTACTACACATGTGATCGA-AGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATATC-ATCTGGTA
* * *
762245 CGCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCA-TCTGGTA
*
762295 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
762332 TAGCAACTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
49 1 0.01
50 44 0.37
51 72 0.61
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATCTGGTA
Found at i:762322 original size:101 final size:101
Alignment explanation
Indices: 762145--762329 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
762135 ACTCGGTTCA
* * * *
762145 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCTGATACACATAGTAGCCTGCA
*
762210 CATAGTACTACACATGTGATCGAAGCTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
*
762247 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCTGGTACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCTGATACACATAGTAGCCTGCA
762311 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
762330 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCTGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:762514 original size:16 final size:16
Alignment explanation
Indices: 762489--762520 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
762479 ATCTAGTCCA
762489 AAAATCACATTTTTGC
1 AAAATCACATTTTTGC
*
762505 AAAATTACATTTTTGC
1 AAAATCACATTTTTGC
762521 CCCTAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAATCACATTTTTGC
Found at i:764842 original size:17 final size:16
Alignment explanation
Indices: 764822--764866 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
764812 AAAATTATTT
764822 AATTAATAATTAAATTA
1 AATTAATAATTAAA-TA
*
764839 AATTAATTAATTGAATA
1 AATTAA-TAATTAAATA
764856 AA-TAATAATTA
1 AATTAATAATTA
764867 TTTGGGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.20
16 3 0.12
17 10 0.40
18 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTAATAATTAAATA
Found at i:768077 original size:13 final size:13
Alignment explanation
Indices: 768059--768103 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
768049 TTTAAATAAA
768059 CAGTTAATAAAAT
1 CAGTTAATAAAAT
* *
768072 CAGTTAGTCAAAT
1 CAGTTAATAAAAT
*
768085 CAGTTAATAGAAT
1 CAGTTAATAAAAT
768098 CAGTTA
1 CAGTTA
768104 GTCAAACCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (13 bp):
CAGTTAATAAAAT
Found at i:768088 original size:26 final size:26
Alignment explanation
Indices: 768059--768109 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
768049 TTTAAATAAA
768059 CAGTTAATAAAATCAGTTAGTCAAAT
1 CAGTTAATAAAATCAGTTAGTCAAAT
*
768085 CAGTTAATAGAATCAGTTAGTCAAA
1 CAGTTAATAAAATCAGTTAGTCAAA
768110 CCAGCAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (26 bp):
CAGTTAATAAAATCAGTTAGTCAAAT
Found at i:768124 original size:26 final size:26
Alignment explanation
Indices: 768059--768125 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
768049 TTTAAATAAA
* * *
768059 CAGTTAATAAAATCAGTTAGTCAAAT
1 CAGTCAATACAATCAGTTAGTCAAAC
* *
768085 CAGTTAATAGAATCAGTTAGTCAAAC
1 CAGTCAATACAATCAGTTAGTCAAAC
768111 CAG-CAATTACAATCA
1 CAGTCAA-TACAATCA
768126 ACTATCAGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 2 0.06
26 34 0.94
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (26 bp):
CAGTCAATACAATCAGTTAGTCAAAC
Found at i:768373 original size:20 final size:20
Alignment explanation
Indices: 768328--768376 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
768318 TTTGTAATGG
*
768328 TTATATCTTAATACTTAAAA
1 TTATATTTTAATACTTAAAA
768348 -TATATTTTATATA-TTAAAA
1 TTATATTTTA-ATACTTAAAA
768367 TTATATTTTA
1 TTATATTTTA
768377 GAAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATTTTAATACTTAAAA
Found at i:768498 original size:38 final size:36
Alignment explanation
Indices: 768426--768501 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 36
768416 TATATTTAAT
** **
768426 TTATTAAAATATTAATAATAAATTATTTTTATATTA
1 TTATTAAAATATTAATAATAAAAAATTTAAATATTA
*
768462 TTATTAAAATATCATAATATTAAAAAATTTAAATATTA
1 TTATTAAAATAT--TAATAATAAAAAATTTAAATATTA
768500 TT
1 TT
768502 TAAATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 12 0.36
38 21 0.64
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TTATTAAAATATTAATAATAAAAAATTTAAATATTA
Found at i:771188 original size:3 final size:3
Alignment explanation
Indices: 771180--771220 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
771170 GTTACTTTTG
771180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
771221 AAATACCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:771669 original size:17 final size:17
Alignment explanation
Indices: 771649--771682 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
771639 ATAAATATTT
*
771649 TTTTGTTATCTTATATA
1 TTTTGTAATCTTATATA
*
771666 TTTTGTAATTTTATATA
1 TTTTGTAATCTTATATA
771683 CACATACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTGTAATCTTATATA
Found at i:775308 original size:20 final size:20
Alignment explanation
Indices: 775283--775322 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
775273 TTCACCTCAT
*
775283 GCATCGCATCATATGCATTA
1 GCATCGCATCATATACATTA
775303 GCATCGCATCATATACATTA
1 GCATCGCATCATATACATTA
775323 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATACATTA
Found at i:782165 original size:23 final size:23
Alignment explanation
Indices: 782132--782177 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
782122 ACTTGATAGA
782132 GGGAAAAAGGCTAAAGGCTATTC
1 GGGAAAAAGGCTAAAGGCTATTC
*
782155 GGGAAAGAGGCTAAAGGCTATTC
1 GGGAAAAAGGCTAAAGGCTATTC
782178 AGCATGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.33, T:0.17
Consensus pattern (23 bp):
GGGAAAAAGGCTAAAGGCTATTC
Found at i:783507 original size:100 final size:100
Alignment explanation
Indices: 783335--783729 Score: 657
Period size: 100 Copynumber: 4.0 Consensus size: 100
783325 ATGGAGCGGG
* *
783335 TTGCAATTAAAAAGATTGAAGCCATAACGG-TGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
* *
783399 TTGAAGCTACGACGGCGAATTTGGTTTCCCTGATA
66 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
*
783434 TTGCAATTAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
783499 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
66 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
783534 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
*
783599 TTGAAGCTACGACGGCGGATCTGGTTTCCCTAATA
66 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
* * * **
783634 TTGCAATTAAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCGGTGGAACAG
1 TTGCAATT-AAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAG
* *
783699 ATTGAAGCTACGACGGCAGATCTAGTTTCCC
65 ATTGAAGCTACGACGGCGGATCTGGTTTCCC
783730 CAACATTGCA
Statistics
Matches: 280, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
99 28 0.10
100 172 0.61
101 80 0.29
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGGAACAGA
TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
Found at i:783729 original size:50 final size:50
Alignment explanation
Indices: 783382--783755 Score: 268
Period size: 50 Copynumber: 7.5 Consensus size: 50
783372 ACTTCCTTAG
* * * *
783382 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGAATTTGGTTTCCCTGA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * ** * * * * * * *
783432 TATTGCAATTAAAAAGATTGAAGCCACAACGACGGATCTTA-CTTCCTTAG
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTAA
* *
783482 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * ** * * * * * *
783532 TATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCTTAG
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTAA
*
783582 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * ** * * * * **
783632 TATTGCAATTAAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGG
1 CAGTGCAA-TGGAACAGATTGAAGCTACGACGGCGGATC-TAGTTTCCCTAA
* ** * *
783683 CGGTGCGGTGGAACAGATTGAAGCTACGACGGCAGATCTAGTTTCCCCAA
1 CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
* * * *
783733 CATTGCAGTTGAACAAATTGAAG
1 CAGTGCAATGGAACAGATTGAAG
783756 ATTACAGATC
Statistics
Matches: 235, Mismatches: 82, Indels: 14
0.71 0.25 0.04
Matches are distributed among these distances:
49 4 0.02
50 194 0.83
51 36 0.15
52 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
CAGTGCAATGGAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAA
Found at i:785938 original size:17 final size:17
Alignment explanation
Indices: 785918--785951 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
785908 ATAAATATTT
*
785918 TTTTGTTATCTTATATA
1 TTTTGTAATCTTATATA
*
785935 TTTTGTAATTTTATATA
1 TTTTGTAATCTTATATA
785952 CACATACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTGTAATCTTATATA
Found at i:790063 original size:25 final size:26
Alignment explanation
Indices: 790013--790063 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
790003 AAATGAATAA
790013 TAAAATTATTATTTTATTTAAATATT
1 TAAAATTATTATTTTATTTAAATATT
790039 TAAAA-TATTATTTTATTTAAATATT
1 TAAAATTATTATTTTATTTAAATATT
790064 AATATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAAAATTATTATTTTATTTAAATATT
Found at i:790705 original size:8 final size:8
Alignment explanation
Indices: 790692--790716 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
790682 ATAGATACAA
790692 TTTTTAAT
1 TTTTTAAT
790700 TTTTTAAT
1 TTTTTAAT
790708 TTTTTAAT
1 TTTTTAAT
790716 T
1 T
790717 CCTTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:797933 original size:24 final size:25
Alignment explanation
Indices: 797905--797951 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
797895 AGATTGTTAA
797905 AACAACTTC-TAAAG-AAAACTCAAG
1 AACAA-TTCTTAAAGAAAAACTCAAG
*
797929 AACAATTCTTGAAGAAAAACTCA
1 AACAATTCTTAAAGAAAAACTCA
797952 GAGAGAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 9 0.45
25 8 0.40
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (25 bp):
AACAATTCTTAAAGAAAAACTCAAG
Found at i:803353 original size:13 final size:13
Alignment explanation
Indices: 803331--803361 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
803321 TTTCCAAAAA
*
803331 TTATGCATTTATT
1 TTATGAATTTATT
803344 TTATGAATTTATT
1 TTATGAATTTATT
803357 TTATG
1 TTATG
803362 TTGACTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:803709 original size:50 final size:50
Alignment explanation
Indices: 803457--803708 Score: 380
Period size: 50 Copynumber: 5.1 Consensus size: 50
803447 ATTTGGGTAA
* *
803457 AGAGGTCCCATGTAAGATCATGTCTGGGACACGGCGTTGGCACCGA-ATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
803506 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
803556 AGAGGTCCCCTGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
803606 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** * * * * *
803656 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
803706 AGA
1 AGA
803709 ACATCCCATG
Statistics
Matches: 188, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
49 44 0.23
50 144 0.77
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:850369 original size:10 final size:10
Alignment explanation
Indices: 850354--850383 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
850344 CGGAGTACTG
850354 GTTGAAAGGA
1 GTTGAAAGGA
850364 GTTGAAAGGA
1 GTTGAAAGGA
850374 GTTGAAAGGA
1 GTTGAAAGGA
850384 TCCTCGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (10 bp):
GTTGAAAGGA
Found at i:855779 original size:15 final size:16
Alignment explanation
Indices: 855746--855779 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
855736 TTATTCTATT
855746 TTTCTTCACCTACTCC
1 TTTCTTCACCTACTCC
*
855762 TTTCTTCCCCTA-TCC
1 TTTCTTCACCTACTCC
855777 TTT
1 TTT
855780 GCCAAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTCTTCACCTACTCC
Found at i:857078 original size:22 final size:22
Alignment explanation
Indices: 857053--857097 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
857043 ATTATGATGA
857053 TTGACATG-ATGAGATTGATATT
1 TTGACATGTATGAGATT-ATATT
* *
857075 TTGATATGTATGTGATTATATT
1 TTGACATGTATGAGATTATATT
857097 T
1 T
857098 GTGTTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
TTGACATGTATGAGATTATATT
Found at i:869008 original size:36 final size:36
Alignment explanation
Indices: 868968--869039 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
868958 TTGGTAGACA
* *
868968 TTTTTGCAGTTATTTCCGCATTCTTCATATAGTTCT
1 TTTTTGCAGTTATTTCAGCATTCTTCATAAAGTTCT
* * *
869004 TTTTTGCAGTTCTTTCAGCCTTCTTCGTAAAGTTCT
1 TTTTTGCAGTTATTTCAGCATTCTTCATAAAGTTCT
869040 CTTGATCTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.15, C:0.21, G:0.12, T:0.51
Consensus pattern (36 bp):
TTTTTGCAGTTATTTCAGCATTCTTCATAAAGTTCT
Found at i:873985 original size:15 final size:16
Alignment explanation
Indices: 873967--874000 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
873957 AGATTAAATT
873967 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
873982 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
873998 AAT
1 AAT
874001 GAGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:889033 original size:11 final size:11
Alignment explanation
Indices: 888990--889033 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 11
888980 CCAACATATC
888990 AATCTATACAGA
1 AATCT-TACAGA
889002 AATCTTACAGTAA
1 AATCTTACAG--A
889015 ACATCTTACAGA
1 A-ATCTTACAGA
889027 AATCTTA
1 AATCTTA
889034 ACAAGGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.38
12 7 0.24
13 2 0.07
14 9 0.31
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (11 bp):
AATCTTACAGA
Found at i:896389 original size:40 final size:40
Alignment explanation
Indices: 896330--896477 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
896320 GAGCATTGGA
*
896330 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
896370 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
896410 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
** *
896450 ATACGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
896478 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:900847 original size:20 final size:21
Alignment explanation
Indices: 900816--900863 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
900806 TGCTTTAAGA
900816 GCACCGAA-GTGCAAGT-AGGG
1 GCACC-AATGTGCAAGTCAGGG
*
900836 GCACCAATGTGCAATTCAGGG
1 GCACCAATGTGCAAGTCAGGG
*
900857 GTACCAA
1 GCACCAA
900864 AGTACAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (21 bp):
GCACCAATGTGCAAGTCAGGG
Found at i:900862 original size:21 final size:20
Alignment explanation
Indices: 900824--900863 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
900814 GAGCACCGAA
900824 GTGCAAGTAGGGGCACCAAT
1 GTGCAAGTAGGGGCACCAAT
* *
900844 GTGCAATTCAGGGGTACCAA
1 GTGCAAGT-AGGGGCACCAA
900864 AGTACAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (20 bp):
GTGCAAGTAGGGGCACCAAT
Found at i:921219 original size:17 final size:18
Alignment explanation
Indices: 921195--921232 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
921185 TTTCCAAATG
921195 TTTCCCATTTC-A-TCAT
1 TTTCCCATTTCTATTCAT
921211 TTTCACCATTTCTATTCAT
1 TTTC-CCATTTCTATTCAT
921230 TTT
1 TTT
921233 TTTTATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 1 0.05
19 7 0.37
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTCCCATTTCTATTCAT
Found at i:927236 original size:27 final size:27
Alignment explanation
Indices: 927206--927382 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
927196 AAATTGTACA
* *
927206 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
927233 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
927260 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
927287 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
927315 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
927342 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
927369 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
927383 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:927319 original size:82 final size:81
Alignment explanation
Indices: 927206--927361 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
927196 AAATTGTACA
* * * *
927206 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
927270 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
927287 GCACTAAGAGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
927352 TGCGAGTTGA
65 TGCGAATTGA
927362 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:929937 original size:59 final size:59
Alignment explanation
Indices: 929865--929983 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
929855 TGACAAGTAA
* *
929865 ATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTTGTT
1 ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCATATTAAAATTTCGTT
*
929924 ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCGTATTAAAATTTCGTT
1 ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCATATTAAAATTTCGTT
929983 A
1 A
929984 AGAAATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (59 bp):
ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCATATTAAAATTTCGTT
Found at i:933077 original size:21 final size:21
Alignment explanation
Indices: 933051--933091 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
933041 AGAATATAAA
933051 TTATAACTCATAATTATTTTT
1 TTATAACTCATAATTATTTTT
* **
933072 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
933092 CCAAAGTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATAACTCATAATTATTTTT
Found at i:933335 original size:16 final size:16
Alignment explanation
Indices: 933314--933345 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
933304 GTTTTGTTGC
*
933314 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
933330 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
933346 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:933638 original size:51 final size:51
Alignment explanation
Indices: 933569--933763 Score: 209
Period size: 51 Copynumber: 3.8 Consensus size: 51
933559 AATACCGGTT
* * *
933569 CACATAGTAGCCTACACATAGTACTACGCATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTA
* * * * *
933620 CACGTAGTAGCTTGCACATAGTACTACACACGTGA--TTGAAGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT-CA-CTATCTGGTA
** * * *
933671 CGTATAGTAGTCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCTGGTA
*
933721 CACATAGTAGCCTGCACATAGTACTACACAGGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
933764 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
49 5 0.04
50 40 0.35
51 67 0.59
53 1 0.01
54 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTA
Found at i:933730 original size:101 final size:102
Alignment explanation
Indices: 933572--933755 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 102
933562 ACCGGTTCAC
* * * *
933572 ATAGTAGCCTACACATAGTACTACGCATGTGACCATCACTATCTGATACACGTAGTAGCTTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCTGATACACATAGTAGCCTGCAC
933637 ATAGTACTACACACGTGATTGAAGCTATCTGGTACGT
66 ATAGTACTACACACGTGATTGAAGCTATCTGGTACGT
* * * *
933674 ATAGTAGTCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGTACACATAGTAGCCTGCA
1 ATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCTGATACACATAGTAGCCTGCA
*
933737 CATAGTACTACACAGGTGA
65 CATAGTACTACACACGTGA
933756 CCATCACTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 38 0.53
102 30 0.42
103 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (102 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCTGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATTGAAGCTATCTGGTACGT
Found at i:940621 original size:47 final size:47
Alignment explanation
Indices: 940563--940957 Score: 655
Period size: 47 Copynumber: 8.4 Consensus size: 47
940553 CAACCAAGAC
*
940563 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
940610 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
940657 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
940704 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
940751 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
940798 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
940845 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
940892 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
940939 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
940958 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 331 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:941132 original size:37 final size:37
Alignment explanation
Indices: 941076--941154 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
941066 CCGAGCTCTA
* * *
941076 AAGACCTGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
941113 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
941150 AAGAC
1 AAGAC
941155 TTCATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:946810 original size:19 final size:19
Alignment explanation
Indices: 946783--946821 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
946773 TTATTCCAGC
946783 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
946802 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
946821 A
1 A
946822 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:946833 original size:54 final size:54
Alignment explanation
Indices: 946773--946898 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
946763 CAACAATAAA
* * *
946773 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
946827 TTATTCCAGCAACTTAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
946881 TTATTCCAACAACTAAAT
1 TTATTCCAGCAACTAAAT
946899 ACTTATTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
Found at i:946864 original size:19 final size:19
Alignment explanation
Indices: 946837--946873 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
946827 TTATTCCAGC
*
946837 AACTTAATTAAATAAGATA
1 AACTCAATTAAATAAGATA
*
946856 AACTCAATTAACTAAGAT
1 AACTCAATTAAATAAGAT
946874 GAGTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AACTCAATTAAATAAGATA
Found at i:949216 original size:19 final size:19
Alignment explanation
Indices: 949192--949235 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
949182 CTCCCGTTCG
949192 GCTCTTGCTCGCTGGCCCC
1 GCTCTTGCTCGCTGGCCCC
949211 GCTCTTGCTCGCTGGCCCC
1 GCTCTTGCTCGCTGGCCCC
949230 GCTCTT
1 GCTCTT
949236 CTACACGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.00, C:0.45, G:0.25, T:0.30
Consensus pattern (19 bp):
GCTCTTGCTCGCTGGCCCC
Found at i:952907 original size:19 final size:19
Alignment explanation
Indices: 952880--952918 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
952870 TTATTCCAGC
952880 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
952899 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
952918 A
1 A
952919 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:952930 original size:54 final size:54
Alignment explanation
Indices: 952870--952995 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
952860 CAACAATAAA
* * *
952870 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
952924 TTATTCCAGCAACTTAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
952978 TTATTCCAACAACTAAAT
1 TTATTCCAGCAACTAAAT
952996 ACTTATTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
Found at i:952961 original size:19 final size:19
Alignment explanation
Indices: 952934--952970 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
952924 TTATTCCAGC
*
952934 AACTTAATTAAATAAGATA
1 AACTCAATTAAATAAGATA
*
952953 AACTCAATTAACTAAGAT
1 AACTCAATTAAATAAGAT
952971 GAGTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AACTCAATTAAATAAGATA
Found at i:957695 original size:25 final size:25
Alignment explanation
Indices: 957659--957719 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
957649 CTCTTAAATT
*
957659 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
957684 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
957709 TTAATTAAATT
1 TTAATTAAATT
957720 TTGTAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:968479 original size:27 final size:27
Alignment explanation
Indices: 968426--968479 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
968416 ATCATGCTTT
* **
968426 TACACATAGCTGTGGACAAGCTTCCAA
1 TACACATAGCTGTGGACAAACCACCAA
* *
968453 TACACATAGTTGTGGATAAACCACCAA
1 TACACATAGCTGTGGACAAACCACCAA
968480 ATTTGCCGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (27 bp):
TACACATAGCTGTGGACAAACCACCAA
Found at i:968555 original size:168 final size:168
Alignment explanation
Indices: 968274--968593 Score: 577
Period size: 168 Copynumber: 1.9 Consensus size: 168
968264 AAATTGCGGT
968274 CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
1 CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
*
968339 TTCCTCCTTACAAATGTCCCAACCCTATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
66 TTCCTCCTTACAAATGTCCCAACCCCATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
968404 ATAGGCATGAAAATCATGCTTTTACACATAGCTGTGGA
131 ATAGGCATGAAAATCATGCTTTTACACATAGCTGTGGA
* * *
968442 CAAGCTTCCAATACACATAGTTGTGGATAAACCACCAAATTTGCCGATTATTAAACTGCCACATC
1 CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
* *
968507 TTCCTCCTTACAAATGTCCTAACCCCATGTAATGCATCATGTCATACAAATCTCATTGCAAATCA
66 TTCCTCCTTACAAATGTCCCAACCCCATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
*
968572 ATAGGCATGATAATCATGCTTT
131 ATAGGCATGAAAATCATGCTTT
968594 CAAAATTTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 145 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (168 bp):
CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
TTCCTCCTTACAAATGTCCCAACCCCATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
ATAGGCATGAAAATCATGCTTTTACACATAGCTGTGGA
Found at i:970862 original size:10 final size:10
Alignment explanation
Indices: 970847--970908 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
970837 TTTGAACCAT
*
970847 TACCAATTCG
1 TACCAATTCA
*
970857 TACCAAATACCA
1 TACC-AAT-TCA
*
970869 TACCATTTCA
1 TACCAATTCA
970879 TACCAATTCCA
1 TACCAATT-CA
* *
970890 TACCATTTCG
1 TACCAATTCA
970900 TACCAATTC
1 TACCAATTC
970909 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:970892 original size:21 final size:21
Alignment explanation
Indices: 970847--970909 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
970837 TTTGAACCAT
* *
970847 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
970869 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
970890 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
970910 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:980748 original size:12 final size:12
Alignment explanation
Indices: 980731--980755 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
980721 AAAAACATAG
980731 AAAACATATAAA
1 AAAACATATAAA
980743 AAAACATATAAA
1 AAAACATATAAA
980755 A
1 A
980756 GGAAACTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAACATATAAA
Found at i:982826 original size:26 final size:26
Alignment explanation
Indices: 982797--982852 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
982787 CTATTAACTG
982797 ATGTTATTAAAAAGTCTACGGGTTTT
1 ATGTTATTAAAAAGTCTACGGGTTTT
982823 ATGTTATTAAAAAGTCTACGGGTTTT
1 ATGTTATTAAAAAGTCTACGGGTTTT
982849 ATGT
1 ATGT
982853 GGGGAGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (26 bp):
ATGTTATTAAAAAGTCTACGGGTTTT
Found at i:990222 original size:15 final size:15
Alignment explanation
Indices: 990202--990231 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
990192 TATATTATTA
990202 ATTAATACATATGAT
1 ATTAATACATATGAT
990217 ATTAATACATATGAT
1 ATTAATACATATGAT
990232 TTTGGACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTAATACATATGAT
Found at i:993306 original size:25 final size:25
Alignment explanation
Indices: 993255--993308 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
993245 TTTTCTCAAA
*
993255 AATTTAATTAATATAAAATATTAAT
1 AATTTAATAAATATAAAATATTAAT
993280 AATTTAATAAAT-TAATAA-ATTAGAT
1 AATTTAATAAATATAA-AATATTA-AT
993305 AATT
1 AATT
993309 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTTAATAAATATAAAATATTAAT
Found at i:994029 original size:30 final size:30
Alignment explanation
Indices: 993972--994033 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
993962 GTTTTCTGAA
* * *
993972 AATATTTACAAAAAGATGCATCTAATTTTT
1 AATATTTACAAAAAGATGAACCAAATTTTT
994002 AATATTTACAAAAAGA-GAAACCAAATTTTT
1 AATATTTACAAAAAGATG-AACCAAATTTTT
994032 AA
1 AA
994034 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGATGAACCAAATTTTT
Found at i:1002220 original size:20 final size:20
Alignment explanation
Indices: 1002160--1002221 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
1002150 TACTAATTAG
* * *
1002160 AACATATTTAATAGACTTAA
1 AACATATTTAACACACATAA
* **
1002180 GACATATTAATAACATGCATAA
1 AACATATT--TAACACACATAA
1002202 AACATATTTAACACACATAA
1 AACATATTTAACACACATAA
1002222 TTAAATTTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.29
Consensus pattern (20 bp):
AACATATTTAACACACATAA
Found at i:1002283 original size:9 final size:9
Alignment explanation
Indices: 1002271--1002304 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1002261 TTAATTGAGT
1002271 TAATTTAAC
1 TAATTTAAC
1002280 TAATTTAAC
1 TAATTTAAC
* *
1002289 TAATTCAAA
1 TAATTTAAC
1002298 TAATTTA
1 TAATTTA
1002305 TTCCAACAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATTTAAC
Found at i:1009696 original size:43 final size:43
Alignment explanation
Indices: 1009558--1009697 Score: 199
Period size: 43 Copynumber: 3.3 Consensus size: 43
1009548 AAAATGCCAC
** *
1009558 TAAAGACCATTACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
* * ** *
1009601 TAAAGACAAGGAACTTTAGTAGCGCTTTTCCCACAAACGCTGT
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
*
1009644 TAAAAACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
1009687 TAAAGACCAGG
1 TAAAGACCAGG
1009698 TGTAACACCC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
Found at i:1017080 original size:22 final size:22
Alignment explanation
Indices: 1017054--1017113 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1017044 ACGCATCAGT
* *
1017054 ATATGAGAGTCCTTTGTGGGAC
1 ATATGAGAGCCCTTTATGGGAC
* *
1017076 GTATGAGAGCCCTATATGGGAC
1 ATATGAGAGCCCTTTATGGGAC
*
1017098 ATATGAAAGCCCTTTA
1 ATATGAGAGCCCTTTA
1017114 AGAGTGTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (22 bp):
ATATGAGAGCCCTTTATGGGAC
Found at i:1019914 original size:16 final size:17
Alignment explanation
Indices: 1019893--1019933 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
1019883 TTTCTATTTC
*
1019893 TTTATTATGTTT-TCAT
1 TTTATTATCTTTATCAT
1019909 TTTATTATCTTTATCAT
1 TTTATTATCTTTATCAT
1019926 TATTATTA
1 T-TTATTA
1019934 AAGTTACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 5 0.23
18 6 0.27
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTATTATCTTTATCAT
Found at i:1020212 original size:43 final size:43
Alignment explanation
Indices: 1019992--1020193 Score: 305
Period size: 43 Copynumber: 4.7 Consensus size: 43
1019982 AAAAAATGCT
* *
1019992 GCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* * * * *
1020035 ACTAAAGACCATGACCTTTAGCAGCCCTTTTATCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* *
1020078 GCTAAAGACCAAGACCTTTAGCGGCGTTTTTACCACAAATGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
1020121 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* *
1020164 GCTAAAGAACAAGACCTTTAGCAGCGCTTT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTT
1020194 CTCCAAAAAT
Statistics
Matches: 142, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 142 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (43 bp):
GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
Found at i:1021161 original size:23 final size:23
Alignment explanation
Indices: 1021127--1021589 Score: 248
Period size: 23 Copynumber: 20.3 Consensus size: 23
1021117 AATGGAAAGT
*
1021127 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
1021150 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTAC
*
1021173 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
1021196 AGCACTTAAACA-TATCAA-TTATC
1 AGCACTTAAACACT-TCAATTTA-C
* * * *
1021219 AACATTTATACACCTC-ATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
1021241 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
*
1021264 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
1021287 AACACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
1021310 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
1021333 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
1021356 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
1021378 AACGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
1021401 TA-CAAC-TAAATACTTCAATTTGC
1 -AGC-ACTTAAACACTTCAATTTAC
1021424 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * * * *
1021447 AACATTTAGACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
1021470 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
1021493 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
*
1021515 AGCGA-TAAAACA-TCTCAATTT-C
1 AGC-ACTTAAACACT-TCAATTTAC
* * *
1021537 TAGTAAC-TAAATACTTCAATTTGC
1 -AG-CACTTAAACACTTCAATTTAC
*
1021561 AGCACTTAAACACTTTAATTTAC
1 AGCACTTAAACACTTCAATTTAC
*
1021584 AACACT
1 AGCACT
1021590 ATCAAACTTC
Statistics
Matches: 333, Mismatches: 71, Indels: 72
0.70 0.15 0.15
Matches are distributed among these distances:
22 56 0.17
23 270 0.81
24 7 0.02
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:1021305 original size:91 final size:91
Alignment explanation
Indices: 1021135--1021587 Score: 384
Period size: 91 Copynumber: 5.0 Consensus size: 91
1021125 GTAGCACTTT
* *
1021135 AACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCA
1 AACACCTC-ATTTACAGCGATAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGCA
1021200 CTTAAACATATCAA-TTATCAACATTTA
65 CTTAAACATATCAATTTA-CAACATTTA
* * *
1021227 TACACCTCATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAACAC
1 AACACCTCATTTACAGCGATAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGCAC
*
1021292 TTAAACACT-TCAATTTACAGCATTTA
66 TTAAACA-TATCAATTTACAACATTTA
* * * * * * * ** * * * *
1021318 AACACTTAAATTTGCAGC-ACTTAAACATATCAATTAACAACATTTATACACCTCAA-TTACAAC
1 AACACCT-CATTTACAGCGA-TAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGC
* * * * **
1021381 GA-TAAAACATCTCAATTTCCTACAACTA
64 -ACTTAAACATATCAATTTACAACATTTA
* * * * * ** * *
1021409 AATACTTCAATTTGCAGC-ACTTAAACA-CTTCAATTTACAACATTTAGACACTTAAATTTGCAG
1 AACACCTC-ATTTACAGCGA-TAAAACATC-TCAATTTACAGCAACTAAACACTTCAATTTGCAG
*
1021472 CACTTAAACATATCAATTAACAACATTTA
63 CACTTAAACATATCAATTTACAACATTTA
* * * *
1021501 TACACCTCAATTACAGCGATAAAACATCTCAATTT-CTAGTAACTAAATACTTCAATTTGCAGCA
1 AACACCTCATTTACAGCGATAAAACATCTCAATTTAC-AGCAACTAAACACTTCAATTTGCAGCA
*
1021565 CTTAAACACT-TTAATTTACAACA
65 CTTAAACA-TATCAATTTACAACA
1021588 CTATCAAACT
Statistics
Matches: 291, Mismatches: 56, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
90 2 0.01
91 211 0.73
92 78 0.27
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (91 bp):
AACACCTCATTTACAGCGATAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGCAC
TTAAACATATCAATTTACAACATTTA
Found at i:1021585 original size:137 final size:137
Alignment explanation
Indices: 1021179--1021587 Score: 703
Period size: 137 Copynumber: 3.0 Consensus size: 137
1021169 TTGCAGCAAC
* * *
1021179 TAAACACTTCAATTTGCAGCACTTAAACATATCAATTATCAACATTTATACACCTCATTTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* * *
1021244 GATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAACACTTAAACACTTCAATTTA
66 GATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
*
1021309 CAGCATT
131 CAACATT
*
1021316 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAAC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
1021381 GATAAAACATCTCAATTTCCTA-CAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTT
66 GATAAAACATCTCAATTT-CTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTT
1021445 ACAACATT
130 ACAACATT
*
1021453 TAGACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* *
1021518 GATAAAACATCTCAATTTCTAGTAACTAAATACTTCAATTTGCAGCACTTAAACACTTTAATTTA
66 GATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
1021583 CAACA
131 CAACA
1021588 CTATCAAACT
Statistics
Matches: 258, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
136 3 0.01
137 253 0.98
138 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (137 bp):
TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
GATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
CAACATT
Found at i:1022008 original size:41 final size:39
Alignment explanation
Indices: 1021925--1022008 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
1021915 GCACAATACA
**
1021925 ATATAAAAAGAATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGAATATATAAATATATGAATGTAGAGAAAT
* * *
1021964 ATATAAAAAGCATATATAAATATATGTATGTCATAGAAACT
1 ATATAAAAAGAATATATAAATATATGAATGT-AGAGAAA-T
1022005 ATAT
1 ATAT
1022009 TCATTTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 29 0.76
40 4 0.11
41 5 0.13
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (39 bp):
ATATAAAAAGAATATATAAATATATGAATGTAGAGAAAT
Found at i:1025370 original size:22 final size:22
Alignment explanation
Indices: 1025329--1025391 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 22
1025319 ATTAAATGAG
1025329 TCAATAAAAACAAGAG-ATGTTAT
1 TCAATAAAAA-AA-AGTATGTTAT
1025352 TCAATAAAAAAAAGTATGTTAT
1 TCAATAAAAAAAAGTATGTTAT
1025374 TCAATAAAAAAAAGTATG
1 TCAATAAAAAAAAGTATG
1025392 CTAAGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 2 0.05
22 27 0.69
23 10 0.26
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAATAAAAAAAAGTATGTTAT
Found at i:1026529 original size:41 final size:41
Alignment explanation
Indices: 1026468--1026663 Score: 243
Period size: 41 Copynumber: 4.8 Consensus size: 41
1026458 GGTGCTTTCT
* * *
1026468 TTAGCGGCGATTTTGAAAAAGCGCCGCTAAAGACCCGAGTA
1 TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
** *
1026509 TTAGCGGCGCTTTTGTAAAAGCGTTGCTAAAGACCCAAGCA
1 TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
* * * * *
1026550 TTAGCGGCTCTTTTTTAGAAGCGCCGCTGAAGACCAGAGCA
1 TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
*
1026591 TTAGCGGCG-TTTTGAGAAAAGCGCCGCTAAAGACCCGAGCA
1 TTAGCGGCGCTTTTG-TAAAAGCGCCGCTAAAGACCCGAGCA
*
1026632 TTAGCGGCGCTTTT-TCAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTGT-AAAAGCGCCGCTAAAG
1026664 CCTCGAAAGG
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.03
41 122 0.94
42 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
Found at i:1028775 original size:40 final size:40
Alignment explanation
Indices: 1028678--1028898 Score: 211
Period size: 40 Copynumber: 5.5 Consensus size: 40
1028668 TTGAATGCTG
* * *
1028678 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AT
** *
1028719 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
1028758 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
1028798 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
**
1028838 TCCGGGTTAAGTCCCGAAGGCA-TTGTATGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
1028876 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGTTAAGTCCCGAAGGCA
1028899 CTTGAACGAG
Statistics
Matches: 151, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.21
40 109 0.72
41 9 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:1036628 original size:40 final size:39
Alignment explanation
Indices: 1036597--1036806 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
1036587 GGACTAAGAT
* *
1036597 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
1036637 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
1036677 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
1036717 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
1036757 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
1036796 CCGAAGGCATT
1 CCGAAGGCATT
1036807 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:1036760 original size:120 final size:120
Alignment explanation
Indices: 1036544--1036806 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
1036534 TTGAATGCTG
* *
1036544 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
1036608 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
1036664 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
1036727 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
1036783 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
1036807 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:1036826 original size:79 final size:80
Alignment explanation
Indices: 1036545--1036841 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
1036535 TGAATGCTGT
* ** * * * **
1036545 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
1036608 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
1036625 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
1036689 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
1036705 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
1036769 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
1036784 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
1036842 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:1041472 original size:12 final size:12
Alignment explanation
Indices: 1041455--1041480 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1041445 TCAATAAAAA
1041455 AATAAAAAAATC
1 AATAAAAAAATC
1041467 AATAAAAAAATC
1 AATAAAAAAATC
1041479 AA
1 AA
1041481 AATGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAAAAATC
Found at i:1041513 original size:15 final size:15
Alignment explanation
Indices: 1041495--1041538 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
1041485 AAAATGATAA
1041495 AAAAAGAGAAAAAGG
1 AAAAAGAGAAAAAGG
*
1041510 AAAAAGA-AAAAA-T
1 AAAAAGAGAAAAAGG
*
1041523 AAAAAAAGAAAAAGG
1 AAAAAGAGAAAAAGG
1041538 A
1 A
1041539 GAGGCCAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAAGAGAAAAAGG
Done.