Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 128 of 253
Found at i:40697274 original size:54 final size:54
Alignment explanation
Indices: 40697078--40697283 Score: 220
Period size: 54 Copynumber: 3.8 Consensus size: 54
40697068 AACTCTGGTT
** * *
40697078 TGTAAAATTACCAAAATATCCC-TAATTTGTGAAATTATCGAAATACCCTCGACC
1 TGTAAAATTACTGAAATA-CCCTTAACTTGTAAAATTATCGAAATACCCTCGACC
* *
40697132 AGTAAAATTACTGAAATA-CCTTCAACTTGTAAAATTACCGAAATACCCTCGACC
1 TGTAAAATTACTGAAATACCCTT-AACTTGTAAAATTATCGAAATACCCTCGACC
** *
40697186 TGTAAAATTACTGAAATACCCTCCACTTGTAAAATTATCGAAATACCCTCGA-T
1 TGTAAAATTACTGAAATACCCTTAACTTGTAAAATTATCGAAATACCCTCGACC
* * * * * * *
40697239 TTTGAAAATTACCGAGATACCCTTGATTTGAAAAATTATAGAAAT
1 TGT-AAAATTACTGAAATACCCTTAACTTGTAAAATTATCGAAAT
40697284 GCCCCTGATT
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 3 0.02
54 121 0.94
55 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
TGTAAAATTACTGAAATACCCTTAACTTGTAAAATTATCGAAATACCCTCGACC
Found at i:40697274 original size:81 final size:81
Alignment explanation
Indices: 40697109--40697283 Score: 194
Period size: 81 Copynumber: 2.2 Consensus size: 81
40697099 CTAATTTGTG
* *
40697109 AAATTATCGAAATACCCTCGACCAGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACCGAA
1 AAATTATCGAAATACCCTCCACCAGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCGAA
*
40697174 ATACCCTCGACCTGTA
66 ATACCCTCGACCTGAA
** * *
40697190 AAATTA-CTGAAATACCCTCCACTTGTAAAATTA-TCGAAATACCCTCGA-TTTTGAAAATTACC
1 AAATTATC-GAAATACCCTCCACCAGTAAAATTACT-GAAATACCCTCAACTTGT-AAAATTACC
* * **
40697252 GAGATACCCTTGATTTGAA
63 GAAATACCCTCGACCTGAA
*
40697271 AAATTATAGAAAT
1 AAATTATCGAAAT
40697284 GCCCCTGATT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
80 5 0.06
81 73 0.94
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (81 bp):
AAATTATCGAAATACCCTCCACCAGTAAAATTACTGAAATACCCTCAACTTGTAAAATTACCGAA
ATACCCTCGACCTGAA
Found at i:40697365 original size:27 final size:27
Alignment explanation
Indices: 40697109--40697377 Score: 136
Period size: 27 Copynumber: 9.9 Consensus size: 27
40697099 CTAATTTGTG
* *** *
40697109 AAATTATCGAAATACCCTCGACCAGTA
1 AAATTATCGAAATACCCTTGATTTGCA
* * *
40697136 AAATTA-CTGAAATA-CCTTCAACTTGTA
1 AAATTATC-GAAATACCCTT-GATTTGCA
* * ** *
40697163 AAATTACCGAAATACCCTCGACCTGTA
1 AAATTATCGAAATACCCTTGATTTGCA
** * *
40697190 AAATTA-CTGAAATACCCTCCACTTGTA
1 AAATTATC-GAAATACCCTTGATTTGCA
*
40697217 AAATTATCGAAATACCCTCGATTTTG-A
1 AAATTATCGAAATACCCTTGA-TTTGCA
* * *
40697244 AAATTACCGAGATACCCTTGATTTGAA
1 AAATTATCGAAATACCCTTGATTTGCA
* * * *
40697271 AAATTATAGAAATGCCCCTGATTTACA
1 AAATTATCGAAATACCCTTGATTTGCA
* ** *
40697298 AGATTAAAGAAATACCTTTGACTTT-CAA
1 AAATTATCGAAATACCCTTGA-TTTGC-A
* * *
40697326 AAATTA-CAAAAATACCATTGGTTTGCA
1 AAATTATC-GAAATACCCTTGATTTGCA
*
40697353 AAATTATCGAAATACCCTTGGTTTG
1 AAATTATCGAAATACCCTTGATTTG
40697378 TAGATTTACC
Statistics
Matches: 196, Mismatches: 33, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
26 9 0.05
27 158 0.81
28 29 0.15
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTATCGAAATACCCTTGATTTGCA
Found at i:40697864 original size:27 final size:27
Alignment explanation
Indices: 40697832--40698220 Score: 225
Period size: 27 Copynumber: 14.4 Consensus size: 27
40697822 GAAATTAATG
* *
40697832 AATACCATTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
40697859 AATACCCCT-AGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTTGTAAAATTACCAA
* *
40697886 AACAACCC-TGGTTTGTAAAATTACCAA
1 AA-TACCCTTGATTTGTAAAATTACCAA
* * * *
40697913 AATATCCC-TAATTTGTGAAATTAGCGA
1 AATA-CCCTTGATTTGTAAAATTACCAA
* *** **
40697940 AATACCCTCGACCAGTAAAATTACTGA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * *
40697967 AATACCTTTGACTTGTAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
40697994 AATACCCTTGACTTGTAAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
** * * **
40698021 AATACCCTCCACTTGTAAAATTTCTGA
1 AATACCCTTGATTTGTAAAATTACCAA
** *
40698048 AATACCCTCAATTT-TGAAAATTACCGA
1 AATACCCTTGATTTGT-AAAATTACCAA
* *
40698075 GATACCCTTGATTTGAAAAATTA-CAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
** * *
40698102 AATACCCTTGATTTACAAGATTA-AAGA
1 AATACCCTTGATTTGTAAAATTACCA-A
* *
40698129 AATACCTTTGACTTT-TAAAAATTACAAA
1 AATACCCTTGA-TTTGT-AAAATTACCAA
* * * *
40698157 AATACCATTGGTTTGCAAAATTATCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* * * * *
40698184 AATACCTTTGGTTTATAGATTTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
40698211 AACACCCTTG
1 AATACCCTTG
40698221 TAGGGTGAAA
Statistics
Matches: 287, Mismatches: 63, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
26 6 0.02
27 256 0.89
28 23 0.08
29 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:40698160 original size:55 final size:54
Alignment explanation
Indices: 40698076--40698193 Score: 139
Period size: 55 Copynumber: 2.2 Consensus size: 54
40698066 AATTACCGAG
* * * *
40698076 ATACCCTTGATTTGAAAAATTACAGAAATACCCTTGATTTACAAGATTA-AAGAA
1 ATACCTTTGATTTGAAAAATTACAAAAATACCATTGATTTACAAAATTATAA-AA
* * * *
40698130 ATACCTTTGACTTTTAAAAATTACAAAAATACCATTGGTTTGCAAAATTATCAAA
1 ATACCTTTGA-TTTGAAAAATTACAAAAATACCATTGATTTACAAAATTATAAAA
40698185 ATACCTTTG
1 ATACCTTTG
40698194 GTTTATAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 9 0.17
55 44 0.81
56 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (54 bp):
ATACCTTTGATTTGAAAAATTACAAAAATACCATTGATTTACAAAATTATAAAA
Found at i:40698197 original size:821 final size:820
Alignment explanation
Indices: 40696611--40698252 Score: 2964
Period size: 821 Copynumber: 2.0 Consensus size: 820
40696601 AAGGGGAAAA
*
40696611 GTGATTAAGACTGAATGCAGGATGTGCCAAAGTTGGTGATCGTGGACTTCAGCACGTGCTCATAA
1 GTGATTAAGACTGAATGCAGGATGTGCCAAAGTTGGTGATCGTGGACTTCAGCACATGCTCATAA
* * *
40696676 ATAGATGTGTATTTCGCACTACTCTAGCTGTAGAATGGCAAATGCCGAAATGCCAGTCACACGGT
66 ACAGATCTGTATTTCGCACTACTCTAGCTGTAGAATGGCAAATGCCGAAATGCCAGTCACACGGC
* *
40696741 GATGGCTGCCACACAAGCGTGCGAGCCTACGTGTAGGAGTTTTGACGTGATGGTTGAGGCCATCA
131 GATGGCTGCCACACAAGCGTGCGAGCCTACGTGTAGGAGTTTTAACGTGATGGTTGAGGCAATCA
*
40696806 TGAGTGCTCTCGTGGGCTTAGGTTGCTTTGGACCACGATGGGTCGAGATGGGCCATGTGGGCCCA
196 TGAGTGCTCTCGTGGGCTTAGGTTGCTTTGGACCACAATGGGTCGAGATGGGCCATGTGGGCCCA
40696871 AGTGGATAAATTGTATGATTGTGTAGTAAATATTGACTGGACTATGTGAATCTCATATCTGTAGG
261 AGTGGATAAATTGTATGATTGTGTAGTAAATATTGACTGGACTATGTGAATCTCATATCTGTAGG
* *
40696936 CTAGTATTGCTGAAATGCCCCTGTAGGGTAAAATTACTGAAATACCCTTAGTTTACAGATTTACT
326 CTAGTATTACTGAAATGCCCCTGTAGGGTAAAATTACTAAAATACCCTTAGTTTACAGATTTACT
40697001 GAAATTAATGAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
391 GAAATTAATGAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
* * *
40697066 ATAACTCTGGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTATCGAAATACCCTCGAC
456 ACAACCCTGGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTAGCGAAATACCCTCGAC
40697131 CAGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTA
521 CAGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTA
* *
40697196 CTGAAATACCCTCCACTTGTAAAATTATCGAAATACCCTCGATTTTGAAAATTACCGAGATACCC
586 CTAAAATACCCTCCACTTGTAAAATTATCGAAATACCCTCAATTTTGAAAATTACCGAGATACCC
* *
40697261 TTGATTTGAAAAATTATAGAAATGCCCCTGATTTACAAGATTAAAGAAATACCTTTGACTTTCAA
651 TTGATTTGAAAAATTACAGAAATACCCCTGATTTACAAGATTAAAGAAATACCTTTGACTTTCAA
* *
40697326 AAATTACAAAAATACCATTGGTTTGCAAAATTATCGAAATACCCTTGGTTTGTAGATTTACCAAA
716 AAATTACAAAAATACCATTGGTTTGCAAAATTATCAAAATACCCTTGGTTTATAGATTTACCAAA
40697391 ACACCCTTGTAGGGTGAAATGGCTAAAATACCCCTAATAG
781 ACACCCTTGTAGGGTGAAATGGCTAAAATACCCCTAATAG
40697431 GTGATTAAGACTGAATGCAGGATGTGCCAAAGTTGGTGATCGTGGACTTCAGCACATGCTCATAA
1 GTGATTAAGACTGAATGCAGGATGTGCCAAAGTTGGTGATCGTGGACTTCAGCACATGCTCATAA
*
40697496 ACAGATCTGTATTTCGCACTACTCTAGCTGTAGAATGGCAAATGCCGAAATGCCGGTCACACGGC
66 ACAGATCTGTATTTCGCACTACTCTAGCTGTAGAATGGCAAATGCCGAAATGCCAGTCACACGGC
* *
40697561 GATGGCTGCCACACAAGCGTGCGAGTGC-ACGTGTAGGAGTTTTAACGTGATGGTTGAGGTAATC
131 GATGGCTGCCACACAAGCGTGCGAG-CCTACGTGTAGGAGTTTTAACGTGATGGTTGAGGCAATC
*
40697625 ATGAGTGCTCTCGTGGGCTTAGGTTGCTTTGGGCCACAATGGGTCGAGATGGGCCATGTGGGCCC
195 ATGAGTGCTCTCGTGGGCTTAGGTTGCTTTGGACCACAATGGGTCGAGATGGGCCATGTGGGCCC
*
40697690 AAGTGGATAAATTGTATGATTGTGTAGTAAATATTGGATTGGACTATGTGAATCTCATATCTGTA
260 AAGTGGATAAATTGTATGATTGTGTAGTAAATATT-GACTGGACTATGTGAATCTCATATCTGTA
40697755 GGCTAGTATTACTGAAATGCCCCTGTAGGGTAAAATTACTAAAATACCCTTAGTTTACAGATTTA
324 GGCTAGTATTACTGAAATGCCCCTGTAGGGTAAAATTACTAAAATACCCTTAGTTTACAGATTTA
40697820 CTGAAATTAATGAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
389 CTGAAATTAATGAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
40697885 AAACAACCCTGGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTAGCGAAATACCCTCG
454 AAACAACCCTGGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTAGCGAAATACCCTCG
** * * *
40697950 ACCAGTAAAATTACTGAAATACCTTTGACTTGTAAAATTATCGAAATACCCTTGACTTGTAAAAT
519 ACCAGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACCGAAATACCCTCGACCTGTAAAAT
40698015 TACTAAAATACCCTCCACTTGTAAAATT-TCTGAAATACCCTCAATTTTGAAAATTACCGAGATA
584 TACTAAAATACCCTCCACTTGTAAAATTATC-GAAATACCCTCAATTTTGAAAATTACCGAGATA
*
40698079 CCCTTGATTTGAAAAATTACAGAAATACCCTTGATTTACAAGATTAAAGAAATACCTTTGACTTT
648 CCCTTGATTTGAAAAATTACAGAAATACCCCTGATTTACAAGATTAAAGAAATACCTTTGACTTT
* *
40698144 TAAAAATTACAAAAATACCATTGGTTTGCAAAATTATCAAAATACCTTTGGTTTATAGATTTACC
713 CAAAAATTACAAAAATACCATTGGTTTGCAAAATTATCAAAATACCCTTGGTTTATAGATTTACC
40698209 AAAACACCCTTGTAGGGTGAAATGGCTAAAATACCCCTAATAG
778 AAAACACCCTTGTAGGGTGAAATGGCTAAAATACCCCTAATAG
40698252 G
1 G
40698253 CAAAAAGACC
Statistics
Matches: 788, Mismatches: 31, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
820 283 0.36
821 505 0.64
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (820 bp):
GTGATTAAGACTGAATGCAGGATGTGCCAAAGTTGGTGATCGTGGACTTCAGCACATGCTCATAA
ACAGATCTGTATTTCGCACTACTCTAGCTGTAGAATGGCAAATGCCGAAATGCCAGTCACACGGC
GATGGCTGCCACACAAGCGTGCGAGCCTACGTGTAGGAGTTTTAACGTGATGGTTGAGGCAATCA
TGAGTGCTCTCGTGGGCTTAGGTTGCTTTGGACCACAATGGGTCGAGATGGGCCATGTGGGCCCA
AGTGGATAAATTGTATGATTGTGTAGTAAATATTGACTGGACTATGTGAATCTCATATCTGTAGG
CTAGTATTACTGAAATGCCCCTGTAGGGTAAAATTACTAAAATACCCTTAGTTTACAGATTTACT
GAAATTAATGAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
ACAACCCTGGTTTGTAAAATTACCAAAATATCCCTAATTTGTGAAATTAGCGAAATACCCTCGAC
CAGTAAAATTACTGAAATACCTTCAACTTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTA
CTAAAATACCCTCCACTTGTAAAATTATCGAAATACCCTCAATTTTGAAAATTACCGAGATACCC
TTGATTTGAAAAATTACAGAAATACCCCTGATTTACAAGATTAAAGAAATACCTTTGACTTTCAA
AAATTACAAAAATACCATTGGTTTGCAAAATTATCAAAATACCCTTGGTTTATAGATTTACCAAA
ACACCCTTGTAGGGTGAAATGGCTAAAATACCCCTAATAG
Found at i:40698510 original size:41 final size:41
Alignment explanation
Indices: 40698460--40698537 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
40698450 AGGAAGAAAA
* *
40698460 TGAGGATCGCATGGTTGTTTAACAACCGTGGATCCACTGAT
1 TGAGAATCGCATGGTTGCTTAACAACCGTGGATCCACTGAT
* *
40698501 TGAGAATCGCATGGTTGCTTGACGACCGTGGATCCAC
1 TGAGAATCGCATGGTTGCTTAACAACCGTGGATCCAC
40698538 CGGTGGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TGAGAATCGCATGGTTGCTTAACAACCGTGGATCCACTGAT
Found at i:40701706 original size:27 final size:27
Alignment explanation
Indices: 40701676--40701727 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
40701666 AATCTCATAT
40701676 CTGTAG-GCTAGAATTACTGAAATACTC
1 CTGTAGAGCTA-AATTACTGAAATACTC
*
40701703 CTGTAGAGTTAAATTACTGAAATAC
1 CTGTAGAGCTAAATTACTGAAATAC
40701728 CCTTGGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (27 bp):
CTGTAGAGCTAAATTACTGAAATACTC
Found at i:40701977 original size:54 final size:54
Alignment explanation
Indices: 40701758--40702091 Score: 284
Period size: 54 Copynumber: 6.2 Consensus size: 54
40701748 GAAATTACTG
** ** * * *
40701758 AATACCCTTGGTTTGTAAAATTACCAAAATATCCCTAG-TTTGTAAAATTACCAA
1 AATACCCTTGACTTGTAAAATTACTGAAATA-CCCTCGATTTGTAAAATTATCGA
* * * * ** *
40701812 AATACCCCTGATTTTTGAAATTACTGAAATACCCTCGACCTGTAAAATTACCGA
1 AATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGA
* ** *
40701866 AATACCC-TGAACTTGTAAAATTATTGAAATACCCTCGACATGTAAAATTATCAA
1 AATACCCTTG-ACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGA
*
40701920 AATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTG-AAAAGGTATCGA
1 AATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAA-TTATCGA
* * * * * ** *
40701974 AATACCCTTAATTTGGAAAATTACAGAAATACCCTTGATTTACAAAATT-GCAGA
1 AATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATC-GA
* * * * *
40702028 AATACCTTTGACTT-TCAAAAATTAC-GAAATACCATTGGTTTGCAAAATTATCGA
1 AATACCCTTGACTTGT--AAAATTACTGAAATACCCTCGATTTGTAAAATTATCGA
40702082 AATACCCTTG
1 AATACCCTTG
40702092 GTTTGTAGAT
Statistics
Matches: 232, Mismatches: 39, Indels: 18
0.80 0.13 0.06
Matches are distributed among these distances:
53 12 0.05
54 205 0.88
55 15 0.06
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
AATACCCTTGACTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGA
Found at i:40702092 original size:27 final size:26
Alignment explanation
Indices: 40701749--40702098 Score: 249
Period size: 27 Copynumber: 13.0 Consensus size: 26
40701739 AGATTTACTG
*
40701749 AAATTACTG-AATACCCTTGGTTTGTA
1 AAATTAC-GAAATACCCTTGATTTGTA
* *
40701775 AAATTACCAAAATATCCCTAG-TTTGTA
1 AAATTA-CGAAATA-CCCTTGATTTGTA
* * * *
40701802 AAATTACCAAAATACCCCTGATTTTTG
1 AAATTA-CGAAATACCCTTGATTTGTA
* **
40701829 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTAC-GAAATACCCTTGATTTGTA
*
40701856 AAATTACCGAAATACCC-TGAACTTGTA
1 AAATTA-CGAAATACCCTTG-ATTTGTA
* * **
40701883 AAATTATTGAAATACCCTCGACATGTA
1 AAATTA-CGAAATACCCTTGATTTGTA
* *
40701910 AAATTATCAAAATACCCTTGACTTGTA
1 AAATTA-CGAAATACCCTTGATTTGTA
*
40701937 AAATTACTGAAATACCCTCGATTTG-A
1 AAATTAC-GAAATACCCTTGATTTGTA
* * *
40701963 AAAGGTATCGAAATACCCTTAATTTGGA
1 AAA-TTA-CGAAATACCCTTGATTTGTA
**
40701991 AAATTACAGAAATACCCTTGATTTACA
1 AAATTAC-GAAATACCCTTGATTTGTA
* * **
40702018 AAATTGCAGAAATACCTTTGACTTTCAA
1 AAATTAC-GAAATACCCTTGA-TTTGTA
* * *
40702046 AAATTACGAAATACCATTGGTTTGCA
1 AAATTACGAAATACCCTTGATTTGTA
*
40702072 AAATTATCGAAATACCCTTGGTTTGTA
1 AAATTA-CGAAATACCCTTGATTTGTA
40702099 GATTTACCAA
Statistics
Matches: 265, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
26 28 0.11
27 215 0.81
28 22 0.08
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTACGAAATACCCTTGATTTGTA
Found at i:40702401 original size:41 final size:41
Alignment explanation
Indices: 40702356--40702473 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
40702346 GTAGGAAGAA
*
40702356 ATTGAGGATCGCATGGTTGCTTGATGACCGTAGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACCG
* * * *
40702397 ATTGAGAATCGCATGGTTTCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACCG
* * * *
40702438 ATTAAGGATTGCATGGTTGCTTGACAACCGTGGATC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTAGATC
40702474 TTTTAAGCCC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACCG
Found at i:40702662 original size:22 final size:22
Alignment explanation
Indices: 40702610--40702674 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
40702600 GCCAATTATT
* *
40702610 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40702632 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
40702654 CTGATTATGGATGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
40702675 ACATATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:40709254 original size:30 final size:30
Alignment explanation
Indices: 40709185--40709454 Score: 201
Period size: 30 Copynumber: 9.1 Consensus size: 30
40709175 CATGATCGTT
* *
40709185 GTCACCATCCCTTTTCATAA-TCGATAGTC
1 GTCACCATCCTTTTTCATAATTCGATGGTC
** * ** *
40709214 -AAAGCTATCCTTTTTTGTAATTCGATGGTT
1 GTCA-CCATCCTTTTTCATAATTCGATGGTC
* *
40709244 GTCACCATCCTTTTTCATAATTCAATGATC
1 GTCACCATCCTTTTTCATAATTCGATGGTC
* *
40709274 GTCACCATCCCTTTTCATAATTCGATAG-C
1 GTCACCATCCTTTTTCATAATTCGATGGTC
* *
40709303 -TGAAGCTATCCTTTTTCATAATTCGATGGTC
1 GT-CA-CCATCCTTTTTCATAATTCGATGGTC
* * *
40709334 ATCACCATCCCTTTTCATAATTCAATGGTC
1 GTCACCATCCTTTTTCATAATTCGATGGTC
* * * * *
40709364 GTTACTATCCCTTTTCATAA-TCGATAGTT
1 GTCACCATCCTTTTTCATAATTCGATGGTC
* * * * *
40709393 G-AAGCTATCCATTTTCATAATTCAATGGCC
1 GTCA-CCATCCTTTTTCATAATTCGATGGTC
* *
40709423 GTCACCATCCATTTTCATAATTAGATGGTC
1 GTCACCATCCTTTTTCATAATTCGATGGTC
40709453 GT
1 GT
40709455 TGATAAGTTG
Statistics
Matches: 186, Mismatches: 45, Indels: 19
0.74 0.18 0.08
Matches are distributed among these distances:
28 3 0.02
29 36 0.19
30 142 0.76
31 4 0.02
32 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (30 bp):
GTCACCATCCTTTTTCATAATTCGATGGTC
Found at i:40709288 original size:89 final size:89
Alignment explanation
Indices: 40709185--40709444 Score: 369
Period size: 90 Copynumber: 2.9 Consensus size: 89
40709175 CATGATCGTT
* ** *
40709185 GTCACCATCCCTTTTCATAATCGATAGTCAAAGCTATCCTTTTTTGTAATTCGATGGTTGTCACC
1 GTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCTTTTTCATAATTCGATGGTCGTCACC
*
40709250 ATCCTTTTTCATAATTCAATGATC
66 ATCCATTTTCATAATTCAATGATC
*
40709274 GTCACCATCCCTTTTCATAATTCGATAG-CTGAAGCTATCCTTTTTCATAATTCGATGGTCATCA
1 GTCACCATCCCTTTTCATAA-TCGATAGTC-GAAGCTATCCTTTTTCATAATTCGATGGTCGTCA
* *
40709338 CCATCCCTTTTCATAATTCAATGGTC
64 CCATCCATTTTCATAATTCAATGATC
* * * * * *
40709364 GTTACTATCCCTTTTCATAATCGATAGTTGAAGCTATCCATTTTCATAATTCAATGGCCGTCACC
1 GTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCTTTTTCATAATTCGATGGTCGTCACC
40709429 ATCCATTTTCATAATT
66 ATCCATTTTCATAATT
40709445 AGATGGTCGT
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
89 75 0.49
90 78 0.51
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (89 bp):
GTCACCATCCCTTTTCATAATCGATAGTCGAAGCTATCCTTTTTCATAATTCGATGGTCGTCACC
ATCCATTTTCATAATTCAATGATC
Found at i:40711853 original size:26 final size:26
Alignment explanation
Indices: 40711823--40711876 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
40711813 TATGTTCTCG
* *
40711823 AAATTTACCAAGGGCAAAATTGTTAA
1 AAATTTACCAAGAGCAAAATTGTCAA
* *
40711849 AAATTTACTAAGAGTAAAATTGTCAA
1 AAATTTACCAAGAGCAAAATTGTCAA
40711875 AA
1 AA
40711877 TTTTGTAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (26 bp):
AAATTTACCAAGAGCAAAATTGTCAA
Found at i:40715579 original size:40 final size:40
Alignment explanation
Indices: 40715521--40715713 Score: 291
Period size: 40 Copynumber: 4.8 Consensus size: 40
40715511 TTATTTGATG
* * *
40715521 TGGAATGGTATCCAGGCTTAAAGACCCACAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
40715561 TGGAATCGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
40715601 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
40715641 TGGAATTGTATCCGGGCTTAAAGACCCGTAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
40715681 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
40715714 GTGCTAGATA
Statistics
Matches: 143, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.11
40 127 0.89
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:40723674 original size:40 final size:40
Alignment explanation
Indices: 40723619--40723803 Score: 275
Period size: 40 Copynumber: 4.6 Consensus size: 40
40723609 ACTACTTGCT
* * *
40723619 CAAATTCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
40723659 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
40723699 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
40723739 CAAATGCCTTC-GGAGCTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATA-TAGTAACTCGCA
*
40723779 GAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
40723804 TTATCATCTG
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 4 0.03
40 127 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:40729834 original size:47 final size:47
Alignment explanation
Indices: 40729727--40730294 Score: 852
Period size: 47 Copynumber: 12.1 Consensus size: 47
40729717 GAAATGATAG
40729727 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * *
40729776 TAGGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40729823 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40729870 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40729917 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40729964 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
40730011 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
40730058 TAGGGCCTAATAGCCGA-GTGATGAATGTGAAAGTG-ATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
40730103 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
40730150 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40730197 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
40730244 CAAGGCCGAGTGGCCAACGTAATGGATGTGGAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40730291 TAAG
1 TAAG
40730295 TCCCGAAAGG
Statistics
Matches: 490, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
45 26 0.05
46 36 0.07
47 394 0.80
49 34 0.07
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:40730469 original size:37 final size:37
Alignment explanation
Indices: 40730413--40730491 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40730403 CCGAGCTCTA
* * *
40730413 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
40730450 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40730487 AAGAC
1 AAGAC
40730492 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40732361 original size:43 final size:43
Alignment explanation
Indices: 40732291--40732392 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
40732281 TTGGTTTTCA
40732291 GCACTAAGTGTGC-GGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40732333 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40732376 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
40732393 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 13 0.22
43 46 0.78
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:40732409 original size:29 final size:29
Alignment explanation
Indices: 40732374--40732447 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
40732364 GTTGTGAGAT
* *
40732374 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
40732403 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
40732432 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40732448 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:40732805 original size:40 final size:40
Alignment explanation
Indices: 40732757--40733030 Score: 408
Period size: 40 Copynumber: 6.9 Consensus size: 40
40732747 TTGAATGATG
40732757 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
40732797 TCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
40732836 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
40732876 TCCGGGCTAAGTCCCG-AGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
40732915 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* ** * * * * *
40732955 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
* * *
40732995 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
40733031 CGTGTATTCG
Statistics
Matches: 215, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 77 0.36
40 138 0.64
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:40732888 original size:79 final size:79
Alignment explanation
Indices: 40732757--40733030 Score: 397
Period size: 79 Copynumber: 3.5 Consensus size: 79
40732747 TTGAATGATG
40732757 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
40732822 ATGCTAGTGATGTA
66 ATGCTAGTGATGTA
40732836 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCG-AGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGT-CCGAAGAGCATT
40732900 CATGCTAGTGATGTA
65 CATGCTAGTGATGTA
* * * * **
40732915 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCT-AAGTCCGAAGAGCATT
* * * * *
40732980 CGTGCTGGTGTTATG
65 CATGCTAGTGATGTA
* * *
40732995 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
40733031 CGTGTATTCG
Statistics
Matches: 176, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 122 0.69
80 54 0.31
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
ATGCTAGTGATGTA
Found at i:40732971 original size:119 final size:119
Alignment explanation
Indices: 40732757--40733030 Score: 415
Period size: 119 Copynumber: 2.3 Consensus size: 119
40732747 TTGAATGATG
40732757 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
* ** *
40732822 ATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
66 ATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATATA
40732876 TCCGGGCTAAGTCCCG-AGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAG-TCCGAAGAGCATT
* * * * * *
40732940 CGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
65 CATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATATA
* * *
40732995 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
40733031 CGTGTATTCG
Statistics
Matches: 140, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 34 0.24
119 89 0.64
120 17 0.12
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTC
ATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:40736600 original size:47 final size:47
Alignment explanation
Indices: 40736493--40737014 Score: 818
Period size: 47 Copynumber: 11.1 Consensus size: 47
40736483 GAAATGATAG
*
40736493 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* **
40736542 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
**
40736589 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
40736636 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
40736683 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40736730 T-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
40736776 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
40736823 T-AGG-ATTA-GGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
40736867 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
40736914 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40736961 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40737008 CAAGGCC
1 TAAGGCC
40737015 GAGTGGCCAA
Statistics
Matches: 446, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
44 35 0.08
45 5 0.01
46 50 0.11
47 321 0.72
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:40736995 original size:278 final size:282
Alignment explanation
Indices: 40736493--40737007 Score: 840
Period size: 278 Copynumber: 1.8 Consensus size: 282
40736483 GAAATGATAG
* * *
40736493 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCATAATGGCCG
* *
40736558 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAG
* *
40736623 TGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
130 TGTATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
*
40736688 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAGGCCTAATAGCCGATGTGATG
195 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATAGCCGATGTGATG
40736753 AATGTGAAAGTGTATATGTGTGA
260 AATGTGAAAGTGTATATGTGTGA
* *
40736776 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-TATATGTGTGATA-GG-ATTA-GGCCGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGATATATATGTGATAGGGCATAATGGCCGA
**
40736837 TGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
* **
40736902 GTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
131 GTATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
40736967 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 CTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
40737008 CAAGGCCGAG
Statistics
Matches: 215, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
278 165 0.77
279 2 0.01
280 2 0.01
281 12 0.06
283 34 0.16
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (282 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGATATATATGTGATAGGGCATAATGGCCGA
TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
GTATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATGTGTGA
Found at i:40737233 original size:37 final size:37
Alignment explanation
Indices: 40737177--40737255 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40737167 CCGAGCTCTA
* * *
40737177 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
40737214 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40737251 AAGAC
1 AAGAC
40737256 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40748866 original size:30 final size:30
Alignment explanation
Indices: 40748810--40748866 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
40748800 TTCCCAAGCC
*
40748810 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATCCAAAAGTT
* *
40748840 TAGGGGCAAAAGTGTAATTTTCCAAAA
1 TAGGGGAAAAAGTGTAATTATCCAAAA
40748867 TTCGTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATCCAAAAGTT
Found at i:40749341 original size:46 final size:45
Alignment explanation
Indices: 40749291--40749463 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
40749281 TGGTTGAGCA
40749291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* ** * *
40749337 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAAATAT-AACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAAG
40749384 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* **
40749430 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40749464 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 59 0.56
47 28 0.27
48 1 0.01
49 7 0.07
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:40749447 original size:93 final size:93
Alignment explanation
Indices: 40749288--40749458 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
40749278 GGATGGTTGA
* *
40749288 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
40749353 TGAGTCTGAGTTCGTGAAATATAACTAG
66 TGAGTCCGAGTTCGTGAAATATAACTAG
**
40749381 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
40749446 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40749459 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATATAACTAG
Found at i:40751502 original size:18 final size:18
Alignment explanation
Indices: 40751479--40751521 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
40751469 GTAATGTTAG
40751479 TTGATGAAATATGAAAGC
1 TTGATGAAATATGAAAGC
40751497 TTGATGAAATATGAAAGC
1 TTGATGAAATATGAAAGC
40751515 TTGATGA
1 TTGATGA
40751522 TAGATACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (18 bp):
TTGATGAAATATGAAAGC
Found at i:40752218 original size:86 final size:85
Alignment explanation
Indices: 40752104--40752265 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
40752094 AGGATTTCTA
* *
40752104 ATATGTGATTTTGTGTAAGACCACGTCTGGGA-TGTTGGCATCGAT-TTGAGATTTACGTGTAAG
1 ATATGTGATTTTGTGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-AGA-TTACATGTAAG
* *
40752167 ACCATGTTTGGGACATCAACATC
63 ACCACGTCTGGGACATCAACATC
* *
40752190 ATATTTGATTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGAC
1 ATATGTGATTTTGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTAGATTACATGTAAGAC
40752254 CACGTCTGGGAC
65 CACGTCTGGGAC
40752266 GTTGGCATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 23 0.34
86 41 0.61
87 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (85 bp):
ATATGTGATTTTGTGTAAGACCACGTCTGGGACAGTGGCATCGATATTAGATTACATGTAAGACC
ACGTCTGGGACATCAACATC
Found at i:40752238 original size:43 final size:44
Alignment explanation
Indices: 40752104--40752273 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 44
40752094 AGGATTTCTA
* * *
40752104 ATATGTGATTTTGTGTAAGACCACGTCTGGGA-TGTTGGCATCG
1 ATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTTGGCATCG
* * * ***
40752147 AT-TTGAGATTTACGTGTAAGACCATGTTTGGGACA-TCAACATC-
1 ATATT-TGATTT-CGTGTAAGACCACGTCTGGGACAGTTGGCATCG
*
40752190 ATATTTGATTTTGTGTAAGACC-CTGTCTGGGACAG-TGGCATCG
1 ATATTTGATTTCGTGTAAGACCAC-GTCTGGGACAGTTGGCATCG
* *
40752233 ATATTTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 ATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTTGGCAT
40752274 TGTAAAAGCT
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 25 0.25
43 48 0.48
44 26 0.26
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (44 bp):
ATATTTGATTTCGTGTAAGACCACGTCTGGGACAGTTGGCATCG
Found at i:40758998 original size:37 final size:37
Alignment explanation
Indices: 40758948--40759026 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40758938 TTATTACGAA
* * *
40758948 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
40758985 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
40759022 GTCTT
1 GTCTT
40759027 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:40759223 original size:47 final size:47
Alignment explanation
Indices: 40759145--40759497 Score: 544
Period size: 47 Copynumber: 7.3 Consensus size: 47
40759135 CCCTTCGGGA
* * * * * *
40759145 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40759192 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40759239 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40759286 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40759337 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40759384 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40759431 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40759482 CTTATCACATATATAC
1 CTTATCACATATATAC
40759498 TATCATGTAC
Statistics
Matches: 284, Mismatches: 14, Indels: 16
0.90 0.04 0.05
Matches are distributed among these distances:
47 191 0.67
51 93 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40759342 original size:98 final size:94
Alignment explanation
Indices: 40759145--40759497 Score: 544
Period size: 98 Copynumber: 3.7 Consensus size: 94
40759135 CCCTTCGGGA
* * * * * * * *
40759145 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
40759210 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
40759239 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT
40759304 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
40759337 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
40759402 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
40759431 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
40759496 AC
62 AC
40759498 TATCATGTAC
Statistics
Matches: 239, Mismatches: 12, Indels: 12
0.91 0.05 0.05
Matches are distributed among these distances:
94 93 0.39
98 146 0.61
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:40759419 original size:145 final size:145
Alignment explanation
Indices: 40759156--40759497 Score: 603
Period size: 145 Copynumber: 2.4 Consensus size: 145
40759146 TTATCACATT
* * * * * * *
40759156 TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
40759221 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
40759286 CTTATCACATATATA
131 CTTATCACATATATA
*
40759301 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACGCTTTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
40759366 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66 TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
40759431 CTTATCACATATATA
131 CTTATCACATATATA
40759446 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
40759498 TATCATGTAC
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 188 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (145 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATA
Found at i:40763149 original size:13 final size:13
Alignment explanation
Indices: 40763131--40763155 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40763121 TTCGAGTTAA
40763131 AAAAATATTTTTT
1 AAAAATATTTTTT
40763144 AAAAATATTTTT
1 AAAAATATTTTT
40763156 GGTGTTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:40764384 original size:43 final size:42
Alignment explanation
Indices: 40764313--40764440 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 42
40764303 TAGGATTTAT
* **
40764313 GATATGTGATTGCGCGTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGATTACATGTAAGACCATGTCTGGGACAT-GGCATC
*
40764356 GTATATGTGATT-CATGTAAGACCTTGTCTGGGACAATGGCATC
1 G-ATATGTGATTACATGTAAGACCATGTCTGGGAC-ATGGCATC
*
40764399 GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GATATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCAT
40764441 TGTACGATAT
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 11 0.14
43 53 0.70
44 12 0.16
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
GATATGTGATTACATGTAAGACCATGTCTGGGACATGGCATC
Found at i:40766464 original size:39 final size:40
Alignment explanation
Indices: 40766421--40766558 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
40766411 AAACCAAGTA
** *
40766421 CCTTCGGGTTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
40766460 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
40766500 CCTTCGGGACCTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
40766540 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
40766559 TTATCATCCA
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.16
40 73 0.84
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:40770906 original size:27 final size:26
Alignment explanation
Indices: 40770871--40770979 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 26
40770861 AGCATGGCTG
* *
40770871 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
40770897 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
40770925 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
40770952 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
40770979 C
1 C
40770980 TAGGACGCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:40770963 original size:54 final size:54
Alignment explanation
Indices: 40770871--40770979 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
40770861 AGCATGGCTG
* *
40770871 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
40770925 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
40770979 C
1 C
40770980 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:40774459 original size:15 final size:16
Alignment explanation
Indices: 40774434--40774465 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
40774424 ATAAAAAATG
40774434 AGACAAAAATTTTTCT
1 AGACAAAAATTTTTCT
40774450 AGAC-AAAATTTTTCT
1 AGACAAAAATTTTTCT
40774465 A
1 A
40774466 TGTTACCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
AGACAAAAATTTTTCT
Found at i:40776792 original size:55 final size:54
Alignment explanation
Indices: 40776669--40776869 Score: 192
Period size: 55 Copynumber: 3.7 Consensus size: 54
40776659 TTTCCTTTTT
* * * * * * *
40776669 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGGA-CCTTGCCTTATA
* *
40776722 GAACTCACCAATGCCATGCCTTGGCACGGTCTTACATG-GGACCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGGACC-TTGCCTTATA
* * ** ***
40776776 GTAACTCATCAATGCCATGTCTTGATATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGGACCTTGCCTTATA
* *
40776831 GAACTTACCAATGCCATGCTTTGGCATGGTCTTACATGA
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGA
40776870 TATCCTTATC
Statistics
Matches: 120, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 41 0.34
54 33 0.28
55 42 0.35
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGAGGACCTTGCCTTATA
Found at i:40776915 original size:47 final size:47
Alignment explanation
Indices: 40776855--40776976 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
40776845 CATGCTTTGG
* *
40776855 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
40776902 CATGATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
40776949 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
40776977 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:40786082 original size:15 final size:15
Alignment explanation
Indices: 40786062--40786093 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
40786052 CAAAAGTAAG
40786062 CAATTAAGAACAATT
1 CAATTAAGAACAATT
40786077 CAATTAAGAACAATT
1 CAATTAAGAACAATT
40786092 CA
1 CA
40786094 TTACGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (15 bp):
CAATTAAGAACAATT
Found at i:40786144 original size:15 final size:16
Alignment explanation
Indices: 40786116--40786145 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40786106 ATATTTTCTG
40786116 TTAATTGTACATAATT
1 TTAATTGTACATAATT
40786132 TTAATTG-ACATAAT
1 TTAATTGTACATAAT
40786146 AACAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (16 bp):
TTAATTGTACATAATT
Found at i:40786696 original size:20 final size:20
Alignment explanation
Indices: 40786671--40786713 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
40786661 ATTAAAATAT
40786671 AAATTTATTAATATATATAA
1 AAATTTATTAATATATATAA
*
40786691 AAATTTATTAATATATGTAA
1 AAATTTATTAATATATATAA
40786711 AAA
1 AAA
40786714 CAGCTTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATTTATTAATATATATAA
Found at i:40786833 original size:20 final size:19
Alignment explanation
Indices: 40786789--40786826 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
40786779 ATCCAAACAC
40786789 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
40786808 CAGAAAAGTAAATCATTTT
1 CAGAAAAGTAAATCATTTT
40786827 TTAGAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (19 bp):
CAGAAAAGTAAATCATTTT
Found at i:40788329 original size:55 final size:53
Alignment explanation
Indices: 40788217--40788405 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
40788207 AACTTACCAT
* * *
40788217 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
40788270 TGCCATGCCTTGGCACGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * * * *
40788325 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAATTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
40788379 TGCCATGCCTTGGCATTGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
40788406 ATATCCTTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.29
54 33 0.29
55 44 0.39
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:40788402 original size:54 final size:55
Alignment explanation
Indices: 40788217--40788419 Score: 216
Period size: 54 Copynumber: 3.7 Consensus size: 55
40788207 AACTTACCAT
* * * * * *
40788217 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-G-AACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGTAACTCATCAA
* ** *
40788270 TGCCATGCCTTGGCACGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCC-TTACCTTATAGTAACTCATCAA
* * * * *
40788325 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAG-AATTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGTAACTCATCAA
* *
40788379 TGCCATGCCTTGGCATTGTCTTACATGATATCCTTATCTTA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTA
40788420 CCAAATGCCA
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.26
54 45 0.36
55 44 0.35
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (55 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGTAACTCATCAA
Found at i:40788451 original size:47 final size:47
Alignment explanation
Indices: 40788396--40788513 Score: 218
Period size: 47 Copynumber: 2.5 Consensus size: 47
40788386 CCTTGGCATT
* *
40788396 GTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
40788443 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
1 GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
40788490 GTCTTACATGGTATCCTTGTCTTA
1 GTCTTACATGGTATCCTTGTCTTA
40788514 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
GTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAACATG
Found at i:40796520 original size:19 final size:20
Alignment explanation
Indices: 40796496--40796540 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
40796486 ATTGGGCCAA
40796496 GCCCATATT-AACACAGTTG
1 GCCCATATTCAACACAGTTG
* *
40796515 GCCCAT-TTCAATATAGTTG
1 GCCCATATTCAACACAGTTG
40796534 GCCCATA
1 GCCCATA
40796541 ACAAAACAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:40809557 original size:28 final size:28
Alignment explanation
Indices: 40809524--40809589 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
40809514 CACGGCAAGT
* *
40809524 TAGTCATTTACCTCCACGA-GGGGCAAAA
1 TAGTCATTTAACACC-CGACGGGGCAAAA
* *
40809552 TTGTCATTTAACACCCTACGGGGCAAAA
1 TAGTCATTTAACACCCGACGGGGCAAAA
40809580 TAGTCATTTA
1 TAGTCATTTA
40809590 TTATACCCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.06
28 30 0.94
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (28 bp):
TAGTCATTTAACACCCGACGGGGCAAAA
Found at i:40813491 original size:26 final size:27
Alignment explanation
Indices: 40813441--40813556 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
40813431 TGGATAAGTT
*
40813441 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
40813468 ATAGAATTA-CTAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
40813494 GTAGAAATATCGAAATGCCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
40813521 GTAGAATTACAGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
40813548 GTAAAATTA
1 GTAGAATTA
40813557 AATGACTATT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.30
27 52 0.70
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:40813519 original size:53 final size:54
Alignment explanation
Indices: 40813441--40813554 Score: 144
Period size: 53 Copynumber: 2.1 Consensus size: 54
40813431 TGGATAAGTT
*
40813441 GTAGAATTACCGAAATACCCCTGTAGGATAGAATTACTA-A-ATACCCTTGTAGG
1 GTAGAAATACCGAAATACCCCTGTAGGATAGAATTAC-AGAGATACCCTTGTAGG
* * * * *
40813494 GTAGAAATATCGAAATGCCCTTGTAGGGTAGAATTACAGAGATACCCTTGTGGG
1 GTAGAAATACCGAAATACCCCTGTAGGATAGAATTACAGAGATACCCTTGTAGG
40813548 GTA-AAAT
1 GTAGAAAT
40813555 TAAATGACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.02
53 37 0.70
54 15 0.28
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (54 bp):
GTAGAAATACCGAAATACCCCTGTAGGATAGAATTACAGAGATACCCTTGTAGG
Found at i:40814252 original size:27 final size:26
Alignment explanation
Indices: 40814208--40814258 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
40814198 CTCGCTGCAA
*
40814208 TCTGGTGCCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
40814235 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
40814259 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:40828925 original size:33 final size:34
Alignment explanation
Indices: 40828858--40828929 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
40828848 TTATTACGAA
* *
40828858 GTCTTACCCGGACATAATCTCCACGAAGTTATCG
1 GTCTTACCCGGACAAAATCTCCACGAAGTCATCG
*
40828892 GTCTTACCCGGACAAAATC-CCACGTAGTCATCG
1 GTCTTACCCGGACAAAATCTCCACGAAGTCATCG
40828925 GTCTT
1 GTCTT
40828930 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (34 bp):
GTCTTACCCGGACAAAATCTCCACGAAGTCATCG
Found at i:40829118 original size:45 final size:46
Alignment explanation
Indices: 40829048--40829600 Score: 491
Period size: 45 Copynumber: 12.1 Consensus size: 46
40829038 CCTTTCGGGA
* * * * * * *
40829048 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGG
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * *
40829094 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * *
40829139 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * * * *
40829185 CCTTATCAC--ACATACACTTTCACATTCATCA-GTCGGCTATTAGG
1 -CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * * *
40829229 CCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGG
1 -CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * * * * *
40829276 CCCTATCAC--ACATACACTTTCACATTCATCACGTCGGCTATTAGG
1 -CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * * *
40829321 CCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGG
1 -CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * * * * *
40829368 CCT-TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGG
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * *
40829413 CCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG
1 -CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * *
40829460 CTTATCACGTAT-TACACTTT-ACATTCATCACATCGGCCATTAGG
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * *
40829504 CCTTATCACGTATATACACTTTCACATTCATCACATCGG-CATTAGG
1 -CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
* * *
40829550 CCCTATCACATATATATACAC-TTCACATTCATCACATC-GCCATTAGG
1 -CTTATCAC--ATATATACACTTTCACATCCATCACATCGGCCACTAGG
40829597 CTTA
1 CTTA
40829601 CTATCATTTC
Statistics
Matches: 460, Mismatches: 32, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
44 45 0.10
45 159 0.35
46 105 0.23
47 142 0.31
48 9 0.02
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (46 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGG
Found at i:40829203 original size:91 final size:92
Alignment explanation
Indices: 40829103--40829597 Score: 745
Period size: 91 Copynumber: 5.4 Consensus size: 92
40829093 GCTGTCACAT
*
40829103 ATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
40829167 ATCACATCGGCTATTAGGCCTTATCAC
66 ATCACATCGGCTATTAGGCCTTATCAC
* * *
40829194 ACATACACTTTCACATTCATCA-GTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
*
40829258 ATCACATCGGCTATTAGGCCCTATCAC
66 ATCACATCGGCTATTAGGCCTTATCAC
* * *
40829285 ACATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
40829350 ATCACATCGGCTATTAGGCCTTCA-CAC
66 ATCACATCGGCTATTAGGCCTT-ATCAC
* *
40829377 ATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
*
40829442 ATCACATCGGCCATTAGG-CTTATCAC
66 ATCACATCGGCTATTAGGCCTTATCAC
* **
40829468 GTATTACACTTT-ACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATT
1 ATA-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATT
*
40829532 CATCACATCGGC-ATTAGGCCCTATCAC
65 CATCACATCGGCTATTAGGCCTTATCAC
40829559 ATATATATACAC-TTCACATTCATCACATC-GCCATTAGGC
1 ----ATATACACTTTCACATTCATCACATCGGCCATTAGGC
40829598 TTACTATCAT
Statistics
Matches: 378, Mismatches: 15, Indels: 20
0.92 0.04 0.05
Matches are distributed among these distances:
90 18 0.05
91 171 0.45
92 155 0.41
93 13 0.03
94 19 0.05
95 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (92 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
ATCACATCGGCTATTAGGCCTTATCAC
Found at i:40829286 original size:47 final size:47
Alignment explanation
Indices: 40829097--40829597 Score: 742
Period size: 47 Copynumber: 10.9 Consensus size: 47
40829087 CACTCGGCTG
* *
40829097 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
40829143 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
40829190 TCACAC--ATACACTTTCACATTCATCA-GTCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
40829234 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCCTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
40829281 TCACAC--ATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
40829326 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCC-T-
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
40829371 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
*
40829418 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
** *
40829464 TCACGTAT-TACACTTT-ACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
** *
40829509 TCACGTATATACACTTTCACATTCATCACATCGGC-ATTAGGCCCTA
1 TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
* *
40829555 TCACATATATATACAC-TTCACATTCATCACATC-GCCATTAGGC
1 TCAC--ACATATACACTTTCACATTCATCACATCGGCTATTAGGC
40829598 TTACTATCAT
Statistics
Matches: 426, Mismatches: 15, Indels: 27
0.91 0.03 0.06
Matches are distributed among these distances:
44 47 0.11
45 126 0.30
46 97 0.23
47 147 0.35
48 9 0.02
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
TCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
Found at i:40829359 original size:183 final size:183
Alignment explanation
Indices: 40829105--40829559 Score: 758
Period size: 183 Copynumber: 2.5 Consensus size: 183
40829095 TGTCACATAT
40829105 ATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
40829169 CACATCGGCTATTAGGCCTTATCACACATACACTTTCACATTCATCA-GTCGGCTATTAGGCCTT
66 CACATCGGCTATTAGGCCTTATCACACATACACTTTCACATTCATCACGTCGGCTATTAGGCCTT
*
40829233 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCCTATCACAC
131 ATCACACATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACAC
* * *
40829287 ATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
*
40829352 CACATCGGCTATTAGGCCTTCA-CACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCT
66 CACATCGGCTATTAGGCCTT-ATCACACATACACTTTCACATTCATCACGTCGGCTATTAGGCCT
* **
40829416 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCTTATCACGT
130 TATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACAC
*
40829470 ATTACACTTT-ACATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCA
1 A-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
*
40829534 TCACATCGGC-ATTAGGCCCTATCACA
65 TCACATCGGCTATTAGGCCTTATCACA
40829560 TATATATACA
Statistics
Matches: 255, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
181 1 0.00
182 45 0.18
183 141 0.55
184 68 0.27
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (183 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CACATCGGCTATTAGGCCTTATCACACATACACTTTCACATTCATCACGTCGGCTATTAGGCCTT
ATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACAC
Found at i:40833081 original size:40 final size:40
Alignment explanation
Indices: 40833000--40833188 Score: 258
Period size: 39 Copynumber: 4.8 Consensus size: 40
40832990 CCATCATGAT
* * * *
40833000 TGCTCTTCGGGACCTAGCCCGGACATAACAC-AGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
40833039 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
40833079 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
40833119 TGCTC-TCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
40833158 TGCTCTTC-GGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
40833189 TGAAGCTTCG
Statistics
Matches: 135, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 86 0.64
40 49 0.36
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:40833135 original size:79 final size:79
Alignment explanation
Indices: 40833000--40833188 Score: 256
Period size: 79 Copynumber: 2.4 Consensus size: 79
40832990 CCATCATGAT
* * * * **
40833000 TGCTCTTCGGGACCTAGCCCGGACATAACAC-AGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
*
40833064 TATCACTAGCACGAA
65 CATCACTAGCACGAA
* *
40833079 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTC-TCGGGACTTAGCCCGGATA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
*
40833143 CATCACTAGCATGAA
65 CATCACTAGCACGAA
40833158 TGCTCTTCGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGACTTAGCCCGGATACATCACT
40833189 TGAAGCTTCG
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 23 0.23
79 63 0.64
80 12 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATAC
ATCACTAGCACGAA
Found at i:40833559 original size:29 final size:29
Alignment explanation
Indices: 40833520--40833598 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
40833510 CTTAATAATC
*
40833520 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
40833550 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
40833579 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
40833599 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:40833697 original size:42 final size:42
Alignment explanation
Indices: 40833583--40833721 Score: 228
Period size: 42 Copynumber: 3.3 Consensus size: 42
40833573 ATTTCAAGCC
*
40833583 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAA-CGTGAACACTTATTGCT
*
40833626 CGCACACTTA--GCCAATCTCACAACATGAACACTTATTGCT
1 CGCACACTTAGTGCCAATCTCACAACGTGAACACTTATTGCT
*
40833666 CACACACTTAGTGCCAATCTCACAACGTGAACACTTATTGCT
1 CGCACACTTAGTGCCAATCTCACAACGTGAACACTTATTGCT
40833708 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40833722 TGAAAACCAA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
40 24 0.27
41 13 0.15
42 42 0.47
43 10 0.11
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (42 bp):
CGCACACTTAGTGCCAATCTCACAACGTGAACACTTATTGCT
Found at i:40835617 original size:37 final size:37
Alignment explanation
Indices: 40835567--40835645 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40835557 TTATTACGAA
* * *
40835567 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
40835604 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
40835641 GTCTT
1 GTCTT
40835646 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:40835851 original size:47 final size:47
Alignment explanation
Indices: 40835808--40836330 Score: 818
Period size: 47 Copynumber: 11.1 Consensus size: 47
40835798 TTGGCCACTC
* * *
40835808 GGCCTTGTCACATATATACACTTTCACATTCGTCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
40835855 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTA-TA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
40835901 -GCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
40835947 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
40835994 GGCC-TATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
40836040 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
40836087 GGCCCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
40836134 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
40836181 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
40836228 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
40836275 GGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTA
40836324 GGCCTTA
1 GGCCTTA
40836331 CTATCATTTC
Statistics
Matches: 451, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
45 40 0.09
46 49 0.11
47 321 0.71
49 41 0.09
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:40847591 original size:50 final size:50
Alignment explanation
Indices: 40847459--40847655 Score: 234
Period size: 50 Copynumber: 3.9 Consensus size: 50
40847449 ATCTATTGTG
* * * *
40847459 AGGTCACGAGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
40847510 TGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
40847560 AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAAATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
40847610 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
40847656 GCTTTGGCTA
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
49 40 0.33
50 44 0.36
51 38 0.31
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:40847635 original size:49 final size:49
Alignment explanation
Indices: 40847460--40847655 Score: 230
Period size: 49 Copynumber: 3.9 Consensus size: 49
40847450 TCTATTGTGA
* * *
40847460 GGTCACGAGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA--TT
* * * * **
40847511 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
40847560 AGGTCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCAAATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
40847610 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
40847656 GCTTTGGCTA
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 42 0.34
50 42 0.34
51 38 0.31
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:40853890 original size:15 final size:17
Alignment explanation
Indices: 40853860--40853891 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
40853850 ACTTGTATTC
40853860 ATATTGTCATTGAATTG
1 ATATTGTCATTGAATTG
40853877 ATATTGT-A-TGAATTG
1 ATATTGTCATTGAATTG
40853892 TTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
ATATTGTCATTGAATTG
Found at i:40854129 original size:18 final size:18
Alignment explanation
Indices: 40854106--40854141 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
40854096 CTAGTGTAAG
40854106 ACATGTCT-GGGACATGCT
1 ACATGTCTAGGG-CATGCT
40854124 ACATGTCTAGGGCATGCT
1 ACATGTCTAGGGCATGCT
40854142 TCAGCCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (18 bp):
ACATGTCTAGGGCATGCT
Found at i:40854219 original size:47 final size:45
Alignment explanation
Indices: 40854155--40854333 Score: 145
Period size: 47 Copynumber: 3.9 Consensus size: 45
40854145 GCCATATTAT
*
40854155 GAGT-GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACA
1 GAGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAA-A
**
40854200 GAGATAGCCAGTGTAAGACATGTCTGGGACACACATCGG-CT--AA
1 GAG-TAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAA
* * * *
40854243 GATTTGT-GCTAGTGTAAGACATGTTTGGGACATGCATCAGCACGCATATA
1 GA---GTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCA-A-A
*
40854293 TGAG-AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGTAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
40854334 AATTTATCCC
Statistics
Matches: 106, Mismatches: 13, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
43 3 0.03
44 29 0.27
45 4 0.04
46 5 0.05
47 30 0.28
48 11 0.10
49 14 0.13
50 8 0.08
51 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (45 bp):
GAGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAA
Found at i:40858842 original size:47 final size:47
Alignment explanation
Indices: 40858735--40859258 Score: 843
Period size: 47 Copynumber: 11.1 Consensus size: 47
40858725 GAAATGATAG
* *
40858735 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
* * **
40858784 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* **
40858831 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40858878 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40858925 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
40858972 T-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40859018 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40859065 TAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* *
40859112 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40859159 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
* * *
40859206 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
*
40859253 CAAGGC
1 TAAGGC
40859259 GAGTGGCCAA
Statistics
Matches: 454, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 45 0.10
47 374 0.82
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
Found at i:40859240 original size:281 final size:282
Alignment explanation
Indices: 40858735--40859252 Score: 867
Period size: 281 Copynumber: 1.8 Consensus size: 282
40858725 GAAATGATAG
* * *
40858735 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-ATATATATGTGATAGGGCCTAATAGCCG
* *
40858800 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAG
* *
40858865 TGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
130 TGTATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
40858930 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAGGCCTAATAGCCGATGTGATG
195 CCTAATAGCCGACGTGACGAATGTGAAAGTGTATATATGTGATAGGCCTAATAGCCGATGTGATG
40858995 AATGTGAAAGTGTATATGTGTGA
260 AATGTGAAAGTGTATATGTGTGA
*
40859018 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTG-TATATGTGTGATAGGGCCTAATAGCCGA
1 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATAGCCGA
**
40859082 TGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
* **
40859147 GTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
131 GTATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
40859212 CTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGA
196 CTAATAGCCGACGTGACGAATGTGAAAGTGTATATATGTGA
40859253 CAAGGCGAGT
Statistics
Matches: 218, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
281 184 0.84
283 34 0.16
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (282 bp):
TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGATATATATGTGATAGGGCCTAATAGCCGA
TGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT
GTATATACGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATAGCCGACGTGACGAATGTGAAAGTGTATATATGTGATAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATGTGTGA
Found at i:40859300 original size:234 final size:235
Alignment explanation
Indices: 40858735--40859302 Score: 870
Period size: 234 Copynumber: 2.4 Consensus size: 235
40858725 GAAATGATAG
*
40858735 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * *
40858800 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
64 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
* *
40858865 TGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
129 TGTATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGG
*
40858930 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
194 CCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
* * *
40858972 T-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAC
* *
40859036 GTGATGAATGTGAAAGTGTATATGTGTGATAGGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
** *
40859101 TATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCC
131 TATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
40859166 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
196 TAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
40859206 TAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATATATGTGACAAGG-CGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAC
* * * * *
40859270 GTAATGGATGTGGAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
40859303 TCCCGAAAGG
Statistics
Matches: 299, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
234 219 0.73
235 46 0.15
236 33 0.11
237 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.28
Consensus pattern (235 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAC
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATACGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
TAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:40859477 original size:37 final size:37
Alignment explanation
Indices: 40859421--40859499 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
40859411 CCGAGCTCTA
* * *
40859421 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
40859458 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40859495 AAGAC
1 AAGAC
40859500 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40861796 original size:49 final size:47
Alignment explanation
Indices: 40861575--40861933 Score: 549
Period size: 47 Copynumber: 7.6 Consensus size: 47
40861565 CCCTTCGGGA
* * * * * *
40861575 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40861621 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40861669 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40861716 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40861763 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40861812 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40861861 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40861908 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
40861934 CACATTATCC
Statistics
Matches: 291, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 193 0.66
48 2 0.01
49 94 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40865554 original size:40 final size:40
Alignment explanation
Indices: 40865522--40865703 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
40865512 CCAACATGAT
* * *
40865522 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
* *
40865562 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
* *
40865602 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
* * *
40865642 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
*
40865682 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGCCCGG
40865704 TCGAAACTTA
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATATAACACTAGCACGAA
Found at i:40865632 original size:80 final size:80
Alignment explanation
Indices: 40865522--40865703 Score: 292
Period size: 80 Copynumber: 2.3 Consensus size: 80
40865512 CCAACATGAT
* * * *
40865522 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
40865587 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* * * *
40865602 TGCTCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
40865667 TATCACTAGCACGAA
66 TATCACTAGCACGAA
40865682 TGCTCTTCGGAACTTAGTCCGG
1 TGCTCTTCGGAACTTAGTCCGG
40865704 TCGAAACTTA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATA
TATCACTAGCACGAA
Found at i:40865732 original size:96 final size:96
Alignment explanation
Indices: 40865612--40865799 Score: 376
Period size: 96 Copynumber: 2.0 Consensus size: 96
40865602 TGCTCTTCGG
40865612 AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGC
1 AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGC
40865677 ACGAATGCTCTTCGGAACTTAGTCCGGTCGA
66 ACGAATGCTCTTCGGAACTTAGTCCGGTCGA
40865708 AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGC
1 AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGC
40865773 ACGAATGCTCTTCGGAACTTAGTCCGG
66 ACGAATGCTCTTCGGAACTTAGTCCGG
40865800 ATACATCACT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 92 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (96 bp):
AACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGC
ACGAATGCTCTTCGGAACTTAGTCCGGTCGA
Found at i:40865771 original size:40 final size:40
Alignment explanation
Indices: 40865709--40865925 Score: 337
Period size: 40 Copynumber: 5.5 Consensus size: 40
40865699 TCCGGTCGAA
* *
40865709 ACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
* * *
40865749 ATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGA
1 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
* *
40865789 ACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGG
1 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
40865829 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
*
40865869 ACTTAGCCCAGATACATCACTAGCACGAATGCTCTTCGGG
1 ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
* *
40865909 AATTAGCCCAGAT-CATC
1 ACTTAGCCCGGATACATC
40865926 GTCGAGACCT
Statistics
Matches: 163, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 4 0.02
40 159 0.98
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGG
Found at i:40865819 original size:136 final size:136
Alignment explanation
Indices: 40865572--40865839 Score: 394
Period size: 136 Copynumber: 2.0 Consensus size: 136
40865562 TGCTCTTCGG
* * *
40865572 AACTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAACACTAGC
1 AACTTAGCACGGATACAACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAACACTAGC
* * * *
40865637 ACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCC
66 ACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
40865702 GGTCGA
131 GGTCGA
* * * *
40865708 AACTTAGTC-CGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAG
1 AACTTAG-CACGGATACAACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAACACTAG
* * *
40865772 CACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCC
65 CACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCC
40865837 CGG
130 CGG
40865840 ATACATCACT
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
136 116 0.99
137 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (136 bp):
AACTTAGCACGGATACAACACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAACACTAGC
ACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
GGTCGA
Found at i:40865837 original size:176 final size:176
Alignment explanation
Indices: 40865540--40865874 Score: 580
Period size: 176 Copynumber: 1.9 Consensus size: 176
40865530 GGGACCTAGC
*
40865540 CCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
1 CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
* *
40865605 TCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATAT
66 TCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
40865670 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTCGAAACTTAGT
131 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTCGAAACTTAGT
* * * *
40865716 CCGGATACAACACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGC
1 CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
* *
40865781 TCTTCGGAACTTAGTCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAT
66 TCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
*
40865846 CACTAGCACGAATGCTCTTCGGGACTTAG
131 CACTAGCACGAATGCTCTTCGGAACTTAG
40865875 CCCAGATACA
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
176 149 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (176 bp):
CCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAATGC
TCTTCGGAACTTAGTCCGGATACAACACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAT
CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGTCGAAACTTAGT
Found at i:40873443 original size:18 final size:18
Alignment explanation
Indices: 40873420--40873456 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
40873410 ATGTTGCAAG
40873420 ATAGAATATCCACAATGC
1 ATAGAATATCCACAATGC
*
40873438 ATAGAATATCCATAATGC
1 ATAGAATATCCACAATGC
40873456 A
1 A
40873457 GCGTCTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (18 bp):
ATAGAATATCCACAATGC
Found at i:40880948 original size:20 final size:21
Alignment explanation
Indices: 40880911--40880949 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
40880901 TTTCAAATAT
* *
40880911 AAATAATTAAAATGTAACTTA
1 AAATAAATAAAATATAACTTA
40880932 AAATAAATAAAA-ATAACT
1 AAATAAATAAAATATAACT
40880950 ATTTTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATAAATAAAATATAACTTA
Found at i:40881291 original size:7 final size:7
Alignment explanation
Indices: 40881279--40881317 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
40881269 TTGGAGACAC
40881279 AAAATTA
1 AAAATTA
40881286 AAAATTA
1 AAAATTA
40881293 AAAATTA
1 AAAATTA
40881300 AAAATTA
1 AAAATTA
40881307 AAAATTA
1 AAAATTA
40881314 AAAA
1 AAAA
40881318 AAAAGGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:40888070 original size:5 final size:6
Alignment explanation
Indices: 40888054--40888079 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
40888044 AACACTTTGG
40888054 ATTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT
40888080 CAAGAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:40898017 original size:24 final size:24
Alignment explanation
Indices: 40897985--40898030 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
40897975 TAGTCGGAAT
40897985 AGTGGTCTCAAGACCACAAATTCG
1 AGTGGTCTCAAGACCACAAATTCG
*
40898009 AGTGGTCTCGAGACCACAAATT
1 AGTGGTCTCAAGACCACAAATT
40898031 TGAAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (24 bp):
AGTGGTCTCAAGACCACAAATTCG
Found at i:40898885 original size:47 final size:44
Alignment explanation
Indices: 40898734--40898949 Score: 145
Period size: 47 Copynumber: 4.7 Consensus size: 44
40898724 TGATTTGTGC
** *
40898734 GCCAGTGTAAGACATGTCTGGGACATGTTTCGGCC-ACATTATGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GCCTA-A-GA-GATGA
* * *
40898780 GCCAGTGTAAGACCATGTCTGGCACATGGTATC-CGC-ACAGAGATGGGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGC-CTA-AGAGAT--GA
**
40898828 GCCAAAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-CCT--A-AGAGATGA
* * * * *
40898875 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGCCTAAGAGATGA
*
40898919 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
40898950 AGCATGCATA
Statistics
Matches: 139, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
43 5 0.04
44 29 0.21
45 2 0.01
46 20 0.14
47 59 0.42
48 16 0.12
50 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGCCTAAGAGATGA
Found at i:40905422 original size:5 final size:6
Alignment explanation
Indices: 40905408--40905432 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
40905398 CATTTTTAAT
40905408 AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA A
40905433 GGAAAGAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:40905918 original size:47 final size:45
Alignment explanation
Indices: 40905806--40906077 Score: 205
Period size: 47 Copynumber: 5.8 Consensus size: 45
40905796 GGTGATTTGT
* * *
40905806 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATA-GA-GAGA
* *
40905854 --GCTAGCGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAGA-GA
* * * * *
40905900 GTGGCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGA
* * * *
40905945 GATAGCCAGTGTAAGACGTGTTTGGGACACGCATCGGC-TA-AGAGTT
1 G-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGAG-A
* *
40905991 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G---GCATAGA-GAGA
*
40906041 --GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
40906078 ATTTATCCCA
Statistics
Matches: 181, Mismatches: 26, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
44 27 0.15
45 10 0.06
46 31 0.17
47 60 0.33
48 28 0.15
49 16 0.09
50 6 0.03
51 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAGAGA
Found at i:40909755 original size:23 final size:24
Alignment explanation
Indices: 40909704--40909755 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
40909694 GACATATCAC
**
40909704 CTCGTATGAGCTTGCTGTTCCCAG
1 CTCGTATGAGCTCACTGTTCCCAG
*
40909728 CTCGTATGAGCTCACTGTT-TCAG
1 CTCGTATGAGCTCACTGTTCCCAG
40909751 CTCGT
1 CTCGT
40909756 TAGAACTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.13, C:0.29, G:0.23, T:0.35
Consensus pattern (24 bp):
CTCGTATGAGCTCACTGTTCCCAG
Found at i:40909782 original size:23 final size:23
Alignment explanation
Indices: 40909744--40909788 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
40909734 TGAGCTCACT
**
40909744 GTTTCAGCTCGTTAGAACTTACC
1 GTTTCAGCTCAATAGAACTTACC
*
40909767 GTTTCAGCTCAATAGAGCTTAC
1 GTTTCAGCTCAATAGAACTTAC
40909789 TGTCCATCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (23 bp):
GTTTCAGCTCAATAGAACTTACC
Found at i:40915167 original size:49 final size:49
Alignment explanation
Indices: 40915092--40915188 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
40915082 GGGGTTAGGG
* * *
40915092 TCTGTATTTGTTCTATATTAAGTGTTGCATCACATGATATGTCATGCTA
1 TCTGTATTTGATCTATATTAAGTGTTGCATCACATAATATGCCATGCTA
*
40915141 TCTGTATTTGATCTA-ATTATTA-TGTTGCATCGCATAATATGCCATGCT
1 TCTGTATTTGATCTATATTA--AGTGTTGCATCACATAATATGCCATGCT
40915189 CGGTATTCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 4 0.10
49 37 0.88
50 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (49 bp):
TCTGTATTTGATCTATATTAAGTGTTGCATCACATAATATGCCATGCTA
Found at i:40916103 original size:30 final size:31
Alignment explanation
Indices: 40916069--40916165 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
40916059 AGCTTACTCC
*
40916069 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
40916099 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
40916129 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
40916159 TAGCTCA
1 TAGCTCA
40916166 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:40917652 original size:17 final size:18
Alignment explanation
Indices: 40917614--40917658 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
40917604 ATATATGAAC
40917614 TTAAAATTAAATATCATA
1 TTAAAATTAAATATCATA
* *
40917632 TTAAAATTATAT-TCATT
1 TTAAAATTAAATATCATA
40917649 TTAACAATTA
1 TTAA-AATTA
40917659 GCTACATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAATTAAATATCATA
Found at i:40918304 original size:16 final size:18
Alignment explanation
Indices: 40918285--40918320 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
40918275 TAATCATTAC
40918285 TTTCC-ATAATTATC-TT
1 TTTCCAATAATTATCATT
40918301 TTTCCAATAATTATCATT
1 TTTCCAATAATTATCATT
40918319 TT
1 TT
40918321 ACCCATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCCAATAATTATCATT
Found at i:40921053 original size:13 final size:14
Alignment explanation
Indices: 40921019--40921105 Score: 69
Period size: 13 Copynumber: 6.5 Consensus size: 14
40921009 CTAATGTTCC
*
40921019 ATTTCATAT-ATCT
1 ATTTCATATAATCG
40921032 ATTTCCATATAATCG
1 ATTT-CATATAATCG
*
40921047 A-TTCATATAA-CT
1 ATTTCATATAATCG
*
40921059 ATTTCATAT-ATCT
1 ATTTCATATAATCG
*
40921072 ATTTCTATATAACCG
1 ATTTC-ATATAATCG
*
40921087 A-TTCATATAA-CC
1 ATTTCATATAATCG
40921099 ATTTCAT
1 ATTTCAT
40921106 TTATTCATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
12 5 0.08
13 36 0.58
14 14 0.23
15 7 0.11
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTCATATAATCG
Found at i:40921063 original size:40 final size:40
Alignment explanation
Indices: 40921017--40921105 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
40921007 ATCTAATGTT
*
40921017 CCATTTCATATATCTATTTCCATATAATCGATTCATATAA
1 CCATTTCATATATCTATTTCCATATAACCGATTCATATAA
* *
40921057 CTATTTCATATATCTATTTCTATATAACCGATTCATATAA
1 CCATTTCATATATCTATTTCCATATAACCGATTCATATAA
40921097 CCATTTCAT
1 CCATTTCAT
40921106 TTATTCATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (40 bp):
CCATTTCATATATCTATTTCCATATAACCGATTCATATAA
Found at i:40921081 original size:27 final size:28
Alignment explanation
Indices: 40921019--40921084 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
40921009 CTAATGTTCC
*
40921019 ATTTCATATATCTATTTCCATATAATCG
1 ATTTCATATAACTATTTCCATATAATCG
*
40921047 A-TTCATATAACTATTT-CATAT-ATCT
1 ATTTCATATAACTATTTCCATATAATCG
40921072 ATTTCTATATAAC
1 ATTTC-ATATAAC
40921085 CGATTCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 4 0.12
26 8 0.24
27 21 0.62
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTCATATAACTATTTCCATATAATCG
Found at i:40924235 original size:49 final size:49
Alignment explanation
Indices: 40924166--40924294 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 49
40924156 ATCAAAGTCA
* * * *
40924166 ATGCCATGTCCCAAATAGGTCTTACAGTGACTTTCATATATCGAG-GCCG
1 ATGCCATGTCCTAGATAGGTCTTACACTGACTCTCATATATCG-GTGCCG
* * *
40924215 ATGCCATGTCCTAGACAGGTCTTACACT-AGCTCTCATCTATCGGTGTCG
1 ATGCCATGTCCTAGATAGGTCTTACACTGA-CTCTCATATATCGGTGCCG
40924264 ATGCCATGTCCTAGATAGGTCTTACACTGAC
1 ATGCCATGTCCTAGATAGGTCTTACACTGAC
40924295 ACACATCAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 2 0.03
49 66 0.96
50 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCTAGATAGGTCTTACACTGACTCTCATATATCGGTGCCG
Found at i:40924286 original size:98 final size:97
Alignment explanation
Indices: 40924114--40924294 Score: 229
Period size: 98 Copynumber: 1.9 Consensus size: 97
40924104 AGGGTAAGAT
* *
40924114 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTAGCACATCAAAGTCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCAATGCCATGTCCCA
*
40924179 AATAGGTCTTACAGTGACTTTCATATATCGAG
66 AATAGGTCTTACACTGACTTTCATATATCGAG
* ** *** *
40924211 GCCGATGCCATGTCCTAGACA-GGTCTTACACTAGCTCTCATCTATCGGTGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCA-C-ATCAAAGTCAATGCCATGTCC
* *
40924275 TAGATAGGTCTTACACTGAC
64 CAAATAGGTCTTACACTGAC
40924295 ACACATCAAG
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
96 15 0.21
97 21 0.30
98 34 0.49
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGTCAATGCCATGTCCCA
AATAGGTCTTACACTGACTTTCATATATCGAG
Found at i:40924317 original size:49 final size:49
Alignment explanation
Indices: 40924208--40924317 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 49
40924198 TTCATATATC
* * * *
40924208 GAGGCCGATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATCTATCG
1 GAGGCC-ATGCCATGTCCTAGACAGGTCTTACACTAGCACACATCAAGCG
* * * * *
40924258 GTGTCGATGCCATGTCCTAGATAGGTCTTACACT-GACACACATCAAGCT
1 GAGGCCATGCCATGTCCTAGACAGGTCTTACACTAG-CACACATCAAGCG
40924307 GAGGCCATGCC
1 GAGGCCATGCC
40924318 CCAGACAGGT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
48 1 0.02
49 43 0.91
50 3 0.06
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (49 bp):
GAGGCCATGCCATGTCCTAGACAGGTCTTACACTAGCACACATCAAGCG
Found at i:40925149 original size:20 final size:18
Alignment explanation
Indices: 40925112--40925162 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
40925102 CTATAGCAGC
40925112 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
40925129 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
40925149 TTACAACTTTACAA
1 TCACAA-TTTACAA
40925163 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:40928685 original size:7 final size:7
Alignment explanation
Indices: 40928674--40928708 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
40928664 GAAAATCACA
*
40928674 AGAAAAA
1 AGAAAAG
40928681 AGAAAAG
1 AGAAAAG
40928688 AGAAAAG
1 AGAAAAG
40928695 AGAAAAG
1 AGAAAAG
40928702 AGAAAAG
1 AGAAAAG
40928709 CTTACCTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:40932260 original size:46 final size:47
Alignment explanation
Indices: 40932154--40932275 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
40932144 TGTCTTCGAC
** * *
40932154 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
40932204 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
40932250 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
40932276 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:40936604 original size:13 final size:13
Alignment explanation
Indices: 40936586--40936611 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40936576 ATATAGGTGA
40936586 ATTGAAGTTTGGT
1 ATTGAAGTTTGGT
40936599 ATTGAAGTTTGGT
1 ATTGAAGTTTGGT
40936612 CCAAACATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (13 bp):
ATTGAAGTTTGGT
Found at i:40943195 original size:16 final size:17
Alignment explanation
Indices: 40943141--40943201 Score: 97
Period size: 17 Copynumber: 3.6 Consensus size: 17
40943131 AATTAGGCCG
40943141 TGTGGGCCCCATGAGCA
1 TGTGGGCCCCATGAGCA
40943158 TGTGGGCCCCATGAGCA
1 TGTGGGCCCCATGAGCA
*
40943175 TGTGGGCCCCATG-GTA
1 TGTGGGCCCCATGAGCA
*
40943191 TGTGGGGCCCA
1 TGTGGGCCCCA
40943202 CACGGGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
16 12 0.29
17 30 0.71
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (17 bp):
TGTGGGCCCCATGAGCA
Found at i:40959965 original size:9 final size:9
Alignment explanation
Indices: 40959951--40959975 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
40959941 ATCTGAGCTT
40959951 CAAGCTCCA
1 CAAGCTCCA
40959960 CAAGCTCCA
1 CAAGCTCCA
40959969 CAAGCTC
1 CAAGCTC
40959976 TTTTTCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.44, G:0.12, T:0.12
Consensus pattern (9 bp):
CAAGCTCCA
Found at i:40964773 original size:27 final size:26
Alignment explanation
Indices: 40964743--40964830 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
40964733 TTCAGAGTTC
* *
40964743 GCCATACCTACCAGTCCTTCAAAGCTA
1 GCCATACATACCA-TTCTTCAAAGCTA
* * *
40964770 GCCACACATATCATTTCTTCAAAGCTT
1 GCCATACATACCA-TTCTTCAAAGCTA
* * *
40964797 GTCATACTTACCATTCTTCAAAGTTA
1 GCCATACATACCATTCTTCAAAGCTA
40964823 GCCATACA
1 GCCATACA
40964831 AATCATTCGT
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
26 17 0.36
27 30 0.64
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.30
Consensus pattern (26 bp):
GCCATACATACCATTCTTCAAAGCTA
Found at i:40964837 original size:26 final size:26
Alignment explanation
Indices: 40964732--40964838 Score: 81
Period size: 27 Copynumber: 4.0 Consensus size: 26
40964722 TGTATTATTC
* * * * *
40964732 CTTCAGAGTTCGCCATACCTACCAGTC
1 CTTCAAAGTTAGCCATACATATCA-TT
* *
40964759 CTTCAAAGCTAGCCACACATATCATTT
1 CTTCAAAGTTAGCCATACATATCA-TT
* * *
40964786 CTTCAAAGCTT-GTCATACTTACCATT
1 CTTCAAAG-TTAGCCATACATATCATT
*
40964812 CTTCAAAGTTAGCCATACAAATCATT
1 CTTCAAAGTTAGCCATACATATCATT
40964838 C
1 C
40964839 GTCAGGGTTT
Statistics
Matches: 61, Mismatches: 17, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
25 2 0.03
26 22 0.36
27 36 0.59
28 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (26 bp):
CTTCAAAGTTAGCCATACATATCATT
Found at i:40965031 original size:27 final size:26
Alignment explanation
Indices: 40964947--40965025 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
40964937 CATGCAAGCG
* *
40964947 TTCC-TTTCCATAGATCGCCACAAGGGC
1 TTCCATTT-CATAGATTGCCACAA-TGC
* * *
40964974 TTCCATTTAAAAGATTGTCACAAATGC
1 TTCCATTTCATAGATTGCCAC-AATGC
40965001 TTCCATTTCATAGATTGCCACAATG
1 TTCCATTTCATAGATTGCCACAATG
40965026 ATTTCCTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.10
27 33 0.79
28 5 0.12
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (26 bp):
TTCCATTTCATAGATTGCCACAATGC
Found at i:40965239 original size:50 final size:50
Alignment explanation
Indices: 40965142--40965242 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
40965132 TTCGTTTAAT
*
40965142 TCTTTCCATATGATGCCATAACCCACCAATTATGGTTATACAGAATATGG
1 TCTTTCCATATGATGCCATAACCCACCAATTATGGTTATACACAATATGG
* * ** *
40965192 TCTTTCCATATGATTCCATAGCCCACCTGTTATGGTCT-TACTCAATATGG
1 TCTTTCCATATGATGCCATAACCCACCAATTATGGT-TATACACAATATGG
40965242 T
1 T
40965243 GCCATGGACT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
TCTTTCCATATGATGCCATAACCCACCAATTATGGTTATACACAATATGG
Found at i:40967570 original size:43 final size:42
Alignment explanation
Indices: 40967490--40967593 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
40967480 GTACCAATAC
* * *
40967490 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGAT-T
1 CATAGCCCAGATATGGTCTTACACGTAATCTCATATCGATGT
*
40967531 CCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCGATGT
1 -C-ATAGCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGT
*
40967575 CATATCCCAGATATGGTCT
1 CATAGCCCAGATATGGTCT
40967594 GTTACACCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 19 0.36
43 33 0.62
44 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
CATAGCCCAGATATGGTCTTACACGTAATCTCATATCGATGT
Found at i:40971759 original size:37 final size:37
Alignment explanation
Indices: 40971709--40971787 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40971699 TTATTACGAA
* *
40971709 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
40971746 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
40971783 GTCTT
1 GTCTT
40971788 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:40971984 original size:47 final size:47
Alignment explanation
Indices: 40971906--40972334 Score: 637
Period size: 47 Copynumber: 9.1 Consensus size: 47
40971896 CCCTTCGGGA
* * * * * * * *
40971906 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG-C
* * * *
40971954 C-TGTCACATATATACACTTTCACATTCATCACCTCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
40972000 CTTATCACATATATATACTTTCACATTCATCACATCGG-TAATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCT-ATTAGGC
*
40972047 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
40972094 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
40972141 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
40972188 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
40972237 CTTATCACAGATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
40972284 CTTATCACACATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
40972331 CTTA
1 CTTA
40972335 CTATCATTTC
Statistics
Matches: 355, Mismatches: 21, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.01
47 305 0.86
48 2 0.01
49 46 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:40972244 original size:143 final size:143
Alignment explanation
Indices: 40971906--40972334 Score: 645
Period size: 143 Copynumber: 3.0 Consensus size: 143
40971896 CCCTTCGGGA
* * * * * * * *
40971906 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGTCC-TGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGG-CCTTATCACATATATA
* * * * *
40971968 CACTTTCACATTCATCACCTCGGCCACTAGGCCTTATCACATATATATACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
40972033 ATCGG-TAATTAGGC
130 ATCGGCT-ATTAGGC
*
40972047 CTTATTAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
40972110 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
40972175 TCGGCTATTAGGC
131 TCGGCTATTAGGC
*
40972188 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAGATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
*
40972253 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATACACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
*
40972318 TCGGCCATTAGGC
131 TCGGCTATTAGGC
40972331 CTTA
1 CTTA
40972335 CTATCATTTC
Statistics
Matches: 264, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
140 3 0.01
141 126 0.48
142 1 0.00
143 134 0.51
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:40979166 original size:7 final size:7
Alignment explanation
Indices: 40979151--40979182 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
40979141 TCAAGTAATT
*
40979151 CATTGAA
1 CATTAAA
40979158 CATTAAA
1 CATTAAA
40979165 CATTAAA
1 CATTAAA
40979172 CATTAAA
1 CATTAAA
40979179 CATT
1 CATT
40979183 TACTAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.31
Consensus pattern (7 bp):
CATTAAA
Found at i:40988466 original size:13 final size:13
Alignment explanation
Indices: 40988448--40988473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40988438 ACCTCGTTAT
40988448 CCTCATCCATATC
1 CCTCATCCATATC
40988461 CCTCATCCATATC
1 CCTCATCCATATC
40988474 TAAGACAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.31
Consensus pattern (13 bp):
CCTCATCCATATC
Done.