Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020828.1 Corchorus olitorius cultivar O-4 contig20861, whole genome shotgun sequence
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: 247617
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:15197 original size:2 final size:2
Alignment explanation
Indices: 15190--15220 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15180 GTGTTTAACT
15190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15221 TAGGAAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25798 original size:2 final size:2
Alignment explanation
Indices: 25791--25833 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25781 GGTTTCAAGC
25791 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25833 T
1 T
25834 TGTAGCAGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38800 original size:2 final size:2
Alignment explanation
Indices: 38793--38818 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38783 CTGATGACTA
38793 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
38819 GTTATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:40568 original size:60 final size:60
Alignment explanation
Indices: 40504--40618 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
40494 GGCATGCCAC
* * *
40504 GTGTCACTTTTTGAAACACATGGCATGCCACGTGTCACTTTTTGGTTCACATGGCGTGAT
1 GTGTCACTTTTTGAAACACATGGCATGCCACATGTCACATTTTGGTACACATGGCGTGAT
** * * *
40564 GTGTCACTTTTTGGTACACGTGGCATGCCACATGTCGCATTTTGGTACACGTGGC
1 GTGTCACTTTTTGAAACACATGGCATGCCACATGTCACATTTTGGTACACATGGC
40619 ATGCCACATC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (60 bp):
GTGTCACTTTTTGAAACACATGGCATGCCACATGTCACATTTTGGTACACATGGCGTGAT
Found at i:40627 original size:31 final size:31
Alignment explanation
Indices: 40492--40625 Score: 164
Period size: 31 Copynumber: 4.4 Consensus size: 31
40482 TTTTGTGCAT
**
40492 GTGGCATGCCACGTGTCACTTTTTGAAACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
* *
40523 ATGGCATGCCACGTGTCACTTTTTGGTTCAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
* * *
40554 ATGGCGTG--ATGTGTCACTTTTTGGTACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
* * *
40583 GTGGCATGCCACATGTCGCATTTTGGTACAC
1 GTGGCATGCCACGTGTCACTTTTTGGTACAC
40614 GTGGCATGCCAC
1 GTGGCATGCCAC
40626 ATCGGATACC
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.28
31 63 0.72
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (31 bp):
GTGGCATGCCACGTGTCACTTTTTGGTACAC
Found at i:41623 original size:2 final size:2
Alignment explanation
Indices: 41604--41645 Score: 50
Period size: 2 Copynumber: 20.5 Consensus size: 2
41594 TTTTAATAAT
*
41604 TA TA TG TA TA TA -A CTA TA TA TA TA TA TA TA TA TA GTA TA TA T
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA T
41646 GAAATATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 1 0.03
2 31 0.89
3 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:52680 original size:2 final size:2
Alignment explanation
Indices: 52673--52703 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
52663 TGTCACACTG
52673 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
52704 ATTTTTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:53055 original size:83 final size:83
Alignment explanation
Indices: 52918--53101 Score: 314
Period size: 83 Copynumber: 2.2 Consensus size: 83
52908 ACCTCTGTGT
*
52918 CTTCATGTGTGTCGTGTCCGCGAGCCTAGCAGTCGGCGGCCGTTTTGAGAGCCTCACTGCTAAGA
1 CTTCGTGTGTGTCGTGTCCGCGAGCCTAGCAGTCGGCGGCCGTTTTGAGAGCCTCACTGCTAAGA
*
52983 GCTGCTGTCCTTGTGTAC
66 GCTGCCGTCCTTGTGTAC
* * * *
53001 CTTCGTGTGTGTCATGTCCGCGAGCCTCGCAGTCGGCGGCCGTTTTGAGTGCCTCACTGCTGAGA
1 CTTCGTGTGTGTCGTGTCCGCGAGCCTAGCAGTCGGCGGCCGTTTTGAGAGCCTCACTGCTAAGA
53066 GCTGCCGTCCTTGTGTAC
66 GCTGCCGTCCTTGTGTAC
53084 CTTCGTGTGTGTCGTGTC
1 CTTCGTGTGTGTCGTGTC
53102 ACGCTTTTAA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.10, C:0.28, G:0.31, T:0.30
Consensus pattern (83 bp):
CTTCGTGTGTGTCGTGTCCGCGAGCCTAGCAGTCGGCGGCCGTTTTGAGAGCCTCACTGCTAAGA
GCTGCCGTCCTTGTGTAC
Found at i:53509 original size:14 final size:14
Alignment explanation
Indices: 53490--53518 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53480 CAAGATTCAG
53490 ATGCTCGTAAAAAC
1 ATGCTCGTAAAAAC
53504 ATGCTCGTAAAAAC
1 ATGCTCGTAAAAAC
53518 A
1 A
53519 AATCCGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
ATGCTCGTAAAAAC
Found at i:54585 original size:207 final size:211
Alignment explanation
Indices: 54219--54608 Score: 635
Period size: 207 Copynumber: 1.9 Consensus size: 211
54209 TCTCAATTTT
54219 TCAACGGAAAAAAAAATTGAAGGGTTTCTCACGCTTCTAATATCGTTTTTCCATATTTTTTTTTT
1 TCAACGGAAAAAAAAATTGAAGGGTTTCTCACGCTTCTAATATCGTTTTTCCATATTTTTTTTTT
* * *
54284 TCCGAATTTACTTCCAAAATTTATCGAAACAAGATTCGGATTCTCGTAAAAACAAATCCTTATAT
66 CCCGAATTTACTTCCAAAATTTATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTAAAT
*
54349 CCAATTTGACTGAGATTTGGCCCAATGAATATAGATATTTAAAGGAGGCTTTCTGCAAAATACTT
131 CAAATTTGACTGAGATTTGGCCCAATGAATATAGATATTTAAAGGAGGCTTTCTGCAAAATACTT
54414 AGAAAAAATATATAAA
196 AGAAAAAATATATAAA
* * *
54430 TCAACGGAAAACAAAATTGAAGTGTTTTTCACGCTTCTAATATCGTTTTT-C-TA-TTTTTTTTT
1 TCAACGGAAAAAAAAATTGAAGGGTTTCTCACGCTTCTAATATCGTTTTTCCATATTTTTTTTTT
*
54492 CCCGAATTTACTT-CTAAATTTATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTAAAT
66 CCCGAATTTACTTCCAAAATTTATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTAAAT
* *** *
54556 CAAATTTGATTGAGATTTGGTTTAATGAATGTAGATATTTAAAGGAGGCTTTC
131 CAAATTTGACTGAGATTTGGCCCAATGAATATAGATATTTAAAGGAGGCTTTC
54609 AGCCAAAAAT
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
207 95 0.57
208 21 0.13
209 2 0.01
210 1 0.01
211 47 0.28
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (211 bp):
TCAACGGAAAAAAAAATTGAAGGGTTTCTCACGCTTCTAATATCGTTTTTCCATATTTTTTTTTT
CCCGAATTTACTTCCAAAATTTATCGAAACAAGATTCAGATTCTCGTAAAAACAAATCCTTAAAT
CAAATTTGACTGAGATTTGGCCCAATGAATATAGATATTTAAAGGAGGCTTTCTGCAAAATACTT
AGAAAAAATATATAAA
Found at i:55758 original size:320 final size:323
Alignment explanation
Indices: 54407--57104 Score: 3239
Period size: 320 Copynumber: 8.3 Consensus size: 323
54397 CTTTCTGCAA
* *
54407 AATACTTAGAAAAAATATATAAATCAACGGAAAACAAAATTGAA-GTGTTTTTCACGCTTCTAAT
1 AATACTCAG-AAAAATATATAAATCAACGGAAAAAAAAATTGAATG-GTTTTTCACGCTTCTAAT
* * * *
54471 ATCGTTTTTCTATTTTTTTTTCCCGAATTTACTTCTAAATTTATCGAAACAAGATTCAGATTCTC
64 ATCGTTTTTCCA-TTTTTTTT-CCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGA-TCTC
* *
54536 GTAAAAACAAATCCTTAAATCAAATTTGATTGAGATTTGGTTTAATGAATGTAGATATTTAAAGG
126 GTAAAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGG
* * *
54601 AGGCTTTCAGCCAAAAATCATGCAAAACTGAACCGGGGCC-CCGAAACGCGTTTTTAGCCAAAAA
191 AGGCTTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAA
*
54665 CCGTGAT-G--AGTACACGATTTCGGGTAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGC
256 CCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGC
54727 CAC
321 CAC
* * *
54730 AATACTCAGAAAAAATATATAATTCAA-TGCAAAAAAAATTGAATGGTTTTTCACGCTTCTAATA
1 AATACTCAG-AAAAATATATAAATCAACGGAAAAAAAAATTGAATGGTTTTTCACGCTTCTAATA
* * * * *
54794 TCGTTTTTCCATTTTTTTTCCAAATTTATTTCTAATTTTATCGTAACAAGATTCGGATGCTCGCA
65 TCGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGAT-CTCGTA
* * * * **
54859 AAAACAAATCATTAAATCTAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTCATGGATT
129 AAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGGAGG
* * *
54924 TTTTCTGCCAAAAATCATGCAAAA-TTCAGACGGGGTCT-CGAAACGCGTTTTTAGCCAAAAACC
194 CTTTCTGCCAAAAATCATGCAAAACTT-AGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAACC
* *
54987 --G-T-G--CGTACACGATTTCGGCTAAAAACTGA--CTAAAATTTTTTTTCTCAATTTTTTGCC
258 GTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAA-TTTTTTTCTCAATTTTTTGCC
*
55044 AT
322 AC
* * *
55046 AATACTCAGAACAAATATATAAATCAACGGAAAAAAAAATTGAAGGGTCTTTAACGCTTCTAATA
1 AATACTCAGAA-AAATATATAAATCAACGGAAAAAAAAATTGAATGGTTTTTCACGCTTCTAATA
* * * **
55111 TAGTTTTTCCA-TTTTTTTCGGAATTTACTTTTAAACTTATCGAAACAAGATTCAGATGCTCGTA
65 TCGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGAT-CTCGTA
*
55175 AAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCACTGAATGTAGATATTTAAAGGAAG
129 AAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGG-AG
* * * *
55240 G-TTTCTGCCAAAAATCATGCAAAACTTATCCGGAG-CACCGAAATGCGTTTTTAGCCAAAAACC
193 GCTTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAACC
*
55303 GTGAT-GTAACGTACACGATTTCGGCTAAAAACTGACCC-AAAATTTTTTTTCTCAATTTTTTGC
258 GTGATGGTTA-GTACACGATTTCGGCTAAAAACTGACCCGAAAA-TTTTTTTCTCAATTTTTTGC
55366 CAC
321 CAC
* * * *
55369 AATACTCAGAAAAATTATTTAAGTCAACGG-GAAAAAAATTGAA-GTGTTTTTCACGCTTCCAAT
1 AATACTCAGAAAAA-TATATAAATCAACGGAAAAAAAAATTGAATG-GTTTTTCACGCTTCTAAT
* *
55432 ATCGTTTTTCCA-TTTTTTTCCGAATTT-TTTTTAATTATATCGAAACAAGATTTTAAGA-CTCG
64 ATCGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGA--TTCAGATCTCG
* * **
55494 TAAAAACAAATCCTTAAATCCAATTTGATTGAGATTTAATTCAATGAATGTAGATATTTAAAGGA
127 TAAAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGGA
* * *
55559 GGCTTTCTGCCAAAAATCATGCAAAACTGAGCCGGGGGC-CC-AAACGCGTTTCTAGCCAAAAAC
192 GGCTTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAAC
* *
55622 CGTTATGGTTAATACACGATTTCGGCTAAAAACTGACCCGATAAA-TTTTTTCTCAATTTTTTGC
257 CGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGA-AAATTTTTTTCTCAATTTTTTGC
55686 CAC
321 CAC
* * * * *
55689 AATACTCAGAAAAATATATAATTCAATGCAAAAAAAAATTGAATGGTTTTTTACGTTTCTAATAT
1 AATACTCAGAAAAATATATAAATCAACGGAAAAAAAAATTGAATGGTTTTTCACGCTTCTAATAT
* * * *
55754 CGTTTTTCCATTTTTTTTTCGAATTTATTTCTAATTTTATCGTAACAAGACTCAGATGCTCGTAA
66 CGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGAT-CTCGTAA
* * ** * * * **
55819 AAACAAATCCTCAAATCTAATTTGGTTGAGATTTGGTTCAATGAGTGTAGATATTTCATGGAATC
130 AAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGGAGGC
* * * *
55884 TTTCTGCTAAAAATCATGCAAAATTTAGCCGGGGTCT-CGAAACGCGTTTTTAGCCAAAAATCGT
195 TTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAACCGT
55948 GATGGTTAGTACACGATTTCGGCTAACAAA-TGACCC-AAAATTTTTTTTTTCTCAATTTTTTGC
260 GATGGTTAGTACACGATTTCGGCTAA-AAACTGACCCGAAAA---TTTTTTTCTCAATTTTTTGC
56011 CAC
321 CAC
* * *
56014 AATACTTAGAAAAAATATATAAATCAACGGAAAACAAAATTGAAGGGTTTTTCACGCTTCTAATA
1 AATACTCAG-AAAAATATATAAATCAACGGAAAAAAAAATTGAATGGTTTTTCACGCTTCTAATA
* * * * **
56079 TCGTTTTTCTA-TTTTTTTCCGAATTTACTTCTAAATTTATCGAAACAAGATTCTTATGCTCGTA
65 TCGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGAT-CTCGTA
* * * *
56143 AAAACAAATCCTTAAATCCAATTTGACTGAAATTTGGTTTAATAAATGTAGATATTTAAAGGAGG
129 AAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGGAGG
* * * * *
56208 CTTTCTGCCAAAAATCATGCAAAACTAAGCCGGCGCC-CCGAAATGCGTTTTTAACCAAAAACTG
194 CTTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAACCG
* * * * * * *
56272 TTATGGTTAGTCCACGGTGTCGGCTAAAAACTGACCCGAAATTTTTTTTCTCAATTTTTTCCCAA
259 TGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCAC
* * * * * * ** *
56337 AATACTCAGAAAAAATATATAATTCGA-TGCAAAAGAAATTAAATGGTTTTTTTTCACTTCTAAT
1 AATACTCAG-AAAAATATATAAATCAACGGAAAAAAAAATTGAATGG-TTTTTCACGCTTCTAAT
* *
56401 ATCGTTTTTCCATTTTTTTTTCCGAATTTATTTCTAATTTTATCGTAACAAGATTCAGATGCTCG
64 ATCGTTTTTCCA-TTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGAT-CTCG
* * * *
56466 TAATAAC-AATCCTTAAATCCAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTCATGGA
127 TAAAAACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGGA
* * * *
56530 GTCTTTCTGCCAAAAATCATGCAAAATTTAGACGGGGTCT-CGAAACGCGTTTTTAGCCAAAAAC
192 GGCTTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAAC
* * *
56594 CGTAATGGTTAGTACACGATTTGGGCTAAAAACTGA-CCAAAAATTTTTTTTTTTCTCAATTTTT
257 CGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAA----TTTTTTTCTCAATTTTT
*
56658 TGCCAG
318 TGCCAC
* * ** *** ** *
56664 AATAATCAG-ACAATATATAAATCAACGGAAAAAATATCGTTTTTTTCTCAATTTTTAACGCTTC
1 AATACTCAGAAAAATATATAAATCAACGGAAAAAA-A----AATTGAAT-GGTTTTTCACGCTTC
** * *
56728 TAATATCGTTTTTTTTTATTTTTTTTCCGAATTTACTTTTAATTTTTTCGAAACAAGATTCAGAT
60 TAATATCG--TTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGAT
*
56793 GCTCGTAAAAACAAATCTTTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTT
123 -CTCGTAAAAACAAATC-CTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTT
* * * ** *
56858 AAAGGAGGGTTTTTGCCAAAAATCATGCAAAACTAAGCCGGAACC-CCGAAATGCGTTTTTAGCC
186 AAAGGAGGCTTTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCC
* *
56922 AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTAACCCGAACATTTTTTTCTCAATTT
251 AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATTT
56987 TTTGCCAC
316 TTTGCCAC
* * * * * *
56995 AATACTTAGAAAAATTATATAATTCAACGG-GAAAAAAATAGAAGGGTTTTTCACGCTTCCAATA
1 AATACTCAGAAAAA-TATATAAATCAACGGAAAAAAAAATTGAATGGTTTTTCACGCTTCTAATA
* *
57059 TCGTTTTTTCATTTTTTTT-CGAATTTATTTTTAATTATATCGAAAC
65 TCGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAAC
57105 TTGATTCTTA
Statistics
Matches: 2040, Mismatches: 268, Indels: 134
0.84 0.11 0.05
Matches are distributed among these distances:
315 8 0.00
316 198 0.10
317 71 0.03
318 2 0.00
319 15 0.01
320 283 0.14
321 146 0.07
322 255 0.12
323 234 0.11
324 159 0.08
325 277 0.14
326 85 0.04
327 31 0.02
331 51 0.03
332 61 0.03
333 24 0.01
334 135 0.07
335 5 0.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (323 bp):
AATACTCAGAAAAATATATAAATCAACGGAAAAAAAAATTGAATGGTTTTTCACGCTTCTAATAT
CGTTTTTCCATTTTTTTTCCGAATTTATTTTTAATTTTATCGAAACAAGATTCAGATCTCGTAAA
AACAAATCCTTAAATCAAATTTGACTGAGATTTGGTTCAATGAATGTAGATATTTAAAGGAGGCT
TTCTGCCAAAAATCATGCAAAACTTAGCCGGGGCCTCCGAAACGCGTTTTTAGCCAAAAACCGTG
ATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAATTTTTTTCTCAATTTTTTGCCAC
Found at i:57892 original size:25 final size:25
Alignment explanation
Indices: 57858--58884 Score: 629
Period size: 31 Copynumber: 37.0 Consensus size: 25
57848 TTTCGGTTAA
57858 AACCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
57883 AACCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
57908 GAA-CCTACTGAATATGCAACTATAT
1 -AACCCTACTGAATATGCAACTATAT
*** *
57933 -GGTCGACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
*
57957 GACCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
* * *
57982 GACCTTACTGAATAAGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
**
58007 GGCCCCTACTGAATATGCAACTATAT
1 -AACCCTACTGAATATGCAACTATAT
* *
58033 GACCCCGACTGAATATGCAACTATAT
1 -AACCCTACTGAATATGCAACTATAT
*
58059 GACCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
* * *
58084 GACCCTAATGAATAAGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
* *
58109 GATTATGGCCATACTGAATATGAAACTATATGATT
1 -A--A---CCCTACTGAATATGCAAC--TAT-A-T
*
58144 ACGACCCTACTGAATATGTAACTATATGATT
1 A--ACCCTACTGAATATGCAAC--TAT-A-T
* *
58175 ATGACCCTACGGAATATGCAACTAAAT
1 A--ACCCTACTGAATATGCAACTATAT
*
58202 GGA-CCTACTGAATATGCAACTATATGATT
1 -AACCCTACTGAATATGCAAC--TAT-A-T
*
58231 ATGACCCTACTGAATATGCAACCATAT
1 A--ACCCTACTGAATATGCAACTATAT
**
58258 GGCCCCTACTGAATATGCAACTATATGATT
1 -AACCCTACTGAATATGCAAC--TAT-A-T
58288 ATGACCCTACTGAATATGCAACTATATGATT
1 A--ACCCTACTGAATATGCAAC--TAT-A-T
58319 ATGACCCTACTGAATATGCAACTATAT
1 A--ACCCTACTGAATATGCAACTATAT
* * *
58346 GACTCTTAATGAATATGCAACTATAT
1 AAC-CCTACTGAATATGCAACTATAT
*
58372 GATGCCCTACTGAATATGCAACTATATGATT
1 -A-ACCCTACTGAATATGCAAC--TAT-A-T
*
58403 ATGATCCTACTGAATATGCAACTATAT
1 A--ACCCTACTGAATATGCAACTATAT
**
58430 GGCCCCTACTGAATATGCAACTATAT
1 -AACCCTACTGAATATGCAACTATAT
*
58456 GACCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
*
58481 GACCCTACTGAATATGCAACTAGATGATT
1 AACCCTACTGAATATGCAACT--AT-A-T
*
58510 ATGGCCCTACTGAATATGCAACTATATGATT
1 A--ACCCTACTGAATATGCAAC--TAT-A-T
58541 ATGACCCTACTGAATATGCAACTATATGATT
1 A--ACCCTACTGAATATGCAAC--TAT-A-T
58572 ATGACCCTACTGAATATGCAACTATAT
1 A--ACCCTACTGAATATGCAACTATAT
**
58599 GGCCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
*
58624 GATTATGGCCGTACTGAATATGCAACTATAT
1 -A--A---CCCTACTGAATATGCAACTATAT
* *
58655 GATTATGGCCGTACTGAATATGCAATTATAT
1 -A--A---CCCTACTGAATATGCAACTATAT
*
58686 AGCCCTACTGAATATGAATATGCAACTATAT
1 AACCCTAC------TGAATATGCAACTATAT
**
58717 GGCCCTACTGAATATGCAACTATATGATT
1 AACCCTACTGAATATGCAAC--TAT-A-T
* *
58746 ATAGTCCAACTGAATATGCAACTATAT
1 A-A-CCCTACTGAATATGCAACTATAT
*
58773 GATTATGGTCCTACTGAATATGCAACTATAT
1 -A--A---CCCTACTGAATATGCAACTATAT
**
58804 GGCCCTACTGAATATGAATATGCAACTATAT
1 AACCCTAC------TGAATATGCAACTATAT
**
58835 GGCCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
*
58860 GACCCTACTGAATATGCAACTATAT
1 AACCCTACTGAATATGCAACTATAT
58885 TATTCAGATG
Statistics
Matches: 850, Mismatches: 78, Indels: 148
0.79 0.07 0.14
Matches are distributed among these distances:
24 20 0.02
25 284 0.33
26 109 0.13
27 28 0.03
28 14 0.02
29 25 0.03
30 5 0.01
31 357 0.42
33 4 0.00
34 3 0.00
35 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (25 bp):
AACCCTACTGAATATGCAACTATAT
Found at i:58127 original size:31 final size:31
Alignment explanation
Indices: 58004--58921 Score: 821
Period size: 31 Copynumber: 32.0 Consensus size: 31
57994 TAAGCAACTA
58004 TATGGCCCCTACTGAATATGCAACTATATG--
1 TATGG-CCCTACTGAATATGCAACTATATGAT
* *
58034 -A--CCCCGACTGAATATGCAACTATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
58060 -A---CCCTACTGAATATGCAACTATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
* *
58085 -A---CCCTAATGAATAAGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
* *
58112 TATGGCCATACTGAATATGAAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
* * *
58143 TACGACCCTACTGAATATGTAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
* *
58174 TATGACCCTACGGAATATGCAAC--TA--A-
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58200 -ATGGACCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
* *
58230 TATGACCCTACTGAATATGCAACCATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58259 ---GCCCCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58287 TATGACCCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58318 TATGACCCTACTGAATATGCAACTATATGA-
1 TATGGCCCTACTGAATATGCAACTATATGAT
* * *
58348 -CT---CTTAATGAATATGCAACTATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
58373 -AT-GCCCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
**
58402 TATGATCCTACTGAATATGCAACTATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58431 ---GCCCCTACTGAATATGCAACTATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
58457 -A---CCCTACTGAATATGCAACTATATG--
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58482 -A---CCCTACTGAATATGCAACTAGATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
58509 TATGGCCCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58540 TATGACCCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58571 TATGACCCTACTGAATATGCAAC----T-A-
1 TATGGCCCTACTGAATATGCAACTATATGAT
58596 TATGGCCCTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58627 TATGGCCGTACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58658 TATGGCCGTACTGAATATGCAA-T-TAT-A-
1 TATGGCCCTACTGAATATGCAACTATATGAT
***
58685 TA--GCCCTACTGAATATG-AA-TATGCAACT
1 TATGGCCCTACTGAATATGCAACTATATGA-T
58713 ATATGGCCCTACTGAATATGCAACTATATGAT
1 -TATGGCCCTACTGAATATGCAACTATATGAT
* * *
58745 TATAGTCCAACTGAATATGCAACTATATGAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
*
58776 TATGGTCCTACTGAATATGCAAC----T-A-
1 TATGGCCCTACTGAATATGCAACTATATGAT
***
58801 TATGGCCCTACTGAATATG-AA-TATGCAACT
1 TATGGCCCTACTGAATATGCAACTATATGA-T
58831 ATATGGCCCTACTGAATATGCAACTATATG--
1 -TATGGCCCTACTGAATATGCAACTATATGAT
*
58861 -A---CCCTACTGAATATGCAACTATATTAT
1 TATGGCCCTACTGAATATGCAACTATATGAT
* *
58888 TCAGATGACCCTACTGAATATGTAACTATATGAT
1 T---ATGGCCCTACTGAATATGCAACTATATGAT
58922 GTCGTCGTGC
Statistics
Matches: 765, Mismatches: 59, Indels: 124
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.01
25 192 0.25
26 96 0.13
27 28 0.04
28 5 0.01
29 11 0.01
30 4 0.01
31 388 0.51
32 5 0.01
33 7 0.01
34 24 0.03
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (31 bp):
TATGGCCCTACTGAATATGCAACTATATGAT
Found at i:58211 original size:87 final size:84
Alignment explanation
Indices: 58056--58881 Score: 708
Period size: 87 Copynumber: 9.6 Consensus size: 84
58046 TATGCAACTA
* *
58056 TATGACCCTACTGAATATGCAACTATATG-A--CCCTAATGAATAAGCAACTATATGATTATGG-
1 TATGACCCTACTGAATATGCAACTATATGAATGCCCTACTGAATATGCAAC--TA--A--ATGGA
*
58117 CCATACTGAATATGAAACTATATGAT
60 CC-TACTGAATATGCAACTATATGAT
* * *
58143 TACGACCCTACTGAATATGTAACTATATGATTATGACCCTACGGAATATGCAACTAAATGGACCT
1 TATGACCCTACTGAATATGCAACTATATGA--ATG-CCCTACTGAATATGCAACTAAATGGACCT
58208 ACTGAATATGCAACTATATGAT
63 ACTGAATATGCAACTATATGAT
* *
58230 TATGACCCTACTGAATATGCAACCATATG---GCCCCTACTGAATATGCAACTATATGATTATGA
1 TATGACCCTACTGAATATGCAACTATATGAATG-CCCTACTGAATATGCAACTA-A--A-T-GGA
58292 CCCTACTGAATATGCAACTATATGAT
60 -CCTACTGAATATGCAACTATATGAT
* * * * *
58318 TATGACCCTACTGAATATGCAACTATATGACT--CTTAATGAATATGCAACTATATGATGCCCTA
1 TATGACCCTACTGAATATGCAACTATATGAATGCCCTACTGAATATGCAACTAAATG--GACCTA
58381 CTGAATATGCAACTATATGAT
64 CTGAATATGCAACTATATGAT
* *
58402 TATGATCCTACTGAATATGCAACTATATG---GCCCCTACTGAATATGCAACTATAT-GACCCTA
1 TATGACCCTACTGAATATGCAACTATATGAATG-CCCTACTGAATATGCAACTAAATGGA-CCTA
58463 CTGAATATGCAAC----T-A-
64 CTGAATATGCAACTATATGAT
* *
58478 TATGACCCTACTGAATATGCAACTAGATGATTATGGCCCTACTGAATATGCAACTATATGATTAT
1 TATGACCCTACTGAATATGCAACTATATGA--AT-GCCCTACTGAATATGCAACTA-A--A-T-G
58543 GACCCTACTGAATATGCAACTATATGAT
58 GA-CCTACTGAATATGCAACTATATGAT
58571 TATGACCCTACTGAATATGCAACTATATG---GCCCTACTGAATATGCAACTATATGATTATGG-
1 TATGACCCTACTGAATATGCAACTATATGAATGCCCTACTGAATATGCAAC--TA--A--ATGGA
58632 CCGTACTGAATATGCAACTATATGAT
60 CC-TACTGAATATGCAACTATATGAT
* * * * *
58658 TATGGCCGTACTGAATATGCAATTATAT--A-GCCCTACTGAATATGAATATGCAACTATATGGC
1 TATGACCCTACTGAATATGCAACTATATGAATGCCCTAC------TGAATATGCAACTAAATGGA
58720 CCTACTGAATATGCAACTATATGAT
60 CCTACTGAATATGCAACTATATGAT
* * * * *
58745 TAT-AGTCCAACTGAATATGCAACTATATGATTATGGTCCTACTGAATATGCAACTATATGGCCC
1 TATGA-CCCTACTGAATATGCAACTATATGA--AT-GCCCTACTGAATATGCAACTAAATGGACC
***
58809 TACTGAATATG-AA-TATGCAACT
62 TACTGAATATGCAACTATATGA-T
*
58831 ATATGGCCCTACTGAATATGCAACTATATG-A--CCCTACTGAATATGCAACTA
1 -TATGACCCTACTGAATATGCAACTATATGAATGCCCTACTGAATATGCAACTA
58882 TATTATTCAG
Statistics
Matches: 631, Mismatches: 46, Indels: 130
0.78 0.06 0.16
Matches are distributed among these distances:
76 27 0.04
77 1 0.00
78 1 0.00
81 40 0.06
82 38 0.06
83 1 0.00
84 76 0.12
85 8 0.01
86 6 0.01
87 282 0.45
88 75 0.12
89 4 0.01
90 4 0.01
91 6 0.01
92 1 0.00
93 61 0.10
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (84 bp):
TATGACCCTACTGAATATGCAACTATATGAATGCCCTACTGAATATGCAACTAAATGGACCTACT
GAATATGCAACTATATGAT
Found at i:58242 original size:118 final size:115
Alignment explanation
Indices: 58056--58921 Score: 813
Period size: 118 Copynumber: 7.5 Consensus size: 115
58046 TATGCAACTA
* * *
58056 TATGACCCTACTGAATATGCAAC--TATAT-GACCCTAATGAATAAGCAACTATATGATTATGGC
1 TATGACCCTACTGAATATGCAACTATATATGGA-CCTACTGAATATGCAACTATATGA-TATGAC
* * *
58118 CATACTGAATATGAAACTATATGATTACGACCCTACTGAATATGTAACTATATGAT
64 CCTACTGAATATGCAACTATATGA-T--G-CCCTACTGAATATGCAACTATATGAT
*
58174 TATGACCCTACGGAATATGCAACTA-A-ATGGACCTACTGAATATGCAACTATATGATTATGACC
1 TATGACCCTACTGAATATGCAACTATATATGGACCTACTGAATATGCAACTATATGA-TATGACC
*
58237 CTACTGAATATGCAACCATATG--GCCCCTACTGAATATGCAACTATATGAT
65 CTACTGAATATGCAACTATATGATG-CCCTACTGAATATGCAACTATATGAT
* *
58287 TATGACCCTACTGAATATGCAACTATATGATTATGACCCTACTGAATATGCAACTATATGA-CT-
1 TATGACCCTACTGAATATGCAACTATAT-A-T-GGA-CCTACTGAATATGCAACTATATGATATG
* *
58350 --CTTAATGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
62 ACCCTACTGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
* *
58402 TATGATCCTACTGAATATGCAAC--TATATGGCCCCTACTGAATATGCAAC----T-ATATGACC
1 TATGACCCTACTGAATATGCAACTATATATGG-ACCTACTGAATATGCAACTATATGATATGACC
*
58460 CTACTGAATATGCAACTATATGA--CCCTACTGAATATGCAACTAGATGAT
65 CTACTGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
* *
58509 TATGGCCCTACTGAATATGCAACTATATGATTATGACCCTACTGAATATGCAACTATATGATTAT
1 TATGACCCTACTGAATATGCAACTATAT-A-T-GGA-CCTACTGAATATGCAACTATATGA-TAT
58574 GACCCTACTGAATATGCAACTATATG--GCCCTACTGAATATGCAACTATATGAT
61 GACCCTACTGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
* * * *
58627 TATGGCCGTACTGAATATGCAACTATATGATTATGG-CCGTACTGAATATGCAATTATATAGCCC
1 TATGACCCTACTGAATATGCAAC--TAT-A-TATGGACC-TACTGAATATGCAACTATAT-G--A
*
58691 TACTGA--ATA-TGAATATGCAACTATATG--GCCCTACTGAATATGCAACTATATGAT
58 TA-TGACCCTACTGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
* * * *
58745 TAT-AGTCCAACTGAATATGCAACTATATGATTATGGTCCTACTGAATATGCAACTATATGGCCC
1 TATGA-CCCTACTGAATATGCAAC--TAT-A-TATGGACCTACTGAATATGCAACTATAT-G--A
*
58809 TACTGA--ATA-TGAATATGCAACTATATG--GCCCTACTGAATATGCAAC----T-A-
58 TA-TGACCCTACTGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
*
58857 TATGACCCTACTGAATATGCAACTATATTATTCAGATGACCCTACTGAATATGTAACTATATGAT
1 TATGACCCTACTGAATATGCAACTATA-TA-T--G--GA-CCTACTGAATATGCAACTATATGAT
58922 GTCGTCGTGC
Statistics
Matches: 658, Mismatches: 43, Indels: 100
0.82 0.05 0.12
Matches are distributed among these distances:
105 1 0.00
106 2 0.00
107 46 0.07
109 29 0.04
110 23 0.03
111 2 0.00
112 40 0.06
113 55 0.08
114 24 0.04
115 69 0.10
116 3 0.00
117 5 0.01
118 314 0.48
119 33 0.05
120 6 0.01
121 5 0.01
122 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (115 bp):
TATGACCCTACTGAATATGCAACTATATATGGACCTACTGAATATGCAACTATATGATATGACCC
TACTGAATATGCAACTATATGATGCCCTACTGAATATGCAACTATATGAT
Found at i:58290 original size:16 final size:16
Alignment explanation
Indices: 58267--58430 Score: 65
Period size: 16 Copynumber: 11.1 Consensus size: 16
58257 TGGCCCCTAC
58267 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* * *
58283 TGATTATG-ACCCTA-C
1 TGAATATGCA-ACTATA
58298 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* * *
58314 TGATTATG-ACCCTA-C
1 TGAATATGCA-ACTATA
58329 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* *
58345 TG-A-CT-C--TTA-A
1 TGAATATGCAACTATA
58355 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* *
58371 TG---ATGC-CCTA-C
1 TGAATATGCAACTATA
58382 TGAATATGCAACTATA
1 TGAATATGCAACTATA
* * *
58398 TGATTATG-ATCCTA-C
1 TGAATATGCA-ACTATA
58413 TGAATATGCAACTATA
1 TGAATATGCAACTATA
58429 TG
1 TG
58431 GCCCCTACTG
Statistics
Matches: 102, Mismatches: 26, Indels: 40
0.61 0.15 0.24
Matches are distributed among these distances:
10 3 0.03
11 5 0.05
12 4 0.04
13 6 0.06
14 5 0.05
15 39 0.38
16 40 0.39
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (16 bp):
TGAATATGCAACTATA
Found at i:58814 original size:56 final size:56
Alignment explanation
Indices: 58509--58919 Score: 356
Period size: 56 Copynumber: 7.1 Consensus size: 56
58499 ACTAGATGAT
* *
58509 TATGGCCCTACTGAATATGCAACTATATGATTATGACCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTATATAATTATGGCCCTACTGAATATGCAACTA
58565 TATGATTATGACCCTACTGAATATGCAAC----T-A-TATGGCCCTACTGAATATGCAACTATAT
1 TATG-----G-CCCTACTGAATATGCAACTATATAATTATGGCCCTACTGAATATGCAAC----T
58624 GA
56 -A
* * * *
58626 TTATGGCCGTACTGAATATGCAACTATATGATTATGGCCGTACTGAATATGCAATTA
1 -TATGGCCCTACTGAATATGCAACTATATAATTATGGCCCTACTGAATATGCAACTA
* **
58683 TATAGCCCTACTGAATATG-AA-TATGCAACTATATGGCCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTATATAA-T-TATGGCCCTACTGAATATGCAACTA
* * * *
58739 TATGATTATAGTCCAACTGAATATGCAACTATATGATTATGGTCCTACTGAATATGCAACTA
1 TATG------GCCCTACTGAATATGCAACTATATAATTATGGCCCTACTGAATATGCAACTA
**
58801 TATGGCCCTACTGAATATG-AA-TATGCAACTATATGGCCCTACTGAATATGCAACTA
1 TATGGCCCTACTGAATATGCAACTATATAA-T-TATGGCCCTACTGAATATGCAACTA
* * * *
58857 TATGACCCTACTGAATATGCAACTATATTATTCAGATGACCCTACTGAATATGTAACTA
1 TATGGCCCTACTGAATATGCAACTATATAATT---ATGGCCCTACTGAATATGCAACTA
58916 TATG
1 TATG
58920 ATGTCGTCGT
Statistics
Matches: 290, Mismatches: 30, Indels: 67
0.75 0.08 0.17
Matches are distributed among these distances:
54 8 0.03
55 6 0.02
56 142 0.49
57 6 0.02
58 6 0.02
59 26 0.09
60 2 0.01
61 3 0.01
62 84 0.29
63 3 0.01
64 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (56 bp):
TATGGCCCTACTGAATATGCAACTATATAATTATGGCCCTACTGAATATGCAACTA
Found at i:58968 original size:30 final size:30
Alignment explanation
Indices: 58933--58990 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
58923 TCGTCGTGCC
58933 GATGAC-CTTACTGAATATGA-ACTATATGCG
1 GATGACGC-TACTGAATATGAGA-TATATGCG
*
58963 GATGACGCTATTGAATATGAGATATATG
1 GATGACGCTACTGAATATGAGATATATG
58991 ATGCCGGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (30 bp):
GATGACGCTACTGAATATGAGATATATGCG
Found at i:59014 original size:33 final size:33
Alignment explanation
Indices: 58976--59050 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
58966 GACGCTATTG
* **
58976 AATATGAGA-TATATGATGCCGGTGACACTACTA
1 AATATGA-ATTATACGATGCCAATGACACTACTA
*
59009 AATATGAATTATACGATGCCAATGACCCTACT-
1 AATATGAATTATACGATGCCAATGACACTACTA
*
59041 AATACGAATT
1 AATATGAATT
59051 GAATACAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 10 0.28
33 26 0.72
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (33 bp):
AATATGAATTATACGATGCCAATGACACTACTA
Found at i:65493 original size:3 final size:3
Alignment explanation
Indices: 65485--65528 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
65475 TTTCTGCCTT
* * *
65485 TGC TGC TGC TGC TGC TGC TGT TGC TGC TGC TGT TGT TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
65529 ATGTTGCTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.25, G:0.34, T:0.41
Consensus pattern (3 bp):
TGC
Found at i:65503 original size:15 final size:15
Alignment explanation
Indices: 65485--65528 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
65475 TTTCTGCCTT
*
65485 TGCTGCTGCTGCTGC
1 TGCTGTTGCTGCTGC
65500 TGCTGTTGCTGCTGC
1 TGCTGTTGCTGCTGC
*
65515 TGTTGTTGCTGCTG
1 TGCTGTTGCTGCTG
65529 ATGTTGCTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.00, C:0.25, G:0.34, T:0.41
Consensus pattern (15 bp):
TGCTGTTGCTGCTGC
Found at i:65533 original size:12 final size:12
Alignment explanation
Indices: 65484--65537 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
65474 TTTTCTGCCT
*
65484 TTGCTGCTGCTG
1 TTGCTGCTGTTG
*
65496 CTGCTGCTGTTG
1 TTGCTGCTGTTG
*
65508 CTGCTGCTGTTG
1 TTGCTGCTGTTG
*
65520 TTGCTGCTGATG
1 TTGCTGCTGTTG
65532 TTGCTG
1 TTGCTG
65538 GGTTTGTTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.02, C:0.22, G:0.33, T:0.43
Consensus pattern (12 bp):
TTGCTGCTGTTG
Found at i:65533 original size:15 final size:15
Alignment explanation
Indices: 65491--65534 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
65481 CCTTTGCTGC
*
65491 TGCTGCTGCTGCTGT
1 TGCTGCTGCTGTTGT
65506 TGCTGCTGCTGTTGT
1 TGCTGCTGCTGTTGT
*
65521 TGCTGCTGATGTTG
1 TGCTGCTGCTGTTG
65535 CTGGGTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.02, C:0.20, G:0.34, T:0.43
Consensus pattern (15 bp):
TGCTGCTGCTGTTGT
Found at i:70082 original size:12 final size:12
Alignment explanation
Indices: 70067--70111 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
70057 CAAATACTTC
70067 ATCTAAATCTGA
1 ATCTAAATCTGA
**
70079 ATCT--A-CTTC
1 ATCTAAATCTGA
70088 ATCTAAATCTGA
1 ATCTAAATCTGA
70100 ATCTAAATCTGA
1 ATCTAAATCTGA
70112 GGATGAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
9 6 0.23
10 1 0.04
11 1 0.04
12 18 0.69
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (12 bp):
ATCTAAATCTGA
Found at i:70087 original size:21 final size:21
Alignment explanation
Indices: 70061--70104 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
70051 CTTCGTCAAA
70061 TACTTCATCTAAATCTGAATC
1 TACTTCATCTAAATCTGAATC
70082 TACTTCATCTAAATCTGAATC
1 TACTTCATCTAAATCTGAATC
70103 TA
1 TA
70105 AATCTGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.39
Consensus pattern (21 bp):
TACTTCATCTAAATCTGAATC
Found at i:75191 original size:30 final size:30
Alignment explanation
Indices: 75126--75191 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
75116 TTTATTTCAT
* *
75126 TGATTAATATAGAAAAAAGCCTTAAATTTC
1 TGATTGATATAGAAAAAAGCCTGAAATTTC
* *
75156 TGATTGATATAGAAAAAGGCCTGGAATTTC
1 TGATTGATATAGAAAAAAGCCTGAAATTTC
75186 TGATTG
1 TGATTG
75192 GGAGGAATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (30 bp):
TGATTGATATAGAAAAAAGCCTGAAATTTC
Found at i:83782 original size:2 final size:2
Alignment explanation
Indices: 83775--83826 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
83765 GAATGTGTTT
83775 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
83817 TC TC TC TC TC
1 TC TC TC TC TC
83827 AGAATGCCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:84162 original size:139 final size:139
Alignment explanation
Indices: 83912--84192 Score: 562
Period size: 139 Copynumber: 2.0 Consensus size: 139
83902 AATACCACTG
83912 AAACTGAATTTGTTGTAGGGAATGGACCATTCAAGGATAATGAAAAAGAGACTATCAAGTGAAAA
1 AAACTGAATTTGTTGTAGGGAATGGACCATTCAAGGATAATGAAAAAGAGACTATCAAGTGAAAA
83977 ATGAAAAACACTTGGATAATGAATAAGGAAGCAGGGTATTCTATGGTTGAAGAAACTAATAATAG
66 ATGAAAAACACTTGGATAATGAATAAGGAAGCAGGGTATTCTATGGTTGAAGAAACTAATAATAG
84042 GCCATTCAT
131 GCCATTCAT
84051 AAACTGAATTTGTTGTAGGGAATGGACCATTCAAGGATAATGAAAAAGAGACTATCAAGTGAAAA
1 AAACTGAATTTGTTGTAGGGAATGGACCATTCAAGGATAATGAAAAAGAGACTATCAAGTGAAAA
84116 ATGAAAAACACTTGGATAATGAATAAGGAAGCAGGGTATTCTATGGTTGAAGAAACTAATAATAG
66 ATGAAAAACACTTGGATAATGAATAAGGAAGCAGGGTATTCTATGGTTGAAGAAACTAATAATAG
84181 GCCATTCAT
131 GCCATTCAT
84190 AAA
1 AAA
84193 GAAACCCTTA
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 142 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (139 bp):
AAACTGAATTTGTTGTAGGGAATGGACCATTCAAGGATAATGAAAAAGAGACTATCAAGTGAAAA
ATGAAAAACACTTGGATAATGAATAAGGAAGCAGGGTATTCTATGGTTGAAGAAACTAATAATAG
GCCATTCAT
Found at i:84642 original size:39 final size:39
Alignment explanation
Indices: 84588--84665 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
84578 AGGGAAAGTT
84588 AGCACATTAGGCATGAGACTAATATTCTAAAGTAATGTA
1 AGCACATTAGGCATGAGACTAATATTCTAAAGTAATGTA
84627 AGCACATTAGGCATGAGACTAATATTCTAAAGTAATGTA
1 AGCACATTAGGCATGAGACTAATATTCTAAAGTAATGTA
84666 CTAATACTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (39 bp):
AGCACATTAGGCATGAGACTAATATTCTAAAGTAATGTA
Found at i:102697 original size:1 final size:1
Alignment explanation
Indices: 102691--102715 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
102681 AAGAAAAGAT
102691 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
102716 CTATACAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:108326 original size:14 final size:12
Alignment explanation
Indices: 108302--108344 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 12
108292 ATATACCTAC
108302 CCTCTAAATTTA
1 CCTCTAAATTTA
108314 CCTCTAAAAATTTA
1 CCTCT--AAATTTA
108328 CCCTCTAAATTTA
1 -CCTCTAAATTTA
108341 CCTC
1 CCTC
108345 ATTTTCATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.32
13 7 0.25
14 7 0.25
15 5 0.18
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (12 bp):
CCTCTAAATTTA
Found at i:108334 original size:15 final size:15
Alignment explanation
Indices: 108299--108336 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
108289 AAAATATACC
108299 TACCCTCT--AAATT
1 TACCCTCTAAAAATT
108312 TA-CCTCTAAAAATT
1 TACCCTCTAAAAATT
108326 TACCCTCTAAA
1 TACCCTCTAAA
108337 TTTACCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 2 0.09
14 7 0.32
15 8 0.36
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (15 bp):
TACCCTCTAAAAATT
Found at i:108339 original size:13 final size:13
Alignment explanation
Indices: 108299--108342 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
108289 AAAATATACC
108299 TACCCTCTAAATT
1 TACCCTCTAAATT
108312 TA-CCTCTAAAAATT
1 TACCCTCT--AAATT
108326 TACCCTCTAAATT
1 TACCCTCTAAATT
108339 TACC
1 TACC
108343 TCATTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.18
13 11 0.39
14 7 0.25
15 5 0.18
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (13 bp):
TACCCTCTAAATT
Found at i:111553 original size:69 final size:69
Alignment explanation
Indices: 111437--111700 Score: 350
Period size: 69 Copynumber: 3.8 Consensus size: 69
111427 TGGACTAGCA
*
111437 CCCATACCACTA-TCAGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAA
1 CCCAGACCACTACT-AGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAA
111501 GACCT
65 GACCT
111506 CCCAGACCACTACTAGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAAG
1 CCCAGACCACTACTAGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAAG
111571 ACCT
66 ACCT
* * * * * * * *
111575 CCCAGACCACTGCTAGCTGATGCAGTTGTCCTTTGAAAGTTAGATTGAGTACCTCCTCCACCATG
1 CCCAGACCACTACTAGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAAG
* *
111640 GCCA
66 ACCT
* * * ** * *
111644 CCAAGACCACTGCTAGCCGATGCCATGGTCCTTGGAAAGTTAAATTGAGCACCTCCT
1 CCCAGACCACTACTAGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCT
111701 GTCGTTGTCC
Statistics
Matches: 175, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
69 174 0.99
70 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (69 bp):
CCCAGACCACTACTAGCTGATGCGGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAAG
ACCT
Found at i:111781 original size:105 final size:105
Alignment explanation
Indices: 111599--111805 Score: 279
Period size: 105 Copynumber: 2.0 Consensus size: 105
111589 AGCTGATGCA
* * * * *
111599 GTTGTCCTTTGAAAGTTAGATTGAGTACCTCCTCCACCATGGCCACCAAGACCACTGCTAGCCGA
1 GTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCAAGACCACTACTAGCCGA
**
111664 TGCCATGGTCCTTGGAAAGTTAAATTGAGCACCTCCTGTC
66 TGCCATGGTCCTTGGAAAGTTAAACCGAGCACCTCCTGTC
* **
111704 GTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGTTGA
1 GTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCAAGACCACTACTAGCCGA
*** * *
111769 TGTTGTTGTCCTTGGAGAGTTAAACCGAGCACCTCCT
66 TGCCATGGTCCTTGGAAAGTTAAACCGAGCACCTCCT
111806 CCACCATGGC
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (105 bp):
GTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCAAGACCACTACTAGCCGA
TGCCATGGTCCTTGGAAAGTTAAACCGAGCACCTCCTGTC
Found at i:111791 original size:69 final size:69
Alignment explanation
Indices: 111704--112027 Score: 452
Period size: 69 Copynumber: 4.7 Consensus size: 69
111694 ACCTCCTGTC
* *
111704 GTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGTTGA
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGCTGA
*
111769 TGTT
66 TGTA
* * *
111773 GTTGTCCTTGGAGAGTTAAACCGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGTTGA
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGCTGA
*
111838 TGTC
66 TGTA
* *
111842 GTTGTCCTTGGAGAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCAGTACTACTAGC
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCACCCAGACC---ACTACTAGC
111907 TGAT-TCA
63 TGATGT-A
* * *
111914 GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTACTAGCTGA
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGCTGA
**
111979 TGCG
66 TGTA
* * *
111983 GTTGTCCTTGGAAAGGTAGATTGAGCACCTCCTCCACCATGGCCA
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCA
112028 ATCGTTGTCC
Statistics
Matches: 233, Mismatches: 17, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
69 171 0.73
71 1 0.00
72 61 0.26
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (69 bp):
GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGCTGA
TGTA
Found at i:111827 original size:174 final size:174
Alignment explanation
Indices: 111530--111874 Score: 474
Period size: 174 Copynumber: 2.0 Consensus size: 174
111520 AGCTGATGCG
* * *
111530 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCTACCAAGACCTCCCAGACCACTGCTAGCTGA
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCAAGACCACCCAGACCACTACTAGCTGA
* * ** * *
111595 TGCAGTTGTCCTTTGAAAGTTAGATTGAGTACCTCCTCCACCATGGCCACCAAGACCACTGCTAG
66 TGCAGTTGTCCTTGGAAAGTTAAACCGAGCACCTCCTCCACCATGGCCACCAAGACCACTACTAG
*
111660 CCGATGCCATGGTCCTTGGAAAGTTAAATTGAGCACCTCCTGTC
131 CCGATGCCATGGTCCTTGGAAAGTTAAACTGAGCACCTCCTGTC
* * * *
111704 GTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAGTTGA
1 GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCAAGACCACCCAGACCACTACTAGCTGA
** * *
111769 TGTTGTTGTCCTTGGAGAGTTAAACCGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAG
66 TGCAGTTGTCCTTGGAAAGTTAAACCGAGCACCTCCTCCACCATGGCCACCAAGACCACTACTAG
** * * * *
111834 TTGATGTCGTTGTCCTTGGAGAGTTAAACTGAGCACCTCCT
131 CCGATGCCATGGTCCTTGGAAAGTTAAACTGAGCACCTCCT
111875 CCACCATGGC
Statistics
Matches: 147, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (174 bp):
GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCAAGACCACCCAGACCACTACTAGCTGA
TGCAGTTGTCCTTGGAAAGTTAAACCGAGCACCTCCTCCACCATGGCCACCAAGACCACTACTAG
CCGATGCCATGGTCCTTGGAAAGTTAAACTGAGCACCTCCTGTC
Found at i:111980 original size:141 final size:138
Alignment explanation
Indices: 111700--112028 Score: 473
Period size: 141 Copynumber: 2.4 Consensus size: 138
111690 GAGCACCTCC
* *
111700 TGTCGTTGTCCTTGGAAAGTTAAAGTGAGCACCTCCTCCACCATGGCCACCCAGACCACTACTAG
1 TGTCGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCACTACTAG
* * * *
111765 TTGATGTTGTTGTCCTTGGAGAGTTAAACCGAGCACCTCCTCCACCATGGCCACCCAGACCACTA
66 CTGATGTAGTTGTCCTTGGAAAGTTAAACCGAGCACCTCCTCCACCATAGCCACCCAGACCACTA
*
111830 CTAGTTGA
131 CTAGCTGA
*
111838 TGTCGTTGTCCTTGGAGAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCAGTACTAC
1 TGTCGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACC---ACTAC
* * *
111903 TAGCTGAT-TCAGTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACC
63 TAGCTGATGT-AGTTGTCCTTGGAAAGTTAAACCGAGCACCTCCTCCACCATAGCCACCCAGACC
111967 ACTACTAGCTGA
127 ACTACTAGCTGA
* * *
111979 TG-CGGTTGTCCTTGGAAAGGTAGATTGAGCACCTCCTCCACCATGGCCAA
1 TGTC-GTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAA
112029 TCGTTGTCCT
Statistics
Matches: 171, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
138 54 0.32
140 2 0.01
141 115 0.67
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (138 bp):
TGTCGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCACTACTAG
CTGATGTAGTTGTCCTTGGAAAGTTAAACCGAGCACCTCCTCCACCATAGCCACCCAGACCACTA
CTAGCTGA
Found at i:112056 original size:48 final size:48
Alignment explanation
Indices: 111983--112075 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
111973 AGCTGATGCG
*
111983 GTTGTCCTTGGAAAGGTAGATTGAGCACCTCCTCCACCATGGCCAATC
1 GTTGTCCTTGGAAAGGTAGACTGAGCACCTCCTCCACCATGGCCAATC
* *
112031 GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCTACCATGGCCA
1 GTTGTCCTTGGAAAGGTAGACTGAGCACCTCCTCCACCATGGCCA
112076 GTGAGACCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (48 bp):
GTTGTCCTTGGAAAGGTAGACTGAGCACCTCCTCCACCATGGCCAATC
Found at i:112125 original size:117 final size:117
Alignment explanation
Indices: 111914--112144 Score: 356
Period size: 117 Copynumber: 2.0 Consensus size: 117
111904 AGCTGATTCA
*
111914 GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTACTAGCTGA
1 GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTACTAGCGGA
* *
111979 TGCGGTTGTCCTTGGAAAGGTAGATTGAGCACCTCCTCCACCATGGCCAATC
66 TGCGGTTGTCCTTGGAAAGGTAAACTGAGCACCTCCTCCACCATGGCCAATC
* * **
112031 GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCTACCATGGCCAGTGAGACCACTACTAGCGGA
1 GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTACTAGCGGA
* * *
112096 TGTC-GTTGTCCTTGGAGAGTTAAACTGAGCACCTCCTCTACCATGGCCA
66 TG-CGGTTGTCCTTGGAAAGGTAAACTGAGCACCTCCTCCACCATGGCCA
112145 GCCAGACCAC
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
117 102 0.99
118 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (117 bp):
GTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTACTAGCGGA
TGCGGTTGTCCTTGGAAAGGTAAACTGAGCACCTCCTCCACCATGGCCAATC
Found at i:112140 original size:69 final size:69
Alignment explanation
Indices: 112029--112663 Score: 719
Period size: 69 Copynumber: 9.2 Consensus size: 69
112019 CCATGGCCAA
* * ** *
112029 TCGTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCTACCATGGCCAGTGAGACCACTACTAGCG
1 TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGCT
112094 GATG
66 GATG
* *
112098 TCGTTGTCCTTGGAGAGTTAAACTGAGCACCTCCTCTACCATGGCCAGCCAGACCACTACTAGCT
1 TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGCT
112163 GATG
66 GATG
* * *
112167 -CAGTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCTGACCACTACTAGC
1 TC-GTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGC
112231 TGATG
65 TGATG
* * * * *
112236 TCATTGTCCTTGGAGAGTTAGACTGAGCACC-CCATCCACCATGGTCAGCCGGACCACTACTTGT
1 TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCC-TCCACCATGGCCAGCCAGACCACTACTAGC
112300 TGATG
65 TGATG
* * **
112305 -CGGTTGTCCTTGGAGAGTTAGATTGAGCACCTCCTCTACCATGGCCAGTGAGACCACTACTAGC
1 TC-GTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGC
*
112369 AGATG
65 TGATG
* * *
112374 TCATTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCTAGCCAGACCACTACTTGCT
1 TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGCT
112439 GATG
66 GATG
* * * *
112443 -CGGTTGTTCTTGGAGAGTTAGATTGAGCACCTCCTCCATCATGGCCTA-CCA-A--ACCACTAG
1 TC-GTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCC-AGCCAGACCACTACTAG
*
112503 TTGATG
64 CTGATG
* * * * ** * * *
112509 CCGTTGTCCTTGGAGAATTAGACTGAGAACCTCCTCCACCACGATCACCCAAACCACTACTAGTT
1 TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGCT
112574 GATG
66 GATG
* * * * * * * * *
112578 CCCTTGTCCTTGGAGAGTTAGACTGAGTACCTCCTCCATCATGGTCACCCGGACCACCAATAGCT
1 TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGCT
*
112643 AATG
66 GATG
* * *
112647 CCATTGGCCTTGGAGAG
1 TCGTTGTCCTTGGAGAG
112664 CAGGGATAAA
Statistics
Matches: 487, Mismatches: 66, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
65 1 0.00
66 50 0.10
67 2 0.00
68 6 0.01
69 423 0.87
70 5 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (69 bp):
TCGTTGTCCTTGGAGAGTTAGACTGAGCACCTCCTCCACCATGGCCAGCCAGACCACTACTAGCT
GATG
Found at i:112157 original size:186 final size:187
Alignment explanation
Indices: 111840--112213 Score: 572
Period size: 186 Copynumber: 2.0 Consensus size: 187
111830 CTAGTTGATG
*
111840 TCGTTGTCCTTGGAGAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCAGTACTACTA
1 TCGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCA--ACTACTA
* *
111905 GCTGATTCAGTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACT
64 GCGGATTCAGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACT
* * *
111970 ACTAGCTGATGCGGTTGTCCTTGGAAAGGTAGATTGAGCACCTCCTCCACCATGGCCAA
129 ACTAGCTGATGCAGTTGTCCTTGGAAAGGTAGACTGAGCACCTCCTCCACCATAGCCAA
* * ***
112029 TCGTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCTACCATGGCCAGTGAGACC-ACTACTAGC
1 TCGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCAACTACTAGC
* * *
112093 GGATGTC-GTTGTCCTTGGAGAGTTAAACTGAGCACCTCCTCTACCATGGCCAGCCAGACCACTA
66 GGAT-TCAGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTA
*
112157 CTAGCTGATGCAGTTGTCCTTGGAAAGTTAGACTGAGCACCTCCTCCACCATAGCCA
130 CTAGCTGATGCAGTTGTCCTTGGAAAGGTAGACTGAGCACCTCCTCCACCATAGCCA
112214 GCCTGACCAC
Statistics
Matches: 169, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
186 118 0.70
187 2 0.01
189 49 0.29
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (187 bp):
TCGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATGGCCAACCAGACCAACTACTAGC
GGATTCAGTTGTCCTTGGAAAGTTAAACTGAGCACCTCCTCCACCATAGCCAGCCAGACCACTAC
TAGCTGATGCAGTTGTCCTTGGAAAGGTAGACTGAGCACCTCCTCCACCATAGCCAA
Found at i:114256 original size:16 final size:17
Alignment explanation
Indices: 114234--114272 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
114224 CTTTATTACC
*
114234 ATAATAAAATACTAATT
1 ATAATAAAATAATAATT
*
114251 -TAATAATATAATAATT
1 ATAATAAAATAATAATT
114267 ATAATA
1 ATAATA
114273 CTGACCTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATAAAATAATAATT
Found at i:121509 original size:150 final size:150
Alignment explanation
Indices: 121238--121523 Score: 509
Period size: 150 Copynumber: 1.9 Consensus size: 150
121228 TGATATATAT
121238 ACATTTAGTGAATCAAACAGATAGAGAACAAACCAAGCATATGATCACAGAGAAGATATTGAAGA
1 ACATTTAGTGAATCAAACAGATAGAGAACAAACCAAGCATATGATCACAGAGAAGATATTGAAGA
* *
121303 AGTGAAAAATCTATCCATATCATGCATTTTTTACATGGTGAGAAAACGGAAGTTCTACAAATAGA
66 AGTGAAAAATCCATCCATATCATGCATTCTTTACATGGTGAGAAAACGGAAGTTCTACAAATAGA
121368 GATACTAAACAAATTTGATA
131 GATACTAAACAAATTTGATA
* * *
121388 ACATTTAGTGAATCCAACAGATAGAGGACAACCCAAGCATATGATCACAGAGAAGATATTGAAGA
1 ACATTTAGTGAATCAAACAGATAGAGAACAAACCAAGCATATGATCACAGAGAAGATATTGAAGA
* *
121453 AGTGAAAAATCCATCCCTATCATGCATTCTTTACATGGTGAGAAAATGGAAGTTCTACAAATAGA
66 AGTGAAAAATCCATCCATATCATGCATTCTTTACATGGTGAGAAAACGGAAGTTCTACAAATAGA
121518 GATACT
131 GATACT
121524 CTAAAAGATT
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 129 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.24
Consensus pattern (150 bp):
ACATTTAGTGAATCAAACAGATAGAGAACAAACCAAGCATATGATCACAGAGAAGATATTGAAGA
AGTGAAAAATCCATCCATATCATGCATTCTTTACATGGTGAGAAAACGGAAGTTCTACAAATAGA
GATACTAAACAAATTTGATA
Found at i:123220 original size:90 final size:88
Alignment explanation
Indices: 123078--123256 Score: 252
Period size: 90 Copynumber: 2.0 Consensus size: 88
123068 AACATCCTAC
* *
123078 ATATGGAATTTATTTACATAAAAGATAATGTGCTTTTCTCATGTATCTTTATGAGATGTTGTCAC
1 ATATGGAATTTATTTACATAAAAGATAATGTGCTATTCTCATGTATCTTTATGAGATGTTCTCAC
*
123143 ACAAGAACTAACGAAAACAAAGA
66 ACAAGAACTAAAGAAAACAAAGA
* *
123166 ATATGGAATTCATTTTTACATAAAAGATAATGTG-TCATTCTCATGTATCTTTATGCGATGTTCT
1 ATATGGAATT--TATTTACATAAAAGATAATGTGCT-ATTCTCATGTATCTTTATGAGATGTTCT
** *
123230 CATGCAAGAACTAAAGAAAACGAAGA
63 CACACAAGAACTAAAGAAAACAAAGA
123256 A
1 A
123257 AAATTATATA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
88 10 0.12
89 1 0.01
90 69 0.86
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (88 bp):
ATATGGAATTTATTTACATAAAAGATAATGTGCTATTCTCATGTATCTTTATGAGATGTTCTCAC
ACAAGAACTAAAGAAAACAAAGA
Found at i:123706 original size:12 final size:13
Alignment explanation
Indices: 123689--123723 Score: 63
Period size: 12 Copynumber: 2.8 Consensus size: 13
123679 GGTGTCACAG
123689 TTTTCTTTTTC-C
1 TTTTCTTTTTCTC
123701 TTTTCTTTTTCTC
1 TTTTCTTTTTCTC
123714 TTTTCTTTTT
1 TTTTCTTTTT
123724 TGGGAGGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTCTC
Found at i:123723 original size:6 final size:6
Alignment explanation
Indices: 123689--123723 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
123679 GGTGTCACAG
*
123689 TTTTCT TTTTCC TTTTCT TTTTCT CTTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT -TTTTCT TTTT
123724 TGGGAGGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:135830 original size:14 final size:14
Alignment explanation
Indices: 135811--135845 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
135801 CCTTTTAAAT
135811 TAAAATAGTAAAAA
1 TAAAATAGTAAAAA
*
135825 TAAAATGGTAAAAA
1 TAAAATAGTAAAAA
135839 TAAAATA
1 TAAAATA
135846 ATTATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (14 bp):
TAAAATAGTAAAAA
Found at i:136794 original size:96 final size:92
Alignment explanation
Indices: 136612--136820 Score: 265
Period size: 96 Copynumber: 2.2 Consensus size: 92
136602 TCGTCTAGAA
* * *
136612 TTAAGAAGAAAATGCATGAAGTTTTATACAATATACACTTTAAGATGTATATAGAAAATACTTAT
1 TTAAGAAGAAAAGGCATGAAGTTTTATACAATACACACTTTAAGATGTATATAGAAAATACTTAA
* * **
136677 AACATTGTCAGGTCTCATCATTTTAAT
66 AACACTGTCAAGTCTCATCATTCGAAT
* * * *
136704 TTAAGAAGAAAGGGCATGAAGTTTTATACAATACACTTTATTTTAAAGGTGTATATAGAAAATAG
1 TTAAGAAGAAAAGGCATGAAGTTTTATACAATACAC---ACTTT-AAGATGTATATAGAAAATAC
136769 TTAAAACACTGTCAAGTCTCATCATTCGAAT
62 TTAAAACACTGTCAAGTCTCATCATTCGAAT
* *
136800 TTAAGAAGAAAAAGCACGAAG
1 TTAAGAAGAAAAGGCATGAAG
136821 GATTAGATTT
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
92 33 0.33
95 4 0.04
96 62 0.63
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (92 bp):
TTAAGAAGAAAAGGCATGAAGTTTTATACAATACACACTTTAAGATGTATATAGAAAATACTTAA
AACACTGTCAAGTCTCATCATTCGAAT
Found at i:137086 original size:49 final size:49
Alignment explanation
Indices: 137033--137179 Score: 276
Period size: 49 Copynumber: 3.0 Consensus size: 49
137023 AACCCATCCC
*
137033 ATCGGATATCTAGAATTTTACTCTAATTAATTCGAATCAGACCCGCATT
1 ATCGGATATCTAGAATTTTATTCTAATTAATTCGAATCAGACCCGCATT
137082 ATCGGATATCTAGAATTTTATTCTAATTAATTCGAATCAGACCCGCATT
1 ATCGGATATCTAGAATTTTATTCTAATTAATTCGAATCAGACCCGCATT
*
137131 ATCGGATATCTAGAATTTTATTCTAATTAATTCGAATCAAACCCGCATT
1 ATCGGATATCTAGAATTTTATTCTAATTAATTCGAATCAGACCCGCATT
137180 CCGTACCTGC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 96 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (49 bp):
ATCGGATATCTAGAATTTTATTCTAATTAATTCGAATCAGACCCGCATT
Found at i:137395 original size:33 final size:33
Alignment explanation
Indices: 137327--137388 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
137317 ATATTGATTT
* **
137327 AAATGATATGAAGAAAATTTTGTTGCAAAAAAA
1 AAATGATATGAAGAAAATTTAGGAGCAAAAAAA
*
137360 AAATGATGTGAAGAAAATTTAGGAG-AAAA
1 AAATGATATGAAGAAAATTTAGGAGCAAAA
137389 TTAAAAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 4 0.16
33 21 0.84
ACGTcount: A:0.55, C:0.02, G:0.19, T:0.24
Consensus pattern (33 bp):
AAATGATATGAAGAAAATTTAGGAGCAAAAAAA
Found at i:141601 original size:38 final size:38
Alignment explanation
Indices: 141559--141635 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
141549 CTAAATGAGA
141559 ATTCAACTACATACCTACCAAATAAACAAACAAATTAC
1 ATTCAACTACATACCTACCAAATAAACAAACAAATTAC
141597 ATTCAACTACATACCTACCAAATAAACAAACAAATTAC
1 ATTCAACTACATACCTACCAAATAAACAAACAAATTAC
141635 A
1 A
141636 AACAAACTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (38 bp):
ATTCAACTACATACCTACCAAATAAACAAACAAATTAC
Found at i:153163 original size:18 final size:18
Alignment explanation
Indices: 153140--153174 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
153130 AATATTAGAT
153140 GGTGAATTAAGGTTTTTG
1 GGTGAATTAAGGTTTTTG
*
153158 GGTGAATTTAGGTTTTT
1 GGTGAATTAAGGTTTTT
153175 CGAATGCTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (18 bp):
GGTGAATTAAGGTTTTTG
Found at i:178544 original size:117 final size:117
Alignment explanation
Indices: 178375--179146 Score: 1028
Period size: 117 Copynumber: 6.7 Consensus size: 117
178365 TGTCCATGGC
* *
178375 CATG-CTTAGTACTTCTATCCCTTTCTTCCCTCCTATCTCTCTTGGCTTGCTTCTCTTCCTCATC
1 CATGCCTT-GTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATC
*
178439 GGAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
65 AGAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
* * *
178492 CATGCCTTGAACTTCTATCCCTTTCTCCCCTCCTATCTCTCTCGGCTCGCTTCTCTTCCTCATCG
1 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCA
* *
178557 GAGGATTCAGATTTCTCCTCCGCTTTATCTCTACGCCTGCTCCTATCATCAT
66 GAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
* *
178609 CATGCCTTGAACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCG
1 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCA
*
178674 GAGGATTCAGAATTCTCCTCCGCTTTATCTCTACGCCTGCTCCTATCATCAT
66 GAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
178726 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCA
1 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCA
* * * *
178791 GAGGATTCAGACTTCTCCTCCACTTTGTCTCTTCGCCTGCTCCTATCATCGT
66 GAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
* * *
178843 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCCCTGGGCTCGCTTCTTTTCCTCATCA
1 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCA
* * * * * **
178908 GAAGATTCAGACTTCTCCTCCACTTTGTCTCTTCGCCTGCTCCTATCACCGC
66 GAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
* ** *
178960 CATGCCTTGTACTTCTATCCCTATCT-CCCT--TGGCTC-CGTT--CT--CTTC-C-TCCTCATT
1 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTC-TTGGCTCGCTTCTCTTCCTCATC
* * * * * * * **
179015 AGAGGATTCAGAATTCTTCTCCACTATATCTCTCCGCGTACTCTTAGCATTGT
65 AGAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
* * * * * *
179068 CATGCCTAGTACTTCGATCCCTTTCTCCCCTCCCATCTCTCTTGTCTCGTTTCT-TGTCCTCGTC
1 CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCT-TCCTCATC
*
179132 AGAGGATCCAGAATT
65 AGAGGATTCAGAATT
179147 TGCTGCTATA
Statistics
Matches: 592, Mismatches: 50, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
108 70 0.12
109 4 0.01
110 4 0.01
111 5 0.01
112 3 0.01
113 3 0.01
114 5 0.01
115 3 0.01
116 4 0.01
117 488 0.82
118 3 0.01
ACGTcount: A:0.13, C:0.37, G:0.11, T:0.38
Consensus pattern (117 bp):
CATGCCTTGTACTTCTATCCCTTTCTCCCCTCCTATCTCTCTTGGCTCGCTTCTCTTCCTCATCA
GAGGATTCAGAATTCTCCTCCACTTTATCTCTACGCCTGCTCCTATCATCAT
Found at i:179072 original size:108 final size:105
Alignment explanation
Indices: 178874--179096 Score: 241
Period size: 108 Copynumber: 2.1 Consensus size: 105
178864 TTTCTCCCCT
* * *
178874 CCTATCTCCCTGGGCTCGCTTCTTTTCCTCATCAGAAGATTCAGACTTCTCCTCCACTTTGTCTC
1 CCTATCTCCCTGGGCTCGCTTCTTTTCCTCATCAGAAGATTCAGAATTCTCCTCCACTATATCTC
* * * * *
178939 TTCGCCTGCTCCTATCACCGCCATGCCTTGTACTTCTATC
66 TCCGCCTACTCCTAGCACCGCCATGCCTAGTACTTCGATC
* * * *
178979 CCTATCTCCCTTGGCTC-CGTTCTCTTCCTCCTCATTAGAGGATTCAGAATTCTTCTCCACTATA
1 CCTATCTCCCTGGGCTCGC-TTCT-TT--TCCTCATCAGAAGATTCAGAATTCTCCTCCACTATA
* * ** *
179043 TCTCTCCGCGTACTCTTAGCATTGTCATGCCTAGTACTTCGATC
62 TCTCTCCGCCTACTCCTAGCACCGCCATGCCTAGTACTTCGATC
*
179087 CCTTTCTCCC
1 CCTATCTCCC
179097 CTCCCATCTC
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
104 1 0.01
105 20 0.21
106 2 0.02
108 73 0.76
ACGTcount: A:0.14, C:0.37, G:0.12, T:0.37
Consensus pattern (105 bp):
CCTATCTCCCTGGGCTCGCTTCTTTTCCTCATCAGAAGATTCAGAATTCTCCTCCACTATATCTC
TCCGCCTACTCCTAGCACCGCCATGCCTAGTACTTCGATC
Found at i:185260 original size:2 final size:2
Alignment explanation
Indices: 185255--185285 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
185245 AAGGGAAAAA
185255 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
185286 TAAAATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:186158 original size:22 final size:22
Alignment explanation
Indices: 186133--186177 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
186123 ACCGCTTCAA
186133 TATGATTATATATGCTTAAACT
1 TATGATTATATATGCTTAAACT
186155 TATGATTATATATGCTTAAACT
1 TATGATTATATATGCTTAAACT
186177 T
1 T
186178 CAACTTACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (22 bp):
TATGATTATATATGCTTAAACT
Found at i:188977 original size:100 final size:100
Alignment explanation
Indices: 188804--189009 Score: 340
Period size: 100 Copynumber: 2.1 Consensus size: 100
188794 TTATCTAAGC
*
188804 ATGCCATTCAAGCATTAACAAATTCAGGGCCCTTCCAATGCCATTTTGTTGTTTCTTTCTACCAA
1 ATGCCATTCAAGCATTAACAAATTCAGGGACCTTCCAATGCCATTTTGTTGTTTCTTTCTACCAA
* *
188869 AATATGTAGTGACCAAGCTTGCTTTACAGCGTAGG
66 AATATGTAGTGACCAAGCTAGCTTTACAGAGTAGG
* * *
188904 ATGCCATTCAAGCATTAACTAATTCAGGGACCTTCCCATGCCATTTTGTTGTTTCTTTTTACCAA
1 ATGCCATTCAAGCATTAACAAATTCAGGGACCTTCCAATGCCATTTTGTTGTTTCTTTCTACCAA
* *
188969 TATATGTAGTGACCAAGCTAGCTTTACAGAGTGGG
66 AATATGTAGTGACCAAGCTAGCTTTACAGAGTAGG
189004 ATGCCA
1 ATGCCA
189010 ATGTAATTTA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (100 bp):
ATGCCATTCAAGCATTAACAAATTCAGGGACCTTCCAATGCCATTTTGTTGTTTCTTTCTACCAA
AATATGTAGTGACCAAGCTAGCTTTACAGAGTAGG
Found at i:194883 original size:24 final size:24
Alignment explanation
Indices: 194855--194905 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
194845 GGTTTTCTTT
194855 TAGGGAATTAAAATTCATGTCCTC
1 TAGGGAATTAAAATTCATGTCCTC
*
194879 TAGGGAATTAAAATTTATGTCCTC
1 TAGGGAATTAAAATTCATGTCCTC
194903 TAG
1 TAG
194906 TAAATAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (24 bp):
TAGGGAATTAAAATTCATGTCCTC
Found at i:195887 original size:28 final size:28
Alignment explanation
Indices: 195847--195907 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
195837 TTGAGCTAGA
195847 CTCTTCCGTAGATTCAGATGTTCATGAT
1 CTCTTCCGTAGATTCAGATGTTCATGAT
195875 CTCTTCCGTAGATTCAGATGTTCATGAT
1 CTCTTCCGTAGATTCAGATGTTCATGAT
195903 CTCTT
1 CTCTT
195908 TCTTCACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (28 bp):
CTCTTCCGTAGATTCAGATGTTCATGAT
Found at i:207681 original size:73 final size:73
Alignment explanation
Indices: 207562--207781 Score: 440
Period size: 73 Copynumber: 3.0 Consensus size: 73
207552 GAGGTTGGCG
207562 ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
1 ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
207627 GATGAGAA
66 GATGAGAA
207635 ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
1 ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
207700 GATGAGAA
66 GATGAGAA
207708 ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
1 ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
207773 GATGAGAA
66 GATGAGAA
207781 A
1 A
207782 TTTTTCTTCT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 147 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.22
Consensus pattern (73 bp):
ACGAGGCTCGAAATATGGGAAGCCCCAGAGCTGCAGATTGCTTTGACTTATATAAGGCTTCGGAA
GATGAGAA
Found at i:217933 original size:15 final size:15
Alignment explanation
Indices: 217910--217958 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
217900 TAAAATAACA
217910 AACAATTACCACTAT
1 AACAATTACCACTAT
* * * *
217925 AACATTTACCTCAAA
1 AACAATTACCACTAT
*
217940 AAAAATTACCACTAT
1 AACAATTACCACTAT
217955 AACA
1 AACA
217959 TTATGACAAA
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
AACAATTACCACTAT
Found at i:218915 original size:31 final size:31
Alignment explanation
Indices: 218872--218933 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
218862 ACTAATCCGG
* *
218872 ATCCGGATCCGACCTGTGTCGCGCATCTGGT
1 ATCCCGATCCGACCTGCGTCGCGCATCTGGT
218903 ATCCCGATCCGACCTGCGTCGCGCATCTGGT
1 ATCCCGATCCGACCTGCGTCGCGCATCTGGT
218934 TATGGTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.13, C:0.35, G:0.27, T:0.24
Consensus pattern (31 bp):
ATCCCGATCCGACCTGCGTCGCGCATCTGGT
Found at i:222668 original size:35 final size:35
Alignment explanation
Indices: 222622--222688 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
222612 TTGAATCTTT
*
222622 AATTTGAACGAAATGGAGATTGAGCAGAAGTATCA
1 AATTTGAACGAAATGGAGATTGAGAAGAAGTATCA
222657 AATTTGAACGAAATGGAGATTGAGAAGAAGTA
1 AATTTGAACGAAATGGAGATTGAGAAGAAGTA
222689 GAATTTGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.27, T:0.22
Consensus pattern (35 bp):
AATTTGAACGAAATGGAGATTGAGAAGAAGTATCA
Found at i:226156 original size:3 final size:3
Alignment explanation
Indices: 226148--226181 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
226138 CAATTTTCTA
226148 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
226182 AGTATTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:226172 original size:14 final size:14
Alignment explanation
Indices: 226148--226189 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
226138 CAATTTTCTA
226148 ATTATTATTATTATT
1 ATTA-TATTATTATT
226163 ATTATATTATTATT
1 ATTATATTATTATT
*
226177 ATTATAGTATTAT
1 ATTATATTATTAT
226190 ATATAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:228848 original size:18 final size:18
Alignment explanation
Indices: 228825--228863 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
228815 TAGTTTCTTT
228825 TAAAGCAAGAAAAATGAA
1 TAAAGCAAGAAAAATGAA
228843 TAAAGCAAGAAAAATGAA
1 TAAAGCAAGAAAAATGAA
228861 TAA
1 TAA
228864 CGCTTGGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.15, T:0.13
Consensus pattern (18 bp):
TAAAGCAAGAAAAATGAA
Found at i:230652 original size:2 final size:2
Alignment explanation
Indices: 230645--230690 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
230635 TGCATATGAT
* *
230645 TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG -G TG AG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
230686 TG TG T
1 TG TG T
230691 CTGTTTCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.02, C:0.02, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:240882 original size:18 final size:18
Alignment explanation
Indices: 240859--240897 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
240849 CAGCTACACC
240859 AATGCATGATGGCATGAG
1 AATGCATGATGGCATGAG
*
240877 AATGCATGATGGGATGAG
1 AATGCATGATGGCATGAG
240895 AAT
1 AAT
240898 CCCAATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.33, T:0.23
Consensus pattern (18 bp):
AATGCATGATGGCATGAG
Found at i:242513 original size:324 final size:326
Alignment explanation
Indices: 241292--242679 Score: 1851
Period size: 324 Copynumber: 4.3 Consensus size: 326
241282 GAATTTAAGG
* *
241292 ATCATGTTTCGATTTAATCAGAAAATAATTCAAATAAAATTGGAAAAACGATATTAGAAGTC-TG
1 ATCATGTTTCGATTTAATCAGAAATTAATTCAGATAAAATTGGAAAAACGATATTAGAAG-CGTG
* *
241356 AAAAGCTCTTCATTCTTTTTGGCGTTGAA-T-TATA----C-A-A-TATTGTGGCTAAAAATTTA
65 AAAAGCTCTTCAATCTTTTTGGCATTGAATTATATATTTTCTAGAGTATTGTGGCTAAAAATTTA
* * * *
241412 TTGAAAATCTTTCGGGTCAGTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTT
130 GTAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATC-TG---T-ACCATCACAGTT
* * * * * *
241477 TTTTG-TTAAAACGCGTTTCGGGGCTCCAGCTCAGTTTTGCATGATTTTTGGCGCTAAGACTCCA
190 TTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCA
*
241541 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAGGATTTGCTTTTACGAG
255 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAGGATTTGTTTTTACGAG
241606 CATCTGA
320 CATCTGA
* * *
241613 ATCATGTTTCGATTTAATGAGAAATTTATTCAGATAAAATTGGAAAAATGATATTAGAAGCGTGA
1 ATCATGTTTCGATTTAATCAGAAATTAATTCAGATAAAATTGGAAAAACGATATTAGAAGCGTGA
* *
241678 AAAGCTCTTCAATCTTTTTGGCATTAAATTATATATTTTCTGTGAGTATTGTGGCTAAAAATTTA
66 AAAGCTCTTCAATCTTTTTGGCATTGAATTATATATTTTCT-AGAGTATTGTGGCTAAAAATTTA
* * * *
241743 GTAAAAATATTTCGGGTTAATTTTTGCAAAATTTTAGGCGAAATAGTGTATGCATCACAGTTTTT
130 GTAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAAT-CTGTA-CCATCACAGTTTTT
*
241808 GGCTAAAAACGCGTTCCAGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCATGA
193 GGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCATGA
* * *
241873 AATATC--TA---AT-T----AAATCTCAACCACGATGGATTTAAGGATTTGTTTTTACGAGCAT
258 AATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAGGATTTGTTTTTACGAGCAT
241928 CTGA
323 CTGA
* * *
241932 ATAATGTTTCGATTT-ATAAAAAATT-ATT-ATGATAAAATTGGAAAAACGATATTAGAAGCGTG
1 ATCATGTTTCGATTTAATCAGAAATTAATTCA-GATAAAATTGGAAAAACGATATTAGAAGCGT-
* * * *
241994 GAAAA-CTCTTCAATCTTTTTGGCATTGAATAATATATTGTCTGAGAGTATTGTGACTAATAATT
64 GAAAAGCTCTTCAATCTTTTTGGCATTGAATTATATATTTTCT-AGAGTATTGTGGCTAAAAATT
*
242058 TAGTAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCAGCACAG
128 TAGTAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATC-TG---T-ACCATCACAG
* * *
242123 CTTTTGGCTAAAAACGCGTTCCGGGGCCCCGTCTCAGTTTTGCATGATTTTTGGCGTCAAGACTC
188 TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTC
* *
242188 CATGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAATGATTTGTTTTTACA
253 CATGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAGGATTTGTTTTTACG
* *
242253 AACATCTAA
318 AGCATCTGA
*
242262 ATCATGTTTCGATTTAATCAGAAATTAATTCAGATATAATTGGAAAAACGATATTAGAAGCGTGA
1 ATCATGTTTCGATTTAATCAGAAATTAATTCAGATAAAATTGGAAAAACGATATTAGAAGCGTGA
* *
242327 AAAGCTCTTC-ATTTTTTTGGCATTGAATTATATATTTTCTATGAGTATTGTGTCTAAAAATTTA
66 AAAGCTCTTCAATCTTTTTGGCATTGAATTATATATTTTCTA-GAGTATTGTGGCTAAAAATTTA
* * * * * *
242391 GTAAAATTCTTTCAGATTAATTTTTACAAAATTTTAACTGAAATC-G-ACCATCACAGTTTTTGG
130 GTAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATCTGTACCATCACAGTTTTTGG
*
242454 CTAAAAATGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCATGAAA
195 CTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCATGAAA
* * * *
242519 TATCTATATTCAACAAACCAAATCTCAGCCACAATGGATTTAAGGATTTATTTTTACGAGCATCT
260 TATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAGGATTTGTTTTTACGAGCATCT
242584 GA
325 GA
* * *
242586 ATCATGTTTCGATTTAATCAGAAATTTATTCATATAAAATTGGAAAAACGATATTAGAAGCGTTA
1 ATCATGTTTCGATTTAATCAGAAATTAATTCAGATAAAATTGGAAAAACGATATTAGAAGCGTGA
* * *
242651 AAATCTATTCAATGTTTTTGGCATTGAAT
66 AAAGCTCTTCAATCTTTTTGGCATTGAAT
242680 ATTCAATGCT
Statistics
Matches: 941, Mismatches: 89, Indels: 70
0.86 0.08 0.06
Matches are distributed among these distances:
316 1 0.00
317 132 0.14
318 13 0.01
319 58 0.06
320 81 0.09
321 84 0.09
322 3 0.00
323 5 0.01
324 207 0.22
325 19 0.02
326 1 0.00
327 4 0.00
328 15 0.02
329 63 0.07
330 57 0.06
331 158 0.17
332 39 0.04
333 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (326 bp):
ATCATGTTTCGATTTAATCAGAAATTAATTCAGATAAAATTGGAAAAACGATATTAGAAGCGTGA
AAAGCTCTTCAATCTTTTTGGCATTGAATTATATATTTTCTAGAGTATTGTGGCTAAAAATTTAG
TAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATCTGTACCATCACAGTTTTTGGC
TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCATGAAAT
ATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAGGATTTGTTTTTACGAGCATCTG
A
Found at i:243290 original size:333 final size:331
Alignment explanation
Indices: 242684--243568 Score: 1240
Period size: 333 Copynumber: 2.7 Consensus size: 331
242674 TTGAATATTC
** *
242684 AATGCTATTAGATTGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTGTATGAG
1 AATGCTATTAGAAGGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTCTATGAG
* * * *
242749 TATTGTGGCTAAAAATTTAGTAAAAATCTTTCGAGGCAATTTTTCCAAAATTTTAGCCGACATCG
66 TATTGTGGCTAAAAATTTAGTAAAAATCTTTCGGGGAAATTTTTCTAAAATTTTAGCCGAAATCG
** * * * **
242814 TAAACTAATCATTACAGTTTTTTGGTTAAAAACGCGTTTCGAAGCCCCGGCTCAGTTTTGCATGA
131 TGTACTAATCATCACAG-TTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGA
* * *
242879 TTTTTGGCGCCAAGACTCAATTAGATATCTATATTCATTTAACCAAATCTCAGCCACATAGTATT
195 TTTTT-GCGCCAAGACTCAATGAAATATATATATTCATTTAACCAAATCTCAGCCACATAGTATT
*
242944 TAAAGATTTGTTTTTACGAGCATTTGAATCATGTTTCGATTTAAT-AAAAATTATTTCTGATAAA
259 TAAAGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAAAAATTATTTCTG-TAAA
243008 AATTGGAAA
323 AATTGGAAA
243017 AATGCTATTAGAAGGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTCTATGAG
1 AATGCTATTAGAAGGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTCTATGAG
* * * *
243082 TATTGTGTCTAAAAGTTTAGAAAAAAATCTTTCGGGGAAATTTTTCTAAAATTTTATCCGAAATC
66 TATTGTGGCTAAAAATTTAG-TAAAAATCTTTCGGGGAAATTTTTCTAAAATTTTAGCCGAAATC
* * * *
243147 GTGTACTAACCAGCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTTAGTTTTGCATTA
130 GTGTACTAATCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGA
* *
243212 TTTTTAGCGCCAAGACTCAATGAAATATATATATTC-TTCTTACCAAATCTCAGCCACATTGTAT
195 TTTTT-GCGCCAAGACTCAATGAAATATATATATTCATT-TAACCAAATCTCAGCCACATAGTAT
* * **
243276 TTAAAGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTTATCAGAAATTATTTCTGTTGA
258 TTAAAGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAAAAATTATTTCTGTAAA
243341 AATTGGAAA
323 AATTGGAAA
* * ** * * * *
243350 AACGATAAAAGAAGAGTGAAAAGCTCTTCATT-TTTTTGGCGTTGAATTATATATTCTCTATGAG
1 AATGCTATTAGAAGGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTCTATGAG
*
243414 TATTGTGGCTAAAAATTTAGTAAAAATCTTTCGGGGAAATTTTTCTATAATTTTAGCCGAAATCG
66 TATTGTGGCTAAAAATTTAGTAAAAATCTTTCGGGGAAATTTTTCTAAAATTTTAGCCGAAATCG
* * ** *
243479 TGTA-T-GTTATCACAGTTTCAGGCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTGCATGAT
131 TGTACTAATCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGAT
* *
243542 TTTTGATGTCAAGACTCAATGAAATAT
196 TTTTG-CGCCAAGACTCAATGAAATAT
243569 CTAGGGATTG
Statistics
Matches: 491, Mismatches: 57, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
328 1 0.00
329 72 0.15
330 1 0.00
331 46 0.09
332 50 0.10
333 257 0.52
334 64 0.13
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (331 bp):
AATGCTATTAGAAGGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTCTATGAG
TATTGTGGCTAAAAATTTAGTAAAAATCTTTCGGGGAAATTTTTCTAAAATTTTAGCCGAAATCG
TGTACTAATCATCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGAT
TTTTGCGCCAAGACTCAATGAAATATATATATTCATTTAACCAAATCTCAGCCACATAGTATTTA
AAGATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAAAAATTATTTCTGTAAAAAT
TGGAAA
Found at i:243349 original size:718 final size:707
Alignment explanation
Indices: 241995--243396 Score: 1875
Period size: 718 Copynumber: 2.0 Consensus size: 707
241985 AGAAGCGTGG
* *
241995 AAAACTCTTCAATCTTTTTGGCATTGAATAATATATTGTCTGAGAGTATTGTGACTAATAATTTA
1 AAAACTCTTCAATCTTTTGGGCATTGAATAATATATTGTCTGAGAGTATTGTGACTAAAAATTTA
* * **
242060 GTAAAAATCTTTCGGGTTAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCAGCACAGCT
66 GTAAAAATCTTTCGGGTCAATTTTTCCAAAATTTTAGCCGAAATCATAAACTAACCAGCACAGCT
** * * *
242125 TTTGGCTAAAAACGCGTTCCGGGGCCCCGTCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCCA
131 TTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAA
*
242190 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAATGATTTGTTTTTACAAA
196 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAAGATTTGTTTTTACAAA
* *
242255 CATCTAAATCATGTTTCGATTTAATCAGAAATTAATTCAGATATAATTGGAAAAACGATATTAGA
261 CATCTAAATCATGTTTCGATTTAATCAAAAATTAATTCAGATAAAATTGGAAAAACGATATTAGA
* *
242320 AGCGTGAAAAGCTCTTCATTTTTTTGGCATTGAATTATATATTTTCTATGAGTATTGTGTCTAAA
326 AGCGTGAAAAACTCTTCATTTTTTGGGCATTGAATTATATATTTTCTATGAGTATTGTGTCTAAA
* * ** * *
242385 AATTTAGTAAAATTCTTTCAGATTAATTTTTACAAAATTTTAACTGAAATCGACCATCACAGTTT
391 AATTTAGAAAAAATCTTTCAGAGAAATTTTTACAAAATTTTAACCGAAATCGACCAGCACAGTTT
* * *
242450 TTGGCTAAAAATGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCAT
456 TTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCAAT
* *
242515 GAAATATCTATATTCAACAAACCAAATCTCAGCCACAATGGATTTAAGGATTTATTTTTACGAGC
521 GAAATATATATATTCAACAAACCAAATCTCAGCCACAATGGATTTAAAGATTTATTTTTACGAGC
**
242580 ATCTGAATCATGTTTCGATTTAATCAGAAATTTATTCATATAAAATTGGAAAAACGATATTAGAA
586 ATCTGAATCATGTTTCGATTTAATCAGAAATTTATTCATATAAAATTGGAAAAACGATAAAAGAA
* * *
242645 GCGTTAAAATCTATTCAATGTTTTTGGCATTGAATATTCAATGCTATTAGATTGGTGA
651 GAGTGAAAAGCTATTC-ATGTTTTTGGCATTGAATATTCAATGCTATTAGATTGGTGA
* * * *
242703 AAAACTCTTCATTCTTTTGGGCGTTGAATTATATATT-T-TGTATGAGTATTGTGGCTAAAAATT
1 AAAACTCTTCAATCTTTTGGGCATTGAATAATATATTGTCTG-A-GAGTATTGTGACTAAAAATT
* * * **
242766 TAGTAAAAATCTTTCGAGG-CAATTTTTCCAAAATTTTAGCCGACATCGTAAACTAATCATTACA
64 TAGTAAAAATCTTTCG-GGTCAATTTTTCCAAAATTTTAGCCGAAATCATAAACTAACCAGCACA
* * *
242830 GTTTTTTGGTTAAAAACGCGTTTCGAAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGAC
128 G-CTTTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGAC
* * * * *
242895 TCAATTAGATATCTATATTCATTTAACCAAATCTCAGCCAC-ATAGTATTTAAAGATTTGTTTTT
192 TCAATGAAATATCTATATTCATCTAACCAAATCTCAGCCACAAT-GGACTTAAAGATTTGTTTTT
* * * * * * * *
242959 ACGAGCATTTGAATCATGTTTCGATTTAAT-AAAAATTATTTCTGATAAAAATTGGAAAAATGCT
256 ACAAACATCTAAATCATGTTTCGATTTAATCAAAAATTAATTCAGAT-AAAATTGGAAAAACGAT
* *
243023 ATTAGAAGGGTGAAAAACTCTTCATTCTTTTGGGCGTTGAATTATATATTTTCTATGAGTATTGT
320 ATTAGAAGCGTGAAAAACTCTTCATT-TTTTGGGCATTGAATTATATATTTTCTATGAGTATTGT
* * * *
243088 GTCTAAAAGTTTAGAAAAAAATCTTTCGGGGAAATTTTT-CTAAAATTTTATCCGAAATCGTGTA
384 GTCTAAAAATTTAG-AAAAAATCTTTCAGAGAAATTTTTAC-AAAATTTTAACCGAAATC--G--
* *
243152 CTAACCAGCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTTAGTTTTGCATTATTTTT
443 ---ACCAGCACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTT
** ** * *
243217 AGCGCCAAGACTCAATGAAATATATATATTCTTCTTACCAAATCTCAGCCACATTGTATTTAAAG
505 AGCGCCAAGACTCAATGAAATATATATATTCAACAAACCAAATCTCAGCCACAATGGATTTAAAG
* * * *
243282 ATTTGTTTTTACGAGCATCTGAATCATGTTTCGATTTTATCAGAAA-TTATTTC-TGTTGAAATT
570 ATTTATTTTTACGAGCATCTGAATCATGTTTCGATTTAATCAGAAATTTA-TTCAT-ATAAAATT
* * *
243345 GGAAAAACGATAAAAGAAGAGTGAAAAGCTCTTCATTTTTTTGGCGTTGAAT
633 GGAAAAACGATAAAAGAAGAGTGAAAAGCTATTCATGTTTTTGGCATTGAAT
243397 TATATATTCT
Statistics
Matches: 598, Mismatches: 78, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
706 2 0.00
707 2 0.00
708 119 0.20
709 176 0.29
710 50 0.08
711 34 0.06
713 1 0.00
717 20 0.03
718 194 0.32
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (707 bp):
AAAACTCTTCAATCTTTTGGGCATTGAATAATATATTGTCTGAGAGTATTGTGACTAAAAATTTA
GTAAAAATCTTTCGGGTCAATTTTTCCAAAATTTTAGCCGAAATCATAAACTAACCAGCACAGCT
TTTGGCTAAAAACGCGTTCCGAAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAA
TGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGACTTAAAGATTTGTTTTTACAAA
CATCTAAATCATGTTTCGATTTAATCAAAAATTAATTCAGATAAAATTGGAAAAACGATATTAGA
AGCGTGAAAAACTCTTCATTTTTTGGGCATTGAATTATATATTTTCTATGAGTATTGTGTCTAAA
AATTTAGAAAAAATCTTTCAGAGAAATTTTTACAAAATTTTAACCGAAATCGACCAGCACAGTTT
TTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTAGCGCCAAGACTCAAT
GAAATATATATATTCAACAAACCAAATCTCAGCCACAATGGATTTAAAGATTTATTTTTACGAGC
ATCTGAATCATGTTTCGATTTAATCAGAAATTTATTCATATAAAATTGGAAAAACGATAAAAGAA
GAGTGAAAAGCTATTCATGTTTTTGGCATTGAATATTCAATGCTATTAGATTGGTGA
Found at i:243625 original size:13 final size:13
Alignment explanation
Indices: 243607--243631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
243597 AGTCATGTGG
243607 ATAAAAATTTTGA
1 ATAAAAATTTTGA
243620 ATAAAAATTTTG
1 ATAAAAATTTTG
243632 GGTTAATTTT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
ATAAAAATTTTGA
Found at i:243729 original size:187 final size:185
Alignment explanation
Indices: 243391--243758 Score: 435
Period size: 187 Copynumber: 2.0 Consensus size: 185
243381 TTTTTTGGCG
* *
243391 TTGAATTATATATTCTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTCGGGGAAATTT
1 TTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAATAAAAATCTTTCGGGGAAATTT
* * * *
243456 TTCTATAATTTTAGCCGAAATCGTGTATGTTATCACAGTTTCAGGCTAAAAACGCGTTCCGGGGC
66 TTCTAAAATTTTAGCCGAAATAGTGTATGTCATCACAGTTTCAGGCTAAAAACGCGTTCCGGGAC
***
243521 CCCGACTCAGTTTTGCATGATTTTTGATGTCAAGACTCAATGAAATATCTAGGGA
131 CCCGACTCAGTTTTGCATGATTTTTGACACCAAGACTCAATGAAATATCTAGGGA
* * **
243576 TTGAATTATATATTTTCTGTGAGTCA-TGTGGATAAAAATTTTGAATAAAAAT-TTT-GGGTTAA
1 TTGAATTATATATTCTCTATGAGT-ATTGTGGATAAAAA-TTT-AATAAAAATCTTTCGGGGAAA
* *
243638 TTTTTGTAAAATTTTAGCCGAAATAGTG-A-GCTAACCATCACAGTCTTTA-GCTAAAAACGCGT
63 TTTTTCTAAAATTTTAGCCGAAATAGTGTATG-T---CATCACAGT-TTCAGGCTAAAAACGCGT
* * * *
243700 TTCGGGACCCC-AGTTCAGTTTTGCATGATTTTTGGCACCAAGACTGAATGAAATATCTA
123 TCCGGGACCCCGA-CTCAGTTTTGCATGATTTTTGACACCAAGACTCAATGAAATATCTA
243759 TATTCATCTA
Statistics
Matches: 155, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
183 1 0.01
184 2 0.01
185 63 0.41
186 8 0.05
187 78 0.50
188 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (185 bp):
TTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAATAAAAATCTTTCGGGGAAATTT
TTCTAAAATTTTAGCCGAAATAGTGTATGTCATCACAGTTTCAGGCTAAAAACGCGTTCCGGGAC
CCCGACTCAGTTTTGCATGATTTTTGACACCAAGACTCAATGAAATATCTAGGGA
Found at i:244187 original size:333 final size:329
Alignment explanation
Indices: 243575--244753 Score: 1306
Period size: 333 Copynumber: 3.6 Consensus size: 329
243565 ATATCTAGGG
* * * *
243575 ATTGAATTATATATTTTCTGTGAGTCA-TGTGGATAAAAATTTTGAATAAAAAT-TTT-GGGTTA
1 ATTGAATTATATATTCTCTATGAGT-ATTGTGGCT-AAAA-TTT-AGTAAAAATCTTTCGGGTTA
** * * *
243637 ATTTTTGTAAAATTTTAGCCGAAATAGTG-AGCTAACCATCACAGTCTTTAGCTAAAAACGCGTT
62 ATTTTTCCAAAATTTTAGCCGAAATCGTGTAGCTAACCA-CA-AGTTTTTGGCTAAAAACGCGTT
* *
243701 TCGGGACCCCAGTTCAGTTTTGCATGATTTTTGGCACCAAGACTGAATGAAATATCTATATTCAT
125 TCGGG-CCCCAGCTCAGTTTTGCATGATTTTTGGCACCAAGACTCAATGAAATATCTATATTCAT
* * **
243766 CTAACGAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGCATCTGAAAAATGTTTCG
189 CTAACCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTATACGAGCATCT-AAATTTGTTTCG
*
243831 ATTTAAAAAGAAATTAATTCTGATAAAAATTGGAAAAACGATATTAGAAGCGTGGAAAA-CTCTT
253 ATTTAATAAGAAATTAATTCTGATAAAAATTGGAAAAACGATATTAGAAGCGT-GAAAAGCTCTT
*
243895 CAATCTTTTTGGC
317 CATTCTTTTTGGC
* * *
243908 ATTGAATAATATATTGTCTGA-GAGTATTGTGACTAATAATTTAGTAAAAATCTTTCGGGTTAAT
1 ATTGAATTATATATTCTCT-ATGAGTATTGTGGCTAA-AATTTAGTAAAAATCTTTCGGGTTAAT
** * * *
243972 TTTAGCAAAATTTTAGCTGAAATCGTGTA-CTAACCACCATAATTTTTGGCTAAAAACGCGTTCC
64 TTTTCCAAAATTTTAGCCGAAATCGTGTAGCTAACCA-CA-AGTTTTTGGCTAAAAACGCGTTTC
** ** * * * *
244036 AAAGCCCTGGCTCAGTTTTACATTATTTTTGGCGCCAAGACTCAATGAAATATCTATATTCATTT
127 -GGGCCCCAGCTCAGTTTTGCATGATTTTTGGCACCAAGACTCAATGAAATATCTATATTCATCT
* * *
244101 AGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTATACGAGTATCTAAATCTTGTTTAGAT
191 AACCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTATACGAGCATCTAAAT-TTGTTTCGAT
* * * * * *
244166 TTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCAT
255 TTAATAAGAAATTAATTCTGATAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCTCTTCAT
244231 TCTTTTTGGC
320 TCTTTTTGGC
*
244241 ATTGAATTATATATTCTCTATGAGTATTGTGGCTAAATATTTAGTAAAAATCTCTCGGCG--AAT
1 ATTGAATTATATATTCTCTATGAGTATTGTGGCTAAA-ATTTAGTAAAAATCTTTCGG-GTTAAT
* * *
244304 TTTTCCAAAATTTTAGCCGAAATTGTGTATG-TTATCAC-AGTTTTTGGCTAAAAACGCGTTTCG
64 TTTTCCAAAATTTTAGCCGAAATCGTGTA-GCTAACCACAAGTTTTTGGCTAAAAACGCGTTTC-
* * * *
244367 GGGCCCCAGCTCAGTATTGCATGATTTTTTGCCCCAAGACTCAATGAAAAATCTATATTCATCTA
127 GGGCCCCAGCTCAGTTTTGCATGATTTTTGGCACCAAGACTCAATGAAATATCTATATTCATCTA
* * * * * *
244432 AACAAATCTCAGCCACATTGTATTTAGGGATTTGTTTCTACGAGCATCTAAATTATATCTCGATT
192 ACCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTATACGAGCATCTAAATT-TGTTTCGATT
** * * *
244497 TAATCCGAAATTAATTCAGA-GAAAATTGCAAAAACGATATTAGAAGCGTGAAAAGC-CTTTCAT
256 TAATAAGAAATTAATTCTGATAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCTC-TTCAT
244560 TCTTTTTGGC
320 TCTTTTTGGC
* * * * * **
244570 TTTGATTTATATATTTTCTATGACTATAGTGGCTAAAAATTTAGTAAAAATCTTTCGGGAAAATT
1 ATTGAATTATATATTCTCTATGAGTATTGTGGCT-AAAATTTAGTAAAAATCTTTCGGGTTAATT
* * * ** * *
244635 TTTCCAAAATTTTAGTCGAAATCGTGTA-CTAACCATTATAGTTTTAGGGAAAAAACGCATTCCG
65 TTTCCAAAATTTTAGCCGAAATCGTGTAGCTAACCA-CA-AGTTTTTGGCTAAAAACGCGTTTCG
* * ** * *
244699 GGCCCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACTCAAAGAAATATCTA
128 GGCCCCAG-CTCAGTTTTGCATGATTTTTGGCACCAAGACTCAATGAAATATCTA
244754 GGGATTGAAT
Statistics
Matches: 712, Mismatches: 110, Indels: 49
0.82 0.13 0.06
Matches are distributed among these distances:
328 1 0.00
329 98 0.14
330 179 0.25
331 16 0.02
332 105 0.15
333 310 0.44
334 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (329 bp):
ATTGAATTATATATTCTCTATGAGTATTGTGGCTAAAATTTAGTAAAAATCTTTCGGGTTAATTT
TTCCAAAATTTTAGCCGAAATCGTGTAGCTAACCACAAGTTTTTGGCTAAAAACGCGTTTCGGGC
CCCAGCTCAGTTTTGCATGATTTTTGGCACCAAGACTCAATGAAATATCTATATTCATCTAACCA
AATCTCAGCCACATAGTATTTAAGGATTTGTTTATACGAGCATCTAAATTTGTTTCGATTTAATA
AGAAATTAATTCTGATAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAGCTCTTCATTCTTTT
TGGC
Found at i:244763 original size:849 final size:846
Alignment explanation
Indices: 243908--246952 Score: 2970
Period size: 849 Copynumber: 3.6 Consensus size: 846
243898 TCTTTTTGGC
* * *
243908 ATTGAATAATATATTGTCTGAGAGTATTGT-GACTAATAATTTAGTAA-AAATCTTTCGGGTTAA
1 ATTGAATTATATATT-TCTGAGAGTATTGTGGA-TAAAAATTTAG-AATAAATCTCTCGGGTTAA
* * * * * *
243971 TTTTAGCAAAATTTTAGCTGAAATCGTGTACTAACCACCATAATTTTTGGCTAAAAACGCGTTCC
63 TTTTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACAATATTTGGCTAAAAACGCGTTCC
*** * *
244036 AAAGCCCTGGCTCAGTTTTACATTATTTTTG-GCGCCAAGACTCAATGAAATATCTATATTCATT
128 TGGGCCCCGGCTCAGTTTTACATGATTTTTGTGCGCCAAGACTCAATGAAATATCTATATTCATT
* *
244100 TAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTATACGAGTATCTAAATCTTGTTTAGA
193 TAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTT-TACGAGCATCTAAATCTTGTTTCGA
244165 TTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCA
257 TTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCA
* * * *
244230 TTCTTTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGCTAAATATTTAGTAAAAATCTC
322 TTCTTTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTT
* * ***
244295 TCGGCG-AATTTTTCCAAAATTTTAGCCGAAATTGTGTA-T-GTTATCACAGTTTTTGGCTAAAA
387 TCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAA
* * * * *
244357 ACGCGTTTCGGGGCC-CCAGCTCAGTATTGCATGATTTTTTGCCCCAAGACTCAATGAAAAATCT
452 ACGCGTTTCGGGGCCTCGA-CTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAATGAAATATCT
* *
244421 ATATTCATCTAAACAAATCTCAGCCACATTGTATTTAGGGATTTGTTTCTACGAGCATCTAAAT-
516 ATATTCAT-T--ACAAATCTCAGCCACATTGTATTTA-GGATTTGTTTATACGAGAATCTAAATA
*
244485 TATATCTCGATTTAATCCGAAATTAATTCAGAGAAA-ATTGCAAAAACGATATTAGAAGCGTGAA
577 TATATCTCGATTTAATACGAAATT-ATTCAGAGAAATATTGCAAAAACGATATTAGAAGCGTGAA
* *
244549 AAGCCTTTCATTCTTTTTGGCTTTGATTTATATATTTTCTATGACTATAGTGGCTAAAAATTTAG
641 AAGCTTTTCATTCTTTTTGGCTTTGAATTATATATTTTCTATGACTATAGTGGCTAAAAATTTAG
244614 TAAAAATCTTTCGGGAAAATTTTTCCAAAATTTTAGTCGAAATCGTGTACTAACCATTATAGTTT
706 -AAAAATCTTTCGGGAAAATTTTTCCAAAATTTTAGTCGAAATCGTGTACTAACCATTATAGTTT
*
244679 TAGGGAAAAAACGCATTCCGGGCCCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACTCAAA
770 TAGGCAAAAAACGCATTCCGGG-CCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACTCAAA
244744 GAAATATCTAGGG
834 GAAATATCTAGGG
** *
244757 ATTGAATTATATATTTCTGTTAGTCA-TGTGGATAAAAATTTAGAATAAATCTCTCGAGTTAATT
1 ATTGAATTATATATTTCTGAGAGT-ATTGTGGATAAAAATTTAGAATAAATCTCTCGGGTTAATT
* *
244821 TTTGCAAAATTTTAACCGAAATCGTGTGCTAACCATCACAATATTTGGCTAAAAACGCGTTTCTG
65 TTTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACAATATTTGGCTAAAAACGCGTTCCTG
*
244886 GGCCCCGGCTCAGTTTTACATGATTTTTGTGTGCCAAGACTCAATGAAATATCTATATTCATTTA
130 GGCCCCGGCTCAGTTTTACATGATTTTTGTGCGCCAAGACTCAATGAAATATCTATATTCATTTA
* * *
244951 GCCAAATCTCAGTCACATAGTATTTAAAGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATT
195 GCCAAATCTCAGCCACATAGTATTTAAGGATTTG-TTTTACGAGCATCTAAATCTTGTTTCGATT
*
245016 TAATAAGAAATTATTTCGGATAAATATTGGAAAAATGCTATTAGAA-GGTAGAAAAGCTTTTCAT
259 TAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGT-GAAAAGCTTTTCAT
* *
245080 TCTTTTTTGCGTTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTTT
323 TCTTTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTTT
* * * * *
245145 CGGGGAAATTTTTCCAAAATTTTTGCCCAAATCGTGTACTAACCATTAAAGTTTTAGGCTAAAAA
388 CGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAA
* * * * * *
245210 CGCATTCCGGGGCCTCGACTCAGTTTTGCATGAATTTTGGCGTCAATAGTCAATGAAATATC--T
453 CGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAATGAAATATCTAT
*** * * * * ** * * *
245273 AGGGATT--GAAT-T-A--TATATT-TATGTTA--TTCTTGTGGATA--AAAATTTAGAATAAAT
518 ATTCATTACAAATCTCAGCCACATTGTAT-TTAGGAT-TTGTTTATACGAGAATCTA-AATATAT
* ** * * * * **
245327 CTCTCGGGTTAATTTTTGCAAAATT-TT-AGCAGACAATATTTGGCTAAAAACGGGT-TTCGGGG
580 ATCTCGATTTAA----TACGAAATTATTCAG-AGA-AATA-TT-GC-AAAAAC-GATATTAGAAG
** ** * *** * * **
245389 CCCCGACTCAG-TTTTACATTATTTTTGGC-GCCAA-GACTCA-ATATAATAT--CTATA-T---
635 -CGTGA-AAAGCTTTT-CATTCTTTTTGGCTTTGAATTA-T-ATATTTTCTATGACTATAGTGGC
* ** ** * * * **** *
245444 T---CATTTAGCCAAATC--TCAGCCACATAGTATTT--AAGGA-TTT-GTTTTTA-CGAGTATC
695 TAAAAATTTAGAAAAATCTTTC-GGGA-A-AATTTTTCCAA-AATTTTAGTCGAAATCGTGTA-C
* * * * * * * ** * * * * **
245499 TGAATCTTGTTTTGATTTA-GTAAGAAA-TTATT------ACTGA-T-AATTATTGGAAAAATGC
755 T-AACCAT-TATAGTTTTAGGCAAAAAACGCATTCCGGGCCCCGACTCAGTT-TTGCATGAAT--
* * * **** * * * *
245554 TATTAGAAGGGTGAAAAGCT--TTTCATTCTTTTTGGTG
815 T-TT-G--GCGTCAATA-CTCAAAGAAAT-ATCTAGG-G
* * * *
245591 -TTGAATTATATATTTTCT-ATGAGTATTGTGGCTAAAAATTTAGTAA-AATTCTTTCGGGTAAA
1 ATTGAATTATATA-TTTCTGA-GAGTATTGTGGATAAAAATTTAG-AATAAATCTCTCGGGTTAA
* ** ** * *
245653 TTCTTT-CAAAATTTTAGCCGAAAATCGTGTACTAATTATCTTAGT-TTTGGCTAAAAACGCGAT
63 TT-TTTGCAAAATTTTAACCG-AAATCGTGTACTAACCATCACAATATTTGGCTAAAAACGCGTT
* * *
245716 CCGGGGCCCCGGCTCAGTTTTGCATGATTTTTG-GCGCCAAGACTCAATGAAAAATCTATATTCA
126 CCTGGGCCCCGGCTCAGTTTTACATGATTTTTGTGCGCCAAGACTCAATGAAATATCTATATTCA
* ** * * * *
245780 TCTAAACAAATCTCATCCACATTGTATTTAGGGATTTGTTTCTACGAGCATCTAAAT-TATATTT
191 TTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTT-TACGAGCATCTAAATCT-TGTTT
** * * * * * * *
245844 CGATTTAATCCGAAATTAATTCAGAGAAA-ATTGGAAAAACGATATTAGAAGCGTG-AAAGGTCT
254 CGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCT-T
* * * * * *
245907 TTCATTCATTTTGGCGTTGATTTATATATTTTCTATGAGTATTGTGGCTAAAAATTTAGTAAAAA
318 TTCATTCTTTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAA
** * * *
245972 TCTTTCGTAGAAATTTTTCCAAAATTTTAGCCTAAATCGTGTACTAACCATCACAGTATTTAGCT
383 TCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCT
* * * *
246037 AAAAACGCGTTTCGGGACATCGTCTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGAAATA
448 AAAAACGCGTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAATGAAATA
* * * *
246102 TCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTATCTCA
513 TCTATATTCA-TTA--CAAATCTCAGCCACATTGTATTT-AGGATTTGTTTATACGAGAATCTAA
* * * * * * * * * *
246167 ATCT-TATTTGGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGT
574 ATATATATCTCGATTTAATACGAAATTA-TTCAGAGAAATATTGCAAAAACGATATTAGAAGCGT
* * *
246231 GAAAAGCTTTTCATTCTTTTTGG-TGTTGAATTATATATTCTCTATGAGTATTGTGGCTAAAAAT
638 GAAAAGCTTTTCATTCTTTTTGGCT-TTGAATTATATATTTTCTATGACTATAGTGGCTAAAAAT
* *
246295 TTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTAC---CCATTATA
702 TTAG-AAAAATCTTTCGGGAAAATTTTTCCAAAATTTTAGTCGAAATCGTGTACTAACCATTATA
*
246357 GTTTTAGGCTAAAAACGCATTCCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACT
766 GTTTTAGGCAAAAAACGCATTCC-GGGCCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACT
* *
246422 CAAGGAAATATCTAAGG
830 CAAAGAAATATCTAGGG
* ** * * *
246439 ATTGAATTATATATTTATGTTATTCTTGTGGATAAAAAATTAGAATAAATCTCTCGGGTTAATTT
1 ATTGAATTATATATTTCTGAGAGTATTGTGGATAAAAATTTAGAATAAATCTCTCGGGTTAATTT
* *
246504 TTGCAAAATTTTAACCGAAATCGTGTGCTAACCAGT-ACAATATTTGGCTAAAAACGCGTTTCTG
66 TTGCAAAATTTTAACCGAAATCGTGTACTAACCA-TCACAATATTTGGCTAAAAACGCGTTCCTG
** *
246568 GGCCCCGGCTCAGTTTTACATGATTTTTGTTTGCCAAGACTCAATGAAATATCTATATTCATTGA
130 GGCCCCGGCTCAGTTTTACATGATTTTTGTGCGCCAAGACTCAATGAAATATCTATATTCATTTA
246633 GCCAAATCTCAGCCACATAGTATTTAAGGA-TT-TTTTACGAGCATCTAAATCTTGTTTCGATTT
195 GCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTACGAGCATCTAAATCTTGTTTCGATTT
246696 AATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTC
260 AATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTC
246761 TTTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTTTCG
325 TTTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTTTCG
* * *
246826 GGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATTATAGTTTTAGGCTAAAAA--
390 GGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACG
* * ** *
246889 CGTATTCTGGGGCCTCGACTCAGTTTTGCATGAATTTTAGCATCAATACTCAATGAAATATCTA
455 CGT-TTC-GGGGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAATGAAATATCTA
246953 GGGATTGAAT
Statistics
Matches: 1722, Mismatches: 349, Indels: 252
0.74 0.15 0.11
Matches are distributed among these distances:
826 3 0.00
827 8 0.00
828 3 0.00
829 1 0.00
830 2 0.00
831 6 0.00
832 199 0.12
833 126 0.07
834 109 0.06
835 35 0.02
836 17 0.01
837 33 0.02
838 31 0.02
839 30 0.02
840 10 0.01
841 23 0.01
842 6 0.00
843 18 0.01
844 10 0.01
845 34 0.02
846 68 0.04
847 253 0.15
848 250 0.15
849 312 0.18
850 43 0.02
851 7 0.00
852 68 0.04
853 3 0.00
854 3 0.00
855 8 0.00
856 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (846 bp):
ATTGAATTATATATTTCTGAGAGTATTGTGGATAAAAATTTAGAATAAATCTCTCGGGTTAATTT
TTGCAAAATTTTAACCGAAATCGTGTACTAACCATCACAATATTTGGCTAAAAACGCGTTCCTGG
GCCCCGGCTCAGTTTTACATGATTTTTGTGCGCCAAGACTCAATGAAATATCTATATTCATTTAG
CCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTACGAGCATCTAAATCTTGTTTCGATTTA
ATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCT
TTTTGGCATTGAATTATATATTCTCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTTTCGG
GGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGC
GTTTCGGGGCCTCGACTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAATGAAATATCTATATT
CATTACAAATCTCAGCCACATTGTATTTAGGATTTGTTTATACGAGAATCTAAATATATATCTCG
ATTTAATACGAAATTATTCAGAGAAATATTGCAAAAACGATATTAGAAGCGTGAAAAGCTTTTCA
TTCTTTTTGGCTTTGAATTATATATTTTCTATGACTATAGTGGCTAAAAATTTAGAAAAATCTTT
CGGGAAAATTTTTCCAAAATTTTAGTCGAAATCGTGTACTAACCATTATAGTTTTAGGCAAAAAA
CGCATTCCGGGCCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACTCAAAGAAATATCTAGG
G
Found at i:246344 original size:333 final size:332
Alignment explanation
Indices: 245369--246435 Score: 1484
Period size: 333 Copynumber: 3.2 Consensus size: 332
245359 ACAATATTTG
* * *
245369 GCTAAAAACGGGTTTCGGGGCCCCGACTCAGTTTTACATTATTTTTGGCGCCAAGACTCAAT-AT
1 GCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGA-
245433 AATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTAT
65 AATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTAT
* * * * * *
245498 CTGAATCTTGTTTTGATTTAGTAAGAAATTATTACTGATAATTATTGGAAAAATGCTATTAGAAG
130 CTAAATCTTATTTCGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAG
245563 GGTGAAAAGCTTTTCATTCTTTTTGGTGTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAA
195 GGTGAAAAGCTTTTCATTCTTTTTGGTGTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAA
* * **
245628 ATTTAGTAAAATTCTTTCGGGTAAATTCTTT-CAAAATTTTAGCCGAAAATCGTGTACTAATTAT
260 ATTTAGTAAAAATCTTTCGGGGAAATT-TTTCCAAAATTTTAGCCG-AAATCGTGTACTAACCAT
* *
245692 CTTAGTTTTG
323 CATAGTTTTA
* * *
245702 GCTAAAAACGCGATCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGCCAAGACTCAATGAA
1 GCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGAA
* * ** * * * * *
245767 AAATCTATATTCATCTAAACAAATCTCATCCACATTGTATTTAGGGATTTGTTTCTACGAGCATC
66 ATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTATC
** * * * * *
245832 TAAAT-TATATTTCGATTTAATCCGAAATTAATTCAGAGAAA-ATTGGAAAAACGATATTAGAAG
131 TAAATCT-TATTTCGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAG
* * * * *
245895 CGTG-AAAGGTCTTTCATTCATTTTGGCGTTGATTTATATATTTTCTATGAGTATTGTGGCTAAA
195 GGTGAAAAGCT-TTTCATTCTTTTTGGTGTTGAATTATATATTTTCTATGAGTATTGTGGCTAAA
** *
245959 AATTTAGTAAAAATCTTTCGTAGAAATTTTTCCAAAATTTTAGCCTAAATCGTGTACTAACCATC
259 AATTTAGTAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATC
*
246024 ACAGTATTTA
324 ATAGT-TTTA
* * ** *
246034 GCTAAAAACGCGTTTCGGGACATCGTCTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGAA
1 GCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGAA
246099 ATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTATC
66 ATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTATC
* *
246164 TCAATCTTATTTGGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGG
131 TAAATCTTATTTCGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGG
*
246229 GTGAAAAGCTTTTCATTCTTTTTGGTGTTGAATTATATATTCTCTATGAGTATTGTGGCTAAAAA
196 GTGAAAAGCTTTTCATTCTTTTTGGTGTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAA
* *
246294 TTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTAC---CCATTAT
261 TTTAGTAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCAT
246356 AGTTTTA
326 AGTTTTA
* * * * * *
246363 GGCTAAAAACGCATTCCGGGGCCCCGACTCAGTTTTGCATGAATTTTGGCGTCAATACTCAAGGA
1 -GCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGA
246428 AATATCTA
65 AATATCTA
246436 AGGATTGAAT
Statistics
Matches: 634, Mismatches: 91, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
329 4 0.01
330 69 0.11
331 28 0.04
332 260 0.41
333 267 0.42
334 6 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (332 bp):
GCTAAAAACGCGTTCCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCGCCAAGACTCAATGAA
ATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAAGGATTTGTTTTTACGAGTATC
TAAATCTTATTTCGATTTAATAAGAAATTATTTCTGATAAATATTGGAAAAATGCTATTAGAAGG
GTGAAAAGCTTTTCATTCTTTTTGGTGTTGAATTATATATTTTCTATGAGTATTGTGGCTAAAAA
TTTAGTAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTGTACTAACCATCAT
AGTTTTA
Found at i:247128 original size:186 final size:186
Alignment explanation
Indices: 246795--247138 Score: 471
Period size: 186 Copynumber: 1.8 Consensus size: 186
246785 TCTATGAGTA
*
246795 TTGTGGATAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTG
1 TTGTGGATAAAAATTTAGCAAAAATCTCTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTG
* * * * *
246860 TACTAACCATTATAGTTTTAGGCTAAAAACGTATTCTGGGGCCTCGACTCAGTTTTGCATGAATT
66 TACTAACCATCACAATTTTAGGCTAAAAACGTATTCTGGGGCCCCGACTCAGTTTTACATGAATT
* *
246925 TTAGCATCAATACTCAATGAAATATCTAGGGATTGAATTATATATTTATGTTATTC
131 TTAGCACCAAGACTCAATGAAATATCTAGGGATTGAATTATATATTTATGTTATTC
** * *
246981 TTGTGGATAAAAATTTAG-AATAAATCTCTCGGGTTAATTTTTGCAAAATTTTAGCTGAAATCGT
1 TTGTGGATAAAAATTTAGCAA-AAATCTCTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGT
* *
247045 GTGCTAACCATCACAATATTT-GGCTAAAAACGCGT-TTC-GGGGCCCCGGCTCAGTTTTACATG
65 GTACTAACCATCACAAT-TTTAGGCTAAAAA--CGTATTCTGGGGCCCCGACTCAGTTTTACATG
* * *
247107 ATTTTTGGCGCCAAGACTCAATGAAATATCTA
127 AATTTTAGCACCAAGACTCAATGAAATATCTA
247139 TATTCATTTA
Statistics
Matches: 137, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
185 2 0.01
186 126 0.92
187 6 0.04
188 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (186 bp):
TTGTGGATAAAAATTTAGCAAAAATCTCTCGGGGAAATTTTTCCAAAATTTTAGCCGAAATCGTG
TACTAACCATCACAATTTTAGGCTAAAAACGTATTCTGGGGCCCCGACTCAGTTTTACATGAATT
TTAGCACCAAGACTCAATGAAATATCTAGGGATTGAATTATATATTTATGTTATTC
Found at i:247409 original size:519 final size:516
Alignment explanation
Indices: 245948--247617 Score: 2725
Period size: 517 Copynumber: 3.2 Consensus size: 516
245938 TCTATGAGTA
* * * * *
245948 TTGTGGCTAAAAATTTAGTAA-AAATCTTTCGTAG-AAATTTTTCCAAAATTTTAGCCTAAATCG
1 TTGTGGATAAAAATTTAG-AATAAATCTCTCG-AGTTAATTTTTGCAAAATTTTAGCCGAAATCG
* * * * ** *
246011 TGTACTAACCATCACAGTATTTAGCTAAAAACGCGTTTCGGGACATCGTCTCAGTTTTACATGAT
64 TGTGCTAACCATCACAATATTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTACATGAT
246076 TTTTGGCGCCAAGACTCAATGAAATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTT
129 TTTTGGCGCCAAGACTCAATGAAATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTT
* * *
246141 AAGGATTTGTTTTTACGAGTATCTCAATCTTATTTGGATTTAATAAGAAATTATTTCTGATAAAT
194 AAGGATTTGTTTTTACGAGTATCTAAATCTTGTTTCGATTTAATAAGAAATTATTTCTGATAAAT
**
246206 ATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGTGTTGAATTATATATTC
259 ATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGCATTGAATTATATATTC
246271 TCTATGAGTATTGTGGCTAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGC
324 TCTATGAGTATTGTGGCTAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGC
*
246336 CGAAATCGTGTAC---CCATTATAGTTTTAGGCTAAAAACGCATTCCGGGGCCCCGACTCAGTTT
389 CGAAATCGTGTACTAACCATTATAGTTTTAGGCTAAAAACG-ATTCTGGGG-CCCGACTCAGTTT
* * *
246398 TGCATGAATTTTGGCGTCAATACTCAAGGAAATATCTAAGGATTGAATTATATATTTATGTTATT
452 TGCATGAATTTT-GCATCAATACTCAAAGAAATATCTAGGGATTGAATTATATATTTATGTTATT
246463 C
516 C
* * *
246464 TTGTGGATAAAAAATTAGAATAAATCTCTCGGGTTAATTTTTGCAAAATTTTAACCGAAATCGTG
1 TTGTGGATAAAAATTTAGAATAAATCTCTCGAGTTAATTTTTGCAAAATTTTAGCCGAAATCGTG
*
246529 TGCTAACCAGT-ACAATATTTGGCTAAAAACGCGTTTCTGGGCCCCGGCTCAGTTTTACATGATT
66 TGCTAACCA-TCACAATATTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTACATGATT
** *
246593 TTTGTTTGCCAAGACTCAATGAAATATCTATATTCATTGAGCCAAATCTCAGCCACATAGTATTT
130 TTTG-GCGCCAAGACTCAATGAAATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTT
*
246658 AAGGA--T-TTTTTACGAGCATCTAAATCTTGTTTCGATTTAATAAGAAATTATTTCTGATAAAT
194 AAGGATTTGTTTTTACGAGTATCTAAATCTTGTTTCGATTTAATAAGAAATTATTTCTGATAAAT
246720 ATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGCATTGAATTATATATTC
259 ATTGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGCATTGAATTATATATTC
*
246785 TCTATGAGTATTGTGGATAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGC
324 TCTATGAGTATTGTGGCTAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGC
246850 CGAAATCGTGTACTAACCATTATAGTTTTAGGCTAAAAACGTATTCTGGGGCCTCGACTCAGTTT
389 CGAAATCGTGTACTAACCATTATAGTTTTAGGCTAAAAACG-ATTCTGGGGCC-CGACTCAGTTT
*
246915 TGCATGAATTTTAGCATCAATACTCAATGAAATATCTAGGGATTGAATTATATATTTATGTTATT
452 TGCATGAATTTT-GCATCAATACTCAAAGAAATATCTAGGGATTGAATTATATATTTATGTTATT
246980 C
516 C
* *
246981 TTGTGGATAAAAATTTAGAATAAATCTCTCGGGTTAATTTTTGCAAAATTTTAGCTGAAATCGTG
1 TTGTGGATAAAAATTTAGAATAAATCTCTCGAGTTAATTTTTGCAAAATTTTAGCCGAAATCGTG
247046 TGCTAACCATCACAATATTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTACATGATTT
66 TGCTAACCATCACAATATTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTACATGATTT
247111 TTGGCGCCAAGACTCAATGAAATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAA
131 TTGGCGCCAAGACTCAATGAAATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAA
247176 GGATTTGTTTTTACGAGTATCTAAATCTTGTTTCGATTTAATAAGAAATTATTTCTGATAAATAT
196 GGATTTGTTTTTACGAGTATCTAAATCTTGTTTCGATTTAATAAGAAATTATTTCTGATAAATAT
247241 TGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGCATTGAATTATATATTCTC
261 TGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGCATTGAATTATATATTCTC
* * *
247306 TATGAGTATTGTGGCTAAAAATTTAGTAAAAATCTTTCGGAGAATTTTTTCCAAAATTTTAGCCG
326 TATGAGTATTGTGGCTAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCG
* *
247371 AAATCGTGTACTAACCATTATAGTTCTAGGCAAAAAACGAGTT-TCGGGG-CCGACTCAGTTTTG
391 AAATCGTGTACTAACCATTATAGTTTTAGGCTAAAAACGA-TTCT-GGGGCCCGACTCAGTTTTG
* *
247434 CATGAATTTTGCAGTCAATACTCAAAGAAATATCTAGGGATTGAATTATATATTTCTGTTAGTC
454 CATGAATTTTGCA-TCAATACTCAAAGAAATATCTAGGGATTGAATTATATATTTATGTTATTC
*
247498 ATGTGGAATAAAAATTTAGAATAAAATACTCTCGAGTTAATTTTTGCAAAATTTTA-CCGAAATC
1 TTGTGG-ATAAAAATTTAGAAT-AAAT-CTCTCGAGTTAATTTTTGCAAAATTTTAGCCGAAATC
* *
247562 GTGTGCTAACCATCACAATATTTGGCTAAAAACGCTTTTCTGGGCCCCGGCTCAGT
63 GTGTGCTAACCATCACAATATTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGT
Statistics
Matches: 1082, Mismatches: 54, Indels: 33
0.93 0.05 0.03
Matches are distributed among these distances:
514 192 0.18
515 4 0.00
516 178 0.16
517 371 0.34
518 19 0.02
519 291 0.27
520 27 0.02
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (516 bp):
TTGTGGATAAAAATTTAGAATAAATCTCTCGAGTTAATTTTTGCAAAATTTTAGCCGAAATCGTG
TGCTAACCATCACAATATTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTACATGATTT
TTGGCGCCAAGACTCAATGAAATATCTATATTCATTTAGCCAAATCTCAGCCACATAGTATTTAA
GGATTTGTTTTTACGAGTATCTAAATCTTGTTTCGATTTAATAAGAAATTATTTCTGATAAATAT
TGGAAAAATGCTATTAGAAGGGTGAAAAGCTTTTCATTCTTTTTGGCATTGAATTATATATTCTC
TATGAGTATTGTGGCTAAAAATTTAGCAAAAATCTTTCGGGGAAATTTTTCCAAAATTTTAGCCG
AAATCGTGTACTAACCATTATAGTTTTAGGCTAAAAACGATTCTGGGGCCCGACTCAGTTTTGCA
TGAATTTTGCATCAATACTCAAAGAAATATCTAGGGATTGAATTATATATTTATGTTATTC
Done.