Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 40 of 186
Found at i:11866946 original size:18 final size:18
Alignment explanation
Indices: 11866925--11866959 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11866915 CATGAGATTT
*
11866925 AAATAATAATAATTATTA
1 AAATAATAATAAATATTA
*
11866943 AAATATTAATAAATATT
1 AAATAATAATAAATATT
11866960 CAATTCAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATAATAAATATTA
Found at i:11869949 original size:34 final size:33
Alignment explanation
Indices: 11869906--11869972 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 33
11869896 TTATGTAAAA
11869906 AACAAAACTTCTTCAAAATAAGTGAATTTTTTTT
1 AACAAAACTTCTTCAAAATAAGTG-ATTTTTTTT
11869940 AACAAAACTTCTTCAAAATAAGTGATTTTTTTT
1 AACAAAACTTCTTCAAAATAAGTGATTTTTTTT
11869973 CTTTCTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 9 0.27
34 24 0.73
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (33 bp):
AACAAAACTTCTTCAAAATAAGTGATTTTTTTT
Found at i:11871747 original size:28 final size:25
Alignment explanation
Indices: 11871716--11871786 Score: 67
Period size: 28 Copynumber: 2.8 Consensus size: 25
11871706 TTTAATTGAG
11871716 ATAATTTTCATTTAATAAATGATAATT
1 ATAATTTT-ATTTAATAAAT-ATAATT
*
11871743 AATAAGTTTTGTTCT-ATAAA-ATAATT
1 -ATAA-TTTTATT-TAATAAATATAATT
11871769 ATAATTTTATTTAA-AAAT
1 ATAATTTTATTTAATAAAT
11871787 TTAGACCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
23 4 0.11
24 7 0.19
25 4 0.11
26 6 0.16
28 11 0.30
29 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (25 bp):
ATAATTTTATTTAATAAATATAATT
Found at i:11871785 original size:22 final size:26
Alignment explanation
Indices: 11871737--11871786 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
11871727 TTAATAAATG
*
11871737 ATAATTAATAAGTTTTGTTCTATAAA
1 ATAATTAATAAGTTTTATTCTATAAA
11871763 ATAATT-ATAA-TTTTATT-TA-AAA
1 ATAATTAATAAGTTTTATTCTATAAA
11871785 AT
1 AT
11871787 TTAGACCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
23 2 0.09
24 6 0.26
25 4 0.17
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (26 bp):
ATAATTAATAAGTTTTATTCTATAAA
Found at i:11875019 original size:13 final size:14
Alignment explanation
Indices: 11874998--11875026 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11874988 TGAAAAATGG
11874998 ATTAGAAAATATTT
1 ATTAGAAAATATTT
11875012 ATTA-AAAATATTT
1 ATTAGAAAATATTT
11875025 AT
1 AT
11875027 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:11875445 original size:31 final size:32
Alignment explanation
Indices: 11875396--11875459 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
11875386 TTAGAATAAA
*
11875396 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
11875427 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
11875459 A
1 A
11875460 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:11876407 original size:15 final size:15
Alignment explanation
Indices: 11876384--11876431 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
11876374 TATCAAATTT
11876384 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
11876399 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
11876414 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
11876428 ATAT
1 ATAT
11876432 AATATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:11876954 original size:18 final size:19
Alignment explanation
Indices: 11876933--11876973 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11876923 AATGAAATGA
11876933 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
11876951 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
11876970 GAAA
1 GAAA
11876974 ACATACACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:11879315 original size:22 final size:23
Alignment explanation
Indices: 11879265--11879313 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
11879255 AAATTAAATA
*
11879265 AAAATTAAAATGACTTTTTTTAT
1 AAAATTAAAATGACATTTTTTAT
*
11879288 AAAATTGAAATGACATTTTTTAT
1 AAAATTAAAATGACATTTTTTAT
11879311 AAA
1 AAA
11879314 TTTTAAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (23 bp):
AAAATTAAAATGACATTTTTTAT
Found at i:11883745 original size:16 final size:16
Alignment explanation
Indices: 11883720--11883752 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11883710 TCTAATTCTA
11883720 ATAACAATTAGAATTT
1 ATAACAATTAGAATTT
*
11883736 ATAACTATTAGAATTT
1 ATAACAATTAGAATTT
11883752 A
1 A
11883753 AAGTACATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
ATAACAATTAGAATTT
Found at i:11883834 original size:9 final size:10
Alignment explanation
Indices: 11883815--11883846 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11883805 TTCATAACAC
11883815 TTTTTATAAT
1 TTTTTATAAT
11883825 TTTTTA-AA-
1 TTTTTATAAT
11883833 TTTTTATAAT
1 TTTTTATAAT
11883843 TTTT
1 TTTT
11883847 AAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.30
9 4 0.20
10 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:11883847 original size:9 final size:9
Alignment explanation
Indices: 11883815--11883847 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11883805 TTCATAACAC
11883815 TTTTTATAA
1 TTTTTATAA
11883824 TTTTT-TAAA
1 TTTTTAT-AA
11883833 TTTTTATAA
1 TTTTTATAA
11883842 TTTTTA
1 TTTTTA
11883848 AAAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11886591 original size:3 final size:3
Alignment explanation
Indices: 11886583--11886621 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11886573 TTGTGTTGAC
11886583 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11886622 GATCAGTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11890051 original size:18 final size:17
Alignment explanation
Indices: 11890005--11890053 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
11889995 CAAGTATCAA
*
11890005 ATTAAAACTAAAAAAAT
1 ATTAAAACCAAAAAAAT
*
11890022 ACTTAAGTACCAAAATAAAT
1 A-TTAA-AACCAAAA-AAAT
11890042 ATTAAAACCAAA
1 ATTAAAACCAAA
11890054 CTTATATACC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 10 0.38
20 5 0.19
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (17 bp):
ATTAAAACCAAAAAAAT
Found at i:11893156 original size:10 final size:9
Alignment explanation
Indices: 11893123--11893187 Score: 60
Period size: 9 Copynumber: 6.9 Consensus size: 9
11893113 ATTTTTATTT
11893123 TTTAAAAAA
1 TTTAAAAAA
**
11893132 TTTTTAAAA
1 TTTAAAAAA
11893141 TTTAAAAAA
1 TTTAAAAAA
11893150 TTCTAAAAAA
1 TT-TAAAAAA
11893160 TATATAAAGAAA
1 T-T-TAAA-AAA
*
11893172 GTTAAAAAA
1 TTTAAAAAA
11893181 -TTAAAAA
1 TTTAAAAA
11893188 TTTTCTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 7 0.15
9 19 0.40
10 12 0.26
11 6 0.13
12 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:11895426 original size:22 final size:20
Alignment explanation
Indices: 11895401--11895440 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11895391 GAAACAGGGA
*
11895401 AAAGGAGAAGAAAATAGAAAAT
1 AAAGGA-AA-AAAAAAGAAAAT
11895423 AAAGGAAAAAAAAAGAAA
1 AAAGGAAAAAAAAAGAAA
11895441 GTTCAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (20 bp):
AAAGGAAAAAAAAAGAAAAT
Found at i:11895900 original size:136 final size:134
Alignment explanation
Indices: 11895723--11895969 Score: 345
Period size: 137 Copynumber: 1.8 Consensus size: 134
11895713 CTTTTTCACT
* *
11895723 TGTTTTTGGTTTACATGTTATTTTATTAAACACAAAAAAGATTTAAAATAAAATT-CTTGATTTT
1 TGTTTTTGGTTTACATGTTATTTCATTAAACACAAAAAAGATTAAAAATAAAATTACTTGATTTT
*
11895787 TCTTTTGAAAATAAAAAACCAGAATT-ACAAAAATTGTATCTTTTACCGAAAATTCTTTTCACTT
66 TCTTCTGAAAATAAAAAACCAGAATTGA-AAAAATTGTATCTTTTACCGAAAATTCTTTTCACTT
11895851 ATTTC
130 ATTTC
* * * **
11895856 TGTTTTTGGTTTGCATGTGCTTATTTCATTAAGCACAAAAAAGATTAAAAATAAAATTATTTTTT
1 TGTTTTTGGTTTACA--TG-TTATTTCATTAAACACAAAAAAGATTAAAAATAAAATTACTTGAT
* * *
11895921 TTTTCTTCTGAAAATTAGAAACCATAATTGAAAAAATTGTATCTTTTAC
63 TTTTCTTCTGAAAATAAAAAACCAGAATTGAAAAAATTGTATCTTTTAC
11895970 TTTTCGTTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
133 14 0.14
135 2 0.02
136 35 0.36
137 46 0.47
138 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (134 bp):
TGTTTTTGGTTTACATGTTATTTCATTAAACACAAAAAAGATTAAAAATAAAATTACTTGATTTT
TCTTCTGAAAATAAAAAACCAGAATTGAAAAAATTGTATCTTTTACCGAAAATTCTTTTCACTTA
TTTC
Found at i:11903013 original size:15 final size:16
Alignment explanation
Indices: 11902993--11903028 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11902983 CCAAAATTTC
11902993 AAATTT-TAAGTCATT
1 AAATTTATAAGTCATT
*
11903008 AAATTTATAATTCATT
1 AAATTTATAAGTCATT
11903024 AAATT
1 AAATT
11903029 AAGTTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (16 bp):
AAATTTATAAGTCATT
Found at i:11905392 original size:25 final size:25
Alignment explanation
Indices: 11905358--11905408 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11905348 TTAATCCCTC
11905358 ATTTTTTTTAAAGAAGAAAATAAAT
1 ATTTTTTTTAAAGAAGAAAATAAAT
11905383 ATTTTTTTTAAAGAAGAAAATAAAT
1 ATTTTTTTTAAAGAAGAAAATAAAT
11905408 A
1 A
11905409 AAAATTCACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (25 bp):
ATTTTTTTTAAAGAAGAAAATAAAT
Found at i:11906242 original size:17 final size:17
Alignment explanation
Indices: 11906220--11906259 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
11906210 CCTAGACCTC
*
11906220 AAAAATAAAATAAGAAT
1 AAAAATAAAATAAAAAT
11906237 AAAAATAAAATAAAAAT
1 AAAAATAAAATAAAAAT
11906254 AAAAAT
1 AAAAAT
11906260 TACTTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAAAAAT
Found at i:11906258 original size:6 final size:6
Alignment explanation
Indices: 11906220--11906259 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
11906210 CCTAGACCTC
*
11906220 AAAAAT -AAAAT AAGAAT AAAAAT -AAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
11906260 TACTTTTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:11912295 original size:29 final size:29
Alignment explanation
Indices: 11912263--11912321 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11912253 AGTGCCCATG
11912263 TACATAGGCTTACGTGAAGTATTGATCAT
1 TACATAGGCTTACGTGAAGTATTGATCAT
11912292 TACATAGGCTTACGTGAAGTATTGATCAT
1 TACATAGGCTTACGTGAAGTATTGATCAT
11912321 T
1 T
11912322 CTCATTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (29 bp):
TACATAGGCTTACGTGAAGTATTGATCAT
Found at i:11920354 original size:28 final size:28
Alignment explanation
Indices: 11920317--11920393 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
11920307 TCCTATATTG
* *
11920317 AAGATAGTCCTTAGCGGACTTTCTACAT
1 AAGATAGTCCTTGGCGGACTTTCCACAT
* *
11920345 AAG-TCAGTCCTTGGCAGACGTTCCACAT
1 AAGAT-AGTCCTTGGCGGACTTTCCACAT
*
11920373 AAGATAGTCCTTGGTGGACTT
1 AAGATAGTCCTTGGCGGACTT
11920394 CCCTTTTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.03
28 38 0.95
29 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (28 bp):
AAGATAGTCCTTGGCGGACTTTCCACAT
Found at i:11923036 original size:39 final size:39
Alignment explanation
Indices: 11922955--11923037 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
11922945 CGTTTTAAAG
* * * *
11922955 AAAAACGCCACTAAAGATCGAGTATTAGCAGTGTTTTTA
1 AAAAACGCCACTAAAGATCGAGAATTAGCAGCGCTTTCA
*
11922994 AAAAACGCCACTAAAGATCGAGAATTAGCTGCGCTTTCA
1 AAAAACGCCACTAAAGATCGAGAATTAGCAGCGCTTTCA
11923033 AAAAA
1 AAAAA
11923038 AAGCCGCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (39 bp):
AAAAACGCCACTAAAGATCGAGAATTAGCAGCGCTTTCA
Found at i:11923776 original size:21 final size:21
Alignment explanation
Indices: 11923750--11923790 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11923740 TTATCATTAT
*
11923750 AGTTTAAGGTTTACGGTTTAG
1 AGTTTAAGGTTAACGGTTTAG
* *
11923771 AGTTTATGGTTAAGGGTTTA
1 AGTTTAAGGTTAACGGTTTA
11923791 AGGTTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.44
Consensus pattern (21 bp):
AGTTTAAGGTTAACGGTTTAG
Found at i:11923796 original size:21 final size:22
Alignment explanation
Indices: 11923764--11923804 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
11923754 TAAGGTTTAC
11923764 GGTTTAGAGTTTATG-GTTAAG
1 GGTTTAGAGTTTATGAGTTAAG
11923785 GGTTTA-AGGTTTATGAGTTA
1 GGTTTAGA-GTTTATGAGTTA
11923805 TTATTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (22 bp):
GGTTTAGAGTTTATGAGTTAAG
Found at i:11923946 original size:14 final size:14
Alignment explanation
Indices: 11923911--11923947 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11923901 GATTCAAGGT
*
11923911 TTAGGGATTATGGA
1 TTAGGGGTTATGGA
11923925 TTAGGGGTTATGGA
1 TTAGGGGTTATGGA
*
11923939 TTATGGGTT
1 TTAGGGGTT
11923948 TAGGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
TTAGGGGTTATGGA
Found at i:11924117 original size:23 final size:23
Alignment explanation
Indices: 11924087--11924136 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11924077 GATTAATGTA
* *
11924087 TATG-GTTAAGAGTTTTAGGGTT
1 TATGAGTTAAGACTTTAAGGGTT
**
11924109 TATGAGTTACTACTTTAAGGGTT
1 TATGAGTTAAGACTTTAAGGGTT
11924132 TATGA
1 TATGA
11924137 ATTATGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.44
Consensus pattern (23 bp):
TATGAGTTAAGACTTTAAGGGTT
Found at i:11924212 original size:50 final size:51
Alignment explanation
Indices: 11924123--11924221 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
11924113 AGTTACTACT
* * *
11924123 TTAAGGGTTTATGAATTATGGTTTCAGGGCTGGGGTTTAAGGTTTATGGGG
1 TTAAGGGTTTACGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
* *
11924174 TTAAGGG-TTACGAGTTATGG-TTCAGGGTTTAGGATTTAAGGTTTATGG
1 TTAAGGGTTTACGAATTATGGTTTCAGGG-CTAGGATTTAAGGTTTATGG
11924222 TTTAGGGTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 7 0.17
50 28 0.67
51 7 0.17
ACGTcount: A:0.21, C:0.04, G:0.35, T:0.39
Consensus pattern (51 bp):
TTAAGGGTTTACGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
Found at i:11924237 original size:15 final size:14
Alignment explanation
Indices: 11924188--11924247 Score: 77
Period size: 14 Copynumber: 4.2 Consensus size: 14
11924178 GGGTTACGAG
*
11924188 TTATGGTTCAGGGT
1 TTATGGTTTAGGGT
*
11924202 TTA-GGATTTAAGGT
1 TTATGG-TTTAGGGT
11924216 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
11924230 TCTATGGTTTAGGGT
1 T-TATGGTTTAGGGT
11924245 TTA
1 TTA
11924248 GGGATTAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.05
14 22 0.55
15 16 0.40
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:11924245 original size:22 final size:21
Alignment explanation
Indices: 11924188--11924250 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
11924178 GGGTTACGAG
* *
11924188 TTATGGTTCAGGGTTTAGGAT
1 TTATGGTTTAGGGTTTAGGGT
* *
11924209 TTAAGGTTTATGGTTTAGGGT
1 TTATGGTTTAGGGTTTAGGGT
11924230 TCTATGGTTTAGGGTTTAGGG
1 T-TATGGTTTAGGGTTTAGGG
11924251 ATTAAAGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.44
Consensus pattern (21 bp):
TTATGGTTTAGGGTTTAGGGT
Found at i:11924250 original size:7 final size:7
Alignment explanation
Indices: 11924192--11924250 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
11924182 TACGAGTTAT
*
11924192 GGTTCAG
1 GGTTTAG
11924199 GGTTTAG
1 GGTTTAG
* *
11924206 GATTTAA
1 GGTTTAG
*
11924213 GGTTTAT
1 GGTTTAG
11924220 GGTTTAG
1 GGTTTAG
*
11924227 GGTTCTAT
1 GGTT-TAG
11924235 GGTTTAG
1 GGTTTAG
11924242 GGTTTAG
1 GGTTTAG
11924249 GG
1 GG
11924251 ATTAAAGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:11924411 original size:13 final size:14
Alignment explanation
Indices: 11924387--11924423 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
11924377 GAAAAAAATG
11924387 AAATTATTTAGATT
1 AAATTATTTAGATT
11924401 AAATT-TTTAGATT
1 AAATTATTTAGATT
*
11924414 AAACTATTTA
1 AAATTATTTA
11924424 AGAGATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:11924502 original size:19 final size:19
Alignment explanation
Indices: 11924480--11924519 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
11924470 AATTGATAAC
*
11924480 AAATAAAAATTAAATACAA
1 AAATAAAAATGAAATACAA
*
11924499 AAATAAAAATGAAATATAA
1 AAATAAAAATGAAATACAA
11924518 AA
1 AA
11924520 TGGAGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:11924804 original size:19 final size:18
Alignment explanation
Indices: 11924782--11924829 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
11924772 CCCGTAATAG
*
11924782 ATTTTCCCCAATTCACTAT
1 ATTTTCCCCAA-TCACTAA
*
11924801 A-TTTCCCCTAATCTCTAA
1 ATTTTCCCC-AATCACTAA
11924819 ATTTTCCCCAA
1 ATTTTCCCCAA
11924830 AATCCCTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTTCCCCAATCACTAA
Found at i:11924974 original size:20 final size:20
Alignment explanation
Indices: 11924949--11924987 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11924939 ATGAAGGTTC
*
11924949 AGTTTTCTTGTTATGTCATT
1 AGTTTTCTTGTTATATCATT
11924969 AGTTTTCTTGTTATATCAT
1 AGTTTTCTTGTTATATCAT
11924988 CCAACCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (20 bp):
AGTTTTCTTGTTATATCATT
Found at i:11927676 original size:105 final size:105
Alignment explanation
Indices: 11927397--11927797 Score: 709
Period size: 104 Copynumber: 3.8 Consensus size: 105
11927387 TATATTATAT
* * *
11927397 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
11927462 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
*
11927502 TATTTTA-TTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
11927566 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
66 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
*
11927606 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
11927671 ACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAAA
66 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
*
11927711 T-GTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC-TTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
11927774 ACCTAATTAAATTAAATTGTATTT
66 ACCTAATTAAATTAAATTGTATTT
11927798 TTAAATGTTG
Statistics
Matches: 284, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
103 42 0.15
104 140 0.49
105 102 0.36
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (105 bp):
TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAA
Found at i:11927697 original size:209 final size:208
Alignment explanation
Indices: 11927397--11927797 Score: 723
Period size: 209 Copynumber: 1.9 Consensus size: 208
11927387 TATATTATAT
* *
11927397 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
* *
11927462 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT-TATTTATTTTATTTTAATC
66 ACCTAATCAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTAT-TTTATTTTATTTTAATC
11927526 ACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
130 ACAAAAAATATTTTGTCTAC-TTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
11927591 AAGTTTTATTTTAAA
194 AAGTTTTATTTTAAA
11927606 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
1 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
11927671 ACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCA
66 ACCTAATCAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCA
*
11927736 CGAAAAATATTTTGTCTACTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
131 CAAAAAATATTTTGTCTACTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
11927798 TTAAATGTTG
Statistics
Matches: 185, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
208 43 0.23
209 141 0.76
210 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (208 bp):
TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
ACCTAATCAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCA
CAAAAAATATTTTGTCTACTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
GTTTTATTTTAAA
Found at i:11927710 original size:13 final size:12
Alignment explanation
Indices: 11927692--11927732 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
11927682 TTAAATAGTA
11927692 TTTAAAGTTTTAT
1 TTTAAA-TTTTAT
11927705 TTTAAATGTTTAT
1 TTTAAAT-TTTAT
11927718 TTT--ATTTTAT
1 TTTAAATTTTAT
11927728 TTTAA
1 TTTAA
11927733 TCACGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 1 0.04
13 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (12 bp):
TTTAAATTTTAT
Found at i:11928034 original size:9 final size:9
Alignment explanation
Indices: 11928020--11928073 Score: 72
Period size: 9 Copynumber: 6.0 Consensus size: 9
11928010 GTATCGTATC
11928020 TTACATAAT
1 TTACATAAT
11928029 TTACATAAT
1 TTACATAAT
* * *
11928038 TCAGATAAC
1 TTACATAAT
11928047 TTACATAAT
1 TTACATAAT
*
11928056 TTACATAAC
1 TTACATAAT
11928065 TTACATAAT
1 TTACATAAT
11928074 ACATAAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:11928072 original size:27 final size:27
Alignment explanation
Indices: 11928019--11928110 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
11928009 TGTATCGTAT
*
11928019 CTTACATAATTTACATAA-TTCAGATAA
1 CTTACATAATTTACATAACTT-ACATAA
11928046 CTTACATAATTTACATAACTTACATAA
1 CTTACATAATTTACATAACTTACATAA
* * * *
11928073 --TACATAA-ATATATATCATATCATAA
1 CTTACATAATTTACATAACTTA-CATAA
11928098 CTTACATAATTTA
1 CTTACATAATTTA
11928111 ATTATACTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 8 0.15
25 12 0.22
27 30 0.56
28 4 0.07
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (27 bp):
CTTACATAATTTACATAACTTACATAA
Found at i:11933134 original size:13 final size:14
Alignment explanation
Indices: 11933118--11933146 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11933108 TTATAAATAT
11933118 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
11933131 TTATAATGGTTTAA
1 TTATAATGGTTTAA
11933145 TT
1 TT
11933147 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:11933898 original size:30 final size:31
Alignment explanation
Indices: 11933842--11933910 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
11933832 TGATTGCATT
*
11933842 TTTTATGCTAAATTTGCTAATTTTGGTTGCA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
* * *
11933873 TTTTATGCTATATTTACT-GTTTTGGTTGGA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
*
11933903 TTTAATGC
1 TTTTATGC
11933911 AGGAAGGGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (31 bp):
TTTTATGCTAAATTTACTAATTTTGGTTGCA
Found at i:11934098 original size:43 final size:43
Alignment explanation
Indices: 11933919--11934100 Score: 217
Period size: 43 Copynumber: 4.3 Consensus size: 43
11933909 GCAGGAAGGG
* * *
11933919 CTTTTAGCCAGCGCTTTTACCACAAACGCCGCTAAAA-TCATGA
1 CTTTTAG-CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
* ** **
11933962 CTTTTAGTGGTTCTTTTCTTAC-AACGCCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
* * *
11934004 CTTTTAGAGGCGCTTTTCCCATAAACGCTG-TGAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCT-AAAAGCCATGA
*
11934047 CTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
11934090 CTTTTAGCGGC
1 CTTTTAGCGGC
11934101 ATTTTTTTAG
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 13 0.11
42 30 0.26
43 72 0.62
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
Found at i:11934459 original size:20 final size:21
Alignment explanation
Indices: 11934431--11934471 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11934421 CAACTCTTAA
*
11934431 ATTATTATTTAATTA-AAATT
1 ATTAATATTTAATTATAAATT
*
11934451 ATTAATATTTATTTATAAATT
1 ATTAATATTTAATTATAAATT
11934472 TTCTGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATATTTAATTATAAATT
Found at i:11940893 original size:11 final size:11
Alignment explanation
Indices: 11940872--11940902 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
11940862 ATGGAAATAA
11940872 ATTAGTTATATT
1 ATTA-TTATATT
11940884 ATTATTATATT
1 ATTATTATATT
11940895 ATTATTAT
1 ATTATTAT
11940903 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
ATTATTATATT
Found at i:11941098 original size:75 final size:77
Alignment explanation
Indices: 11940956--11941099 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 77
11940946 GTAACCAAAA
* * *
11940956 TTTGAGAATATTATTTAATTGTATTCTAAAAATAATAATATATAATAAATTCAAGAAAAAACTAA
1 TTTGAAAATATTATTCAATTGTATTCT-AAAATAATAATATATAATAAATTAAAGAAAAAACTAA
11941021 AAAAAATCCGATT
65 AAAAAATCCGATT
*
11941034 TTTGAAAATGTTATTCAATTGTATTCT-AAA-AATAATATATAATAAATTAAAG-AAAAACTAAA
1 TTTGAAAATATTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAA
11941096 AAAA
66 AAAA
11941100 CCCAACTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 14 0.23
75 21 0.34
76 3 0.05
78 24 0.39
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (77 bp):
TTTGAAAATATTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAA
AAAAATCCGATT
Found at i:11941117 original size:75 final size:77
Alignment explanation
Indices: 11940966--11941117 Score: 186
Period size: 75 Copynumber: 2.0 Consensus size: 77
11940956 TTTGAGAATA
* * * *
11940966 TTATTTAATTGTATTCTAAAAATAATAATATATAATAAATTCAAGAAAAAACTAAAAAAAATCCG
1 TTATTCAATTGTATTCT-AAAATAATAATATATAATAAATTAAAGAAAAAACTAAAAAAAACCCA
* **
11941031 ATTTTTGAAAATG
65 ATTCTAAAAAATG
11941044 TTATTCAATTGTATTCT-AAA-AATAATATATAATAAATTAAAG-AAAAACT-AAAAAAACCCAA
1 TTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAAAAAAACCCAA
11941105 CTTCCTAAAAAAT
66 -TT-CTAAAAAAT
11941118 TACAATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
73 10 0.15
74 9 0.14
75 27 0.42
76 3 0.05
78 16 0.25
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (77 bp):
TTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAAAAAAACCCAA
TTCTAAAAAATG
Found at i:11941642 original size:17 final size:19
Alignment explanation
Indices: 11941620--11941656 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
11941610 CGTCAGAGTT
11941620 GGAAGCTAAG-AA-AGAGG
1 GGAAGCTAAGTAACAGAGG
11941637 GGAAGCTAAGTAACAGAGG
1 GGAAGCTAAGTAACAGAGG
11941656 G
1 G
11941657 AATACTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.43, C:0.08, G:0.41, T:0.08
Consensus pattern (19 bp):
GGAAGCTAAGTAACAGAGG
Found at i:11944127 original size:12 final size:12
Alignment explanation
Indices: 11944110--11944134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11944100 ATATATTGAG
11944110 AATGGCAAATTT
1 AATGGCAAATTT
11944122 AATGGCAAATTT
1 AATGGCAAATTT
11944134 A
1 A
11944135 TGTTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGGCAAATTT
Found at i:11952050 original size:7 final size:7
Alignment explanation
Indices: 11952031--11952119 Score: 76
Period size: 7 Copynumber: 12.3 Consensus size: 7
11952021 ACTAAACACC
11952031 ATTAAAA
1 ATTAAAA
11952038 ATTTAAAA
1 A-TTAAAA
11952046 ATTAAAA
1 ATTAAAA
*
11952053 ATTTAGAA
1 A-TTAAAA
11952061 ATT---A
1 ATTAAAA
*
11952065 ACTAAACA
1 ATTAAA-A
11952073 CCATTAAAA
1 --ATTAAAA
11952082 ATTAAAA
1 ATTAAAA
11952089 ATTAAAA
1 ATTAAAA
11952096 ATTAAAA
1 ATTAAAA
11952103 ATTAAAA
1 ATTAAAA
*
11952110 TCTTAAAA
1 -ATTAAAA
11952118 AT
1 AT
11952120 ATAATATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
4 3 0.04
7 39 0.57
8 20 0.29
9 1 0.01
10 5 0.07
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:11952051 original size:15 final size:14
Alignment explanation
Indices: 11952031--11952119 Score: 76
Period size: 15 Copynumber: 6.1 Consensus size: 14
11952021 ACTAAACACC
11952031 ATTAAAAATTTAAAA
1 ATTAAAAA-TTAAAA
*
11952046 ATTAAAAATTTAGAA
1 ATTAAAAA-TTAAAA
*
11952061 ATT---AACTAAACA
1 ATTAAAAATTAAA-A
11952073 CCATTAAAAATTAAAA
1 --ATTAAAAATTAAAA
11952089 ATTAAAAATTAAAA
1 ATTAAAAATTAAAA
*
11952103 ATTAAAATCTTAAAA
1 ATTAAAA-ATTAAAA
11952118 AT
1 AT
11952120 ATAATATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.05
12 3 0.05
14 24 0.39
15 25 0.40
16 1 0.02
17 6 0.10
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (14 bp):
ATTAAAAATTAAAA
Found at i:11952061 original size:44 final size:42
Alignment explanation
Indices: 11952011--11952107 Score: 167
Period size: 44 Copynumber: 2.3 Consensus size: 42
11952001 GAAGTTAGTG
11952011 TTAGAAATTAACTAAACACCATTAAAAATTTAAAAATTAAAAA
1 TTAGAAATTAACTAAACACCATTAAAAA-TTAAAAATTAAAAA
11952054 TTTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
1 -TTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
*
11952097 TTAAAAATTAA
1 TTAGAAATTAA
11952108 AATCTTAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 10 0.19
43 14 0.27
44 28 0.54
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (42 bp):
TTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
Found at i:11955308 original size:98 final size:98
Alignment explanation
Indices: 11955202--11955381 Score: 279
Period size: 98 Copynumber: 1.8 Consensus size: 98
11955192 TATGAAATTA
* *
11955202 TTAAGAGCATTTAATAAGCTCAACCTCTGAGTTTTATAATTCGATGAATTCATCAAGTCTGTCTC
1 TTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTCTGTCTC
11955267 AATAAAACCACCCAAACACTGGAATTAAATTCT
66 AATAAAACCACCCAAACACTGGAATTAAATTCT
* * * *
11955300 TTAAGAGCATTTAATATGCTCAACCTTTCAGTTTTATAATTCAATTAATTCATTAAGTCTGTCTC
1 TTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTCTGTCTC
* **
11955365 ACTAGGACCACCCAAAC
66 AATAAAACCACCCAAAC
11955382 TCTAGGCTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 73 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (98 bp):
TTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTCTGTCTC
AATAAAACCACCCAAACACTGGAATTAAATTCT
Found at i:11956775 original size:16 final size:17
Alignment explanation
Indices: 11956747--11956790 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
11956737 CACGATTAGC
11956747 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
11956767 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
11956784 AGGGAAA
1 AGGGAAA
11956791 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:11959354 original size:26 final size:26
Alignment explanation
Indices: 11959325--11959402 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
11959315 ATTCGCTCAT
* *
11959325 GGTCCTTCGACCAACTCAAAC-TCAAG
1 GGTCCTCCAACCAACTCAAACGT-AAG
*
11959351 GGTCCTCCAAGCAACTCAAACGTAAG
1 GGTCCTCCAACCAACTCAAACGTAAG
* ** *
11959377 GGTCCTCTAACCCCCTCAAACTTAAG
1 GGTCCTCCAACCAACTCAAACGTAAG
11959403 CTTACTAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (26 bp):
GGTCCTCCAACCAACTCAAACGTAAG
Found at i:11960483 original size:38 final size:38
Alignment explanation
Indices: 11960404--11960483 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
11960394 TAGTAGAGGA
* * ** *
11960404 TTTTCCTTAACAGAAAATATTCTACAACAGTCAAAGGT
1 TTTTCCTCAACAAAAAATATTCTACAACAGAAAAAGAT
*
11960442 TTTTCCTCAATCAAAAAATATTCTACAACA-AAAAATAT
1 TTTTCCTCAA-CAAAAAATATTCTACAACAGAAAAAGAT
11960480 TTTT
1 TTTT
11960484 AAAAAATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 17 0.49
39 18 0.51
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (38 bp):
TTTTCCTCAACAAAAAATATTCTACAACAGAAAAAGAT
Found at i:11965562 original size:49 final size:49
Alignment explanation
Indices: 11965490--11965587 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
11965480 GTTTTTCATT
11965490 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
1 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
11965539 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
1 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
11965588 TGTCGATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (49 bp):
CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
Found at i:11967984 original size:31 final size:31
Alignment explanation
Indices: 11967946--11968007 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11967936 CATAACTTCG
11967946 TAACATGTTTCATTCACTCTCTATTAATAAT
1 TAACATGTTTCATTCACTCTCTATTAATAAT
*
11967977 TAACATGTTTCATTCACTCTCTATTAGTAAT
1 TAACATGTTTCATTCACTCTCTATTAATAAT
11968008 CATCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (31 bp):
TAACATGTTTCATTCACTCTCTATTAATAAT
Found at i:11968058 original size:26 final size:26
Alignment explanation
Indices: 11968029--11968081 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11968019 TATATTAAAT
11968029 AATTTTTTATTTAATATTTAATATAC
1 AATTTTTTATTTAATATTTAATATAC
11968055 AATTTTTTATTTAATATTTAATATAC
1 AATTTTTTATTTAATATTTAATATAC
11968081 A
1 A
11968082 TATAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTTTTATTTAATATTTAATATAC
Found at i:11971218 original size:23 final size:23
Alignment explanation
Indices: 11971192--11971241 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
11971182 ACCTTAGAAT
*
11971192 TAACAACTCTATAACAGACTT-GC
1 TAAC-ACTCTATAACAAACTTGGC
* *
11971215 TAACAGTCTGTAACAAACTTGGC
1 TAACACTCTATAACAAACTTGGC
11971238 TAAC
1 TAAC
11971242 TCTTAACTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (23 bp):
TAACACTCTATAACAAACTTGGC
Found at i:11976098 original size:28 final size:29
Alignment explanation
Indices: 11976067--11976128 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 29
11976057 CCTCTCCCAT
11976067 GGGATAACTGCAACCCTAAAGTTAAACTGGGAG
1 GGGATAACTGCAACCCTAAAGTTAAACT----G
11976100 AGGGATAACTGCAACCCTAAAGTTAAACT
1 -GGGATAACTGCAACCCTAAAGTTAAACT
11976129 CCCAAATACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (29 bp):
GGGATAACTGCAACCCTAAAGTTAAACTG
Found at i:11989232 original size:1 final size:1
Alignment explanation
Indices: 11989226--11989349 Score: 248
Period size: 1 Copynumber: 124.0 Consensus size: 1
11989216 GCCTCTCCCC
11989226 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11989291 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11989350 AGGCAAAGTA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 123 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11996457 original size:23 final size:23
Alignment explanation
Indices: 11996427--11996491 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
11996417 CAAACGGTTC
11996427 TCCCCTAAAATACAATCGATTCT
1 TCCCCTAAAATACAATCGATTCT
11996450 TCCCCTAAAATACAATCGATTCT
1 TCCCCTAAAATACAATCGATTCT
*
11996473 TCCCC-AAAATACCATCGAT
1 TCCCCTAAAATACAATCGAT
11996492 CCCCCCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 13 0.32
23 28 0.68
ACGTcount: A:0.35, C:0.32, G:0.05, T:0.28
Consensus pattern (23 bp):
TCCCCTAAAATACAATCGATTCT
Found at i:12001890 original size:17 final size:17
Alignment explanation
Indices: 12001868--12001900 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12001858 CTCCGATTAC
12001868 AAAAAACAAAATTTAAA
1 AAAAAACAAAATTTAAA
*
12001885 AAAAAACAATATTTAA
1 AAAAAACAAAATTTAA
12001901 TAGTATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAACAAAATTTAAA
Found at i:12010985 original size:24 final size:24
Alignment explanation
Indices: 12010956--12011012 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
12010946 ATTAGGAGGA
* * *
12010956 GGAGGTGGTGGAGGGTTTGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
12010980 GGAGGTGGAGGAGGGCTAGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
*
12011004 GGAGCTGGA
1 GGAGGTGGA
12011013 TTTGGTGGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.14, C:0.04, G:0.61, T:0.21
Consensus pattern (24 bp):
GGAGGTGGAGGAGGGCTAGGTGGT
Found at i:12011071 original size:18 final size:18
Alignment explanation
Indices: 12011034--12011077 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12011024 CGCTGGTGCT
* *
12011034 GGTGGTGGCCTTGGTCGA
1 GGTGGTGGACTTGGACGA
*
12011052 GGTGGTGGACTTGGAGGA
1 GGTGGTGGACTTGGACGA
*
12011070 GGAGGTGG
1 GGTGGTGG
12011078 TGGAGGGTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.11, C:0.09, G:0.57, T:0.23
Consensus pattern (18 bp):
GGTGGTGGACTTGGACGA
Found at i:12011109 original size:18 final size:20
Alignment explanation
Indices: 12011067--12011121 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
12011057 TGGACTTGGA
*
12011067 GGAGGAGGTGGTGGAGGGTTC
1 GGAGGAGGTGGTGG-TGGTTC
12011088 GGAGGAGGTGGTGGTGG-T-
1 GGAGGAGGTGGTGGTGGTTC
*
12011106 GGAGTAGGTGGTGGTG
1 GGAGGAGGTGGTGGTG
12011122 CTGGTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 15 0.47
19 1 0.03
20 2 0.06
21 14 0.44
ACGTcount: A:0.13, C:0.02, G:0.64, T:0.22
Consensus pattern (20 bp):
GGAGGAGGTGGTGGTGGTTC
Found at i:12011143 original size:24 final size:24
Alignment explanation
Indices: 12011052--12011140 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
12011042 CCTTGGTCGA
** *
12011052 GGTGGTGGACTTGGAGGAGGAGGT
1 GGTGGTGGGTTTGGAGGAGGTGGT
* *
12011076 GGTGGAGGGTTCGGAGGAGGTGGT
1 GGTGGTGGGTTTGGAGGAGGTGGT
* * * *
12011100 GGTGGTGGAG-TAGGTGGTGGTGCT
1 GGTGGTGG-GTTTGGAGGAGGTGGT
12011124 GGTGGTGGGTTTGGAGG
1 GGTGGTGGGTTTGGAGG
12011141 TGGAGCAGGA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.02
24 49 0.96
25 1 0.02
ACGTcount: A:0.11, C:0.03, G:0.61, T:0.25
Consensus pattern (24 bp):
GGTGGTGGGTTTGGAGGAGGTGGT
Found at i:12011186 original size:18 final size:18
Alignment explanation
Indices: 12011135--12011205 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
12011125 GTGGTGGGTT
**
12011135 TGGAGGTGGAGCAGGAGC
1 TGGAGGTGGAGGTGGAGC
* *
12011153 AGGAGCTGGAGGTGGA-C
1 TGGAGGTGGAGGTGGAGC
* *
12011170 TAGGTGGTGGTGGTGGAGC
1 T-GGAGGTGGAGGTGGAGC
12011189 TGGAGGTGGAGGTGGAG
1 TGGAGGTGGAGGTGGAG
12011206 GCGGCTTCGG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 38 0.93
19 2 0.05
ACGTcount: A:0.18, C:0.07, G:0.58, T:0.17
Consensus pattern (18 bp):
TGGAGGTGGAGGTGGAGC
Found at i:12011196 original size:12 final size:12
Alignment explanation
Indices: 12011135--12011206 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 12
12011125 GTGGTGGGTT
12011135 TGGAGGTGGAGC
1 TGGAGGTGGAGC
* **
12011147 AGGAGCAGGAGC
1 TGGAGGTGGAGC
12011159 TGGAGGTGGA-C
1 TGGAGGTGGAGC
12011170 T--AGGT-G-G-
1 TGGAGGTGGAGC
*
12011177 TGGTGGTGGAGC
1 TGGAGGTGGAGC
*
12011189 TGGAGGTGGAGG
1 TGGAGGTGGAGC
12011201 TGGAGG
1 TGGAGG
12011207 CGGCTTCGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 7 0.16
10 1 0.02
11 3 0.07
12 32 0.71
ACGTcount: A:0.18, C:0.07, G:0.58, T:0.17
Consensus pattern (12 bp):
TGGAGGTGGAGC
Found at i:12011196 original size:15 final size:15
Alignment explanation
Indices: 12011153--12011200 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
12011143 GAGCAGGAGC
12011153 AGGAGCTGGAGGTGG
1 AGGAGCTGGAGGTGG
** * *
12011168 ACTAGGTGGTGGTGG
1 AGGAGCTGGAGGTGG
*
12011183 TGGAGCTGGAGGTGG
1 AGGAGCTGGAGGTGG
12011198 AGG
1 AGG
12011201 TGGAGGCGGC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.58, T:0.19
Consensus pattern (15 bp):
AGGAGCTGGAGGTGG
Found at i:12011259 original size:30 final size:30
Alignment explanation
Indices: 12011214--12011293 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
12011204 AGGCGGCTTC
* *
12011214 GGTGGAGGAGGTGGGTTTGGCGGTGGAGCT
1 GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
* *
12011244 GGTGCAGGTGGTGGGTTCGGTGGTGGAGCT
1 GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
* *
12011274 GGTGCAGGTAGTGGGCTTGG
1 GGTGCAGGTGGTGGGTTTGG
12011294 AGGAGGACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.09, C:0.09, G:0.57, T:0.25
Consensus pattern (30 bp):
GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
Found at i:12012323 original size:12 final size:12
Alignment explanation
Indices: 12012306--12012335 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12012296 CCCTACACGT
12012306 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
12012318 CCGTGTGTTAGG
1 CCGTGTGCTAGG
12012330 CCGTGT
1 CCGTGT
12012336 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:12017700 original size:19 final size:19
Alignment explanation
Indices: 12017676--12017713 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12017666 AAGTTAATAA
12017676 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12017695 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12017714 TGACAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12017811 original size:31 final size:31
Alignment explanation
Indices: 12017773--12017908 Score: 254
Period size: 31 Copynumber: 4.4 Consensus size: 31
12017763 AAATATATTA
12017773 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12017804 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12017835 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12017866 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12017897 GACTCGATTCGA
1 GATTTGATTCGA
12017909 TAAAATTTCA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12018288 original size:17 final size:18
Alignment explanation
Indices: 12018268--12018316 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
12018258 CATTCACTCC
*
12018268 TTTTTCTTTTTCTTT-TT
1 TTTTTCTTTTACTTTGTT
*
12018285 TTTTTGTTTTACTTTGTT
1 TTTTTCTTTTACTTTGTT
*
12018303 TTTTT-TTCTACTTT
1 TTTTTCTTTTACTTT
12018317 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTACTTTGTT
Found at i:12028374 original size:182 final size:182
Alignment explanation
Indices: 12028067--12028432 Score: 732
Period size: 182 Copynumber: 2.0 Consensus size: 182
12028057 TCATGATATT
12028067 TTATATAACTTGTGACTATTCTTCCTATGCTTTTGCTCTAACAGGCTTTCAGTTATCCTTTTGAA
1 TTATATAACTTGTGACTATTCTTCCTATGCTTTTGCTCTAACAGGCTTTCAGTTATCCTTTTGAA
12028132 GGACCTAAAGGCTTCCATTTTTGTTTTCCTTTAATCCAGCGTCCATATTCTATTCATCAATGTAT
66 GGACCTAAAGGCTTCCATTTTTGTTTTCCTTTAATCCAGCGTCCATATTCTATTCATCAATGTAT
12028197 GTTCTCATTTTTTTCTTCTTGATTTTTAGAGGGTGAAGTTGATTGTGGATTA
131 GTTCTCATTTTTTTCTTCTTGATTTTTAGAGGGTGAAGTTGATTGTGGATTA
12028249 TTATATAACTTGTGACTATTCTTCCTATGCTTTTGCTCTAACAGGCTTTCAGTTATCCTTTTGAA
1 TTATATAACTTGTGACTATTCTTCCTATGCTTTTGCTCTAACAGGCTTTCAGTTATCCTTTTGAA
12028314 GGACCTAAAGGCTTCCATTTTTGTTTTCCTTTAATCCAGCGTCCATATTCTATTCATCAATGTAT
66 GGACCTAAAGGCTTCCATTTTTGTTTTCCTTTAATCCAGCGTCCATATTCTATTCATCAATGTAT
12028379 GTTCTCATTTTTTTCTTCTTGATTTTTAGAGGGTGAAGTTGATTGTGGATTA
131 GTTCTCATTTTTTTCTTCTTGATTTTTAGAGGGTGAAGTTGATTGTGGATTA
12028431 TT
1 TT
12028433 TTTTTTGTGT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 184 1.00
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (182 bp):
TTATATAACTTGTGACTATTCTTCCTATGCTTTTGCTCTAACAGGCTTTCAGTTATCCTTTTGAA
GGACCTAAAGGCTTCCATTTTTGTTTTCCTTTAATCCAGCGTCCATATTCTATTCATCAATGTAT
GTTCTCATTTTTTTCTTCTTGATTTTTAGAGGGTGAAGTTGATTGTGGATTA
Found at i:12040062 original size:5 final size:5
Alignment explanation
Indices: 12040052--12040085 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
12040042 CAATTTATAA
12040052 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
12040086 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12040067 original size:11 final size:11
Alignment explanation
Indices: 12040051--12040085 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
12040041 CCAATTTATA
12040051 AAAAATAAAAT
1 AAAAATAAAAT
12040062 AAAAATAAAAT
1 AAAAATAAAAT
12040073 -AAAATAAAAT
1 AAAAATAAAAT
12040083 AAA
1 AAA
12040086 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:12040807 original size:38 final size:40
Alignment explanation
Indices: 12040745--12040829 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 40
12040735 CGTTTGAATG
*
12040745 AAAAACGCCGCTAAAGAACAAGCATTAGCGGCGCTT-TTA
1 AAAAACGCCGCTAAAGAACAAGCATTAGCAGCGCTTATTA
* * *
12040784 AAAAATGCCGCTAAAG-TCGAGCATTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGAACAAGCATTAGCAGCGCTTATTA
12040823 AAAAACG
1 AAAAACG
12040830 TCACTATAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 16 0.40
39 24 0.60
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACAAGCATTAGCAGCGCTTATTA
Found at i:12041336 original size:15 final size:14
Alignment explanation
Indices: 12041318--12041352 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
12041308 ATTATTTTAA
*
12041318 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
12041332 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
12041347 GGTTTA
1 GGTTTA
12041353 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:12041338 original size:22 final size:22
Alignment explanation
Indices: 12041279--12041357 Score: 54
Period size: 22 Copynumber: 3.6 Consensus size: 22
12041269 ATTTACAGTA
*
12041279 TATGG-TTAAGGGTTTAATGTT
1 TATGGATTAAGGGTTTAAGGTT
****
12041300 TAT-GAGTTATTATTTTAAGGTT
1 TATGGA-TTAAGGGTTTAAGGTT
* * *
12041322 TATGGATTATGGGTTTAGGGAT
1 TATGGATTAAGGGTTTAAGGTT
*
12041344 TATGGTTTAAGGGT
1 TATGGATTAAGGGT
12041358 GGTTTAAGGG
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 37 0.86
23 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
TATGGATTAAGGGTTTAAGGTT
Found at i:12041374 original size:25 final size:25
Alignment explanation
Indices: 12041333--12041380 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
12041323 ATGGATTATG
12041333 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
12041358 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
12041381 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:12041588 original size:14 final size:14
Alignment explanation
Indices: 12041571--12041609 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
12041561 ATCATTATAG
12041571 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
12041585 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
12041599 TTTAGAGTTTA
1 TTTAGGGTTTA
12041610 AAGTGTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:12041651 original size:15 final size:15
Alignment explanation
Indices: 12041633--12041680 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
12041623 ATTATTTTAA
12041633 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
12041648 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
12041662 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
12041677 GGTT
1 GGTT
12041681 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:12041653 original size:22 final size:21
Alignment explanation
Indices: 12041628--12041677 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
12041618 GAGTTATTAT
*
12041628 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
12041650 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
12041671 TTTAAGG
1 TTTAAGG
12041678 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:12041686 original size:14 final size:15
Alignment explanation
Indices: 12041669--12041709 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
12041659 TATGGTTTAT
12041669 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
12041683 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
12041698 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
12041710 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:12041700 original size:21 final size:21
Alignment explanation
Indices: 12041662--12041701 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12041652 TAGGGATTAT
* *
12041662 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
12041683 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
12041702 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:12048759 original size:10 final size:10
Alignment explanation
Indices: 12048744--12048768 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12048734 TTTTATGACC
12048744 TTTATAATAT
1 TTTATAATAT
12048754 TTTATAATAT
1 TTTATAATAT
12048764 TTTAT
1 TTTAT
12048769 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:12050130 original size:26 final size:26
Alignment explanation
Indices: 12050094--12050148 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
12050084 ACCCAAGACG
12050094 AATGCACTTAATCATGTTTTTTTATT
1 AATGCACTTAATCATGTTTTTTTATT
12050120 AATGCACTTAATCATGTTTTTTTATT
1 AATGCACTTAATCATGTTTTTTTATT
12050146 AAT
1 AAT
12050149 CGTTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (26 bp):
AATGCACTTAATCATGTTTTTTTATT
Found at i:12050484 original size:17 final size:17
Alignment explanation
Indices: 12050462--12050498 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12050452 CGAAATAATA
12050462 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
12050479 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
12050496 AAA
1 AAA
12050499 GAATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:12050509 original size:6 final size:6
Alignment explanation
Indices: 12050458--12050508 Score: 77
Period size: 6 Copynumber: 8.5 Consensus size: 6
12050448 GCTACGAAAT
*
12050458 AATAAA AATAAA AATAAA AAT-AA AATAAA AATAAA AATAAA GAATGAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA
12050506 AAT
1 AAT
12050509 GGGCCATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 5 0.12
6 32 0.76
7 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:12050831 original size:31 final size:33
Alignment explanation
Indices: 12050771--12050834 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
12050761 TTTCAAAAAA
*
12050771 AATTATTTTTTAAAAATATTATAAAAATAAACC
1 AATTATTTTTTAAAAATATTACAAAAATAAACC
* *
12050804 AATT-TTTTTTGAAAAT-TTACAAGAATAAACC
1 AATTATTTTTTAAAAATATTACAAAAATAAACC
12050835 TTAAAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 13 0.46
32 11 0.39
33 4 0.14
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (33 bp):
AATTATTTTTTAAAAATATTACAAAAATAAACC
Found at i:12051486 original size:18 final size:19
Alignment explanation
Indices: 12051455--12051493 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
12051445 TGATATATCT
12051455 TTTTTAAATATTTACT-TA
1 TTTTTAAATATTTACTATA
12051473 TTTTT-AATATTTTACTATA
1 TTTTTAAATA-TTTACTATA
12051492 TT
1 TT
12051494 CATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAAATATTTACTATA
Found at i:12052702 original size:62 final size:62
Alignment explanation
Indices: 12052632--12052756 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
12052622 ACATGAAAAT
12052632 ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
1 ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
*
12052694 ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
1 ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
12052756 A
1 A
12052757 AACATTTATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (62 bp):
ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
Found at i:12053041 original size:10 final size:10
Alignment explanation
Indices: 12053020--12053062 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
12053010 ATACTAATCC
*
12053020 ATACATACAT
1 ATACATATAT
*
12053030 ATACATTTAT
1 ATACATATAT
*
12053040 ATATATATAT
1 ATACATATAT
*
12053050 ATAGATATAT
1 ATACATATAT
12053060 ATA
1 ATA
12053063 TGATGGGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:12053525 original size:26 final size:26
Alignment explanation
Indices: 12053496--12053549 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
12053486 GAGTCAGAGT
12053496 AGCATAGACTTGTAATACTTGGATTC
1 AGCATAGACTTGTAATACTTGGATTC
*
12053522 AGCATAGACTTGTATTACTTGGATTC
1 AGCATAGACTTGTAATACTTGGATTC
12053548 AG
1 AG
12053550 ATGTGTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (26 bp):
AGCATAGACTTGTAATACTTGGATTC
Found at i:12058564 original size:20 final size:20
Alignment explanation
Indices: 12058539--12058578 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
12058529 AGCAGCACAG
12058539 ATGCAATGAAAGATCCATCA
1 ATGCAATGAAAGATCCATCA
12058559 ATGCAATGAAAGATCCATCA
1 ATGCAATGAAAGATCCATCA
12058579 GCTTGATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
ATGCAATGAAAGATCCATCA
Found at i:12061880 original size:116 final size:115
Alignment explanation
Indices: 12061677--12061896 Score: 323
Period size: 116 Copynumber: 1.9 Consensus size: 115
12061667 CACATTAATC
* *
12061677 AGTTTAGCTTTTAAAATATTGTAGAGGTGGGCCTCACGTACCAGGAGGCCCATTACTGAATATAT
1 AGTTTAGCTTTTAAAATATTGTAGAGGTGGGCCTCACGTACCAAGAGGCCCATTACAGAATATAT
* *
12061742 CACAATCTGACTTGTAAATAACATTTACTAGTAAGATGACCAAATTGTTA
66 CACAATCTGACCTGTAAATAACATCTACTAGTAAGATGACCAAATTGTTA
* * * *
12061792 AGTTTAGTTTTTAATATATTGTAGAGGTGGGGCCTCACGTATCAAGAGGCCCATTGCAGAATATA
1 AGTTTAGCTTTTAAAATATTGTAGAGGT-GGGCCTCACGTACCAAGAGGCCCATTACAGAATATA
* * * *
12061857 TTACAATTTGGCCTGTGAATAACATCTACTAGTAAGATGA
65 TCACAATCTGACCTGTAAATAACATCTACTAGTAAGATGA
12061897 TCTAACAATT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
115 26 0.28
116 66 0.72
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (115 bp):
AGTTTAGCTTTTAAAATATTGTAGAGGTGGGCCTCACGTACCAAGAGGCCCATTACAGAATATAT
CACAATCTGACCTGTAAATAACATCTACTAGTAAGATGACCAAATTGTTA
Found at i:12064629 original size:17 final size:16
Alignment explanation
Indices: 12064598--12064635 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12064588 TAATTTCCCT
*
12064598 TTTCTTTTTCTTTTTC
1 TTTCTATTTCTTTTTC
12064614 TTTCTATTTCTCTTTTC
1 TTTCTATTTCT-TTTTC
12064631 TTTCT
1 TTTCT
12064636 CTCTTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTATTTCTTTTTC
Found at i:12064638 original size:13 final size:12
Alignment explanation
Indices: 12064596--12064642 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 12
12064586 CCTAATTTCC
12064596 CTTTTCT-TTTT
1 CTTTTCTCTTTT
12064607 CTTTT-TC-TTT
1 CTTTTCTCTTTT
12064617 CTATTTCTCTTTT
1 CT-TTTCTCTTTT
12064630 CTTTCTCTCTTTT
1 CTTT-TCTCTTTT
12064643 TTGTTTCAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.19
11 8 0.26
12 4 0.13
13 13 0.42
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTCTCTTTT
Found at i:12064663 original size:32 final size:31
Alignment explanation
Indices: 12064623--12064682 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
12064613 CTTTCTATTT
*
12064623 CTCTTTTCTTTCT-CTCTTTTTTGTTTCAGCC
1 CTCTTTTCTTTCTGAT-TTTTTTGTTTCAGCC
*
12064654 CTCTATTTCTTTTTGATTTTTTTGTTTCA
1 CTCT-TTTCTTTCTGATTTTTTTGTTTCA
12064683 TTTATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 4 0.16
32 20 0.80
33 1 0.04
ACGTcount: A:0.07, C:0.22, G:0.07, T:0.65
Consensus pattern (31 bp):
CTCTTTTCTTTCTGATTTTTTTGTTTCAGCC
Found at i:12065732 original size:20 final size:19
Alignment explanation
Indices: 12065694--12065741 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
12065684 TAAATTCTAA
*
12065694 AAAGATAAATACAATTAATT
1 AAAGATAAATACAAATAA-T
12065714 AAAGATAAATA-AAGATAAT
1 AAAGATAAATACAA-ATAAT
*
12065733 AAAAATAAA
1 AAAGATAAA
12065742 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (19 bp):
AAAGATAAATACAAATAAT
Found at i:12065766 original size:27 final size:26
Alignment explanation
Indices: 12065736--12065797 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
12065726 AGATAATAAA
12065736 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
12065763 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
12065790 AATAAAAT
1 AATAAAAT
12065798 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:12070476 original size:19 final size:19
Alignment explanation
Indices: 12070452--12070542 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
12070442 ATAATCTTCA
12070452 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
12070471 ATGATATGCAATCTTAAAT
1 ATGATATGCAATCTTAGAT
12070490 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12070507 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12070525 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
12070543 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:12070527 original size:35 final size:37
Alignment explanation
Indices: 12070452--12070549 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
12070442 ATAATCTTCA
12070452 ATGATATGCAATCTTAGATATGATATGCAATCTTAAAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAAAT
*
12070490 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAAAT
12070525 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
12070550 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 21 0.38
36 19 0.34
37 10 0.18
38 6 0.11
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAAAT
Found at i:12078430 original size:109 final size:109
Alignment explanation
Indices: 12078239--12078454 Score: 405
Period size: 109 Copynumber: 2.0 Consensus size: 109
12078229 GTGTTTACGC
* *
12078239 TGAAGCAGATCTAAGATGATTTGGTATGTCTGTACTGTCAGAGAACAAATCGAGGAATCTCCATA
1 TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAGGAATCTCCATA
*
12078304 TTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
66 TTCGACAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
12078348 TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAGGAATCTCCATA
1 TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAGGAATCTCCATA
12078413 TTCGACAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
66 TTCGACAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTC
12078455 GGATGTTTTC
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 104 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (109 bp):
TGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAGGAATCTCCATA
TTCGACAGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAT
Found at i:12078745 original size:78 final size:82
Alignment explanation
Indices: 12078646--12078833 Score: 258
Period size: 90 Copynumber: 2.2 Consensus size: 82
12078636 GACGGAGAGG
*
12078646 AGATCGAAGACATAGCAGATCTGACCTTC-A-T-T-GAAGCAGATCCAAGATGATTTGGCATCTC
1 AGATCGAAGACATAGCAGATCTAACCTTCGATTATCGAAGCAGATCCAAGATGATTTGGCATCTC
12078707 TGTATTAGACGATGAGT
66 TGTATTAGACGATGAGT
*
12078724 AGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTACATCGAAGTAGATCCAAGATGATTT
1 AGATCGAAGACATAGCAGATCTAACCTTC-GA-----TT--ATCGAAGCAGATCCAAGATGATTT
12078789 GGCATCTCTGTATTAGACGATGAGT
58 GGCATCTCTGTATTAGACGATGAGT
12078814 AGATCGAAGACATAGCAGAT
1 AGATCGAAGACATAGCAGAT
12078834 TTGGCTTTCA
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
78 28 0.29
80 1 0.01
86 1 0.01
89 1 0.01
90 65 0.68
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (82 bp):
AGATCGAAGACATAGCAGATCTAACCTTCGATTATCGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGATGAGT
Found at i:12078838 original size:47 final size:47
Alignment explanation
Indices: 12078694--12078838 Score: 119
Period size: 47 Copynumber: 3.2 Consensus size: 47
12078684 GATCCAAGAT
12078694 GATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
* ** * ** *
12078741 GATCTAACCT-TCGGATGT-TTTTAC-ATCGAAGTAGATCCAAG--AT----
1 GATTTGGCATCTC---TGTATTAGACGAT-G-AGTAGATCGAAGACATAGCA
12078784 GATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
12078831 GATTTGGC
1 GATTTGGC
12078839 TTTCACGTGT
Statistics
Matches: 70, Mismatches: 14, Indels: 28
0.62 0.12 0.25
Matches are distributed among these distances:
41 14 0.20
42 5 0.07
43 10 0.14
44 2 0.03
46 2 0.03
47 18 0.26
48 5 0.07
49 14 0.20
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (47 bp):
GATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
Found at i:12078850 original size:90 final size:88
Alignment explanation
Indices: 12078677--12078885 Score: 296
Period size: 90 Copynumber: 2.4 Consensus size: 88
12078667 TGACCTTCAT
12078677 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCAG
* *
12078742 ATCTAACCTTCGGATGTTTTTAC-A
66 ATCTAACCTTCCGATG--TTTACGC
*
12078766 TCGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
1 T-GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCA
* ** *
12078831 GATTTGGCTTTCACG-TGTTTACGC
65 GATCTAACCTTC-CGATGTTTACGC
*
12078855 TGAAGCAGATCTAAGATGATTTGGCATCTCT
1 TGAAGCAGATCCAAGATGATTTGGCATCTCT
12078886 ATACTGTCAA
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
88 33 0.31
89 2 0.02
90 72 0.67
91 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (88 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGATGAGTAGATCGAAGACATAGCAG
ATCTAACCTTCCGATGTTTACGC
Found at i:12078963 original size:299 final size:298
Alignment explanation
Indices: 12078422--12079051 Score: 1028
Period size: 299 Copynumber: 2.1 Consensus size: 298
12078412 ATTCGACAGA
12078422 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
* *
12078487 ATTTGGCATCCTTGCGTTAACAAGGAGTAGATCAAAGACATAGTAGATTTGGCTTTCACGTGTTT
66 ATTTGGCATCCTTGCATTAACAAGGAGTAGATCAAAGACATAGCAGATTTGGCTTTCACGTGTTT
* * *
12078552 ACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAG
131 ACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACTGTCAAAGAACAAATCGAAGAAACAA
* * *
12078617 ATTTGGCATATCCATATTCGACGGAGAGGAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
196 ATTTGGCATATCCATATTCGACAGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAG
*
12078682 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAT
261 CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAG
* * *
12078720 GAGTAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
* * * *
12078785 ATTTGGCAT-CTCTGTATTAGACGATGAGTAGATCGAAGACATAGCAGATTTGGCTTTCACGTGT
66 ATTTGGCATCCT-TGCATTA-ACAAGGAGTAGATCAAAGACATAGCAGATTTGGCTTTCACGTGT
12078849 TTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACTGTCAAAGAACAAATCGAAGAAAC
129 TTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACTGTCAAAGAACAAATCGAAGAAAC
* *
12078914 AAATTTGGCATCTCCATATTCGACAGAGTGCAGATCAAAGACATAGCAGATCTGACCTTCATTGA
194 AAATTTGGCATATCCATATTCGACAGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGA
*
12078979 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
259 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAG
* * * *
12079019 GAGCAGATCGAAAACACAGTAGATCTGACCTTC
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC
12079052 ATTGAAGCAG
Statistics
Matches: 306, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
297 2 0.01
298 76 0.25
299 228 0.75
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (298 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
ATTTGGCATCCTTGCATTAACAAGGAGTAGATCAAAGACATAGCAGATTTGGCTTTCACGTGTTT
ACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATACTGTCAAAGAACAAATCGAAGAAACAA
ATTTGGCATATCCATATTCGACAGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAG
CAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAG
Found at i:12079047 original size:78 final size:78
Alignment explanation
Indices: 12078916--12079209 Score: 394
Period size: 78 Copynumber: 3.8 Consensus size: 78
12078906 GAAGAAACAA
** * * * *
12078916 ATTTGGCATCTCCATATTCGACAGAGTGCAGATC-AAAGACATAGCAGATCTGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAA-ACATAGCAGATCTGACCTTCATTGAA
12078980 GCAGATCCAAGATG
65 GCAGATCCAAGATG
* *
12078994 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACACAGTAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATTGAAG
12079059 CAGATCCAAGATG
66 CAGATCCAAGATG
* * * * *
12079072 ATTTGGCATCTCTGAATTAGACGGGGAGCAGATCGAAGACATAACATAT-TGGACCTTCTTTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCAGATCT-GACCTTCATTGAA
* *
12079136 ACAAATCCAAGATG
65 GCAGATCCAAGATG
* * *
12079150 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCAT
12079210 GTGTTTACGT
Statistics
Matches: 190, Mismatches: 23, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
77 1 0.01
78 185 0.97
79 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:12079302 original size:45 final size:45
Alignment explanation
Indices: 12079149--12079422 Score: 257
Period size: 45 Copynumber: 6.1 Consensus size: 45
12079139 AATCCAAGAT
* * *
12079149 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
12079196 GATCTGACCT-TCATGTGTT-TACGTCGAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGTATTAGACG-GGGAGCAGATCGAAGATAACA
* *
12079241 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
12079286 GATTTGGCATCTCTGTATCAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
12079330 GATTTGACGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * * *
12079375 AATTTGGCGTCTCTGTATTAGACAGGGAGCAGACCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
12079420 GAT
1 GAT
12079423 ATTGCCTTCC
Statistics
Matches: 181, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
44 38 0.21
45 110 0.61
46 10 0.06
47 23 0.13
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:12079352 original size:89 final size:89
Alignment explanation
Indices: 12079239--12079407 Score: 257
Period size: 89 Copynumber: 1.9 Consensus size: 89
12079229 TCCAAGATGA
* * * *
12079239 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTAT
1 CAGATTTGACATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTAT
*
12079304 CAGACGGGGAGCAGATTGAAGAAG
66 CAGACAGGGAGCAGATTGAAGAAG
* * *
12079328 CAGATTTGACGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAT
1 CAGATTTGACATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTAT
*
12079393 TAGACAGGGAGCAGA
66 CAGACAGGGAGCAGA
12079408 CCAAAGATAG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (89 bp):
CAGATTTGACATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTAT
CAGACAGGGAGCAGATTGAAGAAG
Found at i:12079394 original size:134 final size:136
Alignment explanation
Indices: 12079149--12079405 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 136
12079139 AATCCAAGAT
* * *
12079149 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATCAGACGGGGAGCAGATTGAAGA-ATAGCAGATCTGACCTTCATGTGA
* * * *
12079214 TTACGTCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
65 TTACGACGAAGCAGATCCAAGATAACAAATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGA
12079279 GATAACA
130 GATAACA
* *
12079286 GATTTGGCATCTCTGTATCAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGACGTCTC-TGT-A
1 GATTTGGCATCTCTGTATCAGACGGGGAGCAGATTGAAGAATAGCAGATCTGACCT-TCATGTGA
* *
12079347 TTA-GACGAGGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACAGGGAGCA
65 TTACGACGA--AGCAGATCCAAGATAACAAATTTGGCATCTCTGTATTAGACAGGGAGCA
12079406 GACCAAAGAT
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
132 4 0.04
133 3 0.03
134 59 0.56
135 3 0.03
137 37 0.35
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATCAGACGGGGAGCAGATTGAAGAATAGCAGATCTGACCTTCATGTGAT
TACGACGAAGCAGATCCAAGATAACAAATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGGAG
ATAACA
Found at i:12079867 original size:17 final size:19
Alignment explanation
Indices: 12079770--12079860 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
12079760 ATAATCTTCA
12079770 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
12079789 ATGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
12079808 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12079825 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12079843 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
12079861 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:12079886 original size:22 final size:22
Alignment explanation
Indices: 12079770--12079883 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
12079760 ATAATCTTCA
12079770 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
12079789 ATGATATGCAAT-TT--TAGAT
1 ATGATATGCAATCTTAGAAGAT
12079808 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
12079825 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
12079843 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
12079865 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
12079884 GATTTAATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
17 13 0.15
18 20 0.24
19 31 0.37
22 8 0.10
23 12 0.14
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:12080175 original size:18 final size:19
Alignment explanation
Indices: 12080152--12080187 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12080142 TTTCCCTAAT
*
12080152 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
12080170 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
12080188 GTATTATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:12084791 original size:15 final size:16
Alignment explanation
Indices: 12084758--12084792 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12084748 TGAAGGAAAC
12084758 AAAATTGAAAAGATGG
1 AAAATTGAAAAGATGG
*
12084774 AAAATTGAAAGGAT-G
1 AAAATTGAAAAGATGG
12084789 AAAA
1 AAAA
12084793 CTAGAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (16 bp):
AAAATTGAAAAGATGG
Done.