Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold962
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1469792
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.31
Warning! 91164 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:14853 original size:4 final size:4
Alignment explanation
Indices: 14838--14879 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
14828 ATCACCCGTT
*
14838 GTCC GT-C GTCC GTCC GTCC GTCC GTCC GTCT GTCC GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
14880 TGTAAACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.00, C:0.45, G:0.26, T:0.29
Consensus pattern (4 bp):
GTCC
Found at i:15334 original size:166 final size:166
Alignment explanation
Indices: 15052--16130 Score: 1766
Period size: 166 Copynumber: 6.5 Consensus size: 166
15042 GCATGTCTTT
*
15052 AAAAATCTTCTTCTCAAGAACCACGGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
15117 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
15182 CAAAGTTTAACATAGAAATACATAGGAAAATGTTTA
131 CAAAGTTTAACATAGAAATACATAGGAAAATGTTTA
*
15218 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTTTATATA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
* * *
15283 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGAACCAAATCTGGGGCCCCAGGCGGGGCT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
*
15348 CAAAGTTTAACATAGAACA-ACATATTGAAAATGTTTA
131 CAAAGTTTAACATAGAA-ATACATA-GGAAAATGTTTA
* *
15385 AAAAATGTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAACTTGTATATA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
*
15450 TAGTGAAGATTCTAAATTGTAAAAATGGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
* * *
15515 CAAAGTTTAACATAGAAATACATAGGAAATTTTTTT
131 CAAAGTTTAACATAGAAATACATAGGAAAATGTTTA
* *
15551 ATAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATACA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
* *
15616 TAGTGAAGATTCTAAATTGTAAAACTGGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
* * *
15681 CAAAGTTTAACATAGAAATACATAGGAAATTTTTTT
131 CAAAGTTTAACATAGAAATACATAGGAAAATGTTTA
* *
15717 ATAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATACA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
* *
15782 TAGTGAAGATTCTAAATTGTAAAAATCGTGCCCCTCGGACCAAGACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
*
15847 CAAAGTTTAACATAGAAATACCTTAGGAAAATGTTTA
131 CAAAGTTTAACATAGAAATA-CATAGGAAAATGTTTA
*
15884 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATGTA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
* * *
15949 TAATGAAGATTCTAAATTGTAGAAATCGTGACCCTCGGACCAAGACTGGGGCCCCAGGCGGGGTT
66 TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
* *
16014 CAAAGTTTAACATAGAACTACATATGAAAAATGTTT-
131 CAAAGTTTAACATAGAAATACATA-GGAAAATGTTTA
* * * ** * *
16050 AAAAATTTTCTTCTCAAGAACCACTTCACCAAAAATGCCAATACATACACAAAAGGTTGTATACA
1 AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
*
16115 TAGTGAAGATTGTAAA
66 TAGTGAAGATTCTAAA
16131 AATCGTGACC
Statistics
Matches: 859, Mismatches: 49, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
166 537 0.63
167 322 0.37
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (166 bp):
AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATA
TAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTT
CAAAGTTTAACATAGAAATACATAGGAAAATGTTTA
Found at i:15667 original size:333 final size:330
Alignment explanation
Indices: 15049--16130 Score: 1770
Period size: 333 Copynumber: 3.3 Consensus size: 330
15039 GGTGCATGTC
*
15049 TTTAAAAATCTTCTTCTCAAGAACCACGGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
1 TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
*
15114 ATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
66 ACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
15179 GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
131 GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
*
15244 CACCAGAAATGCCAATATTTACACAAAAGCTTTTATATATAGTGAAGATTCTAAATTGTAAAAAT
196 CACCAGAAATGCCAATATTTACACAAAAGCTTGTATATATAGTGAAGATTCTAAATTGT-AAAAT
* * *
15309 CGTGACCCTCGAACCAAATCTGGGGCCCCAGGCGGGGCTCAAAGTTTAACATAGAACAACATATT
260 CGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAACAACATA-T
15374 GAAAATG
324 GAAAATG
* *
15381 TTTAAAAAATGTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAACTTGTA
1 TTT-AAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTA
* *
15446 TATATAGTGAAGATTCTAAATTGTAAAAATGGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGG
65 TACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGG
* * * *
15511 GGTTCAAAGTTTAACATAGAAATACATAGGAAATTTTTTTATAAATCTTCTTCTCAAGAACCACT
130 GGTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACT
*
15576 GCACCAGAAATGCCAATATTTACACAAAAGCTTGTATACATAGTGAAGATTCTAAATTGTAAAAC
195 GCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATATAGTGAAGATTCTAAATTGTAAAA-
*
15641 TGGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAA-ATACATA
259 TCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAACA-ACATA
* * *
15705 GGAAATTTT
323 TGAAA-ATG
*
15714 TTTATAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
1 TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
* *
15779 ACATAGTGAAGATTCTAAATTGTAAAAATCGTGCCCCTCGGACCAAGACTGGGGCCCCAGGCGGG
66 ACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
*
15844 GTTCAAAGTTTAACATAGAAATACCTTAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACT
131 GTTCAAAGTTTAACATAGAAATA-CATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACT
* *
15909 GCACCAGAAATGCCAATATTTACACAAAAGCTTGTATGTATAATGAAGATTCTAAATTGTAGAAA
195 GCACCAGAAATGCCAATATTTACACAAAAGCTTGTATATATAGTGAAGATTCTAAATTGTA-AAA
* *
15974 TCGTGACCCTCGGACCAAGACTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAACTACATAT
259 TCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAACAACATAT
16039 GAAAAATG
324 G-AAAATG
* * * ** *
16047 TTTAAAAATTTTCTTCTCAAGAACCACTTCACCAAAAATGCCAATACATACACAAAAGGTTGTAT
1 TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
*
16112 ACATAGTGAAGATTGTAAA
66 ACATAGTGAAGATTCTAAA
16131 AATCGTGACC
Statistics
Matches: 696, Mismatches: 46, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
332 155 0.22
333 535 0.77
334 6 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (330 bp):
TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
ACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
CACCAGAAATGCCAATATTTACACAAAAGCTTGTATATATAGTGAAGATTCTAAATTGTAAAATC
GTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAACAACATATGA
AAATG
Found at i:15999 original size:499 final size:499
Alignment explanation
Indices: 15049--16130 Score: 1801
Period size: 499 Copynumber: 2.2 Consensus size: 499
15039 GGTGCATGTC
*
15049 TTTAAAAATCTTCTTCTCAAGAACCACGGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
1 TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
*
15114 ATATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
66 ACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
15179 GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
131 GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
* *
15244 CACCAGAAATGCCAATATTTACACAAAAGCTTTTATATATAGTGAAGATTCTAAATTGTAAAAAT
196 CACCAGAAATGCCAATATTTACACAAAAGCTTGTATACATAGTGAAGATTCTAAATTGTAAAAAT
*
15309 CGTGACCCTCGAACCAAATCTGGGGCCCCAGGCGGGGCTCAAAGTTTAACATAGAACAACATATT
261 CGTGACCCTCGAACCAAATCTGGGGCCCCAGGCGGGGCTCAAAGTTTAACATAGAACAACATATG
*
15374 GAAAATGTTTAAAAAATGTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAA
326 GAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAA
* *
15439 ACTTGTATATATAGTGAAGATTCTAAATTGTAAAAATGGTGACCCTCGGACCAAAACTGGGGCCC
391 ACTTGTATATATAATGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCC
** *
15504 CAGGCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAATTTT
456 CAGGCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAAAATG
*
15548 TTTATAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
1 TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
* *
15613 ACATAGTGAAGATTCTAAATTGTAAAACTGGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
66 ACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
* * * *
15678 GTTCAAAGTTTAACATAGAAATACATAGGAAATTTTTTTATAAATCTTCTTCTCAAGAACCACTG
131 GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
15743 CACCAGAAATGCCAATATTTACACAAAAGCTTGTATACATAGTGAAGATTCTAAATTGTAAAAAT
196 CACCAGAAATGCCAATATTTACACAAAAGCTTGTATACATAGTGAAGATTCTAAATTGTAAAAAT
* * * *
15808 CGTGCCCCTCGGACCAAGA-CTGGGGCCCCAGGCGGGGTTCAAAGTTTAACATAGAA-ATACCT-
261 CGTGACCCTCGAACCAA-ATCTGGGGCCCCAGGCGGGGCTCAAAGTTTAACATAGAACA-ACATA
15870 TAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACA
324 T-GGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACA
* * * *
15935 AAAGCTTGTATGTATAATGAAGATTCTAAATTGTAGAAATCGTGACCCTCGGACCAAGACTGGGG
388 AAAACTTGTATATATAATGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGG
* *
16000 CCCCAGGCGGGGTTCAAAGTTTAACATAGAACTACATATGAAAAATG
453 CCCCAGGCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAAAATG
* * * ** *
16047 TTTAAAAATTTTCTTCTCAAGAACCACTTCACCAAAAATGCCAATACATACACAAAAGGTTGTAT
1 TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
*
16112 ACATAGTGAAGATTGTAAA
66 ACATAGTGAAGATTCTAAA
16131 AATCGTGACC
Statistics
Matches: 544, Mismatches: 36, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
498 2 0.00
499 541 0.99
500 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (499 bp):
TTTAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAAGCTTGTAT
ACATAGTGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCCCAGGCGGG
GTTCAAAGTTTAACATAGAAATACATAGGAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTG
CACCAGAAATGCCAATATTTACACAAAAGCTTGTATACATAGTGAAGATTCTAAATTGTAAAAAT
CGTGACCCTCGAACCAAATCTGGGGCCCCAGGCGGGGCTCAAAGTTTAACATAGAACAACATATG
GAAAATGTTTAAAAAATCTTCTTCTCAAGAACCACTGCACCAGAAATGCCAATATTTACACAAAA
ACTTGTATATATAATGAAGATTCTAAATTGTAAAAATCGTGACCCTCGGACCAAAACTGGGGCCC
CAGGCGGGGTTCAAAGTTTAACATAGAAATACATAGGAAAAATG
Found at i:16951 original size:165 final size:165
Alignment explanation
Indices: 16701--17108 Score: 441
Period size: 165 Copynumber: 2.5 Consensus size: 165
16691 CGGTATATAT
* * * * *
16701 GGAAAATGTTTAAAAATCTTCTTT-TCGAGAACTACAATGCATCAATTTGTCAGATAACTACGTC
1 GGAAAATGTTTAAAAATCTT-TTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTA-GGC
* * * *
16765 -AGCACCCTCAAATAGTGTAGATTCGAAATTA-TAAAAGCCGT-G-ATCTCAATCTAATACTGGG
64 AAGCATCCTCAAATAATGTAGATTCCAAATAATTAAAA-CCGTAGCA-CTCAA-CTAATACTGGG
* * *
16826 GCCCCAAGAGGTGTTCAAAGTTTAGCATAGAAATATAGAG
126 GCCCCAAGAGGGGTTCAAAGTTTAACATAGAAAGATAGAG
* * * *
16866 GGAAAATGTTGAAAAATCTTTTTCTAGGGAACTATAATGCTTCAGCTTGTGAGATAACTAGGCAA
1 GGAAAATGTTTAAAAATCTTTTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTAGGCAA
* ** ** *
16931 GCATCCTTAAATAATGTAGATTCCAAATAATTAAAACTTTAGCACTGGACTAATACTGTGGCCCC
66 GCATCCTCAAATAATGTAGATTCCAAATAATTAAAACCGTAGCACTCAACTAATACTGGGGCCCC
* *
16996 AAGAGGGGTTCAAAGTTTAACATAGAAAGATATAT
131 AAGAGGGGTTCAAAGTTTAACATAGAAAGATAGAG
* * * * *
17031 TGAAAATGTTTTTAAAAA-GTTTTTCTCGAGAACTATAATGCTACAGTTTGTGAGATTACTATGC
1 GGAAAATG--TTTAAAAATCTTTTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTAGGC
*
17095 AAGGATCCTCAAAT
64 AAGCATCCTCAAAT
17109 TGTGTAAACT
Statistics
Matches: 201, Mismatches: 35, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
164 5 0.02
165 128 0.64
166 60 0.30
167 8 0.04
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (165 bp):
GGAAAATGTTTAAAAATCTTTTTCTCGAGAACTATAATGCTTCAGTTTGTGAGATAACTAGGCAA
GCATCCTCAAATAATGTAGATTCCAAATAATTAAAACCGTAGCACTCAACTAATACTGGGGCCCC
AAGAGGGGTTCAAAGTTTAACATAGAAAGATAGAG
Found at i:19327 original size:118 final size:118
Alignment explanation
Indices: 19115--19341 Score: 357
Period size: 118 Copynumber: 1.9 Consensus size: 118
19105 ATAAATATGC
* *
19115 TTGGTTTTATTGTTTATTTCGATAAACAAAATGTCACAGCATGGAAGTGTCCCATACCACCTTAA
1 TTGGTTTTATTGTTTATTTCGATAAACAAAATGTCACAACAAGGAAGTGTCCCATACCACCTTAA
*
19180 TAGTATGATCTTTCTCGTCAAATATGAATCATTAGTTCATACTAACACACCAT
66 TAGTATGATCTTTCTCGTCAAATAGGAATCATTAGTTCATACTAACACACCAT
* * * *
19233 TTGGTTTTATTGTTTATTTCGATTAACATTACT-TCACAACAAGGAAGTGTCCCATATCACCTTA
1 TTGGTTTTATTGTTTATTTCGATAAACA-AAATGTCACAACAAGGAAGTGTCCCATACCACCTTA
* *
19297 ATAGTATGATCTTTCTCTTTAAATAGGAATCATTAGTTCATACTA
65 ATAGTATGATCTTTCTCGTCAAATAGGAATCATTAGTTCATACTA
19342 GCCATGTACC
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
118 97 0.98
119 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (118 bp):
TTGGTTTTATTGTTTATTTCGATAAACAAAATGTCACAACAAGGAAGTGTCCCATACCACCTTAA
TAGTATGATCTTTCTCGTCAAATAGGAATCATTAGTTCATACTAACACACCAT
Found at i:24530 original size:21 final size:22
Alignment explanation
Indices: 24484--24534 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
24474 TGCCCAAACG
* *
24484 TCTTTAAGTCACGTTGAAGCCA
1 TCTTTAAGCCACCTTGAAGCCA
*
24506 TCTTTAAGCCACCTTTAAG-CA
1 TCTTTAAGCCACCTTGAAGCCA
24527 TCTTTAAG
1 TCTTTAAG
24535 TGTCATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (22 bp):
TCTTTAAGCCACCTTGAAGCCA
Found at i:24533 original size:10 final size:11
Alignment explanation
Indices: 24500--24534 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
24490 AGTCACGTTG
24500 AAGCCATCTTT
1 AAGCCATCTTT
*
24511 AAGCCACCTTT
1 AAGCCATCTTT
24522 AAG-CATCTTT
1 AAGCCATCTTT
24532 AAG
1 AAG
24535 TGTCATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (11 bp):
AAGCCATCTTT
Found at i:24926 original size:2 final size:2
Alignment explanation
Indices: 24919--24962 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
24909 TCGATAAAAG
24919 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
24961 CT
1 CT
24963 GCTAGTTCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:34276 original size:9 final size:9
Alignment explanation
Indices: 34245--34269 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34235 CTACTTTCAA
34245 GTTCATCAT
1 GTTCATCAT
34254 GTTCATCAT
1 GTTCATCAT
34263 GTTCATC
1 GTTCATC
34270 TCGTTCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (9 bp):
GTTCATCAT
Found at i:36930 original size:11 final size:11
Alignment explanation
Indices: 36914--36954 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
36904 AATCTTTTAA
36914 TGGCTTAAAGG
1 TGGCTTAAAGG
*
36925 TGGCTTAAAGA
1 TGGCTTAAAGG
*
36936 TGGCGTAAAGG
1 TGGCTTAAAGG
36947 TGGCTTAA
1 TGGCTTAA
36955 GGAAGGAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.27
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:36938 original size:22 final size:22
Alignment explanation
Indices: 36913--36954 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
36903 AAATCTTTTA
*
36913 ATGGCTTAAAGGTGGCTTAAAG
1 ATGGCGTAAAGGTGGCTTAAAG
36935 ATGGCGTAAAGGTGGCTTAA
1 ATGGCGTAAAGGTGGCTTAA
36955 GGAAGGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.33, T:0.26
Consensus pattern (22 bp):
ATGGCGTAAAGGTGGCTTAAAG
Found at i:45306 original size:17 final size:17
Alignment explanation
Indices: 45284--45318 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45274 AAGGTACATA
45284 TATACT-AATTTGTTTAC
1 TATACTAAATTT-TTTAC
45301 TATACTAAATTTTTTAC
1 TATACTAAATTTTTTAC
45318 T
1 T
45319 TGTAAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (17 bp):
TATACTAAATTTTTTAC
Found at i:47637 original size:147 final size:146
Alignment explanation
Indices: 47366--47655 Score: 508
Period size: 147 Copynumber: 2.0 Consensus size: 146
47356 TGCAAAACAC
* *
47366 AGTTTTAAATGTAACGTTTTAAGGACGTTTTCAGACGAGGGGCAAGCAAAACTGACCCCTATAAA
1 AGTTTTAAATGTAACGTTATAAGGACGTTTTCAGACAAGGGGCAAGCAAAACTGACCCCTATAAA
*
47431 AATAAATTGTAAAAACATGTTACATATATATCTATATATCAATAGAAATTAAGAAAAATCGTAAT
66 AATAAATTGTAAAAACATGTTACATATATATCTACATATCAATAGAAATTAAGAAAAATCGTAA-
*
47496 TTTTTTTAAATATTTAA
130 ATTTTTTAAATATTTAA
*
47513 AGTTTTAAATGTAACGTTATAAGGACGTTTTCAGATAAGGGGCAAGCAAAACTGACCCCTATAAA
1 AGTTTTAAATGTAACGTTATAAGGACGTTTTCAGACAAGGGGCAAGCAAAACTGACCCCTATAAA
* *
47578 AATAAATTGTAGAAACATGTTACATATATATCTACATATCAATAGAAATTAAGATAAATCGTAAA
66 AATAAATTGTAAAAACATGTTACATATATATCTACATATCAATAGAAATTAAGAAAAATCGTAAA
47643 TTTTTTAAATATT
131 TTTTTTAAATATT
47656 CAAAAATAAT
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
146 13 0.10
147 123 0.90
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (146 bp):
AGTTTTAAATGTAACGTTATAAGGACGTTTTCAGACAAGGGGCAAGCAAAACTGACCCCTATAAA
AATAAATTGTAAAAACATGTTACATATATATCTACATATCAATAGAAATTAAGAAAAATCGTAAA
TTTTTTAAATATTTAA
Found at i:49016 original size:33 final size:31
Alignment explanation
Indices: 48938--49004 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
48928 ACAATGGTAA
48938 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
48969 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
1 CATTCTCAGCAGTTATCTCTCTTTGCCCATT
49000 C-TTCT
1 CATTCT
49005 TATGCATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.15, C:0.33, G:0.09, T:0.43
Consensus pattern (31 bp):
CATTCTCAGCAGTTATCTCTCTTTGCCCATT
Found at i:49205 original size:16 final size:16
Alignment explanation
Indices: 49184--49221 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
49174 ACGGAAGAGT
*
49184 GACAGACGGACGGACG
1 GACAGAAGGACGGACG
49200 GACAGAAGGACGGACG
1 GACAGAAGGACGGACG
49216 GACAGA
1 GACAGA
49222 GTGATTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.21, G:0.42, T:0.00
Consensus pattern (16 bp):
GACAGAAGGACGGACG
Found at i:51523 original size:2 final size:2
Alignment explanation
Indices: 51516--51564 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
51506 AAGTTTAAAG
51516 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
51558 TC TC TC T
1 TC TC TC T
51565 TATAACAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:58145 original size:20 final size:20
Alignment explanation
Indices: 58122--58175 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
58112 CTGTGTGCCA
58122 CTGTAAGCCCCTGTCA-CCC
1 CTGTAAGCCCCTGTCATCCC
* * *
58141 TCTGTACGCCCTTTTCATCCC
1 -CTGTAAGCCCCTGTCATCCC
*
58162 CTGTAAGCCACTGT
1 CTGTAAGCCCCTGT
58176 GTACCCCTGT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.15, C:0.41, G:0.15, T:0.30
Consensus pattern (20 bp):
CTGTAAGCCCCTGTCATCCC
Found at i:58688 original size:2 final size:2
Alignment explanation
Indices: 58683--58725 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
58673 TATAAATCAT
58683 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
58725 G
1 G
58726 TTGATTTTTT
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:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:60106 original size:2 final size:2
Alignment explanation
Indices: 60099--60131 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60089 ATCAATGCAA
60099 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
60132 AGATCTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:65099 original size:16 final size:16
Alignment explanation
Indices: 65078--65109 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65068 ACCAGGAACG
65078 TACTAAAGACCTGAAA
1 TACTAAAGACCTGAAA
*
65094 TACTAATGACCTGAAA
1 TACTAAAGACCTGAAA
65110 GACCTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (16 bp):
TACTAAAGACCTGAAA
Found at i:65296 original size:18 final size:18
Alignment explanation
Indices: 65251--65299 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
65241 AAATACGAAA
* * *
65251 GACCTGAAAATTTGAATT
1 GACCTGAAATTTTCAAAT
65269 GACCTGAAATTTTCAAAT
1 GACCTGAAATTTTCAAAT
65287 GACCTGAAATTTT
1 GACCTGAAATTTT
65300 ATATAATTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (18 bp):
GACCTGAAATTTTCAAAT
Found at i:65449 original size:18 final size:18
Alignment explanation
Indices: 65426--65470 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
65416 GAATACAAAA
* *
65426 GACCTGAAAATTTGAATT
1 GACCTGAAAAATTGAACT
*
65444 GACCTGAAAAATTGAGCT
1 GACCTGAAAAATTGAACT
65462 GACCTGAAA
1 GACCTGAAA
65471 TTATATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (18 bp):
GACCTGAAAAATTGAACT
Found at i:65627 original size:176 final size:177
Alignment explanation
Indices: 65180--65646 Score: 661
Period size: 175 Copynumber: 2.6 Consensus size: 177
65170 TGGTGGTTTA
* * * * * * * *
65180 AATCATATTTCCAGGTATATTTGTGTTGAAAAAATACCATAATGACCAGTTATTTACACAGAAAT
1 AATCATATTTCCAGGTATATATGT-TTTAAAATATATCATACTGATCAATTATTTACACAGGAAT
* * *
65245 ACGAAAGACCTGAAAATTTGAATTGACCTGAAATTTTCAAATGACCTGAAATTTTATATAATTGA
65 ACGAAAGACCTGAAAATTTGAATTGACCTGAAAATTTGAAATGACCTGAAATTATATATAATTGA
* *
65310 TACATTTCTCTGTTATGTGTCAATTTTAATGTCTATTTGTGAGTTTTT
130 TACATTTCTATGTTATGTGTCAATTTTAATGTCTATTTGTAAGTTTTT
* * * *
65358 AAACATATTTTCAGG--TATATGTGTTAAAATATATCATACTGATCAATTATTTACGCAGGAATA
1 AATCATATTTCCAGGTATATATGTTTTAAAATATATCATACTGATCAATTATTTACACAGGAATA
* * **
65421 CAAAAGACCTGAAAATTTGAATTGACCTGAAAAATTGAGCTGACCTGAAATTATATATAATTGAT
66 CGAAAGACCTGAAAATTTGAATTGACCTGAAAATTTGAAATGACCTGAAATTATATATAATTGAT
* *
65486 ACATTTTTATGTTCTGTGTCAATTTTAATGTCTATTTGTAAGTTTTT
131 ACATTTCTATGTTATGTGTCAATTTTAATGTCTATTTGTAAGTTTTT
*
65533 -ATCATATTTCCAGGTATATATGTTTTAAAATATATCATACTGATCATTTATTTACACAGGAATA
1 AATCATATTTCCAGGTATATATGTTTTAAAATATATCATACTGATCAATTATTTACACAGGAATA
* * *
65597 CGAAAGACCTTAAAATTTGAGTTGACCTGAAAATTTGAATTGACCTGAAA
66 CGAAAGACCTGAAAATTTGAATTGACCTGAAAATTTGAAATGACCTGAAA
65647 ATGTGGGCTG
Statistics
Matches: 253, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
174 12 0.05
175 133 0.53
176 95 0.38
178 13 0.05
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (177 bp):
AATCATATTTCCAGGTATATATGTTTTAAAATATATCATACTGATCAATTATTTACACAGGAATA
CGAAAGACCTGAAAATTTGAATTGACCTGAAAATTTGAAATGACCTGAAATTATATATAATTGAT
ACATTTCTATGTTATGTGTCAATTTTAATGTCTATTTGTAAGTTTTT
Found at i:65629 original size:18 final size:18
Alignment explanation
Indices: 65602--65669 Score: 82
Period size: 18 Copynumber: 3.8 Consensus size: 18
65592 GAATACGAAA
*
65602 GACCTTAAAATTTGAGTT
1 GACCTGAAAATTTGAGTT
*
65620 GACCTGAAAATTTGAATT
1 GACCTGAAAATTTGAGTT
* * *
65638 GACCTGAAAATGTGGGCT
1 GACCTGAAAATTTGAGTT
*
65656 GACCTGAAATTTTG
1 GACCTGAAAATTTG
65670 TGTCGATGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.32
Consensus pattern (18 bp):
GACCTGAAAATTTGAGTT
Found at i:69711 original size:21 final size:21
Alignment explanation
Indices: 69674--69787 Score: 95
Period size: 21 Copynumber: 5.4 Consensus size: 21
69664 GTTAATTGTC
* *
69674 GTCCTGACTATATGGGTAGTT
1 GTCCTGACTCTAAGGGTAGTT
* *
69695 GTCCTGACTCCAAGGGTTGTT
1 GTCCTGACTCTAAGGGTAGTT
* * *
69716 GCCCCGACTCTGAA-GGTAGCT
1 GTCCTGACTCT-AAGGGTAGTT
**
69737 GTCCTGACTCTGCGGGTAGTT
1 GTCCTGACTCTAAGGGTAGTT
* ** *
69758 GTTCTGACTCTGCGGGTAGCT
1 GTCCTGACTCTAAGGGTAGTT
69779 GTCCTGACT
1 GTCCTGACT
69788 TTGCTGGTGC
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
21 72 0.97
22 2 0.03
ACGTcount: A:0.14, C:0.25, G:0.30, T:0.32
Consensus pattern (21 bp):
GTCCTGACTCTAAGGGTAGTT
Found at i:69740 original size:42 final size:42
Alignment explanation
Indices: 69688--69787 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
69678 TGACTATATG
* *
69688 GGTAGTTGTCCTGACTCCAAGGGTTGTTGCCCCGACTCTGAA
1 GGTAGCTGTCCTGACTCCAAGGGTAGTTGCCCCGACTCTGAA
*** ** * **
69730 GGTAGCTGTCCTGACTCTGCGGGTAGTTGTTCTGACTCTGCG
1 GGTAGCTGTCCTGACTCCAAGGGTAGTTGCCCCGACTCTGAA
69772 GGTAGCTGTCCTGACT
1 GGTAGCTGTCCTGACT
69788 TTGCTGGTGC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.31
Consensus pattern (42 bp):
GGTAGCTGTCCTGACTCCAAGGGTAGTTGCCCCGACTCTGAA
Found at i:72532 original size:42 final size:43
Alignment explanation
Indices: 72463--72544 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
72453 CACTGTCATC
* * *
72463 CCCTGTACATCTCCTGTGTGCCACTGTACAGAGCCCCTGTATA
1 CCCTGTACATCTCCTGTGCGCCACTGTACACAACCCCTGTATA
*
72506 CCCTGT-CATC-CACTGTGCGCCCCTGTACACAACCCCTGT
1 CCCTGTACATCTC-CTGTGCGCCACTGTACACAACCCCTGT
72545 GTGCCACTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.03
42 27 0.79
43 6 0.18
ACGTcount: A:0.17, C:0.40, G:0.17, T:0.26
Consensus pattern (43 bp):
CCCTGTACATCTCCTGTGCGCCACTGTACACAACCCCTGTATA
Found at i:72977 original size:2 final size:2
Alignment explanation
Indices: 72970--73002 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
72960 ATCAATGCAA
72970 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
73003 GTATAAACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:73197 original size:2 final size:2
Alignment explanation
Indices: 73190--73321 Score: 158
Period size: 2 Copynumber: 66.5 Consensus size: 2
73180 TCAATGCAAA
* ** *
73190 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CA AA CT CA
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* ** * * * *
73232 CT CA AA CT CT CT CT CT CT -T CT CT CA CA CT CT CT CA CA CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
73273 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
73315 CT CT CT C
1 CT CT CT C
73322 ATGACTTATC
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
1 1 0.01
2 114 0.99
ACGTcount: A:0.08, C:0.48, G:0.00, T:0.43
Consensus pattern (2 bp):
CT
Found at i:74268 original size:10 final size:10
Alignment explanation
Indices: 74255--74309 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
74245 TACAGTGGAA
*
74255 TACAGTGGCT
1 TACAGGGGCT
*
74265 TACAGGGGAT
1 TACAGGGGCT
* *
74275 GACAGGGGCG
1 TACAGGGGCT
*
74285 TACAGGGGGT
1 TACAGGGGCT
*
74295 GACAGGGGCT
1 TACAGGGGCT
74305 TACAG
1 TACAG
74310 TGGCACGCAG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (10 bp):
TACAGGGGCT
Found at i:74279 original size:20 final size:20
Alignment explanation
Indices: 74223--74309 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
74213 TCAAAAGCCG
*
74223 TACAGGGGATGTCAGGGGCAT
1 TACAGGGGATGACAGGGGC-T
* *
74244 GTACAGTGGAAT-ACAGTGGCT
1 -TACAG-GGGATGACAGGGGCT
*
74265 TACAGGGGATGACAGGGGCG
1 TACAGGGGATGACAGGGGCT
*
74285 TACAGGGGGTGACAGGGGCT
1 TACAGGGGATGACAGGGGCT
74305 TACAG
1 TACAG
74310 TGGCACGCAG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
19 4 0.07
20 35 0.64
21 1 0.02
22 11 0.20
23 4 0.07
ACGTcount: A:0.25, C:0.15, G:0.43, T:0.17
Consensus pattern (20 bp):
TACAGGGGATGACAGGGGCT
Found at i:74305 original size:40 final size:41
Alignment explanation
Indices: 74223--74309 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 41
74213 TCAAAAGCCG
* *
74223 TACAGGGGATGTCAGGGGCATGTACAGTGGAATACAGTGGCT
1 TACAGGGGATGACAGGGGCA-GTACAGTGGAATACAGGGGCT
**
74265 TACAGGGGATGACAGGGGC-GTACAG-GGGGTGACAGGGGCT
1 TACAGGGGATGACAGGGGCAGTACAGTGGAAT-ACAGGGGCT
74305 TACAG
1 TACAG
74310 TGGCACGCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 3 0.08
40 19 0.47
42 18 0.45
ACGTcount: A:0.25, C:0.15, G:0.43, T:0.17
Consensus pattern (41 bp):
TACAGGGGATGACAGGGGCAGTACAGTGGAATACAGGGGCT
Found at i:74332 original size:24 final size:24
Alignment explanation
Indices: 74305--74369 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
74295 GACAGGGGCT
* *
74305 TACAGTGGCACGCAGGGGGATGTG
1 TACAGGGGCACACAGGGGGATGTG
* * *
74329 TACAGGGGCGCACCGGGGTATGTG
1 TACAGGGGCACACAGGGGGATGTG
*
74353 TACAGGGGCGCACAGGG
1 TACAGGGGCACACAGGG
74370 TATGGCAGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.20, C:0.20, G:0.46, T:0.14
Consensus pattern (24 bp):
TACAGGGGCACACAGGGGGATGTG
Found at i:75718 original size:19 final size:17
Alignment explanation
Indices: 75697--75730 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
75687 ACAATGCAAA
75697 AAAAAAATAGCAAAAGAG
1 AAAAAAA-AGCAAAAGAG
*
75715 AAAACAAAGCAAAAGA
1 AAAAAAAAGCAAAAGA
75731 AAACAGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGCAAAAGAG
Found at i:75725 original size:17 final size:16
Alignment explanation
Indices: 75676--75735 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
75666 TTTGTTTTCA
*
75676 CAAAAAGATAAACAATG
1 CAAAAAGA-AAACAAAG
*
75693 CAAAAA-AAAA-ATAG
1 CAAAAAGAAAACAAAG
75707 CAAAAGAGAAAACAAAG
1 CAAAA-AGAAAACAAAG
75724 C-AAAAGAAAACA
1 CAAAAAGAAAACA
75736 GATTTAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 7 0.19
15 12 0.32
16 8 0.22
17 10 0.27
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.05
Consensus pattern (16 bp):
CAAAAAGAAAACAAAG
Found at i:80733 original size:445 final size:431
Alignment explanation
Indices: 79794--80892 Score: 1205
Period size: 445 Copynumber: 2.5 Consensus size: 431
79784 ATGTTGAAAC
* *
79794 ATTTTGAAATGCA-TAACAGAAGAAAGGATGTTCAAAATGATATTCTTAACAAAATGCA-ACCTT
1 ATTTTGAAATGCAGT-ACAGAAGAAA-GATGTTCAAAATGATATACTTAACAATATGCAGA-CTT
* * * *
79857 CAAAATTTCGTTAAACGACCCCTATAAGGAGATTAGGGATCGGCCCCTAAAACGTTCTCTACCAA
63 CAAAATTTCGTTAAACGACCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACGTTCTTTCCCAT
* * *** ** *
79922 ATATCTCAAAAACGGTAACAGTTTTTTTACGTTTGTTGAACAAAATGTTTTTAGAATTAAACGAC
128 ATAT-TAAAAAACGGTAACAATTTTGAAACACTTGTTGAACAAAATGTGTTTAGAATTAAACGAC
* * * *
79987 CTTTCATTTGATATCCAGAAAAAGGGGCTGGTCCCTACAATTAGGGATCAAAAGGGCTCTATTTT
192 CTTTCATTTGATAT-CAGAAAAA-GGGCTGGCCCCTAAAACTAGGGAACAAAAGGGCTCTATTTT
80052 ATTATCAGTAGCCCTTTACTGAGAGATATTTTGTGAAAAGTTATAGAACAAATATTTTTATCTTA
255 ATTATCAGTAGCCCTTTACTGAGAGATATTTTGTGAAAAGTTATAGAACAAATATTTTTATCTTA
* * ** * * * ** *
80117 CAGTTATGTATCCTAGCAAAGTAATTTTTTTTGTCATGTGTTTCGTAATTAGGGGTTTTTAGGGG
320 CAGTTATGTATCCAAACAAAGTAATTGATTTTATCATATGTATCGTAATTAGGGAATTTTAGAGG
* * **
80182 GCAACAAGTCCAAAATTTTGATCACCCTTATCTCAGAAAGGAAAAAT
385 GCAACAAGTCCAAAATTTTGATCAACATTATCTCAGAAAAAAAAAAT
* * * *
80229 ATTTTGAAATGCAGTATACAAGAATGGATGCTCAAAATGATATACTTAACAATATGCAGACTTCA
1 ATTTTGAAATGCAGTACAGAAGAA-AGATGTTCAAAATGATATACTTAACAATATGCAGACTTCA
** * * *
80294 AAAAATCGTTCAACTACCCCTATAAGGAGATAAGGGATTGGCCCCTAAAACGTTCTTTCCCATAT
65 AAATTTCGTTAAACGACCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACGTTCTTTCCCATAT
* * *
80359 ATTAAAACAAAGGTAACAACTTTTGAAACACTTGTTGAACAAAGTGTGTTTAGAATAAAACGACC
130 ATTAAAA-AACGGTAACAA-TTTTGAAACACTTGTTGAACAAAATGTGTTTAGAATTAAACGACC
**
80424 TTTCATTTGATATACAGAAAGAAGGGCTGGCCCCTAAAACTAGGGAACAGGAGGGCTCTAAATTG
193 TTTCATTTGATAT-CAGAAA-AAGGGCTGGCCCCTAAAACTAGGGAACAAAAGGGCTCT--ATT-
* * * *
80489 TT-TTATCTGTAGCCCTTTACTTAGAGATATTTTGTGAAAGGTTATTGAACCAAATATGTTTGTC
253 TTATTATCAGTAGCCCTTTACTGAGAGATATTTTGTGAAAAGTTATAGAA-CAAATAT-TTT-T-
* * *
80553 TTACATGTATAGTTATGTATCCAAACAATGTAA-TGATTTTATCATATGTAAT-GTAATTA-GGA
314 AT-C-T-TACAGTTATGTATCCAAACAAAGTAATTGATTTTATCATATGT-ATCGTAATTAGGGA
*
80615 ATTTTAGAGGTCAAC-AGTTCC-AAATTTTGAT-AACATATATCTCAGAAATAAAAAAAAAT
375 ATTTTAGAGGGCAACAAG-TCCAAAATTTTGATCAACAT-TATCTCAG--A-AAAAAAAAAT
* *
80674 ATTTTGAAATACAGTACAGAAGCAAAGATTTTCAAAATGATATACTTAACAATATGCAGACTTCA
1 ATTTTGAAATGCAGTACAGAAG-AAAGATGTTCAAAATGATATACTTAACAATATGCAGACTTCA
* * * * * *
80739 AAATTTCGTTAAACGGA-CACTGTAAGGAAAAAAGGGAACGGCCCCT--AACGTTCTTTCCGATT
65 AAATTTCGTTAAAC-GACCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACGTTCTTTCCCA-T
* * * * * *
80801 ATATTTAAAGAACGGTAATGAATTTCGAAACACCTGTTGAACAAAATGTGTTTAGAATTAAATGG
128 ATA-TTAAAAAACGGTAA-CAATTTTGAAACACTTGTTGAACAAAATGTGTTTAGAATTAAACGA
80866 CCTTTCATTTGATATCAAGAAAAAGGG
191 CCTTTCATTTGATATC-AGAAAAAGGG
80893 GCTGCCACCT
Statistics
Matches: 555, Mismatches: 81, Indels: 48
0.81 0.12 0.07
Matches are distributed among these distances:
434 4 0.01
435 121 0.22
436 88 0.16
437 2 0.00
438 46 0.08
439 9 0.02
440 3 0.01
441 4 0.01
442 21 0.04
443 37 0.07
444 89 0.16
445 128 0.23
446 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (431 bp):
ATTTTGAAATGCAGTACAGAAGAAAGATGTTCAAAATGATATACTTAACAATATGCAGACTTCAA
AATTTCGTTAAACGACCCCTATAAGGAGATAAGGGATCGGCCCCTAAAACGTTCTTTCCCATATA
TTAAAAAACGGTAACAATTTTGAAACACTTGTTGAACAAAATGTGTTTAGAATTAAACGACCTTT
CATTTGATATCAGAAAAAGGGCTGGCCCCTAAAACTAGGGAACAAAAGGGCTCTATTTTATTATC
AGTAGCCCTTTACTGAGAGATATTTTGTGAAAAGTTATAGAACAAATATTTTTATCTTACAGTTA
TGTATCCAAACAAAGTAATTGATTTTATCATATGTATCGTAATTAGGGAATTTTAGAGGGCAACA
AGTCCAAAATTTTGATCAACATTATCTCAGAAAAAAAAAAT
Found at i:91514 original size:2 final size:2
Alignment explanation
Indices: 91507--91558 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
91497 AATGATCGAG
91507 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
91549 GA GA GA GA GA
1 GA GA GA GA GA
91559 TGTTGTTACT
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:110755 original size:166 final size:165
Alignment explanation
Indices: 110481--111188 Score: 804
Period size: 166 Copynumber: 4.4 Consensus size: 165
110471 AAGGGTTTAT
* *
110481 GGGTAGGGTGGGGCCACAATGGGGGGATCAAGTTTTACATAGGAATATATTGAGAAAATCTTTAA
1 GGGTAGGGTGGGGCCACAATTGGGGGATCAA-TTTTACATAGGAATATATAGAGAAAATCTTTAA
* * *
110546 AAATCTTCTTCTCAAAAACTATAAGGCCAGGATAGCACAAATTTGGGTAGAAGCATCCTCAGATA
65 AAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTGAGTAGAAGCATCCTCAGATA
*
110611 GTGTAGATTCAAGTTTGTTCAAATCATTGTCCCAGG
130 GTGTAGATTCAAGTTTGTTCAAATCATGGTCCCAGG
110647 GGGTAGGGTGGGGCCACAATTGGGGGATCAAGTTTTACATAGGAATATATAGAGAAAATCTTTAA
1 GGGTAGGGTGGGGCCACAATTGGGGGATCAA-TTTTACATAGGAATATATAGAGAAAATCTTTAA
* * *
110712 AAATCTTCTTCTCAAAAACTATAACGCCAGGAAAGCTCAAATTTGAGTGGAAGCATCCTCAGATC
65 AAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTGAGTAGAAGCATCCTCAGATA
* * * *
110777 GTGTAGATGCAAGTTTATTAAAATCATGGTCCCCGG
130 GTGTAGATTCAAGTTTGTTCAAATCATGGTCCCAGG
* * * * *
110813 GGGTAGGGTGGGGCCACAATTGGGGTATAAATTTTTATACAAGAATATATAGAGAAAATCTTTAA
1 GGGTAGGGTGGGGCCACAATTGGGGGATCAA-TTTTACATAGGAATATATAGAGAAAATCTTTAA
* * ** * * * *
110878 AAATTTTCTT-TAAAAAACTATTTGGCCAAGAAAGCTCAAATTGGCGT-GTAACCATCCTCAGAT
65 AAATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTGAGTAG-AAGCATCCTCAGAT
* * *
110941 AATGTAGATTCAAGTGTGTTCAAATCATGGTCCCTGG
129 AGTGTAGATTCAAGTTTGTTCAAATCATGGTCCCAGG
* **** *
110978 GGGTAGGGCGGGGCCACAA-TGGGGG-T-AA----A-A-AATTTTATATACAGAAAATCTTTAAA
1 GGGTAGGGTGGGGCCACAATTGGGGGATCAATTTTACATAGGAATATATAGAGAAAATCTTTAAA
* * * * * *
111034 AA---TCTTCTC-AGAACTATTAGGCCAGGAAAGCCCAAATTTGAGTAGAAGCGTCCCCAGATCG
66 AATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTGAGTAGAAGCATCCTCAGATAG
* * * *
111095 TATAGATTCAAGTTTGTTTAAATAATAGT-CCA-G
131 TGTAGATTCAAGTTTGTTCAAATCATGGTCCCAGG
* * * *
111128 GGGTAGGGTGAGGCCACAA-TGGGGGATGAATTTCTAAATAGGAATATAGAGAGAAAATCTT
1 GGGTAGGGTGGGGCCACAATTGGGGGATCAATTT-TACATAGGAATATATAGAGAAAATCTT
111189 CTTTTTAAAG
Statistics
Matches: 463, Mismatches: 67, Indels: 31
0.83 0.12 0.06
Matches are distributed among these distances:
150 24 0.05
151 3 0.01
152 69 0.15
153 2 0.00
155 24 0.05
156 1 0.00
157 2 0.00
158 1 0.00
159 16 0.03
162 2 0.00
163 1 0.00
164 6 0.01
165 91 0.20
166 221 0.48
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (165 bp):
GGGTAGGGTGGGGCCACAATTGGGGGATCAATTTTACATAGGAATATATAGAGAAAATCTTTAAA
AATCTTCTTCTCAAAAACTATAAGGCCAGGAAAGCTCAAATTTGAGTAGAAGCATCCTCAGATAG
TGTAGATTCAAGTTTGTTCAAATCATGGTCCCAGG
Found at i:116151 original size:2 final size:2
Alignment explanation
Indices: 116144--116173 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
116134 AGGGACCGGG
116144 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
116174 AGGGGTAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:125362 original size:426 final size:424
Alignment explanation
Indices: 124571--125362 Score: 1392
Period size: 426 Copynumber: 1.9 Consensus size: 424
124561 GTTTGAAAGA
*
124571 TTCCGTTCCGTTAAATACCAATATCCACACGGGTAATGGTATTTTGCGGAACGGAACGGAACCGG
1 TTCCGTTCCGTTAAATACCAATATCCACACGGGTAATGGTATTTTGCGGAACGAAACGGAACCGG
* *
124636 AAGAAAAATTTTCAGACGTAAGGTAAATAATGAATTAATATTTAACTTTTTCCCTGCGAATGTCC
66 AAGAAAAATTTTCAGAAGTAAGGTAAATAATGAATTAATATTTAACGTTTTCCCTGCGAATGTCC
124701 TTAGTATATTTTAGAATTATCTTAATGTAGAAATATGGATTGTGTTTTTGCTAGCTTGAGTAACA
131 TTAGTATATTTTAGAATTATCTTAATGTAGAAATATGGATTGTGTTTTTGCTAGCTTGAGTAACA
*
124766 AACTTGTAAATTCACCCGTGTAAATAACATATAATGGATTAAAGAATGAAATAAAAGTTGACGTT
196 AACTTGTAAACTCACCCGTGTAAATAACATATAATGGATTAAAGAATGAAATAAAAGTTGACGTT
*
124831 TTACACAACACAAGCACACAAACGCTGGAATGATATGCACATACGCAAGATGTATGAATGGATGA
261 TTACACAACACAAGCACACAAACGCTGGAATGATATGCACATACACAAGATGTATGAATGGATGA
124896 AAGGGTTTGTTAGTTTGCTTCATTTATTTCGAAAGAATATAGAAACGGCGAGAAGTTGTTATGAT
326 AAGGGTTTGTTAGTTTGCTTCATTTATTTCGAAAGAATATAGAAACGGCGAGAAGTTGTTATGAT
124961 ATGTTTCATATTTTTGTAAGTTTGAAAGATTCCG
391 ATGTTTCATATTTTTGTAAGTTTGAAAGATTCCG
124995 TTCCGTTCCGTTAAATACCAATATCCACACGGGTAATGGTATTTTGCGGAACGAAACGGAACCGG
1 TTCCGTTCCGTTAAATACCAATATCCACACGGGTAATGGTATTTTGCGGAACGAAACGGAACCGG
* * * *
125060 AAGAAAATTTTTCAGAAGTAAGGTAAATGATGATTTAATATTTAACGTTTTCCTTGCGAATGTCC
66 AAGAAAAATTTTCAGAAGTAAGGTAAATAATGAATTAATATTTAACGTTTTCCCTGCGAATGTCC
* *
125125 TTGGTATATTTTAGAATTCATCTTAATGTAGAAATA-GGCATTGCCT-TTTTTGCTTGCTTGAGT
131 TTAGTATATTTTAGAATT-ATCTTAATGTAGAAATATGG-ATTG--TGTTTTTGCTAGCTTGAGT
125188 AACAAACTTGTAAACTCACCCGTGTAAATAACATATAATGGATTAAAGAATGAAATAAAA-TATG
192 AACAAACTTGTAAACTCACCCGTGTAAATAACATATAATGGATTAAAGAATGAAATAAAAGT-TG
* *
125252 ACGTTTTACACAACACATGCACACAAACGCTGGAATGATATGCACATACACAAGATGTGTGAATG
256 ACGTTTTACACAACACAAGCACACAAACGCTGGAATGATATGCACATACACAAGATGTATGAATG
*
125317 GATGAAATGGTTTGTTAGTTTGCTTCATTTATTTCGAAAGAATATA
321 GATGAAAGGGTTTGTTAGTTTGCTTCATTTATTTCGAAAGAATATA
125363 CACCCCTGCA
Statistics
Matches: 349, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
424 142 0.41
425 22 0.06
426 184 0.53
427 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (424 bp):
TTCCGTTCCGTTAAATACCAATATCCACACGGGTAATGGTATTTTGCGGAACGAAACGGAACCGG
AAGAAAAATTTTCAGAAGTAAGGTAAATAATGAATTAATATTTAACGTTTTCCCTGCGAATGTCC
TTAGTATATTTTAGAATTATCTTAATGTAGAAATATGGATTGTGTTTTTGCTAGCTTGAGTAACA
AACTTGTAAACTCACCCGTGTAAATAACATATAATGGATTAAAGAATGAAATAAAAGTTGACGTT
TTACACAACACAAGCACACAAACGCTGGAATGATATGCACATACACAAGATGTATGAATGGATGA
AAGGGTTTGTTAGTTTGCTTCATTTATTTCGAAAGAATATAGAAACGGCGAGAAGTTGTTATGAT
ATGTTTCATATTTTTGTAAGTTTGAAAGATTCCG
Found at i:131120 original size:42 final size:42
Alignment explanation
Indices: 131073--131154 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
131063 GCGCGCCCAT
*
131073 ATATGCTAATATGATATGTGAGCAGGTAAATTATTCATGCAA
1 ATATGCCAATATGATATGTGAGCAGGTAAATTATTCATGCAA
*
131115 ATATGCCAATATGCTATGTGAGCAGGTAAATTATTCATGC
1 ATATGCCAATATGATATGTGAGCAGGTAAATTATTCATGC
131155 TTTAGTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (42 bp):
ATATGCCAATATGATATGTGAGCAGGTAAATTATTCATGCAA
Found at i:135394 original size:18 final size:18
Alignment explanation
Indices: 135363--135406 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
135353 AGCACACCAC
*
135363 TATAACAACACAAACAT-
1 TATAACATCACAAACATG
135380 TATAGACATCACAAACATG
1 TATA-ACATCACAAACATG
135399 TATAACAT
1 TATAACAT
135407 ACATTTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (18 bp):
TATAACATCACAAACATG
Found at i:141849 original size:19 final size:19
Alignment explanation
Indices: 141810--141868 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
141800 CTGAAAAAAA
*
141810 TTAACTAAATTTAAGTAAGTT
1 TTAACTAAA--TAACTAAGTT
141831 TTAACTAAATAACTAAGTT
1 TTAACTAAATAACTAAGTT
*
141850 CTATA-TAAATAACTAAGTT
1 TTA-ACTAAATAACTAAGTT
141869 ATCTCGGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 25 0.71
20 1 0.03
21 9 0.26
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (19 bp):
TTAACTAAATAACTAAGTT
Found at i:143236 original size:18 final size:18
Alignment explanation
Indices: 143205--143248 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
143195 AGCACACCAC
*
143205 TATAACAACACAAACAT-
1 TATAACATCACAAACATG
143222 TATAGACATCACAAACATG
1 TATA-ACATCACAAACATG
143241 TATAACAT
1 TATAACAT
143249 ACATTTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.67
19 4 0.17
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (18 bp):
TATAACATCACAAACATG
Found at i:152265 original size:10 final size:10
Alignment explanation
Indices: 152248--152283 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
152238 TTAGATTAAG
152248 ACAAAAAAACA
1 ACAAAAAAA-A
*
152259 AAAAAAAAAA
1 ACAAAAAAAA
152269 ACAAAAAAAA
1 ACAAAAAAAA
152279 ACAAA
1 ACAAA
152284 GCAGCTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.65
11 8 0.35
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:152268 original size:13 final size:13
Alignment explanation
Indices: 152250--152279 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
152240 AGATTAAGAC
152250 AAAAAAACAAAAA
1 AAAAAAACAAAAA
152263 AAAAAAACAAAAA
1 AAAAAAACAAAAA
152276 AAAA
1 AAAA
152280 CAAAGCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAA
Found at i:156465 original size:4 final size:4
Alignment explanation
Indices: 156445--156512 Score: 118
Period size: 4 Copynumber: 16.8 Consensus size: 4
156435 TTTCTTTTAT
*
156445 TTTC TTTT TTCTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
156494 TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTT
156513 AACATACCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
4 58 0.95
5 3 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:157183 original size:4 final size:4
Alignment explanation
Indices: 157174--157207 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
157164 TGCACTCACA
* *
157174 CTGT CTGT CTGA CTTT CTGT CTGT CTGT CTGT CT
1 CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CT
157208 CTCTCTGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.03, C:0.26, G:0.21, T:0.50
Consensus pattern (4 bp):
CTGT
Found at i:159512 original size:28 final size:28
Alignment explanation
Indices: 159481--159536 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
159471 CATTGACAAT
159481 GAAAGTGGACATTCTTACAACCCTTCAA
1 GAAAGTGGACATTCTTACAACCCTTCAA
159509 GAAAGTGGACATTCTTACAACCCTTCAA
1 GAAAGTGGACATTCTTACAACCCTTCAA
159537 CCTTCCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (28 bp):
GAAAGTGGACATTCTTACAACCCTTCAA
Found at i:165130 original size:16 final size:15
Alignment explanation
Indices: 165099--165127 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
165089 ACATAACCTG
165099 TGTACGTTTTTTTTA
1 TGTACGTTTTTTTTA
165114 TGTACGTTTTTTTT
1 TGTACGTTTTTTTT
165128 TATATATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (15 bp):
TGTACGTTTTTTTTA
Found at i:178703 original size:10 final size:9
Alignment explanation
Indices: 178687--178712 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
178677 GAGATAATCA
178687 GAAAAAAAG
1 GAAAAAAAG
178696 GAAAAAAAG
1 GAAAAAAAG
178705 GAAAAAAA
1 GAAAAAAA
178713 TCAACATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:183944 original size:11 final size:11
Alignment explanation
Indices: 183924--183975 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
183914 TCCAAACTTC
183924 TTAAGCCACCT
1 TTAAGCCACCT
*
183935 TTAAGTCACCT
1 TTAAGCCACCT
*
183946 TTAAGCCATCT
1 TTAAGCCACCT
*
183957 TTAAGTCACCT
1 TTAAGCCACCT
183968 TTAAGCCA
1 TTAAGCCA
183976 TTAAAAATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (11 bp):
TTAAGCCACCT
Found at i:183976 original size:22 final size:22
Alignment explanation
Indices: 183924--183976 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
183914 TCCAAACTTC
*
183924 TTAAGCCACCTTTAAGTCACCT
1 TTAAGCCATCTTTAAGTCACCT
183946 TTAAGCCATCTTTAAGTCACCT
1 TTAAGCCATCTTTAAGTCACCT
183968 TTAAGCCAT
1 TTAAGCCAT
183977 TAAAAATCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (22 bp):
TTAAGCCATCTTTAAGTCACCT
Found at i:184780 original size:11 final size:11
Alignment explanation
Indices: 184764--184788 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
184754 TTTGAAACAA
184764 AAAAAAAAAAT
1 AAAAAAAAAAT
184775 AAAAAAAAAAT
1 AAAAAAAAAAT
184786 AAA
1 AAA
184789 GCATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:185052 original size:11 final size:11
Alignment explanation
Indices: 185038--185077 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
185028 GTTAAGACAA
185038 CTTAAAGGTGG
1 CTTAAAGGTGG
*
185049 CTTAAAGATGG
1 CTTAAAGGTGG
* *
185060 TTTAAAAGTGG
1 CTTAAAGGTGG
185071 CTTAAAG
1 CTTAAAG
185078 AAGTTTGGAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:193420 original size:21 final size:21
Alignment explanation
Indices: 193405--193481 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
193395 TCCGTGCAAG
193405 AAACGAACCGTACCGTTCACA
1 AAACGAACCGTACCGTTCACA
*
193426 AAACGAAACGTACCGTTCACA
1 AAACGAACCGTACCGTTCACA
193447 AAACGAACCGTACCGTTCACA
1 AAACGAACCGTACCGTTCACA
*
193468 AAGCGAACCGTACC
1 AAACGAACCGTACC
193482 ATGCAAAAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (21 bp):
AAACGAACCGTACCGTTCACA
Found at i:193491 original size:21 final size:20
Alignment explanation
Indices: 193390--193481 Score: 112
Period size: 21 Copynumber: 4.4 Consensus size: 20
193380 AACGAACCGT
* *
193390 ACCGTTCCGTGCAAGAAACGA
1 ACCGTACCGTTCAA-AAACGA
193411 ACCGTACCGTTCACAAAACGA
1 ACCGTACCGTTCA-AAAACGA
*
193432 AACGTACCGTTCACAAAACGA
1 ACCGTACCGTTCA-AAAACGA
*
193453 ACCGTACCGTTCACAAAGCGA
1 ACCGTACCGTTCA-AAAACGA
193474 ACCGTACC
1 ACCGTACC
193482 ATGCAAAAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 64 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.33, G:0.17, T:0.14
Consensus pattern (20 bp):
ACCGTACCGTTCAAAAACGA
Found at i:194474 original size:2 final size:2
Alignment explanation
Indices: 194467--194502 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
194457 TGATTCTCGG
194467 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
194503 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:205843 original size:26 final size:25
Alignment explanation
Indices: 205807--205862 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 25
205797 TTGACAAAAG
205807 AATCATCAATTCTCAAAACTGTATGA
1 AATCATCAATTCTCAAAACTGTAT-A
205833 AATCATCAATTCTCAAAACTGTATA
1 AATCATCAATTCTCAAAACTGTATA
205858 AATCA
1 AATCA
205863 GCTTTAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (25 bp):
AATCATCAATTCTCAAAACTGTATA
Found at i:217365 original size:14 final size:15
Alignment explanation
Indices: 217341--217370 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
217331 CCCTTAAAAG
217341 TAAAAATGAATGCAC
1 TAAAAATGAATGCAC
217356 TAAAAA-GAATGCAC
1 TAAAAATGAATGCAC
217370 T
1 T
217371 GTCCAACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
TAAAAATGAATGCAC
Found at i:217433 original size:2 final size:2
Alignment explanation
Indices: 217426--217473 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
217416 AATAAATTTA
217426 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
217468 CT CT CT
1 CT CT CT
217474 GTTGTATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:217714 original size:53 final size:53
Alignment explanation
Indices: 217654--217756 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
217644 AAGACGGCAC
* * *
217654 ACGATGTATACACGATATCGAATCGATGTCGATCAACATTGCGATATCGAGGT
1 ACGATGTAGACACGATATCGAACCGATATCGATCAACATTGCGATATCGAGGT
* * * * *
217707 ACGATGTAGACACGGTGTCGACCCGATATCGATCAGCATTGCGATGTCGA
1 ACGATGTAGACACGATATCGAACCGATATCGATCAACATTGCGATATCGA
217757 CGATGTAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (53 bp):
ACGATGTAGACACGATATCGAACCGATATCGATCAACATTGCGATATCGAGGT
Found at i:217764 original size:127 final size:127
Alignment explanation
Indices: 217576--217830 Score: 302
Period size: 127 Copynumber: 2.0 Consensus size: 127
217566 TATAGGGGGT
* * * *
217576 AGGTACGATGTAGACAAGAATTCTACACGATGTCGATCAACACTGCAATGTCGATGGTGTAAACA
1 AGGTACGATGTAGACAAGAATTCGACACGATATCGATCAACACTGCAATGTCGACGATGTAAACA
* *
217641 -GAAAAGACGG-CACACGATGTATACACGATATCGA-ATCGATGTCGATCAACATTGCGATATCG
66 GGAAAA-A-GGACACACGATGTAGACACAATATCGACAT-GATGTCGATCAACATTGCGATATCG
* * * * * *
217703 AGGTACGATGTAGACACG-GTGTCGACCCGATATCGATCAGCATTGCGATGTCGACGATGTAAAC
1 AGGTACGATGTAGACAAGAAT-TCGACACGATATCGATCAACACTGCAATGTCGACGATGTAAAC
* * * *
217767 AGGAAAAAGGACACACGATGTGGACACAATGTCGACATGATGTTGGTCAACATTGCGATATCG
65 AGGAAAAAGGACACACGATGTAGACACAATATCGACATGATGTCGATCAACATTGCGATATCG
217830 A
1 A
217831 AAATGTACAC
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
126 3 0.03
127 98 0.91
128 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (127 bp):
AGGTACGATGTAGACAAGAATTCGACACGATATCGATCAACACTGCAATGTCGACGATGTAAACA
GGAAAAAGGACACACGATGTAGACACAATATCGACATGATGTCGATCAACATTGCGATATCG
Found at i:227725 original size:4 final size:4
Alignment explanation
Indices: 227716--227771 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
227706 GTAATTGCAT
227716 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
227764 TAGA TAGA
1 TAGA TAGA
227772 ATTCCAAAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:232001 original size:15 final size:15
Alignment explanation
Indices: 231981--232010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
231971 ATGTTTACAG
*
231981 TTTACATATTTGTTT
1 TTTACATATCTGTTT
231996 TTTACATATCTGTTT
1 TTTACATATCTGTTT
232011 ACATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTACATATCTGTTT
Found at i:234673 original size:42 final size:42
Alignment explanation
Indices: 234614--237459 Score: 2742
Period size: 42 Copynumber: 68.2 Consensus size: 42
234604 AAAATACGAA
*
234614 ATATGAGGCCCGTGAACTCATCGACACTTTATATAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
234656 ATATGAGGCCCGTGAACTCATCGACACTCTATATAATATAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
234698 ATATGAGGCCCGTGAACTCAGT-TACACTCTATATTA-AACTAG
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATA-TAGTACAAG
** ** * * *
234740 ATACAAGGCCTATGAACTCATTGACACCCTATATAGTACAAA
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * **
234782 ATATGAGGCCCGTGAACTCACCAACACTCTATATCA-TACTTG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATAT-AGTACAAG
* ** * * * *
234824 ATACGAGGTGCATGTACTCAGT-AACACTCTATAT-CTACAAG
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATATAGTACAAG
* * * * *
234865 ATATAAGGCCCGTGAACTTATTGAAACTCTATATTA-TACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* *
234907 ATATGAGGACTGTGAACTCATCGACACTCTATATTA-TACCAA-
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTA-CAAG
*
234949 ATATGAGGCCCGTGAACTCAGT-AACACTCTATATAGTACAAG
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATATAGTACAAG
* *
234991 ATATGAGGCCCGTGAACTCATCAACACTCTATATAGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
235033 ATATGAGGCCCGTGAACTCATCGACACACTTATAATATTATACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTC-TAT-ATA--GTACAAG
* * * *
235079 ATATGAGGCCCATGAACTCAGT-AACACTCTATGTTA-TAC-TG
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTAT-ATAGTACAAG
* * * *
235120 CATATGAGGCCCATGAACTCATCAACACCCTATATTGTACAAG
1 -ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
235163 ATATGAGGCCCGTGAACTGATCGACACTCTATATTGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
235205 ATATGAGGCCCGTGAACTCATCGACACCCTATAAAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
235247 ATATGAGGCTCATGAACTCATCGACACCCTATATTA-TACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * * **
235289 ATATGAGGCCCGTGAACTTATTGACACTCTATAAAAAACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
235331 ATATGAGGCCCGTGAACTCAGTAG-CACTCTATATTA-TACTAC
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATA-TAGTACAAG
* * *
235373 ATATGAGGCCCGTGAACTCATCAATACTCTATATTGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
235415 ATATGA-GCCCGTGGACTCATCGACACTCTATATTGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
** * * * *
235456 ATATGAGGTACTTGAACTCATCGACACCCTATAAAGGACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
*
235498 ATATGAGGCCCGTGAACTCATCGACACCCTATATTA-TACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* *
235540 ATATGAGGCCCGTGAACTCATTGACACTCTATAAAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
235582 ATATGAGGCCTGTGAACTCATCGACACTCTATATTA-TACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
235624 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
*
235666 ATATGAGGCCCGTGAACTCATCGACAC-CTATATTA-TACCAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * * **
235707 ATATGAGGCCCGTGACCTCATCAACACTCAATATAGTACTTG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
235749 ATATG-CGTCCATGAACTCATCGACACTCTATA-AGGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATA-GTACAAG
* * * * *
235790 ATATGAGGCCCGTGAACTCGGT-TACA-TCCTATTTAATACTTA-
1 ATATGAGGCCCGTGAACTC-ATCGACACT-CTATATAGTAC-AAG
* * *
235832 ATATGAGGCCCATGAACTCATCGACACTCTACA-AATAACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGT-ACAAG
* * * * *
235874 ATATGAGACCCATGAACTCATTGACACTCCATATAGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
235916 ATATGGAGG-CTGTGAACTCATTGACACTCTATATAGAACAAG
1 ATAT-GAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
*
235958 ATATGAGGCCCGTGAACTCATCGACACTCTATTTAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
236000 ATATGAGGCCCGTGAACTCATCGACACTCTATATAATATAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
236042 ATATGAGGCCCGTGAACTCAGT-TACACTCTATATTAG-ACTAG
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATA-TAGTACAAG
** * * * * *
236084 ATACAAGGCCCATGAACCCATTGACACCCTATATAGTACAAA
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* **
236126 ATATGAGGCCCGTGAACTCATCAACACTCTATATCA-TACTTG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATAT-AGTACAAG
* * * *
236168 ATACGAGGCCCATGTACTCAGT-AACACTCTATATA-TACAAG
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATATAGTACAAG
* * * * * *
236209 ATATAAGGACCGTGAACTTATTGAAACTCTATATTA-TACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * * *
236251 ATATGAGGACCGTGAATTCATCGACACTCTATATTA-AACCAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * * * *
236293 ATATGAGGCCCATGAACTCAGT-AACACTTTATATTA-TACTAC
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATA-TAGTACAAG
* *
236335 ATATGAGGCCCGTGAACTCATCGACACTCTATTTAGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
236377 ATATGAGGCCCGTGAACTCATCAACACTCTATATAGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
*
236419 ATATGAGGCCCGTGAACTCATCGACACACTTGTAATATTA-TACAAG
1 ATATGAGGCCCGTGAACTCATCG--ACAC-TCT-ATA-TAGTACAAG
* * * *
236465 ATATGAGGCCCATGAACTCATCAACACCCTATATTGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
236507 ATATGAGGCCCGTGAACTGATCGACACTCTATATTGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
236549 ATATGAGGCCCGTGAACTCATCGACACCCTATAAAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
236591 ATATGAGGCTCATGAACTCATCGACACCCTATATTA-TACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * * *
236633 ATATGAGGCCCGTGAACTTATTGACACTCGATAAAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * ***
236675 ATATGAGGCCAGTGAACTCAGTAG-CACTCTATATTA-TACTTC
1 ATATGAGGCCCGTGAACTCA-TCGACACTCTATA-TAGTACAAG
* *
236717 ATATGAGGCCCGTGAACTCATCAACACTCTATATTGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
236759 ATATGAGGCCCGTGAACTCATCGACACTCTATATTGTACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* ** * * *
236801 AT-TAAGGTACGTGAACTCATCGACACCCTATAAAGGACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
*
236842 ATATGAGGCCCGTGAACTCATCGACACCCTATATTA-TACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * *
236884 ATATGAGGCCC-TGAACTTATTGACACTCTATAAAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * *
236925 ATATGAGGCCTGTGAACTCATAGACACTCTATATTA-TACTAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
*
236967 ATATGAGGCCCATGAACTCATCGACACTCTATATAGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* *
237009 ATATGAGGCCCGTGAACTCATCGACACCCTATATTA-TACCAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATA-TAGTACAAG
* * **
237051 ATATGAGGCCCGTGAACTCATCAACACTCAATATAGTACTTG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
237093 ATAT---G--CGT---C-CAT-GACACTCTATA-AGGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATA-GTACAAG
* * * * * * * *
237125 ATATGAGGCCTGTGAACTCGGT-TACACCCAATTTAATACTTA-
1 ATATGAGGCCCGTGAACTC-ATCGACACTCTATATAGTAC-AAG
*
237167 ATATGAGGCCCATGAACTCATCGACACTCTATATA-TAACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGT-ACAAG
* * * **
237209 ATATGAGACCCGTGAACTCATTGACACTCAATATAGTACTTG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
237251 ATAT---G--CGT---C-CAT-GACACTCTATA-AGGTACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATA-GTACAAG
* * * * * * * *
237283 ATATGAGGCCTGTGAACTCGGT-TACACCCAATTTAATACTTA-
1 ATATGAGGCCCGTGAACTC-ATCGACACTCTATATAGTAC-AAG
*
237325 ATATGAGGCCCATGAACTCATCGACACTCTATATA-TAACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGT-ACAAG
* * *
237367 ATATGAGACCCGTGAACTCATTGACACTCTATATAGAACAAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
* * * *
237409 ATATGAGGCCCGTGAACTCACCCACACTCTATTTAGTACGAG
1 ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
*
237451 ATATAAGGC
1 ATATGAGGC
237460 TCATGAATTT
Statistics
Matches: 2317, Mismatches: 371, Indels: 232
0.79 0.13 0.08
Matches are distributed among these distances:
31 2 0.00
32 37 0.02
33 6 0.00
34 2 0.00
35 2 0.00
37 10 0.00
39 1 0.00
40 6 0.00
41 277 0.12
42 1849 0.80
43 46 0.02
44 11 0.00
45 7 0.00
46 58 0.03
47 3 0.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
ATATGAGGCCCGTGAACTCATCGACACTCTATATAGTACAAG
Found at i:237165 original size:74 final size:73
Alignment explanation
Indices: 237049--237329 Score: 269
Period size: 74 Copynumber: 3.7 Consensus size: 73
237039 ATATTATACC
* * * *
237049 AGATATGAGGCCCGTGAACTCATCAACACTCAATATAGTACTTGATATGCGTCCATGACACTCTA
1 AGATATGAGGCCCGTGAACTCAT-TACACCCAATATAATACTTAATATGCGTCCATGACACTCTA
237114 TAAGGTACA
65 TAAGGTACA
* * * *
237123 AGATATGAGGCCTGTGAACTCGGTTACACCCAATTTAATACTTAATATGAGGCCCATGAACTCAT
1 AGATATGAGGCCCGTGAACTC-ATTACACCCAATATAATACTTAATAT---G--C--G-TC-CAT
237188 CGACACTCTATATA--TAACA
56 -GACACTCTATA-AGGT-ACA
* * * *
237207 AGATATGAGACCCGTGAACTCATTGACACTCAATATAGTACTTGATATGCGTCCATGACACTCTA
1 AGATATGAGGCCCGTGAACTCATT-ACACCCAATATAATACTTAATATGCGTCCATGACACTCTA
237272 TAAGGTACA
65 TAAGGTACA
* * *
237281 AGATATGAGGCCTGTGAACTCGGTTACACCCAATTTAATACTTAATATG
1 AGATATGAGGCCCGTGAACTC-ATTACACCCAATATAATACTTAATATG
237330 AGGCCCATGA
Statistics
Matches: 167, Mismatches: 23, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
73 1 0.01
74 92 0.55
75 7 0.04
76 1 0.01
77 2 0.01
79 2 0.01
81 2 0.01
82 1 0.01
83 6 0.04
84 52 0.31
85 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (73 bp):
AGATATGAGGCCCGTGAACTCATTACACCCAATATAATACTTAATATGCGTCCATGACACTCTAT
AAGGTACA
Found at i:237194 original size:116 final size:116
Alignment explanation
Indices: 236989--237201 Score: 290
Period size: 116 Copynumber: 1.8 Consensus size: 116
236979 TGAACTCATC
*
236989 GACACTCTATATAGTACAAGATATGAGGCCCGTGAACTCATCGACACCCTATATTATACCAGATA
1 GACACTCTATATAGTACAAGATATGAGGCCCGTGAACTCATCGACACCCAATATTATACCAGATA
*
237054 TGAGGCCCGTGAACTCATCAACACTCAATATAGTACTTGATATGCGTCCAT
66 TGAGGCCCATGAACTCATCAACACTCAATATAGTACTTGATATGCGTCCAT
* * * *
237105 GACACTCTATA-AGGTACAAGATATGAGGCCTGTGAACTCGGT-TACACCCAAT-TTAATACTTA
1 GACACTCTATATA-GTACAAGATATGAGGCCCGTGAACTC-ATCGACACCCAATATT-ATAC-CA
* *
237167 -ATATGAGGCCCATGAACTCATCGACACTCTATATA
62 GATATGAGGCCCATGAACTCATCAACACTCAATATA
237202 TAACAAGATA
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
115 3 0.04
116 80 0.94
117 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (116 bp):
GACACTCTATATAGTACAAGATATGAGGCCCGTGAACTCATCGACACCCAATATTATACCAGATA
TGAGGCCCATGAACTCATCAACACTCAATATAGTACTTGATATGCGTCCAT
Found at i:237413 original size:158 final size:158
Alignment explanation
Indices: 237009--237402 Score: 709
Period size: 158 Copynumber: 2.5 Consensus size: 158
236999 ATAGTACAAG
* * * * *
237009 ATATGAGGCCCGTGAACTCATCGACACCCTATAT-TATACCAGATATGAGGCCCGTGAACTCATC
1 ATATGAGGCCCATGAACTCATCGACACTCTATATATA-ACAAGATATGAGACCCGTGAACTCATT
*
237073 AACACTCAATATAGTACTTGATATGCGTCCATGACACTCTATAAGGTACAAGATATGAGGCCTGT
65 GACACTCAATATAGTACTTGATATGCGTCCATGACACTCTATAAGGTACAAGATATGAGGCCTGT
237138 GAACTCGGTTACACCCAATTTAATACTTA
130 GAACTCGGTTACACCCAATTTAATACTTA
237167 ATATGAGGCCCATGAACTCATCGACACTCTATATATAACAAGATATGAGACCCGTGAACTCATTG
1 ATATGAGGCCCATGAACTCATCGACACTCTATATATAACAAGATATGAGACCCGTGAACTCATTG
237232 ACACTCAATATAGTACTTGATATGCGTCCATGACACTCTATAAGGTACAAGATATGAGGCCTGTG
66 ACACTCAATATAGTACTTGATATGCGTCCATGACACTCTATAAGGTACAAGATATGAGGCCTGTG
237297 AACTCGGTTACACCCAATTTAATACTTA
131 AACTCGGTTACACCCAATTTAATACTTA
237325 ATATGAGGCCCATGAACTCATCGACACTCTATATATAACAAGATATGAGACCCGTGAACTCATTG
1 ATATGAGGCCCATGAACTCATCGACACTCTATATATAACAAGATATGAGACCCGTGAACTCATTG
*
237390 ACACTCTATATAG
66 ACACTCAATATAG
237403 AACAAGATAT
Statistics
Matches: 228, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
158 226 0.99
159 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (158 bp):
ATATGAGGCCCATGAACTCATCGACACTCTATATATAACAAGATATGAGACCCGTGAACTCATTG
ACACTCAATATAGTACTTGATATGCGTCCATGACACTCTATAAGGTACAAGATATGAGGCCTGTG
AACTCGGTTACACCCAATTTAATACTTA
Found at i:240196 original size:42 final size:42
Alignment explanation
Indices: 240132--241985 Score: 1545
Period size: 42 Copynumber: 44.6 Consensus size: 42
240122 ATCAATGAAG
* * * *
240132 TCACTGGCCTCATACCTTGTACTTTATAGGATGTTGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * * *
240174 TGACGGGCCTCGTATCTAGTACTATATAGAGTACTGTCGATGAGG
1 TCACGGGCCTCATATCTTGTACTATATAG-G-A-TGTCGATGAGT
* * *
240219 TCATGGGCC-CATA-----TAC---AGA-G-TGTTGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * *
240250 TCACGGGCCTCATATCTTGTAATATATAGGGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
*
240292 TCACGGGCCTCATATCTTGTACTATACA-GAGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * **
240334 TCACGGGCCTCATATCTTGTACTATAGA-GAGTGTCCACAAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
240376 TCAC-GTCCTCATATCTTGTAAC-ATATAGGGTGTTGATGAGT
1 TCACGGGCCTCATATCTTGT-ACTATATAGGATGTCGATGAGT
* * *
240417 TGACGGGCCTCATATCTTGTACCATATATAAG-TGTCGCTGAGT
1 TCACGGGCCTCATATCTTGTA-C-TATATAGGATGTCGATGAGT
* *
240460 TCACGTGCCTCATATCTTGTACCATATATAGG-TGTCGCTGAGT
1 TCACGGGCCTCATATCTTGTA-C-TATATAGGATGTCGATGAGT
* * * *
240503 TCACGAGCCTCATATCTTGTGCCATATA-GAGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* **
240545 TCACGTGCCTCATATCTTGTACTATATA-GAGTGTCTCTGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
240587 TCACAGGCCTCATATCTTGTTAC-ATACA-GAGTGTTGATGAGT
1 TCACGGGCCTCATATCTTG-TACTATATAGGA-TGTCGATGAGT
* * * *
240629 TCACAGGCCTCATATCTTGTAATATATAGGGTGTTGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
** *
240671 TCACGATCCTCATATCTTGTACTATACA-GAGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
*
240713 TCACGGGCCTCATATCTTGTACCATATATAGG-TGTCGCTGAGT
1 TCACGGGCCTCATATCTTGTA-C-TATATAGGATGTCGATGAGT
* * *
240756 TCACAGGCCTCATATCTTGTACCATATATAGG-TGTCGCTAAGT
1 TCACGGGCCTCATATCTTGTA-C-TATATAGGATGTCGATGAGT
* * * *
240799 TTATGGGCCTCATATCTTGTACCATATAGGGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * * *
240841 TCACGAGCCTCATATTTTGTACTATACA-GAGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * * **
240883 ACACGGGCCTCATATCTTGTTCCATATACAAGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* *
240926 TCACGGGCCTCATATCTTGTACCATATAGGGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * *
240968 TCACGGGCGTCATATCTTGTAC--TATCGGAGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * * * *
241009 TCACGGCCCTCTTATCTTGTACCATATAGGGTGTTGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* *
241051 TCAGGGGCCTCATATCTTGTACCATATATAGG-TGTCAATGAGT
1 TCACGGGCCTCATATCTTGTA-C-TATATAGGATGTCGATGAGT
* * * * *
241094 TCATGGGTCTCATATCTTGTACCATATAGGGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* *
241136 TCACGGGCCTCATATCTTGTACTATATATAGG-TGTCAAGGAGT
1 TCACGGGCCTCATATCTTGTAC--TATATAGGATGTCGATGAGT
* * *
241179 TCACGGGTCTCATATCTTGTAACT-TATAGGGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGT-ACTATATAGGATGTCGATGAGT
* * *
241221 TCACGGGCCACATATCTTGTACTATACA-GAGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
241263 TCACAGGCCTCATATCTTGTACTATACA-GAGTGTCGATGTGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * * * * *
241305 TCACAGCCCCCATATCTTGTACTATACAGAACGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * *
241347 TCACGGGCCTCATATCTTGAACTATACA-GAGTGTTGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * * *
241389 TCACTGGCCTCATATCTTGAACTCTACA-GAGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * * *
241431 TCACCGGCCTCATATCTTGAACTATACA-GAGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
241473 TCACGGGCATCATATCTTGTACTATACA-GAGTGCCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
241515 TGATGGGCCTCATATCTAGTACTATATAGAGTACTGTCGATGA-T
1 TCACGGGCCTCATATCTTGTACTATATAG-G-A-TGTCGATGAGT
* * *
241559 GTCATGGGCC-CATA-----TAC---AGA-G-TGTTGATGAGT
1 -TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * **
241591 TCACGGGCCTCATATCTTGTAATATATAGGGTGTAAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* *
241633 TCACGGGCCTCATATCTTGTACTATACA-GAGTGTCGTTGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * * **
241675 TCACGGGGCTCATATCTTGTACTATACA-GAGTGTCCACAAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* *
241717 TCAC-GTCCTCATATCTTGTAAC-ATATAGGGTGTCGATGAGT
1 TCACGGGCCTCATATCTTGT-ACTATATAGGATGTCGATGAGT
* *
241758 TCACGGGCCTCATATCTTGTACTATACA-GAGTGTCAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
241800 TCACGGGCATCATATCTTGTACTATACA-GAGTGCCGATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGA-TGTCGATGAGT
* * *
241842 TGATGGGCCTCATATCTAGTACTATATAGAGTACTGTCGATGA-T
1 TCACGGGCCTCATATCTTGTACTATATAG-G-A-TGTCGATGAGT
* * *
241886 GTCATGGGCC-CATA-----TAC---AGA-G-TGTTGATGAGT
1 -TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
* * **
241918 TCACGGGCCTCATATCTTGTAATATATAGGGTGTAAATGAGT
1 TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
241960 TCACGGGCCTCATATCTTGTACTATA
1 TCACGGGCCTCATATCTTGTACTATA
241986 CAGAGTGTCG
Statistics
Matches: 1513, Mismatches: 214, Indels: 170
0.80 0.11 0.09
Matches are distributed among these distances:
31 49 0.03
32 14 0.01
34 3 0.00
36 6 0.00
37 6 0.00
39 9 0.01
40 12 0.01
41 129 0.09
42 946 0.63
43 245 0.16
44 43 0.03
45 51 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
TCACGGGCCTCATATCTTGTACTATATAGGATGTCGATGAGT
Found at i:240377 original size:84 final size:84
Alignment explanation
Indices: 240230--241995 Score: 1869
Period size: 84 Copynumber: 21.2 Consensus size: 84
240220 CATGGGCCCA
* * *
240230 TATACAGAGTGTTGATGAGTTCACGGGCCTCATATCTTGTAATATATAGGGTGTCAATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
240295 CGGGCCTCATATCTTGTAC
66 CGGGCCTCATATCTTGTAC
* * **
240314 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATAGAGAGTGTCCACAAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
*
240379 C-GTCCTCATATCTTGTAAC
66 CGGGCCTCATATCTTGT-AC
* * * * **
240398 -ATATAGGGTGTTGATGAGTTGACGGGCCTCATATCTTGTACCATATATA-AGTGTCGCTGAGTT
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTA-C-TATATAGAGTGTCAATGAGTT
*
240461 CACGTGCCTCATATCTTGTACC
64 CACGGGCCTCATATCTTGTA-C
* * * * *
240483 ATATATAG-GTGTCGCTGAGTTCACGAGCCTCATATCTTGTGCCATATAGAGTGTCAATGAGTTC
1 -TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTC
*
240547 ACGTGCCTCATATCTTGTAC
65 ACGGGCCTCATATCTTGTAC
* ** * * **
240567 TATATAGAGTGTCTCTGAGTTCACAGGCCTCATATCTTGTTAC-ATACAGAGTGTTGATGAGTTC
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTG-TACTATATAGAGTGTCAATGAGTTC
* *
240631 ACAGGCCTCATATCTTGTAA
65 ACGGGCCTCATATCTTGTAC
* * * ** * *
240651 TATATAGGGTGTTGATGAGTTCACGATCCTCATATCTTGTACTATACAGAGTGTCGATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
240716 CGGGCCTCATATCTTGTACC
66 CGGGCCTCATATCTTGTA-C
* * * ** *
240736 ATATATAG-GTGTCGCTGAGTTCACAGGCCTCATATCTTGTACCATATATAG-GTGTCGCTAAGT
1 -TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTA-C-TATATAGAGTGTCAATGAGT
* *
240799 TTATGGGCCTCATATCTTGTAC
63 TCACGGGCCTCATATCTTGTAC
* * * * * * *
240821 CATATAGGGTGTCGATGAGTTCACGAGCCTCATATTTTGTACTATACAGAGTGTCAATGAGTACA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
*
240886 CGGGCCTCATATCTTGTTCC
66 CGGGCCTCATATCTTG-TAC
* * *
240906 ATATACA-AGTGTCGATGAGTTCACGGGCCTCATATCTTGTACCATATAGGGTGTCGATGAGTTC
1 -TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTC
*
240970 ACGGGCGTCATATCTTGTAC
65 ACGGGCCTCATATCTTGTAC
* * * * * * **
240990 TAT-CGGAGTGTCAATGAGTTCACGGCCCTCTTATCTTGTACCATATAGGGTGTTGATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
*
241054 GGGGCCTCATATCTTGTACC
66 CGGGCCTCATATCTTGTA-C
* * * * * *
241074 ATATATAG-GTGTCAATGAGTTCATGGGTCTCATATCTTGTACCATATAGGGTGTCAATGAGTTC
1 -TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTC
241138 ACGGGCCTCATATCTTGTAC
65 ACGGGCCTCATATCTTGTAC
* * * * * *
241158 TATATATAGGTGTCAAGGAGTTCACGGGTCTCATATCTTGTAACT-TATAGGGTGTCAATGAGTT
1 TATACAGA-GTGTCGATGAGTTCACGGGCCTCATATCTTGT-ACTATATAGAGTGTCAATGAGTT
*
241222 CACGGGCCACATATCTTGTAC
64 CACGGGCCTCATATCTTGTAC
* * * * *
241243 TATACAGAGTGTCAATGAGTTCACAGGCCTCATATCTTGTACTATACAGAGTGTCGATGTGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
* * *
241308 CAGCCCCCATATCTTGTAC
66 CGGGCCTCATATCTTGTAC
** * * **
241327 TATACAGAACGTCGATGAGTTCACGGGCCTCATATCTTGAACTATACAGAGTGTTGATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
* *
241392 CTGGCCTCATATCTTGAAC
66 CGGGCCTCATATCTTGTAC
* * * *
241411 TCTACAGAGTGTCGATGAGTTCACCGGCCTCATATCTTGAACTATACAGAGTGTCAATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
*
241476 CGGGCATCATATCTTGTAC
66 CGGGCCTCATATCTTGTAC
* * * * *
241495 TATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATATAGAGTACTGTCGATGA-T
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAG---TGTCAATGAGT
*
241559 GTCATGGG-C-C----C----A-
63 -TCACGGGCCTCATATCTTGTAC
* * * *
241571 TATACAGAGTGTTGATGAGTTCACGGGCCTCATATCTTGTAATATATAGGGTGTAAATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
241636 CGGGCCTCATATCTTGTAC
66 CGGGCCTCATATCTTGTAC
* * * * **
241655 TATACAGAGTGTCGTTGAGTTCACGGGGCTCATATCTTGTACTATACAGAGTGTCCACAAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
*
241720 C-GTCCTCATATCTTGTAAC
66 CGGGCCTCATATCTTGT-AC
* * *
241739 -ATATAGGGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATACAGAGTGTCAATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
*
241803 CGGGCATCATATCTTGTAC
66 CGGGCCTCATATCTTGTAC
* * * * *
241822 TATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATATAGAGTACTGTCGATGA-T
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAG---TGTCAATGAGT
*
241886 GTCATGGG-C-C----C----A-
63 -TCACGGGCCTCATATCTTGTAC
* * * *
241898 TATACAGAGTGTTGATGAGTTCACGGGCCTCATATCTTGTAATATATAGGGTGTAAATGAGTTCA
1 TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
241963 CGGGCCTCATATCTTGTAC
66 CGGGCCTCATATCTTGTAC
241982 TATACAGAGTGTCG
1 TATACAGAGTGTCG
241996 NNNNNNNNNN
Statistics
Matches: 1423, Mismatches: 197, Indels: 124
0.82 0.11 0.07
Matches are distributed among these distances:
73 26 0.02
74 4 0.00
75 2 0.00
76 88 0.06
77 2 0.00
79 2 0.00
81 2 0.00
82 1 0.00
83 224 0.16
84 631 0.44
85 327 0.23
86 74 0.05
87 40 0.03
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (84 bp):
TATACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATATAGAGTGTCAATGAGTTCA
CGGGCCTCATATCTTGTAC
Found at i:241633 original size:160 final size:160
Alignment explanation
Indices: 241413--241992 Score: 781
Period size: 160 Copynumber: 3.6 Consensus size: 160
241403 TCTTGAACTC
* *
241413 TACAGAGTGTCGATGAGTTCACCGGCCTCATATCTTG-AACTATACAGAGTGTCAATGAGTTCAC
1 TACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTAA-TATACAGAGTGTAAATGAGTTCAC
241477 GGGCATCATATCTTGTACTATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATAT
65 GGGCATCATATCTTGTACTATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATAT
241542 AGAGTACTGTCGATGATGTCATGGGCCCATA
130 AGAGTACTGTCGATGATGTCATGGGCCCATA
* * *
241573 TACAGAGTGTTGATGAGTTCACGGGCCTCATATCTTGTAATATATAGGGTGTAAATGAGTTCACG
1 TACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTAATATACAGAGTGTAAATGAGTTCACG
* * * * * * * *
241638 GGCCTCATATCTTGTACTATACAGAGTGTCGTTGAGTTCACGGGGCTCATATCTTGTACTATACA
66 GGCATCATATCTTGTACTATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATATA
* * * * * ***
241703 GAGTGTCCACAAGTTCACGTCCTCATATC-TTGTAACATA
131 GA--GT--AC-TG-T--CG--ATGATGTCATGGGCCCATA
* * *
241742 T--AGGGTGTCGATGAGTTCACGGGCCTCATATCTTGTACTATACAGAGTGTCAATGAGTTCACG
1 TACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTAATATACAGAGTGTAAATGAGTTCACG
241805 GGCATCATATCTTGTACTATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATATA
66 GGCATCATATCTTGTACTATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATATA
241870 GAGTACTGTCGATGATGTCATGGGCCCATA
131 GAGTACTGTCGATGATGTCATGGGCCCATA
* * *
241900 TACAGAGTGTTGATGAGTTCACGGGCCTCATATCTTGTAATATATAGGGTGTAAATGAGTTCACG
1 TACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTAATATACAGAGTGTAAATGAGTTCACG
*
241965 GGCCTCATATCTTGTACTATACAGAGTG
66 GGCATCATATCTTGTACTATACAGAGTG
241993 TCGNNNNNNN
Statistics
Matches: 356, Mismatches: 50, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
157 5 0.01
158 7 0.02
159 2 0.01
160 199 0.56
161 3 0.01
162 3 0.01
163 2 0.01
164 2 0.01
165 3 0.01
166 1 0.00
167 115 0.32
168 2 0.01
169 7 0.02
170 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (160 bp):
TACAGAGTGTCGATGAGTTCACGGGCCTCATATCTTGTAATATACAGAGTGTAAATGAGTTCACG
GGCATCATATCTTGTACTATACAGAGTGCCGATGAGTTGATGGGCCTCATATCTAGTACTATATA
GAGTACTGTCGATGATGTCATGGGCCCATA
Found at i:242973 original size:16 final size:17
Alignment explanation
Indices: 242952--242984 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
242942 AGATAAGATT
242952 TTCCGTTTTCC-TTCCG
1 TTCCGTTTTCCGTTCCG
242968 TTCCGTTTTCCGTTCCG
1 TTCCGTTTTCCGTTCCG
242985 CGTTTTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.36, G:0.15, T:0.48
Consensus pattern (17 bp):
TTCCGTTTTCCGTTCCG
Found at i:247410 original size:2 final size:2
Alignment explanation
Indices: 247403--247450 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
247393 ACCCTGGATG
247403 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
247445 CT CT CT
1 CT CT CT
247451 GTGATGTGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:250403 original size:2 final size:2
Alignment explanation
Indices: 250396--250438 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
250386 ACAGACGTAA
250396 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
250438 C
1 C
250439 CTATAAACAA
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:250617 original size:4 final size:4
Alignment explanation
Indices: 250604--250651 Score: 62
Period size: 4 Copynumber: 12.0 Consensus size: 4
250594 TCCGTTTGTA
* *
250604 TGTC -GTC TGTC TGTC TGTC CGTC TGGTC TGTC TGTG TGTC TGTC TGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC T-GTC TGTC TGTC TGTC TGTC TGTC
250652 ACCTCACCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 3 0.08
4 31 0.82
5 4 0.11
ACGTcount: A:0.00, C:0.25, G:0.29, T:0.46
Consensus pattern (4 bp):
TGTC
Found at i:250634 original size:21 final size:21
Alignment explanation
Indices: 250608--250649 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
250598 TTTGTATGTC
250608 GTCTGTCTGTCTGTCCGTCTG
1 GTCTGTCTGTCTGTCCGTCTG
* *
250629 GTCTGTCTGTGTGTCTGTCTG
1 GTCTGTCTGTCTGTCCGTCTG
250650 TCACCTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.31, T:0.45
Consensus pattern (21 bp):
GTCTGTCTGTCTGTCCGTCTG
Found at i:250719 original size:25 final size:25
Alignment explanation
Indices: 250685--250835 Score: 128
Period size: 25 Copynumber: 6.0 Consensus size: 25
250675 CTCTCATTCA
*
250685 CCTCATCCTCCCTAATCTCTCTCTC
1 CCTCACCCTCCCTAATCTCTCTCTC
250710 CCTCACCCTCCCTAATCTCTCTCTC
1 CCTCACCCTCCCTAATCTCTCTCTC
* * * * ** * *
250735 TCTCTCTCTCTCTCNGTCAC-CTCAC
1 CCTCACCCTCCCT-AATCTCTCTCTC
* * *
250760 CCTCTCCACTCTCT-CTCTCTCAT-TCC
1 CCTCACC-CTCCCTAATCTCTC-TCT-C
*
250786 CCTCATCCTCCCTAATCTCTCTCTC
1 CCTCACCCTCCCTAATCTCTCTCTC
250811 CCTCACCCTCCCTAATCTCTCTCTC
1 CCTCACCCTCCCTAATCTCTCTCTC
250836 TCTCTCTCTC
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
24 3 0.03
25 74 0.74
26 23 0.23
ACGTcount: A:0.11, C:0.53, G:0.01, T:0.35
Consensus pattern (25 bp):
CCTCACCCTCCCTAATCTCTCTCTC
Found at i:250732 original size:2 final size:2
Alignment explanation
Indices: 250725--250881 Score: 117
Period size: 2 Copynumber: 79.0 Consensus size: 2
250715 CCCTCCCTAA
** * * *
250725 TC TC TC TC TC TC TC TC TC TC TC TC NG TC AC -C TC AC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * *
250766 -C AC TC TC TC TC TC TC AT- TC -C CC TC ATC -C TC CC TAA TC TC
1 TC TC TC TC TC TC TC TC -TC TC TC TC TC -TC TC TC TC T-C TC TC
* * * * *
250805 TC TC TC CC TC AC CC TC CC TAA TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC T-C TC TC TC TC TC TC TC TC TC TC TC
250848 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
250882 CTATAAACAA
Statistics
Matches: 123, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
1 5 0.04
2 113 0.92
3 5 0.04
ACGTcount: A:0.06, C:0.52, G:0.01, T:0.41
Consensus pattern (2 bp):
TC
Found at i:250773 original size:101 final size:100
Alignment explanation
Indices: 250649--250881 Score: 378
Period size: 101 Copynumber: 2.3 Consensus size: 100
250639 GTGTCTGTCT
*
250649 GTCACCTCACCCTCTCCACTCTCTTTCTCTCATTCACCTCATCCTCCCTAATCTCTCTCTCCCTC
1 GTCACCTCACCCTCTCCACTCTCTCTCTCTCATTCACCTCATCCTCCCTAATCTCTCTCTCCCTC
250714 ACCCTCCCTAATCTCTCTCTCTCTCTCTCTCTCTC
66 ACCCTCCCTAATCTCTCTCTCTCTCTCTCTCTCTC
*
250749 NGTCACCTCACCCTCTCCACTCTCTCTCTCTCATTCCCCTCATCCTCCCTAATCTCTCTCTCCCT
1 -GTCACCTCACCCTCTCCACTCTCTCTCTCTCATTCACCTCATCCTCCCTAATCTCTCTCTCCCT
250814 CACCCTCCCTAATCTCTCTCTCTCTCTCTCTCTCTC
65 CACCCTCCCTAATCTCTCTCTCTCTCTCTCTCTCTC
* * * *
250850 -TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC
1 GTCAC-CTCACCCTCTC-CACTCTCTCTCTCTC
250882 CTATAAACAA
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
99 3 0.02
100 9 0.07
101 112 0.90
ACGTcount: A:0.09, C:0.52, G:0.01, T:0.38
Consensus pattern (100 bp):
GTCACCTCACCCTCTCCACTCTCTCTCTCTCATTCACCTCATCCTCCCTAATCTCTCTCTCCCTC
ACCCTCCCTAATCTCTCTCTCTCTCTCTCTCTCTC
Found at i:251882 original size:13 final size:13
Alignment explanation
Indices: 251864--251888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
251854 ACTATTGAAG
251864 GTTTTACATACAT
1 GTTTTACATACAT
251877 GTTTTACATACA
1 GTTTTACATACA
251889 GGGCATGAAA
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
GTTTTACATACAT
Found at i:256433 original size:2 final size:2
Alignment explanation
Indices: 256428--256483 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
256418 CAGGAAAAAT
256428 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
256470 GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA
256484 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:262898 original size:15 final size:16
Alignment explanation
Indices: 262872--262902 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
262862 CTCAGGGGAT
262872 GAGATAAGAGAGTGGG
1 GAGATAAGAGAGTGGG
262888 GAGAT-AGAGAGTGGG
1 GAGATAAGAGAGTGGG
262903 TGGGGAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.52, T:0.13
Consensus pattern (16 bp):
GAGATAAGAGAGTGGG
Found at i:263004 original size:21 final size:23
Alignment explanation
Indices: 262950--262999 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
262940 GTGAAGAGAT
*
262950 AGAGAGTGAGTAGAGGACAAGAG
1 AGAGAGTGAGTAGGGGACAAGAG
262973 AGAGAGTGAGTAGGGGACAAGAG
1 AGAGAGTGAGTAGGGGACAAGAG
262996 AGAG
1 AGAG
263000 TGAGTGGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.46, T:0.08
Consensus pattern (23 bp):
AGAGAGTGAGTAGGGGACAAGAG
Found at i:263025 original size:24 final size:25
Alignment explanation
Indices: 262992--263419 Score: 359
Period size: 28 Copynumber: 15.8 Consensus size: 25
262982 GTAGGGGACA
262992 AGAGAGAGTGAGTGGGGAGGGTGAGG
1 AGAGAGAGTGAGTGGGGAGGGTGA-G
263018 AGAGAGTGAGTGAGTGGGGAGGGTGAGG
1 AGAGA--GAGTGAGTGGGGAGGGTGA-G
263046 AGAGAGTGAGTGAGTGGGGAGGGTGA-
1 AGAGA--GAGTGAGTGGGGAGGGTGAG
*
263072 AGAGAGAGTGAGTAGGGAGGGTGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAG
263097 -GAGAGAGTGAGTGGGGAGGGTGAGGAG
1 AGAGAGAGTGAGTGGGGAGGGT---GAG
263124 AGAGAGAGTGAGTGGGGAGGGTGA-
1 AGAGAGAGTGAGTGGGGAGGGTGAG
263148 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAG
1 AGAGAGAGTGAGTGGGGAGGGT-----GAG
263178 AGAGACAGAGTGAGTGGGGAGGGTGAAG
1 AGAG--AGAGTGAGTGGGGAGGGTG-AG
263206 AGAGAGTGAGTGAGTGGGGAGGGTGAAGAGAG
1 AGAGA--GAGTGAGTGGGGAGGGT-----GAG
* *
263238 AGAGAGAGTGTGAGTGGGGTGGGTCAGG
1 AGAGAGA--GTGAGTGGGGAGGGTGA-G
*
263266 AGAGAGAGAGTGAGTGAGGAGGGTGAGGAG
1 AG--AGAGAGTGAGTGGGGAGGGT---GAG
263296 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAG
1 AGAGAGAGTGAGTGGGGAGGGT-----GAG
*
263326 AGAGAGAGTGAGTGGGGAGGGGGA-
1 AGAGAGAGTGAGTGGGGAGGGTGAG
* * **
263350 AGAGAGAGAGAGT--AGA-GGACA-
1 AGAGAGAGTGAGTGGGGAGGGTGAG
263371 AGAGAGAGTGAGTGGGGAGGGTGAGG
1 AGAGAGAGTGAGTGGGGAGGGTGA-G
263397 AGAGAGTGAGTGAGTGGGGAGGG
1 AGAGA--GAGTGAGTGGGGAGGG
263420 NNNNNNNNNN
Statistics
Matches: 343, Mismatches: 19, Indels: 78
0.78 0.04 0.18
Matches are distributed among these distances:
21 15 0.04
22 2 0.01
23 2 0.01
24 75 0.22
25 4 0.01
26 16 0.05
27 5 0.01
28 142 0.41
29 2 0.01
30 39 0.11
31 1 0.00
32 39 0.11
33 1 0.00
ACGTcount: A:0.29, C:0.01, G:0.58, T:0.12
Consensus pattern (25 bp):
AGAGAGAGTGAGTGGGGAGGGTGAG
Found at i:263029 original size:28 final size:28
Alignment explanation
Indices: 262992--263362 Score: 478
Period size: 28 Copynumber: 13.3 Consensus size: 28
262982 GTAGGGGACA
262992 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
*
263020 AGAGTGAGTGAGTGGGGAGGGTGAGGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
*
263048 AGAGTGAGTGAGTGGGGAGGGT---GA-
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
*
263072 AGAGAGAGTGAGTAGGGAGGGT---GAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
263097 -GAGAGAGTGAGTGGGGAGGGTGAGGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
263124 AGAGAGAGTGAGTGGGGAGGGT---GA-
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
263148 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAG
1 AGAGAGAGTGAGTGGGGAGGGTGA-G-GAG
*
263178 AGAGACAGAGTGAGTGGGGAGGGTGAAGAG
1 AGAG--AGAGTGAGTGGGGAGGGTGAGGAG
*
263208 AGAGTGAGTGAGTGGGGAGGGTGAAGAGAG
1 AGAGAGAGTGAGTGGGGAGGGTG-AG-GAG
* *
263238 AGAGAGAGTGTGAGTGGGGTGGGTCAGGAG
1 AGAGAGA--GTGAGTGGGGAGGGTGAGGAG
*
263268 AGAGAGAGTGAGTGAGGAGGGTGAGGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
263296 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAG
1 AGAGAGAGTGAGTGGGGAGGGTGA-G-GAG
* *
263326 AGAGAGAGTGAGTGGGGAGGGGGAAGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAG
263354 AGAGAGAGT
1 AGAGAGAGT
263363 AGAGGACAAG
Statistics
Matches: 308, Mismatches: 16, Indels: 38
0.85 0.04 0.10
Matches are distributed among these distances:
24 64 0.21
25 4 0.01
27 3 0.01
28 141 0.46
29 4 0.01
30 56 0.18
31 2 0.01
32 34 0.11
ACGTcount: A:0.29, C:0.01, G:0.58, T:0.12
Consensus pattern (28 bp):
AGAGAGAGTGAGTGGGGAGGGTGAGGAG
Found at i:263070 original size:56 final size:56
Alignment explanation
Indices: 262992--263362 Score: 478
Period size: 60 Copynumber: 6.7 Consensus size: 56
262982 GTAGGGGACA
*
262992 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGTGAGTGAGTGGGGAGGGTGAGGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGTGAGGAG
* *
263048 AGAGTGAGTGAGTGGGGAGGGT---GA-AGAGAGAGTGAGTAGGGAGGGT---GAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGTGAGGAG
263097 -GAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGT---GA-
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGTGAGGAG
*
263148 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGACAGAGTGAGTGGGGAGGGTGAAGAG
1 AGAGAGAGTGAGTGGGGAGGGTGA-G-GAGAGAG--AGAGTGAGTGGGGAGGGTGAGGAG
* * *
263208 AGAGTGAGTGAGTGGGGAGGGTGAAGAGAGAGAGAGAGTGTGAGTGGGGTGGGTCAGGAG
1 AGAGAGAGTGAGTGGGGAGGGTG-AG-GAGAGAGAGA--GTGAGTGGGGAGGGTGAGGAG
*
263268 AGAGAGAGTGAGTGAGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGTGAGGAGAG
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGTGA-G-GAG
* *
263326 AGAGAGAGTGAGTGGGGAGGGGGAAGAGAGAGAGAGT
1 AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGT
263363 AGAGGACAAG
Statistics
Matches: 281, Mismatches: 16, Indels: 34
0.85 0.05 0.10
Matches are distributed among these distances:
48 20 0.07
49 3 0.01
51 2 0.01
52 66 0.23
53 3 0.01
54 7 0.02
56 54 0.19
57 1 0.00
58 50 0.18
59 4 0.01
60 70 0.25
61 1 0.00
ACGTcount: A:0.29, C:0.01, G:0.58, T:0.12
Consensus pattern (56 bp):
AGAGAGAGTGAGTGGGGAGGGTGAGGAGAGAGAGAGTGAGTGGGGAGGGTGAGGAG
Found at i:269932 original size:11 final size:10
Alignment explanation
Indices: 269915--269948 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
269905 TCTATGATAT
269915 TAATTAATAA
1 TAATTAATAA
269925 TCAATTAATAA
1 T-AATTAATAA
269936 TAATTAATTAA
1 TAATTAA-TAA
269947 TA
1 TA
269949 GTAATTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATTAATAA
Found at i:269938 original size:14 final size:14
Alignment explanation
Indices: 269913--269968 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
269903 ATTCTATGAT
*
269913 ATTAATTAATAATCA
1 ATTAA-TAATAATTA
269928 ATTAATAATAATTA
1 ATTAATAATAATTA
*
269942 ATTAATAGTAATTA
1 ATTAATAATAATTA
* *
269956 ATGAATAAAAATT
1 ATTAATAATAATT
269969 CTATGACATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 31 0.86
15 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (14 bp):
ATTAATAATAATTA
Found at i:269947 original size:25 final size:25
Alignment explanation
Indices: 269913--269963 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
269903 ATTCTATGAT
269913 ATTAATTAATAATCAATTAAT-AATA
1 ATTAATTAATAAT-AATTAATGAATA
*
269938 ATTAATTAATAGTAATTAATGAATA
1 ATTAATTAATAATAATTAATGAATA
269963 A
1 A
269964 AAATTCTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (25 bp):
ATTAATTAATAATAATTAATGAATA
Found at i:271957 original size:2 final size:2
Alignment explanation
Indices: 271952--272043 Score: 157
Period size: 2 Copynumber: 46.0 Consensus size: 2
271942 CTGTCTTTTT
271952 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
* *
271994 TC TC TC TC TC TC TC TG TC TC TC TC TC TG 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
*
272036 CC TC TC TC
1 TC TC TC TC
272044 GTCCGCTTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
TC
Found at i:278403 original size:4 final size:4
Alignment explanation
Indices: 278394--278473 Score: 151
Period size: 4 Copynumber: 20.0 Consensus size: 4
278384 TTTCATCTGC
278394 CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT
1 CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT
*
278442 CAAT CAAT CAAT CAAT CAAT CGAT CAAT CAAT
1 CAAT CAAT CAAT CAAT CAAT CAAT CAAT CAAT
278474 TAAACTATCT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 74 1.00
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
CAAT
Found at i:282825 original size:2 final size:2
Alignment explanation
Indices: 282820--282855 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
282810 GTTTGTGTGA
282820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
282856 GTCTCGAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:293750 original size:2 final size:2
Alignment explanation
Indices: 293743--293792 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
293733 AAACAAATGT
*
293743 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT 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
293785 TC TC TC TC
1 TC TC TC TC
293793 AATGATGGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:294605 original size:2 final size:2
Alignment explanation
Indices: 294598--294628 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
294588 GATATAGTTC
294598 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
294629 TGTAAATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:294703 original size:2 final size:2
Alignment explanation
Indices: 294696--294722 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
294686 TTAATTATCG
294696 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
294723 ATTTCAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:294767 original size:2 final size:2
Alignment explanation
Indices: 294760--294801 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
294750 CATTTAAAAA
294760 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
294802 AAGTCTGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:296688 original size:13 final size:13
Alignment explanation
Indices: 296670--296695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
296660 AACCCTGTTT
296670 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
296683 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
296696 GAAATCCGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Found at i:300512 original size:187 final size:186
Alignment explanation
Indices: 300197--300567 Score: 733
Period size: 187 Copynumber: 2.0 Consensus size: 186
300187 AAAAGAGACT
300197 GTATATATAAGATAAAAAAGCCAGTAGTCATTTAACTTTTCTTCTTAAAATTTTAGTCATAATAT
1 GTATATATAAGATAAAAAAGCCAGTAGTCATTTAACTTTTCTTCTTAAAATTTTAGTCATAATAT
300262 TAATAAGCAAGTTACTTTTCTTTACCAAGTATCTTTACTATGAAATTATTAATATTGTAGATTCT
66 TAATAAGCAAGTTACTTTTCTTTACCAAGTATCTTTACTATGAAATTATTAATATTGTAGATTCT
300327 TAATTAAACGCAAGAACTTATTATCTGCGTAAAATCGCGGGGGGGGGGGGGGGGGA
131 TAATTAAACGCAAGAACTTATTATCTGCGTAAAATCGCGGGGGGGGGGGGGGGGGA
300383 NGTATATATAAGATAAAAAAGCCAGTAGTCATTTAACTTTTCTTCTTAAAATTTTAGTCATAATA
1 -GTATATATAAGATAAAAAAGCCAGTAGTCATTTAACTTTTCTTCTTAAAATTTTAGTCATAATA
300448 TTAATAAGCAAGTTACTTTTCTTTACCAAGTATCTTTACTATGAAATTATTAATATTGTAGATTC
65 TTAATAAGCAAGTTACTTTTCTTTACCAAGTATCTTTACTATGAAATTATTAATATTGTAGATTC
300513 TTAATTAAACGCAAGAACTTATTATCTGCGTAAAATCGCGGGGGGGGGGGGGGGG
130 TTAATTAAACGCAAGAACTTATTATCTGCGTAAAATCGCGGGGGGGGGGGGGGGG
300568 CAACCCGCGG
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 184 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (186 bp):
GTATATATAAGATAAAAAAGCCAGTAGTCATTTAACTTTTCTTCTTAAAATTTTAGTCATAATAT
TAATAAGCAAGTTACTTTTCTTTACCAAGTATCTTTACTATGAAATTATTAATATTGTAGATTCT
TAATTAAACGCAAGAACTTATTATCTGCGTAAAATCGCGGGGGGGGGGGGGGGGGA
Found at i:319732 original size:2 final size:2
Alignment explanation
Indices: 319725--319759 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
319715 NNNNNNNTAG
319725 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
319760 ACAATTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:324819 original size:11 final size:11
Alignment explanation
Indices: 324803--324840 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
324793 TAAGCAAGTC
324803 CTTAAAGGTGG
1 CTTAAAGGTGG
324814 CTTAAAGGTGG
1 CTTAAAGGTGG
*
324825 -TGTAAAGGTTG
1 CT-TAAAGGTGG
324836 CTTAA
1 CTTAA
324841 GGTCAAGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.32
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:325571 original size:41 final size:40
Alignment explanation
Indices: 325509--325600 Score: 157
Period size: 41 Copynumber: 2.3 Consensus size: 40
325499 GTAAGAGGGC
*
325509 GGGGGAGGGGGGGGGGGATCAGAGTAAGGATATAGTTTAA
1 GGGGGGGGGGGGGGGGGATCAGAGTAAGGATATAGTTTAA
*
325549 GGGGGGGGGGGGGGGGGTATCAGAGTAATGATATAGTTTAA
1 GGGGGGGGGGGGGGGGG-ATCAGAGTAAGGATATAGTTTAA
325590 GGGGGGGGGGG
1 GGGGGGGGGGG
325601 CTGTGTTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 16 0.33
41 33 0.67
ACGTcount: A:0.23, C:0.02, G:0.58, T:0.17
Consensus pattern (40 bp):
GGGGGGGGGGGGGGGGGATCAGAGTAAGGATATAGTTTAA
Found at i:325922 original size:11 final size:11
Alignment explanation
Indices: 325906--325931 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
325896 CAGGATTTAA
325906 AGTTAGGTACC
1 AGTTAGGTACC
325917 AGTTAGGTACC
1 AGTTAGGTACC
325928 AGTT
1 AGTT
325932 TTAGACAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (11 bp):
AGTTAGGTACC
Found at i:328086 original size:28 final size:28
Alignment explanation
Indices: 328045--328101 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
328035 TTGAACCCCA
* * *
328045 CTTGAGGCCTCAGTATTGGTCTGGGGGT
1 CTTGAGGCCCCAGTATTAGTCCGGGGGT
*
328073 CTTGGGGCCCCAGTATTAGTCCGGGGGT
1 CTTGAGGCCCCAGTATTAGTCCGGGGGT
328101 C
1 C
328102 ACAGTTTTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.23, G:0.39, T:0.28
Consensus pattern (28 bp):
CTTGAGGCCCCAGTATTAGTCCGGGGGT
Found at i:329475 original size:166 final size:165
Alignment explanation
Indices: 328665--330349 Score: 2138
Period size: 166 Copynumber: 10.1 Consensus size: 165
328655 TTGCAATGTA
* * * *
328665 GTTCTTGAGAACAAGATTTTTAAACATTT-T--TCT-TATAT--ATGTTAAACTTTGAACCCCGC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTT-AATTTTGAACCCCGC
* * * * * * *
328724 CTGGGG-CCCAGTTTTTGCCCGGGGGTCACAATTCTAACAATTTAGAATATTCACTATACATACA
65 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
* *
328788 AGCTTATGTATAAATATTGGCATTTCTGGTGCAGTG
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * *
328824 GTTCTTGAGAAGAAGATTTTAATAAACATTTATCATATTTATTTCTATGTTAATCTTTGAACCCC
1 GTTCTTGAGAAGAAGATTTT--TAAACATTTATCCTATGTATTTCCATGTTAAT-TTTGAACCCC
** * * * * * * * * *
328889 GTTTGGAGTCCCAGATTTAGTACGGGGGTCATGATTTTTATAATTTTGAATCTTCACTATACATA
63 GCCTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATA
328954 CAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
128 CAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * *** ** * * **
328992 GTTCTTGAGAAGAAGA-TTTAAAAAAAAAATCCTACATATTTCTATGTTTAAGTTGTAGCCCGAC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATG-TTAA-TT-TTGAAC--C
** * *
329056 CCGCCTGGGGCCCCAGTTTTGGTTTGGGAGTCACGATTTTTACAATTTAGAATCTTCACTATGTA
61 CCGCCTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATA
*
329121 TATAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
126 TACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * * * *
329161 GTTTTTGAGAAGGAGATTTTTAAACATTTATCCTATGGATTTCCATGTTTATTTATGAATCCCGC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTTAATTT-TGAACCCCGC
* * * *
329226 CT-AGGCCCCAGTTTTGGTCCGGGGGTCACAATTTTTACAATTTAGAATTTTCACTATATATATA
65 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
* *
329290 AGCTTTTGTGTAAATGTTGGCATTTCTGATGCAGTG
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * * *** * *
329326 GTTCTTGCGAAGAAGA-TTTAAAAAAAAAATCCTACGCATTTCCATGTTAAATTTTGAACCCCGC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTT-AATTTTGAACCCCGC
* * * * * * *
329390 ATGGGGCCCCAGTTTTGGTTCGGGAGTCACGATTTTTTATAATTTAGAATGTTCACTTTATATAT
65 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGA-TTTTTACAATTTAGAATCTTCACTATATATAC
* * *
329455 AAGCTTTTGTGAAAATGTTGGCATTTCTGATGCAGTG
129 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * * * * *
329492 GTTCTTGAGAAGAAGATTTTTTAAAAAATGA-CCTACGCATTTCCAAGTTAAATTTTGAACCCCG
1 GTTCTTGAGAAGAAGA-TTTTTAAACATTTATCCTATGTATTTCCATGTT-AATTTTGAACCCCG
* *
329556 CCTGAGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAAAATCTTCACTATATATAC
64 CCTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
329621 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
129 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * *
329658 GTTCTTGAGAAGAAGATTTTTAAACATTTTTCCAATGTATTTCCATGTTAAATTATGAACCCCGC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTT-AATTTTGAACCCCGC
*
329723 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATTTTCACTATATATACA
65 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACA
329788 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
130 AGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * *
329824 GTTCTTGAGAAGAAGATTTTTAAACATTTTTCCAATGTATTTCCATGTTTATTTATGAACCCCGC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTTAATTT-TGAACCCCGC
*
329889 CTGGGGCCCCAGTTTTGGTCCGGGGGTTACGATTTTTTTTAACAATTTAGAATCTT-ACTTATAT
65 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGA---TTTTT-ACAATTTAGAATCTTCAC-TATAT
*
329953 ATACAAGCTTTTGTGTAAATATTGGCATTTATGGTGCAGTG
125 ATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* ** *
329994 GTTCTTGAGAAGAAGATTTTTAAACATTTTTTTTAATGTATTTCCATGTTTATTTATGAACCCCG
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCT-ATGTATTTCCATGTTAATTT-TGAACCCCG
330059 CCT-GGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
64 CCTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATAC
330123 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
129 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
* * *
330160 GTTCTTGAGAAGAAGATTTTTAAACATTTTTCCAATGTATTTCCATGTTTATTTATGAACCCCGC
1 GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTTAATTT-TGAACCCCGC
* *
330225 CTGGGGCCCCAGTTTTGGTCCGGGGGTTACGATTTTTACAATTCAGAATCTT-ACTTATATATAC
65 CTGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCAC-TATATATAC
* * *
330289 AAGTTTTTATGTAAAAATTGGCATTTCTGGTGCAGTG
129 AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
330326 GTTCTTGAGAAGAAGATTTTTAAA
1 GTTCTTGAGAAGAAGATTTTTAAA
330350 GACATGCAGC
Statistics
Matches: 1354, Mismatches: 139, Indels: 59
0.87 0.09 0.04
Matches are distributed among these distances:
159 19 0.01
161 9 0.01
162 1 0.00
164 37 0.03
165 202 0.15
166 593 0.44
167 96 0.07
168 110 0.08
169 115 0.08
170 139 0.10
171 33 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (165 bp):
GTTCTTGAGAAGAAGATTTTTAAACATTTATCCTATGTATTTCCATGTTAATTTTGAACCCCGCC
TGGGGCCCCAGTTTTGGTCCGGGGGTCACGATTTTTACAATTTAGAATCTTCACTATATATACAA
GCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTG
Found at i:330541 original size:16 final size:16
Alignment explanation
Indices: 330520--330560 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
330510 TGAAAAGTTT
*
330520 ACAGACGGAGGGACAG
1 ACAGACGGACGGACAG
*
330536 ACAGACGGACGGACGG
1 ACAGACGGACGGACAG
330552 AC-GACGGAC
1 ACAGACGGAC
330561 AACGGGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.34, C:0.24, G:0.41, T:0.00
Consensus pattern (16 bp):
ACAGACGGACGGACAG
Found at i:335518 original size:4 final size:4
Alignment explanation
Indices: 335509--335684 Score: 145
Period size: 4 Copynumber: 43.5 Consensus size: 4
335499 TATTCGCTAT
*
335509 GAGA GAGA GAGA GAGA GAAA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * ** *
335557 GAGA GACA GACA GACA GACA GAGA GACA GAGCA TAGA GAGA CCGA GCATA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAG-A GAGA GAGA GAGA G-AGA
* * * * * * * *
335607 GAGA GACA GACA GACA GACA GACA GAGA GAGA GAGA AAGA GACA GACA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * *
335655 GAGG GAGA GACA GAGA GAGA GAGA CAGA GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA
335685 AAGAAATCAG
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
4 139 0.97
5 5 0.03
ACGTcount: A:0.49, C:0.10, G:0.39, T:0.01
Consensus pattern (4 bp):
GAGA
Found at i:335609 original size:13 final size:14
Alignment explanation
Indices: 335578--335616 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
335568 AGACAGACAG
335578 AGAGACAGAGCATA
1 AGAGACAGAGCATA
*
335592 GAGAGACCGAGCATA
1 -AGAGACAGAGCATA
335607 GAGAGACAGA
1 -AGAGACAGA
335617 CAGACAGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.33, T:0.05
Consensus pattern (14 bp):
AGAGACAGAGCATA
Found at i:337599 original size:1 final size:1
Alignment explanation
Indices: 337593--337633 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
337583 CCGTTTGTTG
* *
337593 TTTTTTTTTTGTGTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
337634 GCGAGACACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.05, T:0.95
Consensus pattern (1 bp):
T
Found at i:337609 original size:13 final size:13
Alignment explanation
Indices: 337586--337626 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
337576 CGTTTATCCG
337586 TTTGTTGTTTTTTT
1 TTTG-TGTTTTTTT
337600 TTTGTGTTTTTTT
1 TTTGTGTTTTTTT
337613 TTT-T-TTTTTTT
1 TTTGTGTTTTTTT
337624 TTT
1 TTT
337627 TTTTTTTGCG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.37
12 1 0.04
13 12 0.44
14 4 0.15
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTGTGTTTTTTT
Found at i:342226 original size:10 final size:11
Alignment explanation
Indices: 342178--342227 Score: 75
Period size: 11 Copynumber: 4.6 Consensus size: 11
342168 GTCCAAACTT
*
342178 CTTTAAGCTAC
1 CTTTAAGCCAC
342189 CTTTAAGCCAC
1 CTTTAAGCCAC
342200 CTTTAAGCCAC
1 CTTTAAGCCAC
*
342211 CTTTAAG-CAT
1 CTTTAAGCCAC
342221 CTTTAAG
1 CTTTAAG
342228 TGGCATTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:342602 original size:2 final size:2
Alignment explanation
Indices: 342597--342628 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
342587 GTGAAAAAAA
342597 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
342629 AGTTCATCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:343040 original size:112 final size:112
Alignment explanation
Indices: 342843--343065 Score: 419
Period size: 112 Copynumber: 2.0 Consensus size: 112
342833 AGTTTTGTTC
* *
342843 GTTTGTGTATATCTAATTAGAGTCTATTGTTTGTCCAACTTGAGAAAACCCCTGGAACTAACACA
1 GTTTGTGTATATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
342908 GAATATACAAGATATACACAACAGCTGTGTCGTGTGCCCAGGTGCAT
66 GAATATACAAGATATACACAACAGCTGTGTCGTGTGCCCAGGTGCAT
342955 GTTTGTGTATATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
1 GTTTGTGTATATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
*
343020 GAATATACAAGATATACACAACAGGTGTGTCGTGTGCCCAGGTGCA
66 GAATATACAAGATATACACAACAGCTGTGTCGTGTGCCCAGGTGCA
343066 CGTCAGGGTT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (112 bp):
GTTTGTGTATATCTAATTAAAGTCTATTGTTTGTCCAACTTAAGAAAACCCCTGGAACTAACACA
GAATATACAAGATATACACAACAGCTGTGTCGTGTGCCCAGGTGCAT
Found at i:344096 original size:11 final size:11
Alignment explanation
Indices: 344082--344131 Score: 91
Period size: 11 Copynumber: 4.5 Consensus size: 11
344072 TTTTAATGGT
344082 TTAAAGGTGGC
1 TTAAAGGTGGC
*
344093 TTAAAGGTAGC
1 TTAAAGGTGGC
344104 TTAAAGGTGGC
1 TTAAAGGTGGC
344115 TTAAAGGTGGC
1 TTAAAGGTGGC
344126 TTAAAG
1 TTAAAG
344132 AAGTTTGGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (11 bp):
TTAAAGGTGGC
Found at i:344179 original size:11 final size:11
Alignment explanation
Indices: 344163--344191 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
344153 ATAAGTTGTC
344163 CTTAAAGGTGG
1 CTTAAAGGTGG
344174 CTTAAAGGTGG
1 CTTAAAGGTGG
344185 CTTAAAG
1 CTTAAAG
344192 ATAGTCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (11 bp):
CTTAAAGGTGG
Found at i:344273 original size:11 final size:11
Alignment explanation
Indices: 344257--344288 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
344247 GCAATACATA
344257 TAGCTTAAAGG
1 TAGCTTAAAGG
344268 TAGCTTAAAGG
1 TAGCTTAAAGG
*
344279 TGGCTTAAAG
1 TAGCTTAAAG
344289 ATCGTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (11 bp):
TAGCTTAAAGG
Found at i:344310 original size:11 final size:11
Alignment explanation
Indices: 344294--344332 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
344284 TAAAGATCGT
344294 CTTTAAGCTAC
1 CTTTAAGCTAC
*
344305 CTTTAAAC-AC
1 CTTTAAGCTAC
*
344315 CTTTAAGCTAT
1 CTTTAAGCTAC
344326 CTTTAAG
1 CTTTAAG
344333 GAGGACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (11 bp):
CTTTAAGCTAC
Found at i:361760 original size:12 final size:12
Alignment explanation
Indices: 361743--361776 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
361733 TGAAAATTTT
361743 ACAACAACGACG
1 ACAACAACGACG
*
361755 ACAACAACAACG
1 ACAACAACGACG
361767 ACAGACAACG
1 ACA-ACAACG
361777 GACAAATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.53, C:0.32, G:0.15, T:0.00
Consensus pattern (12 bp):
ACAACAACGACG
Found at i:361763 original size:15 final size:16
Alignment explanation
Indices: 361743--361775 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
361733 TGAAAATTTT
361743 ACAACAACGAC-GACA
1 ACAACAACGACAGACA
361758 ACAACAACGACAGACA
1 ACAACAACGACAGACA
361774 AC
1 AC
361776 GGACAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.55, C:0.33, G:0.12, T:0.00
Consensus pattern (16 bp):
ACAACAACGACAGACA
Done.