Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 39 of 126
Found at i:11332355 original size:6 final size:6
Alignment explanation
Indices: 11332344--11332387 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
11332334 GTGTGTTGAA
* * *
11332344 TACTGT TACTGT TATTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
11332388 TAGGTACTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:11333469 original size:27 final size:27
Alignment explanation
Indices: 11333439--11333505 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
11333429 CCTATCAGGT
11333439 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
11333466 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
11333493 AGGCGCCAATGAA
1 AGGCGCCAATGAA
11333506 ATTTATGTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:11333741 original size:22 final size:26
Alignment explanation
Indices: 11333686--11333758 Score: 100
Period size: 22 Copynumber: 2.9 Consensus size: 26
11333676 ATATCCCGAC
11333686 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TATAAT
11333713 ATTACAATATTCATAC-AAA-A-AA-
1 ATTACAATATTCATACAAAATATAAT
*
11333735 ATTACAATATTCATACTAAATATA
1 ATTACAATATTCATACAAAATATA
11333759 GATAATCTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
22 16 0.37
23 5 0.12
24 2 0.05
25 1 0.02
26 3 0.07
27 16 0.37
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATATAAT
Found at i:11333829 original size:27 final size:27
Alignment explanation
Indices: 11333791--11333847 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
11333781 ATAACAAAAA
11333791 AATATTGCAATTTTATATGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
* * *
11333818 AATATTGTAATTTTGTGTGAATATTGT
1 AATATTGCAATTTTATATGAATATTGT
11333845 AAT
1 AAT
11333848 GTCGGGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (27 bp):
AATATTGCAATTTTATATGAATATTGT
Found at i:11334035 original size:19 final size:19
Alignment explanation
Indices: 11334011--11334051 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
11334001 ACAAACACAA
*
11334011 AAATTTATAACATAATCCT
1 AAATTTATAACATAACCCT
11334030 AAATTTATAACATAACCCT
1 AAATTTATAACATAACCCT
11334049 AAA
1 AAA
11334052 CCCGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (19 bp):
AAATTTATAACATAACCCT
Found at i:11334106 original size:27 final size:27
Alignment explanation
Indices: 11334068--11334142 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
11334058 AAAATCAGAG
11334068 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
11334095 CATTGGCGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
11334122 CATTGGCGCCTCCCAAATAGG
1 CATTGGCGCCTCCCAGATAGG
11334143 TGCCAATACT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.17
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:11344108 original size:26 final size:25
Alignment explanation
Indices: 11344066--11344138 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
11344056 GCATACTACA
* *
11344066 GCTC-TTATGAGCGTCCCGTTATATG
1 GCTCTTTATGAGCTTCCCGTTA-AAG
*
11344091 GCTTTTTATGAGCTTCCCGATTAAAG
1 GCTCTTTATGAGCTTCCCG-TTAAAG
* *
11344117 GCTCTTTGTGAGCTTCCTGTTA
1 GCTCTTTATGAGCTTCCCGTTA
11344139 GTGCTCACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 6 0.15
26 31 0.77
27 3 0.08
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (25 bp):
GCTCTTTATGAGCTTCCCGTTAAAG
Found at i:11344235 original size:25 final size:24
Alignment explanation
Indices: 11344176--11344237 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
11344166 GCTATCCGGT
11344176 GCTACCCGTTA-AGTGCTCTTCGAA
1 GCTACCCGTTATAG-GCTCTTCGAA
*
11344200 GCTACCCGTTATAGGCTCTTTGTAA
1 GCTACCCGTTATAGGCTCTTCG-AA
* *
11344225 GCTTCCTGTTATA
1 GCTACCCGTTATA
11344238 TTGCCTGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (24 bp):
GCTACCCGTTATAGGCTCTTCGAA
Found at i:11344292 original size:24 final size:24
Alignment explanation
Indices: 11344222--11344292 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
11344212 AGGCTCTTTG
* **
11344222 TAAGCTTCCTGTTATATTGCCTGGA
1 TAAGCTTCCTGTTATAGTG-CTTAA
*
11344247 TAAGCTTCCTGTTACAAG-GCTTAA
1 TAAGCTTCCTGTTA-TAGTGCTTAA
*
11344271 TGAGCTTCCTGTTATAGTGCTT
1 TAAGCTTCCTGTTATAGTGCTT
11344293 GAGAGAGAGC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.05
24 20 0.53
25 15 0.39
26 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (24 bp):
TAAGCTTCCTGTTATAGTGCTTAA
Found at i:11345430 original size:20 final size:20
Alignment explanation
Indices: 11345402--11345447 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11345392 AAAGGGACGA
*
11345402 AATGATTAATTTCTAATATT
1 AATGTTTAATTTCTAATATT
11345422 AATGTTTAATTTCTAATATT
1 AATGTTTAATTTCTAATATT
11345442 AATGTT
1 AATGTT
11345448 AAGTAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (20 bp):
AATGTTTAATTTCTAATATT
Found at i:11345863 original size:18 final size:17
Alignment explanation
Indices: 11345832--11345886 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
11345822 ACCCACAGAA
11345832 TATTTTTTAT-TTTTATTT
1 TATTTTTT-TGTTTT-TTT
11345850 TATTTTTTTG-TTTTTT
1 TATTTTTTTGTTTTTTT
* *
11345866 TGTTTTTTTGTACTTTTT
1 TATTTTTTTGT-TTTTTT
11345884 TAT
1 TAT
11345887 CACTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 12 0.39
17 4 0.13
18 15 0.48
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (17 bp):
TATTTTTTTGTTTTTTT
Found at i:11345871 original size:26 final size:26
Alignment explanation
Indices: 11345834--11345884 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11345824 CCACAGAATA
*
11345834 TTTTTTATTTTTATTT-TATTTTTTTG
1 TTTTTTATTTTT-TTTGTACTTTTTTG
11345860 TTTTTT-TGTTTTTTTGTACTTTTTT
1 TTTTTTAT-TTTTTTTGTACTTTTTT
11345885 ATCACTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.84
Consensus pattern (26 bp):
TTTTTTATTTTTTTTGTACTTTTTTG
Found at i:11345875 original size:8 final size:8
Alignment explanation
Indices: 11345847--11345876 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
11345837 TTTATTTTTA
*
11345847 TTTTATTT
1 TTTTGTTT
11345855 TTTTGTTT
1 TTTTGTTT
11345863 TTTTGTTT
1 TTTTGTTT
11345871 TTTTGT
1 TTTTGT
11345877 ACTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (8 bp):
TTTTGTTT
Found at i:11346512 original size:14 final size:11
Alignment explanation
Indices: 11346469--11346501 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11346459 AAACTCTTCT
*
11346469 AAAAGAAACTC
1 AAAAGAAATTC
11346480 AAAAGAAATTC
1 AAAAGAAATTC
11346491 AAAAGAAATTC
1 AAAAGAAATTC
11346502 TTAAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
AAAAGAAATTC
Found at i:11355022 original size:30 final size:30
Alignment explanation
Indices: 11354965--11355045 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
11354955 ACCTATTACC
* *
11354965 AAGTTTTCATTTAAGTAGTGAATTATTC-AA
1 AAGTTTT-ATTTAAGTATTGAACTATTCGAA
11354995 AAGTTTTATTTAAGTCATTGAACTATTCGAA
1 AAGTTTTATTTAAGT-ATTGAACTATTCGAA
***
11355026 TTTTTTTATTTAAGTTATTG
1 AAGTTTTATTTAAG-TATTG
11355046 GGCTGTTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 8 0.19
30 17 0.40
31 17 0.40
32 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (30 bp):
AAGTTTTATTTAAGTATTGAACTATTCGAA
Found at i:11357085 original size:17 final size:18
Alignment explanation
Indices: 11357046--11357085 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
11357036 CTTGAAAAAG
*
11357046 GATATGCAATCTTAGATAA
1 GATATACAATCTTAGA-AA
11357065 GATATACAATCTTAG-AA
1 GATATACAATCTTAGAAA
11357082 GATA
1 GATA
11357086 AGATTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
19 14 0.70
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (18 bp):
GATATACAATCTTAGAAA
Found at i:11357698 original size:278 final size:278
Alignment explanation
Indices: 11357201--11357759 Score: 1118
Period size: 278 Copynumber: 2.0 Consensus size: 278
11357191 AGGTCTCTCC
11357201 TTTCATTGTAAAACGCTGGGGGTTTGGAGCAATAATAATTCTTAAGAGCATTCACTCAAATTTCT
1 TTTCATTGTAAAACGCTGGGGGTTTGGAGCAATAATAATTCTTAAGAGCATTCACTCAAATTTCT
11357266 CCTTCTCTTGCGTTCTTATTTTTTGTGGCTTATTCTTATTTTGTTTTTCGTTCATCTTCGTTTCT
66 CCTTCTCTTGCGTTCTTATTTTTTGTGGCTTATTCTTATTTTGTTTTTCGTTCATCTTCGTTTCT
11357331 TTTTAAGTTGCTTTCATTTGAGTTGGATTTTGGTGGAGGAATTTCGTTGAATCTTCATATTGTGG
131 TTTTAAGTTGCTTTCATTTGAGTTGGATTTTGGTGGAGGAATTTCGTTGAATCTTCATATTGTGG
11357396 GAGTAAGGCTGACTTAAGCGTTTTTTTAACCTTTTTTATTTATCTATTTAATTGTTTAATCATTA
196 GAGTAAGGCTGACTTAAGCGTTTTTTTAACCTTTTTTATTTATCTATTTAATTGTTTAATCATTA
11357461 ATTATTCTTTTACTTTTA
261 ATTATTCTTTTACTTTTA
11357479 TTTCATTGTAAAACGCTGGGGGTTTGGAGCAATAATAATTCTTAAGAGCATTCACTCAAATTTCT
1 TTTCATTGTAAAACGCTGGGGGTTTGGAGCAATAATAATTCTTAAGAGCATTCACTCAAATTTCT
11357544 CCTTCTCTTGCGTTCTTATTTTTTGTGGCTTATTCTTATTTTGTTTTTCGTTCATCTTCGTTTCT
66 CCTTCTCTTGCGTTCTTATTTTTTGTGGCTTATTCTTATTTTGTTTTTCGTTCATCTTCGTTTCT
11357609 TTTTAAGTTGCTTTCATTTGAGTTGGATTTTGGTGGAGGAATTTCGTTGAATCTTCATATTGTGG
131 TTTTAAGTTGCTTTCATTTGAGTTGGATTTTGGTGGAGGAATTTCGTTGAATCTTCATATTGTGG
11357674 GAGTAAGGCTGACTTAAGCGTTTTTTTAACCTTTTTTATTTATCTATTTAATTGTTTAATCATTA
196 GAGTAAGGCTGACTTAAGCGTTTTTTTAACCTTTTTTATTTATCTATTTAATTGTTTAATCATTA
11357739 ATTATTCTTTTACTTTTA
261 ATTATTCTTTTACTTTTA
11357757 TTT
1 TTT
11357760 GTTTATTTAT
Statistics
Matches: 281, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 281 1.00
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.50
Consensus pattern (278 bp):
TTTCATTGTAAAACGCTGGGGGTTTGGAGCAATAATAATTCTTAAGAGCATTCACTCAAATTTCT
CCTTCTCTTGCGTTCTTATTTTTTGTGGCTTATTCTTATTTTGTTTTTCGTTCATCTTCGTTTCT
TTTTAAGTTGCTTTCATTTGAGTTGGATTTTGGTGGAGGAATTTCGTTGAATCTTCATATTGTGG
GAGTAAGGCTGACTTAAGCGTTTTTTTAACCTTTTTTATTTATCTATTTAATTGTTTAATCATTA
ATTATTCTTTTACTTTTA
Found at i:11358221 original size:24 final size:24
Alignment explanation
Indices: 11358192--11358441 Score: 148
Period size: 24 Copynumber: 10.7 Consensus size: 24
11358182 GTGTATTGTA
*
11358192 TATTATTATTTTAGATTTATCATG
1 TATTATTATTTTAAATTTATCATG
* *
11358216 TTTTATTATTTGT-AATTTATCA-A
1 TATTATTATTT-TAAATTTATCATG
*
11358239 TATTATTATTTTAAATTCAT--TG
1 TATTATTATTTTAAATTTATCATG
**
11358261 TTAACATTATTTTAAATTTATCATG
1 -TATTATTATTTTAAATTTATCATG
*
11358286 TA-TATCTATTTCAAATTTATCAT-
1 TATTAT-TATTTTAAATTTATCATG
* * *
11358309 TAATA-T-TTTTAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
* ** *
11358331 TACTATTATTTTGGATTTATCACG
1 TATTATTATTTTAAATTTATCATG
* *
11358355 TATGATTATTCTAGAA-TTATCAT-
1 TATTATTATTTTA-AATTTATCATG
* * *
11358378 CA-AAAT-TTTTAAATTTTAT-ATG
1 TATTATTATTTTAAA-TTTATCATG
* * *
11358400 TATTATTATTTCAAATTTATTATA
1 TATTATTATTTTAAATTTATCATG
*
11358424 TATTATTTATTGTAAATT
1 TATTA-TTATTTTAAATT
11358442 ATCCAATTCA
Statistics
Matches: 171, Mismatches: 36, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
20 2 0.01
21 19 0.11
22 13 0.08
23 46 0.27
24 77 0.45
25 14 0.08
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTATTATTTTAAATTTATCATG
Found at i:11358418 original size:69 final size:69
Alignment explanation
Indices: 11358266--11358419 Score: 172
Period size: 69 Copynumber: 2.2 Consensus size: 69
11358256 CATTGTTAAC
* * *
11358266 ATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATCATTAATATTTTTAAATTTATTATA
1 ATTATTTTAAATTTATCACGTATATCTATTTCAAATTTATCATCAAAATTTTTAAATTTATTATA
11358331 TACT
66 TACT
**
11358335 ATTATTTTGGATTTATCACGTATGAT-TA-TTCTAGAA-TTATCATCAAAATTTTTAAATTT-TA
1 ATTATTTTAAATTTATCACGTAT-ATCTATTTC-A-AATTTATCATCAAAATTTTTAAATTTAT-
* *
11358396 TATGTATT
62 TATATACT
*
11358404 ATTATTTCAAATTTAT
1 ATTATTTTAAATTTAT
11358420 TATATATTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
68 4 0.06
69 63 0.89
70 4 0.06
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (69 bp):
ATTATTTTAAATTTATCACGTATATCTATTTCAAATTTATCATCAAAATTTTTAAATTTATTATA
TACT
Found at i:11358516 original size:23 final size:23
Alignment explanation
Indices: 11358490--11358534 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11358480 AATTGTACAT
*
11358490 TCATATATATTATTTGTTTTAAC
1 TCATATATATTATTTATTTTAAC
*
11358513 TCATATATATTGTTTATTTTAA
1 TCATATATATTATTTATTTTAA
11358535 AATTTTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
TCATATATATTATTTATTTTAAC
Found at i:11363205 original size:24 final size:24
Alignment explanation
Indices: 11363178--11363223 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11363168 TTTTTATAAT
11363178 TTTTTAAATTT-TTTTAAATTTTCC
1 TTTTT-AATTTATTTTAAATTTTCC
* *
11363202 TTTTTTATTTATTTTAATTTTT
1 TTTTTAATTTATTTTAAATTTT
11363224 GAGGATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTAATTTATTTTAAATTTTCC
Found at i:11368979 original size:31 final size:31
Alignment explanation
Indices: 11368942--11369005 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
11368932 TAAAATGGTT
11368942 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
* * *
11368973 ATTGAACTATTCGAATGTTTTTATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
11369004 AT
1 AT
11369006 CGGATCAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTC
Found at i:11369533 original size:28 final size:27
Alignment explanation
Indices: 11369501--11369554 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11369491 CACTCATTCA
* *
11369501 TATTTAATATATATTTTCTAATCCAATC
1 TATTTAACATAT-TTCTCTAATCCAATC
*
11369529 TATTTAACATATTTCTCTAATTCAAT
1 TATTTAACATATTTCTCTAATCCAAT
11369555 TTAATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (27 bp):
TATTTAACATATTTCTCTAATCCAATC
Found at i:11390269 original size:2 final size:2
Alignment explanation
Indices: 11390262--11390286 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11390252 AGCCTAACTT
11390262 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 T
11390287 TTCTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11397369 original size:19 final size:20
Alignment explanation
Indices: 11397344--11397402 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
11397334 TTCCATATTT
11397344 TATTTTTATAATATTTTATAA
1 TATTTTTATAATATTTTA-AA
*
11397365 T-TTTTT-TAATAGTTATAAA
1 TATTTTTATAATA-TTTTAAA
*
11397384 TATTTTTATAATTTTTTAA
1 TATTTTTATAATATTTTAA
11397403 GTTTTTTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 8 0.25
20 19 0.59
21 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTTTATAATATTTTAAA
Found at i:11397399 original size:9 final size:9
Alignment explanation
Indices: 11397285--11397408 Score: 55
Period size: 9 Copynumber: 13.7 Consensus size: 9
11397275 CTAAATGCAC
*
11397285 ATTTTTATT
1 ATTTTTATA
11397294 A-TTTTATTA
1 ATTTTTA-TA
*
11397303 TTTTTTATA
1 ATTTTTATA
11397312 A-TTTT-TA
1 ATTTTTATA
*
11397319 ATTTTTTTGA
1 ATTTTTAT-A
*
11397329 ATTTTT-TCC
1 ATTTTTAT-A
*
11397338 ATATTT-T-
1 ATTTTTATA
11397345 ATTTTTATA
1 ATTTTTATA
11397354 ATATTTTATA
1 AT-TTTTATA
*
11397364 ATTTTTTTA
1 ATTTTTATA
* *
11397373 ATAGTTATAAA
1 AT--TTTTATA
11397384 TATTTTTATA
1 -ATTTTTATA
11397394 ATTTTT-TA
1 ATTTTTATA
11397402 AGTTTTT
1 A-TTTTT
11397409 TCTTTTAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
7 8 0.09
8 17 0.19
9 33 0.37
10 26 0.29
11 4 0.04
12 2 0.02
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:11397399 original size:10 final size:10
Alignment explanation
Indices: 11397295--11397401 Score: 55
Period size: 10 Copynumber: 10.5 Consensus size: 10
11397285 ATTTTTATTA
*
11397295 TTTTATTATT
1 TTTTATAATT
11397305 TTTTATAA--
1 TTTTATAATT
11397313 TTTT-TAATT
1 TTTTATAATT
11397322 TTTT-TGAATT
1 TTTTAT-AATT
*
11397332 TTTTCCATATTTTAT
1 TTTT--ATA--AT-T
*
11397347 TTTTATAATA
1 TTTTATAATT
11397357 TTTTATAATT
1 TTTTATAATT
11397367 TTTT-TAA-T
1 TTTTATAATT
**
11397375 AGTTATAAATAT
1 TTTTAT-AAT-T
11397387 TTTTATAATT
1 TTTTATAATT
11397397 TTTTA
1 TTTTA
11397402 AGTTTTTTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 26
0.68 0.08 0.24
Matches are distributed among these distances:
7 3 0.04
8 7 0.09
9 9 0.12
10 36 0.48
11 4 0.05
12 6 0.08
13 4 0.05
14 1 0.01
15 5 0.07
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:11397408 original size:19 final size:19
Alignment explanation
Indices: 11397346--11397409 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
11397336 CCATATTTTA
11397346 TTTTTATAATATTTTATAAT
1 TTTTTATAATATTTT-TAAT
* *
11397366 TTTTT-TAATAGTTATAAAT
1 TTTTTATAATA-TTTTTAAT
11397385 ATTTTTATAAT-TTTTTAAGT
1 -TTTTTATAATATTTTTAA-T
11397405 TTTTT
1 TTTTT
11397410 CTTTTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 18 0.50
20 14 0.39
21 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTATAATATTTTTAAT
Found at i:11401655 original size:12 final size:12
Alignment explanation
Indices: 11401640--11401667 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11401630 GTTTTTTTTA
11401640 TTTTTTTATAAT
1 TTTTTTTATAAT
11401652 TTTTTTTATAAT
1 TTTTTTTATAAT
11401664 TTTT
1 TTTT
11401668 AGTTTTTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTATAAT
Found at i:11401666 original size:21 final size:21
Alignment explanation
Indices: 11401620--11401668 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
11401610 TTAAATGCAC
*
11401620 ATTTTTATTAGTTTTTTTTAT
1 ATTTTTATTAATTTTTTTTAT
*
11401641 TTTTTTA-TAATTTTTTTTAT
1 ATTTTTATTAATTTTTTTTAT
11401661 AATTTTTA
1 -ATTTTTA
11401669 GTTTTTCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTTATTAATTTTTTTTAT
Found at i:11404340 original size:46 final size:46
Alignment explanation
Indices: 11404262--11404400 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
11404252 CATGGCAAAA
* * * *
11404262 TGTGAAAAGCATGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
11404308 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
11404354 TGTGAAAAGTAGGTATGGTATTTCCGTGAATAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
11404400 T
1 T
11404401 ATAGCATTGT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:11406968 original size:42 final size:42
Alignment explanation
Indices: 11406839--11406983 Score: 132
Period size: 42 Copynumber: 3.5 Consensus size: 42
11406829 AGTTAACTCA
* * * *
11406839 TATGAGTTTTAGTTTAACCC-TATTGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCAGTTCAACCCTTA-TGGGTTTCTGTTTAGCTCT
* * * * *
11406881 TTTGAGCTTCAGTTTAATCCTTATGGGTTT-TCGTTAAGCTTT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCT-GTTTAGCTCT
* *
11406923 TATGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCTGTTTAGCTCT
* * *
11406965 TATGTGCTTCTGTGCAACC
1 TATGAGCTTCAGTTCAACC
11406984 TTCGGGCTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 80 0.96
43 3 0.04
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCAGTTCAACCCTTATGGGTTTCTGTTTAGCTCT
Found at i:11409642 original size:7 final size:7
Alignment explanation
Indices: 11409632--11409664 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
11409622 TAAATTTTTT
11409632 ATATAAA
1 ATATAAA
11409639 ATATAAA
1 ATATAAA
11409646 ATATAAA
1 ATATAAA
11409653 ATATAAA
1 ATATAAA
11409660 ATATA
1 ATATA
11409665 TTATTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:11412194 original size:26 final size:26
Alignment explanation
Indices: 11412150--11412201 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
11412140 AATTATAAAG
*
11412150 AATATAATTTAAACTTAAATTTCATA
1 AATAAAATTTAAACTTAAATTTCATA
11412176 AATAAAATTATAAAC-TAAATTTCATA
1 AATAAAATT-TAAACTTAAATTTCATA
11412202 TATATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATTTAAACTTAAATTTCATA
Found at i:11412215 original size:27 final size:26
Alignment explanation
Indices: 11412159--11412221 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
11412149 GAATATAATT
*
11412159 TAAACTTAAATTTCATAAATAAAATTA
1 TAAAC-TAAATTTCATAAATAAAATAA
* *
11412186 TAAACTAAATTTCATATATATATATAA
1 TAAACTAAATTTCATAAATA-AAATAA
11412213 TAAAACTAA
1 T-AAACTAA
11412222 GCCTACACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.45
27 10 0.32
28 7 0.23
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (26 bp):
TAAACTAAATTTCATAAATAAAATAA
Found at i:11422494 original size:17 final size:17
Alignment explanation
Indices: 11422472--11422506 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11422462 AAGAAAGTGG
*
11422472 AGTGTAAAATCTAAAGC
1 AGTGTAAAATATAAAGC
11422489 AGTGTAAAATATAAAGC
1 AGTGTAAAATATAAAGC
11422506 A
1 A
11422507 CATAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (17 bp):
AGTGTAAAATATAAAGC
Found at i:11429376 original size:16 final size:16
Alignment explanation
Indices: 11429357--11429387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11429347 TTTGAATTTA
*
11429357 TAATTATTTTATTTTC
1 TAATTACTTTATTTTC
11429373 TAATTACTTTATTTT
1 TAATTACTTTATTTT
11429388 ATTTAAGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTACTTTATTTTC
Found at i:11430938 original size:19 final size:20
Alignment explanation
Indices: 11430914--11430951 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
11430904 AATTTCCGAC
11430914 TTTTTTGATTAATT-TATTA
1 TTTTTTGATTAATTCTATTA
11430933 TTTTTTGATTAATTCTATT
1 TTTTTTGATTAATTCTATT
11430952 TGAATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTTGATTAATTCTATTA
Found at i:11437851 original size:18 final size:18
Alignment explanation
Indices: 11437828--11437872 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
11437818 TAATTGATTG
11437828 AGTTGACATTACAAGTTA
1 AGTTGACATTACAAGTTA
11437846 AGTTGACATTACAAGTTA
1 AGTTGACATTACAAGTTA
*
11437864 ACTTGACAT
1 AGTTGACAT
11437873 CGACTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (18 bp):
AGTTGACATTACAAGTTA
Found at i:11445420 original size:11 final size:11
Alignment explanation
Indices: 11445404--11445434 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11445394 AAGTATGGGT
11445404 AGGTATGGGAA
1 AGGTATGGGAA
*
11445415 AGGTATGGGCA
1 AGGTATGGGAA
11445426 AGGTATGGG
1 AGGTATGGG
11445435 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:11462969 original size:21 final size:20
Alignment explanation
Indices: 11462943--11462990 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
11462933 ATAGAAGTTG
11462943 TGAATGAC-GGGAAATTGACA
1 TGAATGACAGGG-AATTGACA
11462963 TTGAATGACAGGGAATTGACA
1 -TGAATGACAGGGAATTGACA
11462984 TGAATGA
1 TGAATGA
11462991 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.27
21 16 0.62
22 3 0.12
ACGTcount: A:0.40, C:0.08, G:0.29, T:0.23
Consensus pattern (20 bp):
TGAATGACAGGGAATTGACA
Found at i:11468697 original size:8 final size:8
Alignment explanation
Indices: 11468684--11468718 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
11468674 ATTATGTATG
11468684 TATATGTA
1 TATATGTA
11468692 TATATGTA
1 TATATGTA
11468700 TATATGTA
1 TATATGTA
11468708 TATATGTA
1 TATATGTA
11468716 TAT
1 TAT
11468719 GAGAGGTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (8 bp):
TATATGTA
Found at i:11469110 original size:41 final size:41
Alignment explanation
Indices: 11469046--11469178 Score: 178
Period size: 41 Copynumber: 3.2 Consensus size: 41
11469036 TCAGATTTAT
* * *
11469046 TGCCAGTGAAATAATTCAAACTTTATGTCTAGCAGGCTTGA
1 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGCTTGA
*
11469087 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAAGCTTGA
1 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGCTTGA
* * * *
11469128 TGCCGGTGAAATGTTTCGGACTTTACGTCTAGCAGGC-TAA
1 TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGCTTGA
11469168 GTGCCGGTGAA
1 -TGCCGGTGAA
11469179 TTTGTTTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 2 0.02
41 80 0.98
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
TGCCGGTGAAATATTTCAGACTTTATGTCTAGCAGGCTTGA
Found at i:11470929 original size:21 final size:21
Alignment explanation
Indices: 11470873--11471060 Score: 99
Period size: 21 Copynumber: 9.0 Consensus size: 21
11470863 GTCCGAAGGC
* * *
11470873 TGAACAGAAGCACATAAGTGC
1 TGAACAGAAGCTCATAAGAGT
* * ** *
11470894 TAAATAGAAATTCATAAGGGT
1 TGAACAGAAGCTCATAAGAGT
* *
11470915 TGAACGGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGT
* * * *
11470936 TGAACAAAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGT
* * * *
11470957 TAAATAGAAGCTCAAAAGAGC
1 TGAACAGAAGCTCATAAGAGT
* * * *
11470978 TGAACAGAAACCCATCAGGGT
1 TGAACAGAAGCTCATAAGAGT
* *
11470999 TAAACAGAAGCTCA-ATAGAGC
1 TGAACAGAAGCTCATA-AGAGT
* * *
11471020 TGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGT
* *
11471041 TAAACAGAAGCTCGTAAGAG
1 TGAACAGAAGCTCATAAGAG
11471061 CTAAACGAAA
Statistics
Matches: 113, Mismatches: 52, Indels: 4
0.67 0.31 0.02
Matches are distributed among these distances:
21 112 0.99
22 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGT
Found at i:11470952 original size:42 final size:42
Alignment explanation
Indices: 11470906--11471071 Score: 190
Period size: 42 Copynumber: 4.0 Consensus size: 42
11470896 AATAGAAATT
* *
11470906 CATAAGGGTTGAACGGAAGCTCATAAGAGCTGAACAAAAACC
1 CATAAGGGTTAAACAGAAGCTCATAAGAGCTGAACAAAAACC
* * *
11470948 CATAAGGGTTAAATAGAAGCTCAAAAGAGCTGAACAGAAACC
1 CATAAGGGTTAAACAGAAGCTCATAAGAGCTGAACAAAAACC
* ** *
11470990 CATCAGGGTTAAACAGAAGCTCA-ATAGAGCTGAACGGAAACT
1 CATAAGGGTTAAACAGAAGCTCATA-AGAGCTGAACAAAAACC
* * * * *
11471032 CATATGAGTTAAACAGAAGCTCGTAAGAGCTAAACGAAAA
1 CATAAGGGTTAAACAGAAGCTCATAAGAGCTGAACAAAAA
11471072 GTAAACACGA
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.98
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
CATAAGGGTTAAACAGAAGCTCATAAGAGCTGAACAAAAACC
Found at i:11480390 original size:14 final size:13
Alignment explanation
Indices: 11480361--11480394 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
11480351 AACAATCACC
11480361 ATATTTTTTTTAA
1 ATATTTTTTTTAA
*
11480374 ATATTTATTTTTTA
1 ATATTT-TTTTTAA
11480388 ATATTTT
1 ATATTTT
11480395 ACTATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATATTTTTTTTAA
Found at i:11482846 original size:12 final size:12
Alignment explanation
Indices: 11482829--11482859 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11482819 GCCCTTTTAC
*
11482829 AGAAAAATGAAA
1 AGAAAAACGAAA
11482841 AGAAAAACGAAA
1 AGAAAAACGAAA
11482853 AGAAAAA
1 AGAAAAA
11482860 ATAAAATCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (12 bp):
AGAAAAACGAAA
Found at i:11483348 original size:87 final size:87
Alignment explanation
Indices: 11483200--11483438 Score: 307
Period size: 87 Copynumber: 2.7 Consensus size: 87
11483190 GGTAATATTT
* * * * **
11483200 GTGGCTTAAATATGTTTCCCTATTCTTGGGGAAGACAAGGTTCGCCGTCTAGGATCTGCTCCACT
1 GTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
*
11483265 ATTGCTTAGGGAGATAGAACCA
66 ATTGCTTAGAGAGATAGAACCA
* * *
11483287 GTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAGATGAGATTCGCCGTCTTTGATCCGCTCCACT
1 GTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
* **
11483352 ATTGCTTAGAGAGATAGGATTA
66 ATTGCTTAGAGAGATAGAACCA
* * ** * *
11483374 ATGGCTTAAATCTGTTTCCCTACTCCTATGGAAGATAAGATTTGCTGTCTTCGATCTGCTCCACT
1 GTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
11483439 GTTAATGCTG
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 131 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (87 bp):
GTGGCTTAAATCTGTTTCCCTACTCTTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
ATTGCTTAGAGAGATAGAACCA
Found at i:11486851 original size:38 final size:37
Alignment explanation
Indices: 11486767--11486861 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
11486757 TATGTGTACT
*
11486767 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
11486805 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
11486841 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
11486862 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:11498154 original size:12 final size:12
Alignment explanation
Indices: 11498137--11498167 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11498127 GCCCTTTTAC
*
11498137 AGAAAAATGAAA
1 AGAAAAACGAAA
11498149 AGAAAAACGAAA
1 AGAAAAACGAAA
11498161 AGAAAAA
1 AGAAAAA
11498168 ATAAAATCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (12 bp):
AGAAAAACGAAA
Found at i:11498897 original size:87 final size:87
Alignment explanation
Indices: 11498749--11498987 Score: 307
Period size: 87 Copynumber: 2.7 Consensus size: 87
11498739 GGTAGTATTT
* * * **
11498749 GTGGCTTAAATCTGTTTCCCTATTCTTGGGGAAGATAAGGTTCGCCGTCTAGGATCTGCTCCACT
1 GTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
11498814 ATTGCTTAAGGAGATAGAACCA
66 ATTGCTTAAGGAGATAGAACCA
* * * * * *
11498836 GTGGCTTAAATCTATTTCCCTACTCCTAGGAAAGATGAGATTCGCCATCTTCGATCCGCTCCACT
1 GTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
* * **
11498901 ATTGCTTAGGGAGATAGGATTA
66 ATTGCTTAAGGAGATAGAACCA
* * * *
11498923 ATGGCTTATATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGCTGTCTTCGATCTGCTCCACT
1 GTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
11498988 GTTAACGTAG
Statistics
Matches: 127, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 127 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (87 bp):
GTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
ATTGCTTAAGGAGATAGAACCA
Found at i:11501799 original size:3 final size:3
Alignment explanation
Indices: 11501791--11501840 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11501781 GTAACGTCAA
11501791 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11501839 AA
1 AA
11501841 AAGATTCTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11504235 original size:20 final size:20
Alignment explanation
Indices: 11504212--11504256 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11504202 TGTTTTTATA
** *
11504212 TTTTTTAATGATTTTTAATT
1 TTTTTTAAAAATTTATAATT
11504232 TTTTTTAAAAATTTATAATT
1 TTTTTTAAAAATTTATAATT
11504252 TTTTT
1 TTTTT
11504257 GAAATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTTAAAAATTTATAATT
Found at i:11504246 original size:18 final size:18
Alignment explanation
Indices: 11504225--11504269 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11504215 TTTAATGATT
*
11504225 TTTAATTTTTTTTAAAAA
1 TTTAAATTTTTTTAAAAA
* *
11504243 TTTATAATTTTTTTGAAAT
1 TTTA-AATTTTTTTAAAAA
11504262 TTTAAATT
1 TTTAAATT
11504270 AAATGTTGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTAAATTTTTTTAAAAA
Found at i:11506455 original size:22 final size:22
Alignment explanation
Indices: 11506434--11506506 Score: 89
Period size: 22 Copynumber: 3.3 Consensus size: 22
11506424 TAATCCTCTT
11506434 TCAAATTTCCTCTCAATTTCT-
1 TCAAATTTCCTCTCAATTTCTC
11506455 TCTAAATTTCCTCTCAATTTGCTC
1 TC-AAATTTCCTCTCAATTT-CTC
11506479 TCAAA-TTCCT-TCAAAATTTCTC
1 TCAAATTTCCTCTC--AATTTCTC
11506501 TCAAAT
1 TCAAAT
11506507 CCATATTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.09
22 30 0.65
23 10 0.22
24 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.44
Consensus pattern (22 bp):
TCAAATTTCCTCTCAATTTCTC
Found at i:11506480 original size:33 final size:33
Alignment explanation
Indices: 11506437--11506504 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
11506427 TCCTCTTTCA
* *
11506437 AATTTCCTCTC-AATTTCTTCTAAATTTCCTCTC
1 AATTTCCTCTCAAATTCCTTCAAAATTT-CTCTC
*
11506470 AATTTGCTCTCAAATTCCTTCAAAATTTCTCTC
1 AATTTCCTCTCAAATTCCTTCAAAATTTCTCTC
11506503 AA
1 AA
11506505 ATCCATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.26, C:0.28, G:0.01, T:0.44
Consensus pattern (33 bp):
AATTTCCTCTCAAATTCCTTCAAAATTTCTCTC
Found at i:11506506 original size:11 final size:12
Alignment explanation
Indices: 11506434--11506506 Score: 77
Period size: 11 Copynumber: 6.5 Consensus size: 12
11506424 TAATCCTCTT
11506434 TCAAATTTCCTC
1 TCAAATTTCCTC
*
11506446 TC-AATTTCTTC
1 TCAAATTTCCTC
11506457 T-AAATTTCCTC
1 TCAAATTTCCTC
*
11506468 TC-AATTTGCTC
1 TCAAATTTCCTC
11506479 TCAAA-TTCCT-
1 TCAAATTTCCTC
11506489 TCAAAATTT-CTC
1 TC-AAATTTCCTC
11506501 TCAAAT
1 TCAAAT
11506507 CCATATTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.04
11 41 0.80
12 8 0.16
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.44
Consensus pattern (12 bp):
TCAAATTTCCTC
Found at i:11506539 original size:51 final size:51
Alignment explanation
Indices: 11506468--11506565 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
11506458 AAATTTCCTC
*
11506468 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATAT
1 TCAATTTGCTCCCAAATTCCTCT-AAAATTTCTCTCAAATCCATATTTATAT
* * * * *
11506519 TCAATTTGCTCCCAAGTTCCTCTTAAATTTCTTTTAAATCCCTATTT
1 TCAATTTGCTCCCAAATTCCTCTAAAATTTCTCTCAAATCCATATTT
11506566 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.45
Consensus pattern (51 bp):
TCAATTTGCTCCCAAATTCCTCTAAAATTTCTCTCAAATCCATATTTATAT
Found at i:11508578 original size:127 final size:125
Alignment explanation
Indices: 11508155--11508722 Score: 728
Period size: 125 Copynumber: 4.5 Consensus size: 125
11508145 CCTAAACATG
* * * *
11508155 CTACTGTAGTAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGAATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * * *
11508220 TAGAAGCG-ATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * ** *
11508279 TTACTGTAGCAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATGTTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTA
* * * * *
11508343 CTTGCAGAGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTT-TAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * *
11508404 CTACTGTAGCAAAAGCACGTTCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
*
11508469 TTGAAGCGTTTTTTTAAACTATTTTCTCAAAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TTGAAGCG-TTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* * *
11508531 CAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAACTTCTTCTCATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * *
11508596 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * * * * *
11508656 CTACTGTAGCAAAAGCGCGTACATGTGGGCGCGACTTCAAAAATTCTTCTGACAAATCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
11508721 TT
66 TT
11508723 TGATTTTATC
Statistics
Matches: 385, Mismatches: 52, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 59 0.15
125 167 0.43
126 86 0.22
127 71 0.18
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:11508670 original size:252 final size:249
Alignment explanation
Indices: 11508155--11508722 Score: 771
Period size: 252 Copynumber: 2.3 Consensus size: 249
11508145 CCTAAACATG
* * * * * *
11508155 CTACTGTAGTAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGAATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * * **
11508220 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCTAGGACTTACTG
66 TTGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTG
* ** * *
11508285 TAGCAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATGTTGCTTGCAG
131 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTTGAAG
* * *
11508350 AGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTAGGAC
196 AGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCAAGAC
* * *
11508404 CTACTGTAGCAAAAGCACGTTCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
* *
11508469 TTGAAGCGTTTTTTTAAACTATTTTCTCAAAAACGTCAACTCAAAATTATTTCTTCCAGGACCAA
66 TTGAAGCG--ATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGACCAA
*
11508534 CTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAACTTCTTCTCATAA-AGCATCCTACTT
128 CTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTACTT
* * *
11508598 GAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGAC
192 GAAGAGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTT-CAAGAC
* * * * *
11508656 CTACTGTAGCAAAAGCGCGTACATGTGGGCGCGACTTCAAAAATTCTTCTGACAAATCATCCTAC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
11508721 TT
66 TT
11508723 TGATTTTATC
Statistics
Matches: 279, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
249 64 0.23
251 78 0.28
252 135 0.48
253 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
TTGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTG
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTTGAAG
AGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCAAGAC
Found at i:11511102 original size:22 final size:22
Alignment explanation
Indices: 11511081--11511153 Score: 89
Period size: 22 Copynumber: 3.3 Consensus size: 22
11511071 TAATCCTCTT
11511081 TCAAATTTCCTCTCAATTTCT-
1 TCAAATTTCCTCTCAATTTCTC
11511102 TCTAAATTTCCTCTCAATTTGCTC
1 TC-AAATTTCCTCTCAATTT-CTC
11511126 TCAAA-TTCCT-TCAAAATTTCTC
1 TCAAATTTCCTCTC--AATTTCTC
11511148 TCAAAT
1 TCAAAT
11511154 CCATATTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.09
22 30 0.65
23 10 0.22
24 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.44
Consensus pattern (22 bp):
TCAAATTTCCTCTCAATTTCTC
Found at i:11511127 original size:33 final size:33
Alignment explanation
Indices: 11511084--11511151 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
11511074 TCCTCTTTCA
* *
11511084 AATTTCCTCTC-AATTTCTTCTAAATTTCCTCTC
1 AATTTCCTCTCAAATTCCTTCAAAATTT-CTCTC
*
11511117 AATTTGCTCTCAAATTCCTTCAAAATTTCTCTC
1 AATTTCCTCTCAAATTCCTTCAAAATTTCTCTC
11511150 AA
1 AA
11511152 ATCCATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.26, C:0.28, G:0.01, T:0.44
Consensus pattern (33 bp):
AATTTCCTCTCAAATTCCTTCAAAATTTCTCTC
Found at i:11511153 original size:11 final size:12
Alignment explanation
Indices: 11511081--11511153 Score: 77
Period size: 11 Copynumber: 6.5 Consensus size: 12
11511071 TAATCCTCTT
11511081 TCAAATTTCCTC
1 TCAAATTTCCTC
*
11511093 TC-AATTTCTTC
1 TCAAATTTCCTC
11511104 T-AAATTTCCTC
1 TCAAATTTCCTC
*
11511115 TC-AATTTGCTC
1 TCAAATTTCCTC
11511126 TCAAA-TTCCT-
1 TCAAATTTCCTC
11511136 TCAAAATTT-CTC
1 TC-AAATTTCCTC
11511148 TCAAAT
1 TCAAAT
11511154 CCATATTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.04
11 41 0.80
12 8 0.16
ACGTcount: A:0.27, C:0.27, G:0.01, T:0.44
Consensus pattern (12 bp):
TCAAATTTCCTC
Found at i:11511186 original size:51 final size:51
Alignment explanation
Indices: 11511115--11511212 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
11511105 AAATTTCCTC
*
11511115 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATAT
1 TCAATTTGCTCCCAAATTCCTCT-AAAATTTCTCTCAAATCCATATTTATAT
* * * * *
11511166 TCAATTTGCTCCCAAGTTCCTCTTAAATTTCTTTTAAATCCCTATTT
1 TCAATTTGCTCCCAAATTCCTCTAAAATTTCTCTCAAATCCATATTT
11511213 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.45
Consensus pattern (51 bp):
TCAATTTGCTCCCAAATTCCTCTAAAATTTCTCTCAAATCCATATTTATAT
Found at i:11513225 original size:127 final size:125
Alignment explanation
Indices: 11512802--11513369 Score: 728
Period size: 125 Copynumber: 4.5 Consensus size: 125
11512792 CCTAAACATG
* * * *
11512802 CTACTGTAGTAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGAATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * * *
11512867 TAGAAGCG-ATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCTAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * ** *
11512926 TTACTGTAGCAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATGTTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTA
* * * * *
11512990 CTTGCAGAGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTT-TAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * *
11513051 CTACTGTAGCAAAAGCACGTTCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
*
11513116 TTGAAGCGTTTTTTTAAACTATTTTCTCAAAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TTGAAGCG-TTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* * *
11513178 CAACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAACTTCTTCTCATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * *
11513243 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
* * * * * * *
11513303 CTACTGTAGCAAAAGCGCGTACATGTGGGCGCGACTTCAAAAATTCTTCTGACAAATCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
11513368 TT
66 TT
11513370 TGATTTTATC
Statistics
Matches: 385, Mismatches: 52, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
123 2 0.01
124 59 0.15
125 167 0.43
126 86 0.22
127 71 0.18
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTAC
TTGAAGCGTTTTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:11513317 original size:252 final size:249
Alignment explanation
Indices: 11512802--11513369 Score: 771
Period size: 252 Copynumber: 2.3 Consensus size: 249
11512792 CCTAAACATG
* * * * * *
11512802 CTACTGTAGTAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGAATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
* * * * **
11512867 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTCTAGGACTTACTG
66 TTGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTG
* ** * *
11512932 TAGCAAAAGCGCGTCTACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATGTTGCTTGCAG
131 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTTGAAG
* * *
11512997 AGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTAGGAC
196 AGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCAAGAC
* * *
11513051 CTACTGTAGCAAAAGCACGTTCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
* *
11513116 TTGAAGCGTTTTTTTAAACTATTTTCTCAAAAACGTCAACTCAAAATTATTTCTTCCAGGACCAA
66 TTGAAGCG--ATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTT-TTCCAGGACCAA
*
11513181 CTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAACTTCTTCTCATAA-AGCATCCTACTT
128 CTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTACTT
* * *
11513245 GAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGAC
192 GAAGAGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTT-CAAGAC
* * * * *
11513303 CTACTGTAGCAAAAGCGCGTACATGTGGGCGCGACTTCAAAAATTCTTCTGACAAATCATCCTAC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
11513368 TT
66 TT
11513370 TGATTTTATC
Statistics
Matches: 279, Mismatches: 35, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
249 64 0.23
251 78 0.28
252 135 0.48
253 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTAC
TTGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCAAAATTATTTTTCCAGGACCAACTG
TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTTGAAG
AGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCAAGAC
Found at i:11523226 original size:19 final size:19
Alignment explanation
Indices: 11523202--11523252 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
11523192 GAGGTTGGAT
*
11523202 TTATATGATTATATATT-TA
1 TTATAT-ATTATAAATTATA
11523221 TTATATATTATAAATTATA
1 TTATATATTATAAATTATA
*
11523240 TTATATTTTATAA
1 TTATATATTATAA
11523253 TAATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATATATTATAAATTATA
Found at i:11523523 original size:22 final size:24
Alignment explanation
Indices: 11523484--11523534 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
11523474 TAGTAGAACT
* *
11523484 GAAATTAAATTATAATTTT-TTGA
1 GAAATAAAAATATAATTTTATTGA
11523507 GAAATAAAAATAT-ATTTTATTGA
1 GAAATAAAAATATAATTTTATTGA
*
11523530 TAAAT
1 GAAAT
11523535 TCACAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (24 bp):
GAAATAAAAATATAATTTTATTGA
Found at i:11524886 original size:25 final size:24
Alignment explanation
Indices: 11524850--11524899 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
11524840 ATTTAATACA
*
11524850 TTAAAAAATATAGTAAATATATTT
1 TTAAAAAATATAGTAAATAAATTT
11524874 TTAAAAAACTATAGTAAATAAATTT
1 TTAAAAAA-TATAGTAAATAAATTT
11524899 T
1 T
11524900 AAATATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAAAAAATATAGTAAATAAATTT
Found at i:11524900 original size:24 final size:24
Alignment explanation
Indices: 11524850--11524902 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
11524840 ATTTAATACA
*
11524850 TTAAAAAATATAGTAAATATATTT
1 TTAAAAAATATAGTAAATATAATT
11524874 TTAAAAAACTATAGTAAATA-AATT
1 TTAAAAAA-TATAGTAAATATAATT
11524898 TTAAA
1 TTAAA
11524903 TATATTCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
TTAAAAAATATAGTAAATATAATT
Found at i:11529192 original size:24 final size:24
Alignment explanation
Indices: 11529160--11529209 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11529150 AAAAGAGAAA
11529160 ATGAAGTGAATAATGTGAATGCCT
1 ATGAAGTGAATAATGTGAATGCCT
11529184 ATGAAGTGAATAATGTGAATGCCT
1 ATGAAGTGAATAATGTGAATGCCT
11529208 AT
1 AT
11529210 AGTAAGTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (24 bp):
ATGAAGTGAATAATGTGAATGCCT
Found at i:11536718 original size:43 final size:42
Alignment explanation
Indices: 11536655--11536780 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 42
11536645 AGGACTCCGA
11536655 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
* *
11536699 T-TGTGTTTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* * *
11536741 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACG-TGGCAT
11536781 TGTACTAGCT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.04
43 64 0.90
44 4 0.06
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (42 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:11537136 original size:47 final size:47
Alignment explanation
Indices: 11537063--11537504 Score: 649
Period size: 47 Copynumber: 9.5 Consensus size: 47
11537053 GAGTAAATGA
** *
11537063 ATGTATATGCTGTCAAAATTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * *
11537110 ATGTATATGCTGTCAATTTTTTATGTAT-AAGGCAATCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* *
11537156 ATGTATATGCTGTCAATTTTTTACGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
11537203 ATGTATATGCTGTCAATTTTTGATGTAT-AAGGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * *
11537249 TTGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAAATATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
11537296 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * * **
11537343 ATGTATATGCTGTCAAATATTGATGTACAAATGCAGTCCAAAGATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
*
11537390 ATGTATATGCTGTCAATTTTTTATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
11537437 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT-T-T
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
* * *
11537482 GTATATATGCTGTCCAAATTTTG
1 ATGTATATGCTGT-CAATTTTTG
11537505 GTGTGAAAAT
Statistics
Matches: 358, Mismatches: 34, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
45 12 0.03
46 95 0.27
47 251 0.70
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (47 bp):
ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATAT
Found at i:11537188 original size:93 final size:94
Alignment explanation
Indices: 11537063--11537504 Score: 649
Period size: 93 Copynumber: 4.7 Consensus size: 94
11537053 GAGTAAATGA
** *
11537063 ATGTATATGCTGTCAAAATTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* *
11537128 TTTTATGTAT-AAGGCAATCCAATTATAT
66 TTTGATGTATAAAGGCAGTCCAATTATAT
* *
11537156 ATGTATATGCTGTCAATTTTTTACGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
11537221 TTTGATGTAT-AAGGCAGTCCAATTATAT
66 TTTGATGTATAAAGGCAGTCCAATTATAT
* * * *
11537249 TTGTATATGCTGTCAATTTTTGACGTATAAATGCAGTCCAAATATATATGTATATGCTGTCAAAT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
*
11537314 TTTGATGTATAAATGCAGTCCAATTATAT
66 TTTGATGTATAAAGGCAGTCCAATTATAT
* * * **
11537343 ATGTATATGCTGTCAAATATTGATGTACAAATGCAGTCCAAAGATATATGTATATGCTGTCAATT
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
* *
11537408 TTTTATGTATAAATGCAGTCCAATTATAT
66 TTTGATGTATAAAGGCAGTCCAATTATAT
* * *
11537437 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATT-T-TGTATATATGCTGTCCAAA
1 ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGT-CAAT
11537500 TTTTG
65 TTTTG
11537505 GTGTGAAAAT
Statistics
Matches: 318, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
92 12 0.04
93 165 0.52
94 141 0.44
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (94 bp):
ATGTATATGCTGTCAATTTTTGATGTATAAATGCAGTCCAATTATATATGTATATGCTGTCAATT
TTTGATGTATAAAGGCAGTCCAATTATAT
Found at i:11537486 original size:21 final size:22
Alignment explanation
Indices: 11537460--11537504 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
11537450 CAATTTTTGA
11537460 TGTATAAATGCAGTCC-AATTT
1 TGTATAAATGCAGTCCAAATTT
* *
11537481 TGTATATATGCTGTCCAAATTT
1 TGTATAAATGCAGTCCAAATTT
11537503 TG
1 TG
11537505 GTGTGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (22 bp):
TGTATAAATGCAGTCCAAATTT
Found at i:11539078 original size:44 final size:43
Alignment explanation
Indices: 11539013--11539778 Score: 410
Period size: 44 Copynumber: 17.7 Consensus size: 43
11539003 TCTCAGATCT
*
11539013 TATCTCCCT-AAGGTTGCAGTGGAGCAGATTGAAACCAATAATCC
1 TATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAATC-ATAATCC
* * * *
11539057 TATCTCCCTGAAGTTGTAGTGGAAC-GAATTGCAATCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTGAAATCATA-ATCC
* * * * * * *
11539101 TATCTCTCTGAAGTTGTAGTAGAGTAGATCG-CATC-TAGT-C
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCATAATCC
* ** ** *
11539141 TCATATCCCTGAAGCCGCAGTGGAGCAGACAGAAGTTACA-AATCC
1 T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT-CATAATCC
* * * *
11539186 TATCTCCCTGAAGTTGTAGTGGAGCGGATT-ACAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AATCATA-ATCC
* * * * *
11539230 TATCTCTCTGAAGTTGCAGTAGAGCAGATCG-CATC-TAGT-C
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCATAATCC
** *
11539270 TCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA-AATCC
1 T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT-CATAATCC
* * * *
11539315 TATCTCCCTGAAGTTGTAGTGGAGCGGATT-ACAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AATCATA-ATCC
* ** * * *
11539359 TATCTCTCTGAAGTTGCAGCAGAGCAGATCG-CATC-TAGT-C
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCATAATCC
* * ** *
11539399 TCATCTCCCTGAAGTTACAGTAGAGCAGACAGAAGTTACA-AATCC
1 T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT-CATAATCC
* * * *
11539444 TATCTCCCTGAAGTTGCAGTGGAGCGGATT-ACAACCATGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AATCAT-AATCC
* ** *
11539488 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA-AATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT-CATAATCC
* * * *
11539532 TATCTCCCTGAAGTTGTAGTGGAGCGGATT-ACAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AATCATA-ATCC
* * * * * *
11539576 TATCTCTCTGAAGTTGCAGTAGAGCAAATCG-CATC-TAGT-C
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCATAATCC
* * *
11539616 TCATCTCCCTAAAGTTGCAGTGGAGCAGATAGAAGTTACA-AATCC
1 T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT-CATAATCC
* * * * *
11539661 TATCTCCCTAAAGTTGCAGTGGAGCGGATT-ACAACCATGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AATCAT-AATCC
* * **
11539705 TATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGTTGTAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCAT-AATCC
* *
11539749 TATCTCCCTGAAGTTGTAGTGGAGCGGATT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT
11539779 AAAACCACAA
Statistics
Matches: 534, Mismatches: 138, Indels: 100
0.69 0.18 0.13
Matches are distributed among these distances:
40 4 0.01
41 101 0.19
42 18 0.03
43 25 0.05
44 371 0.69
45 13 0.02
46 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATCATAATCC
Found at i:11539251 original size:129 final size:129
Alignment explanation
Indices: 11539052--11539515 Score: 793
Period size: 129 Copynumber: 3.6 Consensus size: 129
11539042 TGAAACCAAT
* * * *
11539052 AATCCTATCTCCCTGAAGTTGTAGTGGAACGAATTGCAATCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
* * * **
11539117 TAGTAGAGTAGATCGCATCTAGTCTCATATCCCTGAAGCCGCAGTGGAGCAGACAGAAGTTACA
66 CAGTAGAGCAGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA
11539181 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
11539246 CAGTAGAGCAGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA
66 CAGTAGAGCAGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA
11539310 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
* * *
11539375 CAGCAGAGCAGATCGCATCTAGTCTCATCTCCCTGAAGTTACAGTAGAGCAGACAGAAGTTACA
66 CAGTAGAGCAGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA
* *
11539439 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTACAACCATGGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
*
11539504 CAGTGGAGCAGA
66 CAGTAGAGCAGA
11539516 CAGAAGTTAC
Statistics
Matches: 319, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 319 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCTAGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACA
Found at i:11539384 original size:88 final size:88
Alignment explanation
Indices: 11539146--11539870 Score: 392
Period size: 88 Copynumber: 8.3 Consensus size: 88
11539136 TAGTCTCATA
** * ** *
11539146 TCCCTGAAGCCGCAGTGGAGCAGA-CAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAA-CCACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
* * ** * * *
11539210 CGGATTACAACCATAGATCTTATC
65 CAGATTAGAATTACAAATCCTATC
* * * * * *
11539234 TCTCTGAAGTTGCAGTAGAGCAGATCGC-A--TCTAGT-CTCATCTCCCTGAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAACCACAAATCCT-ATCTCCCTGAAGTTGCAGTGGAG
*
11539295 CAGA-CAGAAGTTACAAATCCTATC
65 CAGATTAGAA-TTACAAATCCTATC
* * * * * * * **
11539319 TCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGC
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAACCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGC
* * * *
11539384 AGA-TCGCA-T-CTAGT-CTCATC
66 AGATTAGAATTACAAATCCT-ATC
* * * **
11539404 TCCCTGAAGTTACAGTAGAGCAGA-CAGAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAA-CCACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
* * ** *** *
11539468 CGGATTACAACCATGGATCTTATC
65 CAGATTAGAATTACAAATCCTATC
* * ** *
11539492 TCTCTGAAGTTGCAGTGGAGCAGA-CAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAA-CCACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
* * ** * * *
11539556 CGGATTACAACCATAGATCTTATC
65 CAGATTAGAATTACAAATCCTATC
* * * * * * * *
11539580 TCTCTGAAGTTGCAGTAGAGCAAATCGC-A--TCTAGT-CTCATCTCCCTAAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAACCACAAATCCT-ATCTCCCTGAAGTTGCAGTGGAG
11539641 CAGA-TAGAAGTTACAAATCCTATC
65 CAGATTAGAA-TTACAAATCCTATC
* * * *** *
11539665 TCCCTAAAGTTGCAGTGGAGCGGATTACAACCATGGATCTTATCTCCCTGAAGTTGCAGTGGAGC
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAACCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGC
**
11539730 AGA-TAGAAGTTGTAAATCCTATC
66 AGATTAGAA-TTACAAATCCTATC
* * * * * * * **
11539753 TCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAAATCCTATAC-CTCTGAAGTTGTAGTAGTT
1 TCCCTGAAGTTGCAGTGGAGCAGATCACAACCACAAATCCTAT-CTCCCTGAAGTTGCAGTGGAG
*
11539817 CAGATTA-AATTTACCATGACAAGTCTTATC
65 CAGATTAGAA-TTA-C---A-AA-TCCTATC
11539847 TCCCTGAAGTTGCAGTGGAGCAGA
1 TCCCTGAAGTTGCAGTGGAGCAGA
11539871 CTAAAACTAC
Statistics
Matches: 492, Mismatches: 117, Indels: 50
0.75 0.18 0.08
Matches are distributed among these distances:
84 16 0.03
85 171 0.35
86 5 0.01
88 261 0.53
89 8 0.02
92 1 0.00
93 2 0.00
94 28 0.06
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (88 bp):
TCCCTGAAGTTGCAGTGGAGCAGATCACAACCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGC
AGATTAGAATTACAAATCCTATC
Found at i:11539527 original size:217 final size:217
Alignment explanation
Indices: 11539272--11539808 Score: 923
Period size: 217 Copynumber: 2.5 Consensus size: 217
11539262 ATCTAGTCTC
11539272 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
*
11539337 AGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCTAGTCTCA
66 AGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAAATCGCATCTAGTCTCA
* *
11539402 TCTCCCTGAAGTTACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGGA
131 TCTCCCTAAAGTTACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGGA
11539467 GCGGATTACAACCATGGATCTT
196 GCGGATTACAACCATGGATCTT
*
11539489 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
*
11539554 AGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCTAGTCTCA
66 AGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAAATCGCATCTAGTCTCA
* * *
11539619 TCTCCCTAAAGTTGCAGTGGAGCAGATAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGGA
131 TCTCCCTAAAGTTACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGGA
11539684 GCGGATTACAACCATGGATCTT
196 GCGGATTACAACCATGGATCTT
* **
11539706 ATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGTTGTAAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
* * * *
11539771 AGCGGATTAAAACCACAAATCCTATAC-CTCTGAAGTTG
66 AGCGGATTACAACCATAGATCTTAT-CTCTCTGAAGTTG
11539809 TAGTAGTTCA
Statistics
Matches: 303, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
217 302 1.00
218 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (217 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
AGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAAATCGCATCTAGTCTCA
TCTCCCTAAAGTTACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGGA
GCGGATTACAACCATGGATCTT
Found at i:11539622 original size:129 final size:129
Alignment explanation
Indices: 11539489--11539730 Score: 412
Period size: 129 Copynumber: 1.9 Consensus size: 129
11539479 CATGGATCTT
* * * *
11539489 ATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGG
*
11539554 AGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCTAGTCTC
66 AGCGGATTACAACCATAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATCGCATCTAGTCTC
*
11539618 ATCTCCCTAAAGTTGCAGTGGAGCAGATAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGG
* *
11539683 AGCGGATTACAACCATGGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 AGCGGATTACAACCATAGATCTTATCTCCCTGAAGTTGCAGTAGAGCA
11539731 GATAGAAGTT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 105 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (129 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTAAAGTTGCAGTGG
AGCGGATTACAACCATAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATCGCATCTAGTCTC
Found at i:11539633 original size:258 final size:255
Alignment explanation
Indices: 11539013--11539645 Score: 794
Period size: 258 Copynumber: 2.5 Consensus size: 255
11539003 TCTCAGATCT
11539013 TATCTCCCT-AAGGTTGCAGTGGAGCAGATTGAAACCAATAATCCTATCTCCCTGAAGTTGTAGT
1 TATCTCCCTGAA-GTTGCAGTGGAGCAGATT-AAACC-ATAATCCTATCTCCCTGAAGTTGTAGT
* * *
11539077 GGAACGAATTGCAATCATAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATCTAGTCT
63 GGAGCGAATTGCAATCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCT
* * *
11539142 CATATCCCTGAAGCCGCAGTGGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGTAGTG
128 CATATCCCTGAAGCCACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTG
* * *
11539207 GAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTC
193 GAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGAATCAAATC
* *
11539270 TCATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGTTACA-AATCCTATCTCCCTGAAGTTGTA
1 T-ATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA---CCATAATCCTATCTCCCTGAAGTTGTA
* * * *
11539333 GTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGCAGAGCAGATCGCATCTAGT
61 GTGGAGCGAATTGCAATCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGT
* **
11539398 CTCATCTCCCTGAAGTTACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGCAG
126 CTCATATCCCTGAAGCCACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGCAG
* *
11539463 TGGAGCGGATTACAACCATGGATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-CAGAAGTTACA
191 TGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-GAA--T-CA
11539527 AATCC
252 AAT-C
* * * * * *
11539532 TATCTCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AACCATA-ATCCTATCTCCCTGAAGTTGTAGTG
* * * * * *
11539597 GAGCAAATCGC-ATC-TAG-TCTCATCTCCCTAAAGTTGCAGTGGAGCAGAT
64 GAGCGAATTGCAATCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
11539646 AGAAGTTACA
Statistics
Matches: 323, Mismatches: 39, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
256 1 0.00
257 4 0.01
258 244 0.76
259 8 0.02
260 5 0.02
261 56 0.17
262 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (255 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACCATAATCCTATCTCCCTGAAGTTGTAGTGGA
GCGAATTGCAATCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTCAT
ATCCCTGAAGCCACAGTAGAGCAGACAGAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
CGGATTACAACCATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGAATCAAATC
Found at i:11539791 original size:44 final size:43
Alignment explanation
Indices: 11539146--11539877 Score: 326
Period size: 44 Copynumber: 16.7 Consensus size: 43
11539136 TAGTCTCATA
** * ***
11539146 TCCCTGAAGCCGCAGTGGAGCAGACAGAAGTTACAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATA-AAACCACAAATCCTATC
* * * * * *
11539190 TCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAAATCCTATC
* * * *
11539234 TCTCTGAAGTTGCAGTAGAGCAGAT----CGCATCTAGT-CTCATC
1 TCCCTGAAGTTGCAGTGGAGCAGATAAAAC-CA-CAAATCCT-ATC
* ***
11539275 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATA-AAACCACAAATCCTATC
* * * * * *
11539319 TCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAAATCCTATC
* ** * *
11539363 TCTCTGAAGTTGCAGCAGAGCAGAT----CGCATCTAGT-CTCATC
1 TCCCTGAAGTTGCAGTGGAGCAGATAAAAC-CA-CAAATCCT-ATC
* * * ***
11539404 TCCCTGAAGTTACAGTAGAGCAGACAGAAGTTACAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATA-AAACCACAAATCCTATC
* * *** *
11539448 TCCCTGAAGTTGCAGTGGAGCGGATTACAACCATGGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAAATCCTATC
* * ***
11539492 TCTCTGAAGTTGCAGTGGAGCAGACAGAAGTTACAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATA-AAACCACAAATCCTATC
* * * * * *
11539536 TCCCTGAAGTTGTAGTGGAGCGGATTACAACCATAGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAAATCCTATC
* * * * *
11539580 TCTCTGAAGTTGCAGT--AG-AG-CAAATCGCATCTAGT-CTCATC
1 TCCCTGAAGTTGCAGTGGAGCAGATAAAAC-CA-CAAATCCT-ATC
* ***
11539621 TCCCTAAAGTTGCAGTGGAGCAGATAGAAGTTACAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATA-AAACCACAAATCCTATC
* * * *** *
11539665 TCCCTAAAGTTGCAGTGGAGCGGATTACAACCATGGATCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAAATCCTATC
*****
11539709 TCCCTGAAGTTGCAGTGGAGCAGATAGAAGTTGTAAATCCTATC
1 TCCCTGAAGTTGCAGTGGAGCAGATA-AAACCACAAATCCTATC
* *
11539753 TCCCTGAAGTTGTAGTGGAGCGGATTAAAACCACAAATCCTATAC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAACCACAAATCCTAT-C
* * * ** * *
11539798 -CTCTGAAGTTGTAGTAGTTCAGATTAAATTTACCATGACAAGTCTTATC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAA---ACC---ACAAATCCTATC
11539847 TCCCTGAAGTTGCAGTGGAGCAGACTAAAAC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TAAAAC
11539878 TACCAATCTC
Statistics
Matches: 497, Mismatches: 148, Indels: 83
0.68 0.20 0.11
Matches are distributed among these distances:
39 5 0.01
40 9 0.02
41 70 0.14
42 2 0.00
43 7 0.01
44 346 0.70
45 19 0.04
46 2 0.00
47 5 0.01
49 1 0.00
50 31 0.06
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (43 bp):
TCCCTGAAGTTGCAGTGGAGCAGATAAAACCACAAATCCTATC
Found at i:11542560 original size:4 final size:4
Alignment explanation
Indices: 11542551--11542575 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11542541 TTGTTGAGTT
11542551 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
11542576 AATTAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11545321 original size:21 final size:22
Alignment explanation
Indices: 11545262--11545321 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 22
11545252 ATCTTTAAAT
*
11545262 ATGTTACATATATATATTTATATC
1 ATGTTA-A-ATATATTTTTATATC
*
11545286 ATGTTAATTAT-TTTTTATAT-
1 ATGTTAAATATATTTTTATATC
* *
11545306 TTTTTAAATATATTTT
1 ATGTTAAATATATTTT
11545322 AAGAGGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 8 0.27
21 12 0.40
22 3 0.10
23 1 0.03
24 6 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (22 bp):
ATGTTAAATATATTTTTATATC
Found at i:11550254 original size:5 final size:5
Alignment explanation
Indices: 11550246--11550302 Score: 96
Period size: 5 Copynumber: 11.2 Consensus size: 5
11550236 TATTTTATTA
*
11550246 AATCT AATCT AATCT AATCT AATCT AATCT AATGT AATCT AATCT AATCTT
1 AATCT AATCT AATCT AATCT AATCT AATCT AATCT AATCT AATCT AATC-T
11550297 AATCT A
1 AATCT A
11550303 TTCCATATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 44 0.90
6 5 0.10
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (5 bp):
AATCT
Found at i:11553858 original size:20 final size:19
Alignment explanation
Indices: 11553826--11553866 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
11553816 ACAAGTTAAC
11553826 AAATAATTTAAAAAATTATA
1 AAATAATTTAAAAAATT-TA
11553846 AAAT-ATTTAAAAAAATTTA
1 AAATAATTT-AAAAAATTTA
11553865 AA
1 AA
11553867 TTTCTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATAATTTAAAAAATTTA
Found at i:11554197 original size:26 final size:28
Alignment explanation
Indices: 11554145--11554197 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
11554135 TTATCCTAAA
**
11554145 ATTAATAAATAAAAAAATCAGTTCCTCT
1 ATTAATAAATAAAAAAATCAGCACCTCT
*
11554173 ATTAA-AAATAAAAAATTCA-CACCTC
1 ATTAATAAATAAAAAAATCAGCACCTC
11554198 ATCCATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 4 0.18
27 13 0.59
28 5 0.23
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (28 bp):
ATTAATAAATAAAAAAATCAGCACCTCT
Found at i:11557010 original size:2 final size:2
Alignment explanation
Indices: 11557003--11557033 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11556993 AATATACACA
11557003 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 T
11557034 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11561968 original size:19 final size:18
Alignment explanation
Indices: 11561944--11561982 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11561934 AAATATATAT
11561944 AATTGTTTAAAAATTAAAA
1 AATTG-TTAAAAATTAAAA
* *
11561963 AATTGTTAGAATTTAAAA
1 AATTGTTAAAAATTAAAA
11561981 AA
1 AA
11561983 AAAATCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AATTGTTAAAAATTAAAA
Found at i:11562030 original size:13 final size:13
Alignment explanation
Indices: 11562008--11562059 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
11561998 ATTGTAAAAG
11562008 TTAT-TAAAAATT
1 TTATATAAAAATT
11562020 TTATATAAAAATT
1 TTATATAAAAATT
* *
11562033 GTATTTTAAAATATT
1 TTA-TATAAAA-ATT
11562048 TTA-ATAAAAATT
1 TTATATAAAAATT
11562060 GAATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 7 0.21
13 15 0.45
14 6 0.18
15 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
TTATATAAAAATT
Found at i:11563610 original size:30 final size:31
Alignment explanation
Indices: 11563575--11563642 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
11563565 CTTATCATCC
* *
11563575 CAGTGATTTAAAT-AAAACTTTTAAATAGTT
1 CAGTGATTTAAATGAAAACTTTCAAATAATT
11563605 CAGTGATTTAAATGAAAACTTTCAAATAATT
1 CAGTGATTTAAATGAAAACTTTCAAATAATT
*
11563636 CAATGAT
1 CAGTGAT
11563643 CATTTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 13 0.38
31 21 0.62
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (31 bp):
CAGTGATTTAAATGAAAACTTTCAAATAATT
Found at i:11567146 original size:21 final size:21
Alignment explanation
Indices: 11567120--11567160 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11567110 ATCTGCTCAA
* *
11567120 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11567141 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11567161 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11583076 original size:30 final size:30
Alignment explanation
Indices: 11583036--11583101 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
11583026 TTTAAGTTCG
* *
11583036 CCTTAATTTTCGTTTGAGAATATTCAACTT
1 CCTTATTTTTCGTTTCAGAATATTCAACTT
* *
11583066 CTTTATTTTTCGTTTCAGAATATTCAATTT
1 CCTTATTTTTCGTTTCAGAATATTCAACTT
11583096 CCTTAT
1 CCTTAT
11583102 CAAAAACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.17, G:0.08, T:0.52
Consensus pattern (30 bp):
CCTTATTTTTCGTTTCAGAATATTCAACTT
Found at i:11585701 original size:84 final size:83
Alignment explanation
Indices: 11585519--11586012 Score: 487
Period size: 84 Copynumber: 5.9 Consensus size: 83
11585509 ATGCAGTACT
* * * ** * * *
11585519 TGCAGACCAAACGAAACGTTCCCTGTATGATATGAAAA-CTGCATCAAAG-G-CTCCTCACCCAT
1 TGCAGACCAAACAAAAAGTTCTCAATATGATA-CAAAACCTGCACCAAAGCGACTCCTCACCCGT
* **
11585581 CGAATACCGCCAGTACCAA
65 CGAATACCACCAGCGCCAA
* * * * *
11585600 TGCAGGCCTATCGAAAAGTTCTCAATATGATACAAAACCTGCACCAAAGCAGACTCCTCGCCCGT
1 TGCAGACCAAACAAAAAGTTCTCAATATGATACAAAACCTGCACCAAAGC-GACTCCTCACCCGT
**
11585665 TTAATACCACCAGCGCCAA
65 CGAATACCACCAGCGCCAA
* * * *
11585684 TGCTGACCGAACAAAAAGTTCTCAGTATGATACAAAACCTGCACCAAAGCCGACTCCTCGCCCGT
1 TGCAGACCAAACAAAAAGTTCTCAATATGATACAAAACCTGCACCAAAG-CGACTCCTCACCCGT
11585749 CGAATACCACCAGCGCCAA
65 CGAATACCACCAGCGCCAA
* *
11585768 TGCAGACCAAACAAAAAGTTCTCAATATGGTACAAAACCTGCAGCAAAGTCGACTCCTC-CCCTG
1 TGCAGACCAAACAAAAAGTTCTCAATATGATACAAAACCTGCACCAAAG-CGACTCCTCACCC-G
*
11585832 TCGAATACCGCCAGCGCCAA
64 TCGAATACCACCAGCGCCAA
* * * * * *
11585852 TGCAGACCAAACAAAAAGTTCTCAATCTGAAACGGAAA-CTGCACTAAAGTCGACTTCTCACCCA
1 TGCAGACCAAACAAAAAGTTCTCAATATGATAC-AAAACCTGCACCAAAG-CGACTCCTCACCCG
* ** * **
11585916 TCGAACACCACTTGTGCCTG
64 TCGAATACCACCAGCGCCAA
* * *
11585936 TGCAGACCAAACAAAGAGTTCTCAATATGATACTAAAA-CTGCACCAAACCCGACTCCTCACCCA
1 TGCAGACCAAACAAAAAGTTCTCAATATGATAC-AAAACCTGCACCAAA-GCGACTCCTCACCCG
* *
11586000 TTGAATAGCACCA
64 TCGAATACCACCA
11586013 ATACCATTGT
Statistics
Matches: 345, Mismatches: 59, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
80 4 0.01
81 35 0.10
83 4 0.01
84 295 0.86
85 7 0.02
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (83 bp):
TGCAGACCAAACAAAAAGTTCTCAATATGATACAAAACCTGCACCAAAGCGACTCCTCACCCGTC
GAATACCACCAGCGCCAA
Found at i:11587942 original size:28 final size:29
Alignment explanation
Indices: 11587906--11587964 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
11587896 TATGGTTTAA
* *
11587906 TGTGTAATTATATACATG-AATTTTGATT
1 TGTGCAATTATATACATGAAATTTTAATT
*
11587934 TGTGCAATTTTATACATGAAATTTTAATT
1 TGTGCAATTATATACATGAAATTTTAATT
11587963 TG
1 TG
11587965 ATCCAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (29 bp):
TGTGCAATTATATACATGAAATTTTAATT
Found at i:11587972 original size:30 final size:28
Alignment explanation
Indices: 11587911--11587972 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
11587901 TTTAATGTGT
* *
11587911 AATTATATACATGAATTTTGATTTGTGC
1 AATTATATACATGAATTTTAATTTGTCC
*
11587939 AATTTTATACATGAAATTTTAATTTGATCC
1 AATTATATACATG-AATTTTAATTTG-TCC
11587969 AATT
1 AATT
11587973 CTTGTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.41
29 11 0.38
30 6 0.21
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.47
Consensus pattern (28 bp):
AATTATATACATGAATTTTAATTTGTCC
Found at i:11589214 original size:196 final size:196
Alignment explanation
Indices: 11588864--11589217 Score: 471
Period size: 196 Copynumber: 1.8 Consensus size: 196
11588854 AATAATAACT
* * ** * *
11588864 AAAATGGTTTTTCGAATTTGGCAGTTTCAAATTTCTATCAACCGCAATTCCATCAAACATTGTGA
1 AAAATGATTTTTCGAATTTCGCAACTTCAAATTCCTATCAACAGCAATTCCATCAAACATTGTGA
* * * * *
11588929 TCATCCTTCAATAATTCTAAGAAACCAGAGGAATATTCTCGATATGATATAAAAATTGCACTAAA
66 TCATCCTTCAATAATTCTAAGAAACAAGAGAAACATTCTCGACATGATATAAAAACTGCACTAAA
* *
11588994 GCCAAAAGCTCGCCCATGGAATAACCCCAGCACATCCTCTATTGGAAATCAGTGTAGGTCTACAA
131 GCCAAAAGCTCACCCATCGAATAACCCCAGCACATCCTCTATTGGAAATCAGTGTAGGTCTACAA
11589059 C
196 C
* * *
11589060 AAAATGATTTTTCGAATTTCGCAACTTCAAATTCCTATCAGCTAG-TATTCCATCAAACATTTTG
1 AAAATGATTTTTCGAATTTCGCAACTTCAAATTCCTATCAAC-AGCAATTCCATCAAACATTGTG
* * * * *
11589124 GTCATCCTTCAATCATTCTAAGAAATAAGAGAAACGTTCTCGACATGATATGAAAACTGCATCTA
65 ATCATCCTTCAATAATTCTAAGAAACAAGAGAAACATTCTCGACATGATATAAAAACTGCA-CTA
11589189 AA-CCAAAA-CTTCACCCATCGAATAACCCC
129 AAGCCAAAAGC-TCACCCATCGAATAACCCC
11589218 GGCGCTTCCT
Statistics
Matches: 134, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
195 1 0.01
196 127 0.95
197 6 0.04
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (196 bp):
AAAATGATTTTTCGAATTTCGCAACTTCAAATTCCTATCAACAGCAATTCCATCAAACATTGTGA
TCATCCTTCAATAATTCTAAGAAACAAGAGAAACATTCTCGACATGATATAAAAACTGCACTAAA
GCCAAAAGCTCACCCATCGAATAACCCCAGCACATCCTCTATTGGAAATCAGTGTAGGTCTACAA
C
Found at i:11594804 original size:11 final size:11
Alignment explanation
Indices: 11594780--11594815 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
11594770 AACTAATCCT
11594780 CTCTCAACTTTC
1 CTCTCAA-TTTC
11594792 CTCTCAATTTC
1 CTCTCAATTTC
11594803 CTCTCAATTTC
1 CTCTCAATTTC
11594814 CT
1 CT
11594816 TCCAAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:11597277 original size:54 final size:54
Alignment explanation
Indices: 11597204--11597395 Score: 384
Period size: 54 Copynumber: 3.6 Consensus size: 54
11597194 ATTGTCGTTG
11597204 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
11597258 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
11597312 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
11597366 CAGGGGATTTAGCCTGGACTGGTAATCCCG
1 CAGGGGATTTAGCCTGGACTGGTAATCCCG
11597396 CTGTAAGGAT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 138 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:11600101 original size:125 final size:123
Alignment explanation
Indices: 11599743--11600118 Score: 599
Period size: 125 Copynumber: 3.0 Consensus size: 123
11599733 CCCAAACATG
*
11599743 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
11599808 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGAC
* *
11599866 CTACTGTAGAAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
11599931 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAAAAAAAAATTATTTCTTCTATGGC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTC--AAAAAAATTATTTCTTCCATGAC
11599991 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * ** *
11600056 TAGAAGTGATTTTATACTATTTGATCATAAATGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA--AAAAATTATTTCTTCCATGAC
11600116 CTA
1 CTA
11600119 AAAACCCTAA
Statistics
Matches: 231, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
123 98 0.42
125 133 0.58
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTCCATGAC
Found at i:11602800 original size:9 final size:9
Alignment explanation
Indices: 11602786--11602843 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
11602776 TTTGGTTAAA
11602786 AATTAACCG
1 AATTAACCG
11602795 AATTAACCG
1 AATTAACCG
* *
11602804 GATTACCCG
1 AATTAACCG
11602813 AATTAACCG
1 AATTAACCG
* *
11602822 AATTACCCA
1 AATTAACCG
11602831 AATTAACCG
1 AATTAACCG
11602840 AATT
1 AATT
11602844 GAATCACTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:11602813 original size:18 final size:18
Alignment explanation
Indices: 11602786--11602843 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
11602776 TTTGGTTAAA
*
11602786 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
*
11602804 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
11602822 AATTACCCAAATTAACCG
1 AATTACCCGAATTAACCG
11602840 AATT
1 AATT
11602844 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:11603635 original size:31 final size:31
Alignment explanation
Indices: 11603600--11603663 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
11603590 GAATGGTACA
11603600 TCAACGTTTTTTTATTTGATTTTCTTTTCAT
1 TCAACGTTTTTTTATTTGATTTTCTTTTCAT
11603631 TCAACGTTTTTTTATTTGATTTTCTTTTCAT
1 TCAACGTTTTTTTATTTGATTTTCTTTTCAT
11603662 TC
1 TC
11603664 TTTTCAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.14, G:0.06, T:0.64
Consensus pattern (31 bp):
TCAACGTTTTTTTATTTGATTTTCTTTTCAT
Found at i:11605709 original size:31 final size:31
Alignment explanation
Indices: 11605644--11605754 Score: 123
Period size: 31 Copynumber: 3.6 Consensus size: 31
11605634 TTTGCAAAAG
** * * *
11605644 TTTTAAAATTTTTAATTAAACCTTTTAAAAT
1 TTTTAAAAACTTTAATTAAACCTCTCAAACT
* * ** *
11605675 TTTTGAAAACTTTCATTAAATTTCTCAAAGT
1 TTTTAAAAACTTTAATTAAACCTCTCAAACT
11605706 TTTTAAAAACTTTAATTAAACCTCTCAAACT
1 TTTTAAAAACTTTAATTAAACCTCTCAAACT
*
11605737 TTTTAAAAATTTTAATTA
1 TTTTAAAAACTTTAATTA
11605755 GACTTAAACC
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.47
Consensus pattern (31 bp):
TTTTAAAAACTTTAATTAAACCTCTCAAACT
Found at i:11608079 original size:31 final size:31
Alignment explanation
Indices: 11608044--11608104 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
11608034 ACAACCAATA
** *
11608044 ACTTAAATAAAAACTTTCGAATAGTTTAATT
1 ACTTAAATAAAAACTTGAGAATACTTTAATT
11608075 ACTTAAATAAAAACTTGAGAATACTTTAAT
1 ACTTAAATAAAAACTTGAGAATACTTTAAT
11608105 AATTATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAACTTGAGAATACTTTAATT
Found at i:11620014 original size:21 final size:21
Alignment explanation
Indices: 11619990--11620030 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11619980 AAATAAAAAA
*
11619990 ATATTTT-TTATTAATATTTAT
1 ATATTTTATAATTAAT-TTTAT
11620011 ATATTTTATAATTAATTTTA
1 ATATTTTATAATTAATTTTA
11620031 AATAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTTTATAATTAATTTTAT
Found at i:11626372 original size:21 final size:21
Alignment explanation
Indices: 11626347--11626390 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11626337 ATTGGGCTGT
* *
11626347 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
11626368 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
11626389 TA
1 TA
11626391 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:11629640 original size:30 final size:30
Alignment explanation
Indices: 11629605--11629713 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
11629595 AGAAGAAAAA
11629605 GGATAAAGAGAAAAAGAAGGAAAAGAAGTC
1 GGATAAAGAGAAAAAGAAGGAAAAGAAGTC
* **
11629635 AGATAATGAGGATGAACAAAAGAAGGACAAGAAGAAGAG
1 GGATAA--A-GA-G-A-AAAAGAAGG--AA-AAGAAGTC
* * *
11629674 GGATAAGGAGAAAAAGAAAGAAGAGAAGTC
1 GGATAAAGAGAAAAAGAAGGAAAAGAAGTC
11629704 GGATAAAGAG
1 GGATAAAGAG
11629714 GATGATGTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
30 19 0.32
31 2 0.03
32 1 0.02
33 10 0.17
34 2 0.03
35 2 0.03
36 11 0.18
38 2 0.03
39 11 0.18
ACGTcount: A:0.57, C:0.04, G:0.32, T:0.07
Consensus pattern (30 bp):
GGATAAAGAGAAAAAGAAGGAAAAGAAGTC
Found at i:11629752 original size:93 final size:93
Alignment explanation
Indices: 11629654--11630225 Score: 605
Period size: 93 Copynumber: 6.0 Consensus size: 93
11629644 GGATGAACAA
*
11629654 AAGAAGGACAAG-AAG-AAGAGGGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGAT
1 AAGAAGGA-AAGAAAGAAAGAAGGATAAGGAGAAAAAGAAAGAA-AGAAGTCGGATAAAGAGGAT
*
11629717 GATGTAGAAGATGCCAAAGAGAAGGAGAAG
64 GATGTAGAAGATGCCGAAGAGAAGGAGAAG
*
11629747 AAGAAGAAGAAGAAGAAAGATAATAAGGATAAGGAGAAAAAGAAAGACAAGAAGT-GTGATAAAG
1 AAGAAG--G-A-AAGAAAGA-AAGAAGGATAAGGAGAAAAAGAAAGA-AAGAAGTCG-GATAAAG
* * *
11629811 AGGATGAGGAAGAAGATGCCGAAGAGGAGGAGAAG
59 AGGATGATGTAGAAGATGCCGAAGAGAAGGAGAAG
11629846 AAGAA--AAAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGATAAAGAGGAT
1 AAGAAGGAAAGAAAGA-AAGAAGGATAAGGAGAAAAAGAAAG-AAAGAAGTCGGATAAAGAGGAT
11629909 GATGTAGAAGATGCCAAAGAGGAGAAGGAGAAGGAGAAG
64 GATGTAGAAGATGCC--------GAA-GAGAAGGAGAAG
* *
11629948 GAGAAGGAGAAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGATAAGAAGT-GCGATAAAGAGG
1 AAGAAGGA-AAGAAAGA-AAGAAGGATAAGGAGAAAAAGAAAGA-AAGAAGTCG-GATAAAGAGG
* *
11630012 ATAATGTAGAAGATGCCGAAGAGGAGGAGAAG
62 ATGATGTAGAAGATGCCGAAGAGAAGGAGAAG
* *
11630044 AAGAA-GAAAG--A-CAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCGGATAAAGAGCATG
1 AAGAAGGAAAGAAAGAAAGAAGGATAAGGAGAAAAAGAAAG-AAAGAAGTCGGATAAAGAGGAT-
* * *
11630105 GA-ATAGAAGATGAC-AA-A-AAGGAGAAA
64 GATGTAGAAGATGCCGAAGAGAAGGAGAAG
* **
11630131 AAGAAGAAAAAGAAAGAGAAGAAGGATAAGGAGAAAAAGAAAGAACAGAAGTCCAATAAAGAGGA
1 AAGAAG-GAAAGAAAGA-AAGAAGGATAAGGAGAAAAAGAAAGAA-AGAAGTCGGATAAAGAGGA
* *
11630196 TGATGTAGAAGATGACGAAGAGAAGAAGAA
63 TGATGTAGAAGATGCCGAAGAGAAGGAGAA
11630226 AGATAAGAAG
Statistics
Matches: 410, Mismatches: 31, Indels: 73
0.80 0.06 0.14
Matches are distributed among these distances:
87 12 0.03
88 1 0.00
89 6 0.01
90 52 0.13
91 4 0.01
92 5 0.01
93 124 0.30
94 8 0.02
95 4 0.01
96 26 0.06
97 6 0.01
98 1 0.00
99 73 0.18
100 1 0.00
101 3 0.01
102 15 0.04
104 3 0.01
105 66 0.16
ACGTcount: A:0.56, C:0.04, G:0.33, T:0.08
Consensus pattern (93 bp):
AAGAAGGAAAGAAAGAAAGAAGGATAAGGAGAAAAAGAAAGAAAGAAGTCGGATAAAGAGGATGA
TGTAGAAGATGCCGAAGAGAAGGAGAAG
Found at i:11629877 original size:27 final size:27
Alignment explanation
Indices: 11629838--11629893 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
11629828 GCCGAAGAGG
*
11629838 AGGAGAAGAAGAAAAAGAAAGATAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
* *
11629865 AGGATAAGGAGAAAAAGAAAGAAAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
11629892 AG
1 AG
11629894 TCGGATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (27 bp):
AGGAGAAGAAGAAAAAGAAAGAAAAGA
Found at i:11629939 original size:6 final size:6
Alignment explanation
Indices: 11629928--11629959 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
11629918 GATGCCAAAG
11629928 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AG
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AG
11629960 AAAGATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
AGGAGA
Found at i:11629976 original size:105 final size:105
Alignment explanation
Indices: 11629852--11630051 Score: 321
Period size: 105 Copynumber: 1.9 Consensus size: 105
11629842 GAAGAAGAAA
* *
11629852 AAGAAAGATAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-CGGATAAAGAGGATGATGTAG
1 AAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGC-GATAAAGAGGATAATGTAG
* *
11629916 AAGATGCCAAAGAGGAGAAGGAGAAGGAGAAGGAGAAGGAG
65 AAGATGCCAAAGAGGAGAAGAAGAAGAAGAAGGAGAAGGAG
*
11629957 AAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGATAAGAAGTGCGATAAAGAGGATAATGTAGA
1 AAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGCGATAAAGAGGATAATGTAGA
* *
11630022 AGATGCCGAAGAGGAGGAGAAGAAGAAGAA
66 AGATGCCAAAGAGGAGAAGAAGAAGAAGAA
11630052 AGACAAGAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
105 86 0.99
106 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.34, T:0.09
Consensus pattern (105 bp):
AAGAAAGATAACAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGCGATAAAGAGGATAATGTAGA
AGATGCCAAAGAGGAGAAGAAGAAGAAGAAGGAGAAGGAG
Found at i:11629987 original size:27 final size:29
Alignment explanation
Indices: 11629939--11629994 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
11629929 GGAGAAGGAG
11629939 AAGGAGAAGGAGAAGGAGAAGAAAGATAAC
1 AAGGAGAAGGAGAA-GAGAAGAAAGATAAC
*
11629969 AAGGATAAGGAGAA-A-AAGAAAGATAA
1 AAGGAGAAGGAGAAGAGAAGAAAGATAA
11629995 GAAGTGCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 11 0.44
28 1 0.04
30 13 0.52
ACGTcount: A:0.61, C:0.02, G:0.32, T:0.05
Consensus pattern (29 bp):
AAGGAGAAGGAGAAGAGAAGAAAGATAAC
Found at i:11630063 original size:27 final size:27
Alignment explanation
Indices: 11630033--11630088 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
11630023 GATGCCGAAG
* * *
11630033 AGGAGGAGAAGAAGAAGAAAGACAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
* *
11630060 AGGATAAGGAGAAAAAGAAAGAAAAGA
1 AGGAGAAGAAGAAAAAGAAAGAAAAGA
11630087 AG
1 AG
11630089 TCGGATAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.34, T:0.02
Consensus pattern (27 bp):
AGGAGAAGAAGAAAAAGAAAGAAAAGA
Found at i:11630163 original size:288 final size:292
Alignment explanation
Indices: 11629674--11630223 Score: 792
Period size: 288 Copynumber: 1.9 Consensus size: 292
11629664 AGAAGAAGAG
*
11629674 GGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGATGATGTAGAAGATGCCAAAGAGA
1 GGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGATAATGTAGAAGATGCC----AGA
* * *
11629739 AGGAGAAGAAGAAGAAGAAGAAGAAAGATAATAAGGATAAGGAGAAAAAGAAAGACAAGAAGTGT
62 AGGAG-AGAAGAAGAAGAAGAAGAAAGACAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGT
* * * * * * * *
11629804 GATAAAGAGGATGAGGAAGAAGATGCCGAAGAGGAGGAGAAGAAGAAAAAGAAAGATAAGAAGGA
126 GATAAAGAGCATGAGAAAGAAGATGACAAAAAGGAGAAAAAGAAGAAAAAGAAAGAGAAGAAGGA
** * *
11629869 TAAGGAGAAAAAGAAAGAAAAGAAGTCGGATAAAGAGGATGATGTAGAAGATGCCAAAGAGGAGA
191 TAAGGAGAAAAAGAAAGAAAAGAAGTCCAATAAAGAGGATGATGTAGAAGATGACAAAGAGAAGA
11629934 AGGAGAAGGAGAAGGAGAAGGAGAAGAAAGATAACAA
256 AGGAGAAGGAGAAGGAGAAGGAGAAGAAAGATAACAA
11629971 GGATAAGGAGAAAAAGAAAGATA-AGAAGT-GCGATAAAGAGGATAATGTAGAAGATGCC-GAA-
1 GGATAAGGAGAAAAAGAAAGA-AGAGAAGTCG-GATAAAGAGGATAATGTAGAAGATGCCAGAAG
*
11630032 GAG-G-AGGAGAAGAAGAAGAAAGACAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTCG-GA
64 GAGAGAAGAAGAAGAAGAAGAAAGACAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGT-GTGA
11630094 TAAAGAGCATG-GAATAGAAGATGACAAAAAGGAGAAAAAGAAGAAAAAGAAAGAGAAGAAGGAT
128 TAAAGAGCATGAGAA-AGAAGATGACAAAAAGGAGAAAAAGAAGAAAAAGAAAGAGAAGAAGGAT
* *
11630158 AAGGAGAAAAAGAAAGAACAGAAGTCCAATAAAGAGGATGATGTAGAAGATGACGAAGAGAAGAA
192 AAGGAGAAAAAGAAAGAAAAGAAGTCCAATAAAGAGGATGATGTAGAAGATGACAAAGAGAAGAA
11630223 G
257 G
11630224 AAAGATAAGA
Statistics
Matches: 230, Mismatches: 19, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
287 2 0.01
288 165 0.72
289 2 0.01
291 3 0.01
292 3 0.01
296 1 0.00
297 53 0.23
298 1 0.00
ACGTcount: A:0.55, C:0.04, G:0.33, T:0.08
Consensus pattern (292 bp):
GGATAAGGAGAAAAAGAAAGAAGAGAAGTCGGATAAAGAGGATAATGTAGAAGATGCCAGAAGGA
GAGAAGAAGAAGAAGAAGAAAGACAAGAAGGATAAGGAGAAAAAGAAAGAAAAGAAGTGTGATAA
AGAGCATGAGAAAGAAGATGACAAAAAGGAGAAAAAGAAGAAAAAGAAAGAGAAGAAGGATAAGG
AGAAAAAGAAAGAAAAGAAGTCCAATAAAGAGGATGATGTAGAAGATGACAAAGAGAAGAAGGAG
AAGGAGAAGGAGAAGGAGAAGAAAGATAACAA
Found at i:11630228 original size:12 final size:12
Alignment explanation
Indices: 11630213--11630262 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
11630203 GAAGATGACG
11630213 AAGAGAAGAAGA
1 AAGAGAAGAAGA
*
11630225 AAGATAAGAAGGA
1 AAGAGAAGAA-GA
*
11630238 TAAGGAGAAAAAGA
1 -AA-GAGAAGAAGA
11630252 AAGAGAAGAAG
1 AAGAGAAGAAG
11630263 CACGAGGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
12 17 0.55
13 4 0.13
14 4 0.13
15 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (12 bp):
AAGAGAAGAAGA
Found at i:11630270 original size:27 final size:26
Alignment explanation
Indices: 11630202--11630270 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 26
11630192 AGGATGATGT
* * *
11630202 AGAAGATGACGAAGAGAAGAAGAAAG
1 AGAAGAAGACGAGGAGAAAAAGAAAG
* **
11630228 ATAAGAAGGATAAGGAGAAAAAGAAAG
1 AGAAGAA-GACGAGGAGAAAAAGAAAG
11630255 AGAAGAAGCACGAGGA
1 AGAAGAAG-ACGAGGA
11630271 TGAAGAGGAC
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.58, C:0.04, G:0.33, T:0.04
Consensus pattern (26 bp):
AGAAGAAGACGAGGAGAAAAAGAAAG
Found at i:11630380 original size:17 final size:16
Alignment explanation
Indices: 11630352--11630394 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
11630342 AGTCGAAATG
*
11630352 GAAGGAAGAAGAAG-AA
1 GAAGAAAGAAG-AGCAA
11630368 GAAGAAGAGAAGAGCAA
1 GAAGAA-AGAAGAGCAA
11630385 GAAGAAAGAA
1 GAAGAAAGAA
11630395 ACCGATGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (16 bp):
GAAGAAAGAAGAGCAA
Found at i:11631947 original size:37 final size:37
Alignment explanation
Indices: 11631906--11632118 Score: 363
Period size: 37 Copynumber: 5.8 Consensus size: 37
11631896 TTTGAGTACT
11631906 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11631943 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11631980 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11632017 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
11632054 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
11632091 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
11632119 TAGCTTCAGC
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 167 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:11632190 original size:45 final size:46
Alignment explanation
Indices: 11632081--11632204 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
11632071 GTGATAAGTG
* *
11632081 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
11632127 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
11632172 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
11632205 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Done.