Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 41 of 182
Found at i:12979573 original size:22 final size:23
Alignment explanation
Indices: 12979533--12979577 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
12979523 AAACTAGAAA
12979533 GCAAAGATAAATGGGTATATTAT
1 GCAAAGATAAATGGGTATATTAT
12979556 GCAAAGATAAA-GGGTATATTAT
1 GCAAAGATAAATGGGTATATTAT
12979578 ATATATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.29
Consensus pattern (23 bp):
GCAAAGATAAATGGGTATATTAT
Found at i:12983176 original size:31 final size:31
Alignment explanation
Indices: 12983141--12983202 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
12983131 CAGAGTCCAA
12983141 CTCAGTGAGAAATATTCATTATTTCAACACT
1 CTCAGTGAGAAATATTCATTATTTCAACACT
12983172 CTCAGTGAGAAATATTCATTATTTCAACACT
1 CTCAGTGAGAAATATTCATTATTTCAACACT
12983203 TACACTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (31 bp):
CTCAGTGAGAAATATTCATTATTTCAACACT
Found at i:12984125 original size:28 final size:28
Alignment explanation
Indices: 12984072--12984124 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
12984062 ACTAAATTAA
*
12984072 AATAATATTAATGTATTTAATATTTTAC
1 AATAATATTAATGTATATAATATTTTAC
12984100 AATAA-ATTAACTGTA-ATAATATTTT
1 AATAATATTAA-TGTATATAATATTTT
12984125 TTTTGGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (28 bp):
AATAATATTAATGTATATAATATTTTAC
Found at i:12987716 original size:25 final size:23
Alignment explanation
Indices: 12987674--12987726 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
12987664 AAATTTATTT
*
12987674 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
12987698 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
12987722 TTATT
1 TTATT
12987727 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:12987831 original size:23 final size:23
Alignment explanation
Indices: 12987794--12987839 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12987784 ATAATCATTA
*
12987794 TTATTCTTTATTTGTTATTGTTG
1 TTATTCTTTATTTGTCATTGTTG
12987817 TTATTCTATTA-TTGTCATTGTTG
1 TTATTCT-TTATTTGTCATTGTTG
12987840 CTAATATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.15, C:0.07, G:0.13, T:0.65
Consensus pattern (23 bp):
TTATTCTTTATTTGTCATTGTTG
Found at i:13000283 original size:44 final size:45
Alignment explanation
Indices: 13000226--13000827 Score: 541
Period size: 44 Copynumber: 13.6 Consensus size: 45
13000216 ATAGATTGAA
* * *
13000226 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * * *
13000270 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* *
13000314 GAAGAT-GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * * *
13000357 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* *
13000401 GAAGAT-GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * * *
13000444 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * *
13000488 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * * *
13000532 CAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* **** *
13000577 -AAGAAAGCAGATCTTGTCTTCAGGCATTAG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * *
13000620 GAAGAT-GCCGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * *
13000664 GAAGAGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * ** *
13000708 GAAGAT-GCAAATCTTGTCTTCCCATACGGGTGGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * * * * *
13000752 AAAAAAAAACACAGATCTTATCTTCGTGTATTGG-CGTGAAGTAGATC
1 --GAAGATA-GCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
* * * *
13000799 GAGGATTGCAGATCTTGCCTTCCTGTATT
1 GAAGATAGCAGATCTTGTCTTCCTATATT
13000828 TGGCAGCGAA
Statistics
Matches: 445, Mismatches: 96, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.00
43 137 0.31
44 212 0.48
45 63 0.14
46 3 0.01
47 12 0.03
48 16 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGTCGTGAAGTAGATC
Found at i:13000329 original size:87 final size:87
Alignment explanation
Indices: 13000233--13000713 Score: 669
Period size: 87 Copynumber: 5.5 Consensus size: 87
13000223 GAAGAAGAAA
13000233 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
13000298 TGGTAGGAAGTGGATCGAAGAT
66 TGGTAGGAAGTGGATCGAAGAT
13000320 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
13000385 TGGTAGGAAGTGGATCGAAGAT
66 TGGTAGGAAGTGGATCGAAGAT
13000407 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
13000472 TGGTAGGAAGTGGATCGAAGAT
66 TGGTAGGAAGTGGATCGAAGAT
*** * * * * * * * *
13000494 GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCCAAGAAAGCAGATCTTGTCTTCCCATA
1 GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATA
* * *
13000559 TTGGTGGCGAAGTAGATC-AAGAAA
65 TTGGTAG-GAAGTGGATCGAAG-AT
* * * * * * * *
13000583 GCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGAT-GCCGATCTTGTCTTCCCATAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
* * *
13000647 TGGTGGTGAAGTAGATCGAAGAGA
66 TGGTAG-GAAGTGGATCGAAGA-T
*
13000671 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTGGATCGAAGAT
1 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
13000714 GCAAATCTTG
Statistics
Matches: 360, Mismatches: 29, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
87 232 0.64
88 99 0.28
89 29 0.08
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (87 bp):
GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATAT
TGGTAGGAAGTGGATCGAAGAT
Found at i:13000856 original size:46 final size:44
Alignment explanation
Indices: 13000763--13000869 Score: 106
Period size: 46 Copynumber: 2.4 Consensus size: 44
13000753 AAAAAAAACA
* * * * * * *
13000763 CAGATCTTATCTTCGTGTATTGGCGTGAAGTAGATCGAGGATTG
1 CAGATCTTACCTTCCTGTATTGGCGCGAAGCAGATCAAAGATGG
*
13000807 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGG
1 CAGATCTTACCTTCCTGTA-TTGGC-GCGAAGCAGATCAAAGATGG
* *
13000853 CAGATTTTACCTCCCTG
1 CAGATCTTACCTTCCTG
13000870 ACTACAGTGG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
44 16 0.32
45 5 0.10
46 29 0.58
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (44 bp):
CAGATCTTACCTTCCTGTATTGGCGCGAAGCAGATCAAAGATGG
Found at i:13002498 original size:25 final size:23
Alignment explanation
Indices: 13002456--13002508 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
13002446 AAATTTATTT
*
13002456 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
13002480 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
13002504 TTATT
1 TTATT
13002509 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:13002613 original size:23 final size:23
Alignment explanation
Indices: 13002576--13002621 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
13002566 ATAATCATTA
*
13002576 TTATTCTTTATTTGTTATTGTTG
1 TTATTCTTTATTTGTCATTGTTG
13002599 TTATTCTATTA-TTGTCATTGTTG
1 TTATTCT-TTATTTGTCATTGTTG
13002622 CTAATATTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.15, C:0.07, G:0.13, T:0.65
Consensus pattern (23 bp):
TTATTCTTTATTTGTCATTGTTG
Found at i:13007810 original size:22 final size:23
Alignment explanation
Indices: 13007767--13007818 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
13007757 AGCATTGAAT
*
13007767 TTAATTTAATAAAACTATTTAAA
1 TTAAATTAATAAAACTATTTAAA
13007790 TTAAATTAA-AAAACT-TGTTAAA
1 TTAAATTAATAAAACTAT-TTAAA
13007812 TTAAATT
1 TTAAATT
13007819 TTGTTAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.67
23 8 0.30
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
TTAAATTAATAAAACTATTTAAA
Found at i:13009117 original size:22 final size:21
Alignment explanation
Indices: 13009092--13009136 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
13009082 TTATCATTAA
13009092 AAGAAATTATAAACAAGTCAAT
1 AAGAAATTATAAACAAGT-AAT
13009114 AAGAAATTATAAACAAGTAAT
1 AAGAAATTATAAACAAGTAAT
13009135 AA
1 AA
13009137 CATAAAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (21 bp):
AAGAAATTATAAACAAGTAAT
Found at i:13010590 original size:24 final size:25
Alignment explanation
Indices: 13010563--13010625 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
13010553 AGAAGGAGAG
*
13010563 GGAAAGGAGAAGAAAGAAAGA-AAA
1 GGAAAGGAGAAGAAAAAAAGAGAAA
*
13010587 GGAAAGGAGAAAAAAAAAAGAGAAA
1 GGAAAGGAGAAGAAAAAAAGAGAAA
*
13010612 GGAGAAGAAGAAGA
1 GGA-AAGGAGAAGA
13010626 GGGAAGCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 19 0.58
25 6 0.18
26 8 0.24
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (25 bp):
GGAAAGGAGAAGAAAAAAAGAGAAA
Found at i:13010613 original size:20 final size:21
Alignment explanation
Indices: 13010573--13010617 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
13010563 GGAAAGGAGA
13010573 AGAAAGAAAGAAAAGGAAAGG
1 AGAAAGAAAGAAAAGGAAAGG
13010594 AGAAA-AAA-AAAAGAGAAAGG
1 AGAAAGAAAGAAAAG-GAAAGG
13010614 AGAA
1 AGAA
13010618 GAAGAAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGAAAGAAAGAAAAGGAAAGG
Found at i:13010697 original size:18 final size:19
Alignment explanation
Indices: 13010660--13010697 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13010650 AAAAAGAAGG
*
13010660 TAATTTTTTTGTATTCATT
1 TAATTTTTTTGTAATCATT
13010679 TAATTTTTTTGTAAT-ATT
1 TAATTTTTTTGTAATCATT
13010697 T
1 T
13010698 GTTTAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (19 bp):
TAATTTTTTTGTAATCATT
Found at i:13011259 original size:149 final size:146
Alignment explanation
Indices: 13010989--13011708 Score: 730
Period size: 149 Copynumber: 4.8 Consensus size: 146
13010979 AAACACGCTA
*
13010989 AATTGATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATATGATA
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TA-AAAATAT-AT-
* * *
13011054 TTTTTTAAAGTAATAAAATGC-AGAGAAAAAATACGAACAAATGGCCGAAGTTAGGGTTTTTTAC
62 TTTTTTAAAGTAATAAAATTCGAGA-AAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTT--
*
13011118 TAAATTTA-AAAAAAATAGAAAT
124 TAAATTTATAAAAAAACAGAAAT
* * *
13011140 AATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAAAATACAAA-AATAATATATTTT
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA-AAATAAAAATATATTTT
* * * * * *
13011204 TATTGAAAGTAATAAAATTTGGGAAAAAAATACTAGCAAAGGGACGAAATAAGGGTTTTTTTAAA
65 T-TT-AAAGTAATAAAATTCGAGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTT-AA
** * *
13011269 ATTTATTTAAAAACA-CACT
127 ATTTATAAAAAAACAGAAAT
* * *
13011288 AAATTAATAAATTTTAAACATAATGTACTAAAATAATATAAAATAATAAAATTGGAAAATAGTAT
1 -AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-T-AAAAATA-TAT
* *
13011353 TTTTTTAAAGTAATAAAATTC-ATG-AAAAAATACGAACAAATGGTCGAAATAAGGGTTTTTACT
62 TTTTTTAAAGTAATAAAATTCGA-GAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTT-TT
*
13011416 AAA-TT-TAAAAAAA-AGAATT
125 AAATTTATAAAAAAACAGAAAT
* * * *
13011435 AATTAATATATTTCAAACATAATGTATTAAAATAAAGTAAAACAATAAAATACGAAAATAATATA
1 AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT----AAA-AATATA
* * *
13011500 TTTTTATTGAAAGTAACAAAATTCGAGAAAAAAAT--GAGCAAAGGGCCGAAATAAGGGTTTTTT
61 TTTTT-TT-AAAGTAATAAAATTCGAGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTT
*
13011563 TAAATTTATTTAAAAAACACACTAAAT
124 TAAATTTA--TAAAAAA-ACA-GAAAT
*
13011590 --TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTAT
1 AATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA-TA-AAAATA-TAT
* *
13011653 ATTTTTTAAAGTAATAAAACTCG-GGAAAAAATACGAACAAATGGCCGAAATAAGGG
62 -TTTTTTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAATGGCCGAAATAAGGG
13011709 ATACACACAT
Statistics
Matches: 473, Mismatches: 60, Indels: 71
0.78 0.10 0.12
Matches are distributed among these distances:
145 1 0.00
146 45 0.10
147 13 0.03
148 31 0.07
149 166 0.35
150 42 0.09
151 78 0.16
152 44 0.09
153 8 0.02
154 41 0.09
155 4 0.01
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (146 bp):
AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATAAAAATATATTTTT
TTAAAGTAATAAAATTCGAGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTAAATTT
ATAAAAAAACAGAAAT
Found at i:13011532 original size:300 final size:297
Alignment explanation
Indices: 13010971--13011708 Score: 1110
Period size: 300 Copynumber: 2.5 Consensus size: 297
13010961 AAAAATTGTA
* *
13010971 TATTTAAAAAACACGCTAAATTGATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
*
13011036 AAATTAGAAAATA-TGATATTTTTTAAAGTAATAAAATGCAGAGAAAAAATACGAACAAATGGCC
66 AAATTAGAAAATAGT-ATATTTTTTAAAGTAATAAAATTCA-AGAAAAAATACGAACAAATGGCC
* *
13011100 GAAGTTAGGGTTTTTTACTAAATTTAAAAAAAATAGAAATAATTAATACATTTCAAACATAATGT
129 GAAATAAGGGTTTTTTACTAAATTTAAAAAAAATAGAAATAATTAATACATTTCAAACATAATGT
* * * *
13011165 ACTAAAATAATGTAAAAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTTGGGAAA
194 ACTAAAATAAAGTAAAAAAATACAAAAATAATATATTTTTATTGAAAGTAACAAAATTCGAGAAA
*
13011230 AAAATACTAGCAAAGGGACGAAATAAGGGTTTTTTTAAAATT
259 AAAAT--GAGCAAAGGGACGAAATAAGGGTTTTTTT-AAATT
* *
13011272 TATTT-AAAAACACACTAAATTAATAAATTTTAAACATAATGTACTAAAATAATATAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* * *
13011336 AAATTGGAAAATAGTAT-TTTTTTAAAGTAATAAAATTCATGAAAAAATACGAACAAATGGTCGA
66 AAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCAAGAAAAAATACGAACAAATGGCCGA
* * *
13011400 AATAAGGG-TTTTTACTAAATTT-AAAAAAA-AGAATTAATTAATATATTTCAAACATAATGTAT
131 AATAAGGGTTTTTTACTAAATTTAAAAAAAATAGAAATAATTAATACATTTCAAACATAATGTAC
*
13011462 TAAAATAAAGTAAAACAATAAAATACGAAAATAATATATTTTTATTGAAAGTAACAAAATTCGAG
196 TAAAATAAAGT---A-AA-AAAATACAAAAATAATATATTTTTATTGAAAGTAACAAAATTCGAG
*
13011527 AAAAAAATGAGCAAAGGGCCGAAATAAGGGTTTTTTTAAATT
256 AAAAAAATGAGCAAAGGGACGAAATAAGGGTTTTTTTAAATT
*
13011569 TATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATTTAAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* **
13011634 TAAAATTAGAAAATAGTATATTTTTTAAAGTAATAAAACTCGGGAAAAAATACGAACAAATGGCC
64 TAAAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCAAGAAAAAATACGAACAAATGGCC
13011699 GAAATAAGGG
129 GAAATAAGGG
13011709 ATACACACAT
Statistics
Matches: 399, Mismatches: 28, Indels: 20
0.89 0.06 0.04
Matches are distributed among these distances:
295 40 0.10
296 7 0.02
297 24 0.06
298 71 0.18
299 26 0.07
300 174 0.44
301 57 0.14
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (297 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
AAATTAGAAAATAGTATATTTTTTAAAGTAATAAAATTCAAGAAAAAATACGAACAAATGGCCGA
AATAAGGGTTTTTTACTAAATTTAAAAAAAATAGAAATAATTAATACATTTCAAACATAATGTAC
TAAAATAAAGTAAAAAAATACAAAAATAATATATTTTTATTGAAAGTAACAAAATTCGAGAAAAA
AATGAGCAAAGGGACGAAATAAGGGTTTTTTTAAATT
Found at i:13013307 original size:12 final size:12
Alignment explanation
Indices: 13013290--13013324 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
13013280 AGATCATGAT
13013290 CCCGAACCAGAG
1 CCCGAACCAGAG
*
13013302 CCCGAACCGGAG
1 CCCGAACCAGAG
*
13013314 CCCGAGCCAGA
1 CCCGAACCAGA
13013325 TCCCTAGCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.43, G:0.29, T:0.00
Consensus pattern (12 bp):
CCCGAACCAGAG
Found at i:13016821 original size:37 final size:38
Alignment explanation
Indices: 13016737--13016823 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 38
13016727 ACTAACACAA
* *
13016737 TAACAATAATAATAGTTTTATACTCAAAATAATACTAAC
1 TAACAATAATAATAGGTTTATACT-AAAATAATAATAAC
13016776 TAACAATAATAATTAGGGTTT-TACT-AAA-AATAATAAC
1 TAACAATAATAA-TA-GGTTTATACTAAAATAATAATAAC
13016813 TAACAATAATA
1 TAACAATAATA
13016824 TAATGTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 19 0.43
38 3 0.07
39 12 0.27
40 6 0.14
41 4 0.09
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (38 bp):
TAACAATAATAATAGGTTTATACTAAAATAATAATAAC
Found at i:13016941 original size:39 final size:39
Alignment explanation
Indices: 13016737--13016947 Score: 114
Period size: 39 Copynumber: 5.4 Consensus size: 39
13016727 ACTAACACAA
* * *
13016737 TAACAATAATAATAGTTTTATACTCAA-AATAATACTAAC
1 TAACAATAATATTAGTTTTTTACT-AACAATAATACCAAC
** *
13016776 TAACAATAATAATTAGGGTTTTACTAAAAATAAT---AAC
1 TAACAATAAT-ATTAGTTTTTTACTAACAATAATACCAAC
* **** * * *
13016813 TAACAATAATA-TAATGTAAAAACTAGCAATCATACTAAC
1 TAACAATAATATTAGT-TTTTTACTAACAATAATACCAAC
**
13016852 TAA-AATAATAATTAGCGTTTTACTAATCCTAATAACTAACC-A-
1 TAACAATAAT-ATTAGTTTTTTACTAA--C-AATAA-T-ACCAAC
* *
13016894 TAATAATAATATTAGTTTTTTACTAACAATAATACCAAG
1 TAACAATAATATTAGTTTTTTACTAACAATAATACCAAC
13016933 TAACAATAATTATTA
1 TAACAATAA-TATTA
13016948 ATAACTATAC
Statistics
Matches: 128, Mismatches: 27, Indels: 33
0.68 0.14 0.18
Matches are distributed among these distances:
35 2 0.02
36 10 0.08
37 16 0.12
38 8 0.06
39 36 0.28
40 24 0.19
41 1 0.01
42 21 0.16
43 8 0.06
44 2 0.02
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (39 bp):
TAACAATAATATTAGTTTTTTACTAACAATAATACCAAC
Found at i:13017176 original size:3 final size:3
Alignment explanation
Indices: 13017165--13017213 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
13017155 CCTCCTCCTC
* *
13017165 CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTC CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
13017213 C
1 C
13017214 AGCTGGATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:13019707 original size:87 final size:87
Alignment explanation
Indices: 13019028--13019703 Score: 1115
Period size: 87 Copynumber: 7.8 Consensus size: 87
13019018 GCTAGTGCTT
13019028 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
13019093 CGGCATGCTTCGCTGTTAACGC
66 CGGCATGCTTCGCTGTTAACGC
13019115 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
13019180 CGGCATGCTTCGCTGTTAACGC
66 CGGCATGCTTCGCTGTTAACGC
13019202 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
13019267 CGGCATGCTTCGCTGTTAACGC
66 CGGCATGCTTCGCTGTTAACGC
13019289 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
13019354 CGGCATGCTTCGCTGTTAACGC
66 CGGCATGCTTCGCTGTTAACGC
*
13019376 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCTATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
13019441 TGTTC-TGCTTTGCTGTTAACGT
66 CG-GCATGCTTCGCTGTTAACGC
* * * * * *
13019463 AGAAAGGCAAGATCTACTATCTTTAACCAACTCCACTACACCCGATGAAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
13019528 CGATC-TGCTTCGCTATTAACGC
66 CG-GCATGCTTCGCTGTTAACGC
* *
13019550 AGGAAGACAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* *
13019615 TGATC-TGCTTCGCTGTTAACGC
66 CG-GCATGCTTCGCTGTTAACGC
* * * *
13019637 AGGAAGGTAAGATCTGCTATCTTTAGCCAGCTCCACTACAACCGATGGAGGTAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
13019702 CG
66 CG
13019704 ATCTTCACTG
Statistics
Matches: 554, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
87 553 1.00
88 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGGCATGCTTCGCTGTTAACGC
Found at i:13020970 original size:13 final size:13
Alignment explanation
Indices: 13020937--13020971 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13020927 TTAGCCTCTC
13020937 CATTTTTACTCTTT
1 CATTTTT-CTCTTT
*
13020951 CATTTTTCTTTTT
1 CATTTTTCTCTTT
13020964 CATTTTTC
1 CATTTTTC
13020972 ATCATCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (13 bp):
CATTTTTCTCTTT
Found at i:13021377 original size:6 final size:6
Alignment explanation
Indices: 13021351--13021390 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
13021341 TGATTTCTCT
*
13021351 TTTTGC TTTTGAA TTTT-A TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTG-A TTTTGA TTTTGA TTTTGA TTTTGA TTTT
13021391 TTTCTTCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.15, C:0.03, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:13025627 original size:108 final size:106
Alignment explanation
Indices: 13025440--13025643 Score: 329
Period size: 108 Copynumber: 1.9 Consensus size: 106
13025430 TGGATTAAGA
* * *
13025440 TTTAAGAGGATATTTGGCTATTTGGTCAAACAAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACAAAAAATCGAAACCCAGCACATTAGGGCACATTT
*
13025505 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
*
13025546 TTTAAAAGGATATTTGGCTATTTGAT-AGAACGAGAAAAATCGAAACCCAGTACATTAGGGCACA
1 TTTAAAAGGATATTTGGCTATTTGATCA-AAC-A-AAAAATCGAAACCCAGCACATTAGGGCACA
13025610 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
63 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
13025644 TATTATTTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
105 1 0.01
106 27 0.30
107 1 0.01
108 61 0.68
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAACAAAAAATCGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
Found at i:13026482 original size:3 final size:3
Alignment explanation
Indices: 13026474--13026531 Score: 89
Period size: 3 Copynumber: 19.3 Consensus size: 3
13026464 CAAGACATAG
* * *
13026474 ATA ATA ATA ATA TTA ATA ATA ATC ATA ATA ATA ATC ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13026522 ATA ATA ATA A
1 ATA ATA ATA A
13026532 CAACTTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13027261 original size:13 final size:13
Alignment explanation
Indices: 13027243--13027267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13027233 ACAATAAAAA
13027243 ATATAACAAAATG
1 ATATAACAAAATG
13027256 ATATAACAAAAT
1 ATATAACAAAAT
13027268 AAAATGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (13 bp):
ATATAACAAAATG
Found at i:13034059 original size:12 final size:12
Alignment explanation
Indices: 13034042--13034071 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13034032 TCAGTGAGCT
*
13034042 ACACGGGTTGAG
1 ACACGGGCTGAG
13034054 ACACGGGCTGAG
1 ACACGGGCTGAG
13034066 ACACGG
1 ACACGG
13034072 CCGTGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.23, G:0.40, T:0.10
Consensus pattern (12 bp):
ACACGGGCTGAG
Found at i:13040488 original size:125 final size:125
Alignment explanation
Indices: 13040337--13040591 Score: 501
Period size: 125 Copynumber: 2.0 Consensus size: 125
13040327 TGCAGCAGTT
13040337 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
1 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
*
13040402 ATTTAAACACCGTCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
66 ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
13040462 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
1 ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
13040527 ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
66 ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
13040587 ATGGT
1 ATGGT
13040592 TTCCAGAAAA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 129 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (125 bp):
ATGGTGGTGTTTGCATAGAGGTGTAAATTCACCAAAACAAAGCAGATATTTTCATTGAAATGCAA
ATTTAAACACCATCATTGAAGTAAATATCATTGAAAAACTCGTAAAAGAAACCTCGTAGG
Found at i:13043298 original size:2 final size:2
Alignment explanation
Indices: 13043291--13043334 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
13043281 CTCACTCTGC
13043291 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13043333 CT
1 CT
13043335 ATCACACGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:13052709 original size:30 final size:30
Alignment explanation
Indices: 13052674--13052847 Score: 222
Period size: 30 Copynumber: 5.7 Consensus size: 30
13052664 ATACATGTTT
13052674 TATATATTGCCGAATTGATTTGTATATGGATA
1 TATATATTGCCGAATTGATTTGTATATGG--A
* * * *
13052706 TATATATTTCCGAATTTATTTATATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
13052736 TATATATAGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
13052766 TATACACTGCCGAATTGATTTGTATATAGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
13052796 TATACATTGCTGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
13052826 TATATATTGCCTAATTGATTTG
1 TATATATTGCCGAATTGATTTG
13052848 AGCATTGGAT
Statistics
Matches: 122, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
30 97 0.80
32 25 0.20
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:13053065 original size:36 final size:35
Alignment explanation
Indices: 13053017--13053085 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
13053007 AGAAAACATG
* *
13053017 TAAGACCATGTTTGGAACATTGGTATCGTATATGTA
1 TAAGACCATGTTTGGAACAGTGGCATCG-ATATGTA
*
13053053 TAAGATCC-TGTTTGGGACAGTGGCATCGATATG
1 TAAGA-CCATGTTTGGAACAGTGGCATCGATATG
13053086 CATTAACATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 5 0.17
36 22 0.76
37 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (35 bp):
TAAGACCATGTTTGGAACAGTGGCATCGATATGTA
Found at i:13054425 original size:62 final size:59
Alignment explanation
Indices: 13054309--13054429 Score: 136
Period size: 62 Copynumber: 2.0 Consensus size: 59
13054299 TTGTACAAAC
* ****
13054309 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTGTTTTAAATATTTTAATAGTAAAT
1 TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTAAATAAGACAATAG-AAAT
* *
13054369 TATTTTTATATT-TTATCCTATTTAATAAAATATAAGTTATTTTGAATAAGACAATAGAAAT
1 TATTTTTATATTGTT-T--TATTTAATAAAATAAAAGTTATTTTAAATAAGACAATAGAAAT
13054430 AATGCAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
59 2 0.04
60 13 0.25
61 4 0.08
62 32 0.63
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TATTTTTATATTGTTTTATTTAATAAAATAAAAGTTATTTTAAATAAGACAATAGAAAT
Found at i:13057629 original size:123 final size:125
Alignment explanation
Indices: 13057398--13057662 Score: 331
Period size: 123 Copynumber: 2.1 Consensus size: 125
13057388 ACCAAACAAT
* * **
13057398 AACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATTT
1 AACTACTGTAGAAAAAGAACATCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCC
* ** *
13057463 TGCTTGAAGAGTTTTTGACACTAATTTTTTAGATTCGTCTTCTCAAAATT-TTTTT-AGG
66 TGCTTGAAGAGTTTTTGACACTAATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGA
** *
13057521 AACTACTGTAGAAAAAGAATTTCCACGTGGGAGATTTTTTCAGTAATTTTGCTGATAGTGCATCC
1 AACTACTGTAGAAAAAGAACATCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * *
13057586 TGTTTGAAGCA-TTTTTGACA-TTATCTTTTCAGAACCGTTTTCTCAAAATTAATTTTTCTGA
66 TGCTTGAAG-AGTTTTTGACACTAAT-TTTTCAGAACCGTCTTCTCAAAATT-ATTTTTCAGA
*
13057647 AACTACTGTATAAAAA
1 AACTACTGTAGAAAAA
13057663 TAAATAAAAT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
122 3 0.02
123 96 0.79
124 1 0.01
125 5 0.04
126 16 0.13
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAACATCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGAGTTTTTGACACTAATTTTTCAGAACCGTCTTCTCAAAATTATTTTTCAGA
Found at i:13057792 original size:34 final size:33
Alignment explanation
Indices: 13057751--13057878 Score: 141
Period size: 33 Copynumber: 3.8 Consensus size: 33
13057741 CACAAAATTA
*
13057751 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAAATCTAAACCCTAATTTAATTAAT
* *
13057784 TTTCTT-AAAACTCTAAACCCTAATTTAATTTAT
1 TTT-TTAAAAAATCTAAACCCTAATTTAATTAAT
* * ***
13057817 TTATTTAAAACACCTAAAATGTAATTTAATTAAT
1 TT-TTTAAAAAATCTAAACCCTAATTTAATTAAT
*
13057851 TTTTTAAAAAATTCTAAACCTTAATTTA
1 TTTTTAAAAAA-TCTAAACCCTAATTTA
13057879 TTTTTTAAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
33 39 0.51
34 37 0.49
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (33 bp):
TTTTTAAAAAATCTAAACCCTAATTTAATTAAT
Found at i:13057824 original size:67 final size:65
Alignment explanation
Indices: 13057753--13057885 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 65
13057743 CAAAATTATT
*
13057753 TTTAAAAAAACTAAACCCTAATTTAATTAATTTTCTT-AAAACTCTAAACCCTAATTTAATTTAT
1 TTTAAAAAAACTAAAACCTAATTTAATTAATTTT-TTAAAAACTCTAAACCCTAATTT-ATTT-T
13057817 TTA
63 TTA
* * ** * *
13057820 TTTAAAACACCTAAAATGTAATTTAATTAATTTTTTAAAAAATTCTAAACCTTAATTTATTTTTT
1 TTTAAAAAAACTAAAACCTAATTTAATTAATTTTTT-AAAAACTCTAAACCCTAATTTATTTTTT
13057885 A
65 A
13057886 AAATTTTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
66 6 0.11
67 33 0.58
68 18 0.32
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.44
Consensus pattern (65 bp):
TTTAAAAAAACTAAAACCTAATTTAATTAATTTTTTAAAAACTCTAAACCCTAATTTATTTTTTA
Found at i:13069298 original size:16 final size:16
Alignment explanation
Indices: 13069277--13069325 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
13069267 CGCTGTATTG
13069277 GAATAGAGGCGTAATA
1 GAATAGAGGCGTAATA
*
13069293 GAATAGAGGTGTAATA
1 GAATAGAGGCGTAATA
*
13069309 GAATAGAAGCGTAATA
1 GAATAGAGGCGTAATA
13069325 G
1 G
13069326 TATTCTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.31, T:0.20
Consensus pattern (16 bp):
GAATAGAGGCGTAATA
Found at i:13074971 original size:11 final size:11
Alignment explanation
Indices: 13074955--13074980 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13074945 TTCGGGTAAA
13074955 AAAAGTATTTT
1 AAAAGTATTTT
13074966 AAAAGTATTTT
1 AAAAGTATTTT
13074977 AAAA
1 AAAA
13074981 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:13075024 original size:17 final size:17
Alignment explanation
Indices: 13075002--13075035 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13074992 TAAAAAGTAT
13075002 TTTTAAAAAATTTAAAA
1 TTTTAAAAAATTTAAAA
13075019 TTTTAAAAAATTTAAAA
1 TTTTAAAAAATTTAAAA
13075036 AAAGTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTAAAAAATTTAAAA
Found at i:13075050 original size:11 final size:11
Alignment explanation
Indices: 13075035--13075060 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13075025 AAAATTTAAA
13075035 AAAAGTATTTT
1 AAAAGTATTTT
13075046 AAAAGTATTTT
1 AAAAGTATTTT
13075057 AAAA
1 AAAA
13075061 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:13075070 original size:41 final size:40
Alignment explanation
Indices: 13074951--13075077 Score: 165
Period size: 39 Copynumber: 3.2 Consensus size: 40
13074941 CAGGTTCGGG
*
13074951 TAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAAAT
1 TAAAAAAAGTATTTTAAAAGTATTTTAAAATT-TAAAAAAT
*
13074992 T--AAAAAGTATTTTTAAAA--AATTTAAAATTTTAAAAAATT
1 TAAAAAAAGTA-TTTTAAAAGTATTTTAAAA-TTTAAAAAA-T
13075031 TAAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAA-
1 TAAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
13075070 TAAAAAAA
1 TAAAAAAA
13075078 TAAAAAAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
38 14 0.18
39 20 0.26
40 16 0.21
41 18 0.24
42 8 0.11
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (40 bp):
TAAAAAAAGTATTTTAAAAGTATTTTAAAATTTAAAAAAT
Found at i:13076354 original size:21 final size:21
Alignment explanation
Indices: 13076330--13076369 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13076320 TTTAATATCT
*
13076330 AAGATTATATTTTTATTTGTA
1 AAGATTATATTTGTATTTGTA
13076351 AAGATTATATTTGTATTTG
1 AAGATTATATTTGTATTTG
13076370 AGTTTTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
AAGATTATATTTGTATTTGTA
Found at i:13077549 original size:30 final size:30
Alignment explanation
Indices: 13077508--13077567 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
13077498 CAATTAGGGT
*
13077508 TCAGAAGTATTAGCAACTTTGTATTGTGAG
1 TCAGAAGTATTAGCAACTTTGTATCGTGAG
*
13077538 TCAGCAGTATTAGCAACTTTGTATCGTGAG
1 TCAGAAGTATTAGCAACTTTGTATCGTGAG
13077568 CTTTTTGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (30 bp):
TCAGAAGTATTAGCAACTTTGTATCGTGAG
Found at i:13080619 original size:26 final size:26
Alignment explanation
Indices: 13080588--13080639 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
13080578 AATGCCGACC
*
13080588 CACAGCTCATGTGAGCAGGCCCATTT
1 CACAGCTCATGTGAGCAGGCACATTT
*
13080614 CACAGCTCGTGTGAGCAGGCACATTT
1 CACAGCTCATGTGAGCAGGCACATTT
13080640 TACCAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGGCACATTT
Found at i:13080740 original size:2 final size:2
Alignment explanation
Indices: 13080733--13080762 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13080723 ATAAAATTTA
13080733 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13080763 TAAATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13087208 original size:52 final size:52
Alignment explanation
Indices: 13087129--13087247 Score: 166
Period size: 52 Copynumber: 2.2 Consensus size: 52
13087119 TACTTCTGAT
* * *
13087129 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
* *
13087182 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
*
13087234 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
13087248 GCTACACTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
52 41 0.69
53 18 0.31
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
Found at i:13087257 original size:37 final size:37
Alignment explanation
Indices: 13087210--13087319 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
13087200 TGATAGCTTC
*
13087210 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
13087247 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
13087284 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
13087319 G
1 G
13087320 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:13091716 original size:17 final size:19
Alignment explanation
Indices: 13091680--13091717 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13091670 TATTATATAC
*
13091680 ATGTTTTATGTATATTTAA
1 ATGTTTAATGTATATTTAA
13091699 ATGTTTAAT-TAT-TTTAA
1 ATGTTTAATGTATATTTAA
13091716 AT
1 AT
13091718 CGAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
ATGTTTAATGTATATTTAA
Found at i:13094493 original size:44 final size:45
Alignment explanation
Indices: 13094438--13094614 Score: 160
Period size: 45 Copynumber: 4.0 Consensus size: 45
13094428 ACACTTTCAT
* *
13094438 ATGATGCCATAGTGTCTTTCAGCTATGGTCTTACACA-TTTTATC
1 ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTATC
* * * *
13094482 ATGGCGCCATAGTTTCTTTCAACTATGAG-CTTACTCATTTTTATC
1 ATGACGCCATAGTATCTTTCAGCTATG-GTCTTACACATTTTTATC
** * * **
13094527 ATGACGCCATAACATATTTTAGCTATGGTCTTACTTATTTTTATC
1 ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTATC
* * ** * **
13094572 ATAACACCATAACATCTTTAAGCTATGGTCTTATTCATTTTTA
1 ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTA
13094615 GGCATATAGC
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 31 0.28
45 80 0.72
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (45 bp):
ATGACGCCATAGTATCTTTCAGCTATGGTCTTACACATTTTTATC
Found at i:13101595 original size:15 final size:15
Alignment explanation
Indices: 13101572--13101623 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
13101562 CTAACTGAGC
* *
13101572 TTAAATTTTTATTAA
1 TTAAGTTTTAATTAA
*
13101587 TTAAGTTTTAACTAA
1 TTAAGTTTTAATTAA
* *
13101602 TTAA-ATTTGATTAA
1 TTAAGTTTTAATTAA
13101616 TTAAGTTT
1 TTAAGTTT
13101624 CTGTATATGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (15 bp):
TTAAGTTTTAATTAA
Found at i:13102259 original size:28 final size:29
Alignment explanation
Indices: 13102191--13102267 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
13102181 CCTCGATACG
*
13102191 ATGTTAACTTGTGTGAACAAATTCATAAA
1 ATGTTAACTTGTGTGAGCAAATTCATAAA
* *
13102220 ATGTCAATTTGTGTGAGCAAATTCAT-AA
1 ATGTTAACTTGTGTGAGCAAATTCATAAA
* *
13102248 ATGTTAGCTTGTGTAAGCAA
1 ATGTTAACTTGTGTGAGCAA
13102268 CCCTAATCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (29 bp):
ATGTTAACTTGTGTGAGCAAATTCATAAA
Found at i:13103460 original size:36 final size:36
Alignment explanation
Indices: 13103413--13103483 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
13103403 GGCCTAACGT
*
13103413 CGTGACATGACAAACTATTTTGCGACGTCATGATGA
1 CGTGACATGACAAACTACTTTGCGACGTCATGATGA
* *
13103449 CGTGACGTGACAAACTACTTTGCGATGTCATGATG
1 CGTGACATGACAAACTACTTTGCGACGTCATGATG
13103484 TGGAAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (36 bp):
CGTGACATGACAAACTACTTTGCGACGTCATGATGA
Found at i:13104444 original size:19 final size:19
Alignment explanation
Indices: 13104409--13104450 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
13104399 TATGTTAATT
*
13104409 TAAAGTTAAATTAATAATAA
1 TAAAGTTAAA-TAATAAAAA
13104429 TAAAGTTAAA-ACATAAAAA
1 TAAAGTTAAATA-ATAAAAA
13104448 TAA
1 TAA
13104451 TGGTCATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 9 0.45
20 10 0.50
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
TAAAGTTAAATAATAAAAA
Found at i:13113669 original size:40 final size:43
Alignment explanation
Indices: 13113625--13113704 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 43
13113615 GGTAAAAACA
13113625 TAACT-ACTATTATCAA-T-AAAATCAAATACAAA-ATGAATAT
1 TAACTCAC-ATTATCAACTCAAAATCAAATACAAAGATGAATAT
* * *
13113665 TAACTCACATTATTAACTCAAACTCAAATTCAAAGATGAA
1 TAACTCACATTATCAACTCAAAATCAAATACAAAGATGAA
13113705 AATAGCATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
40 12 0.36
41 3 0.09
42 13 0.39
43 5 0.15
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (43 bp):
TAACTCACATTATCAACTCAAAATCAAATACAAAGATGAATAT
Found at i:13118468 original size:13 final size:13
Alignment explanation
Indices: 13118450--13118474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13118440 ATTTAGTATT
13118450 TATATAATAAATG
1 TATATAATAAATG
13118463 TATATAATAAAT
1 TATATAATAAAT
13118475 ATATTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TATATAATAAATG
Found at i:13118529 original size:20 final size:21
Alignment explanation
Indices: 13118500--13118538 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13118490 TATTGTAAAG
13118500 TATTTGTAAAATAC-TTTTTT
1 TATTTGTAAAATACATTTTTT
*
13118520 TATTTTTAAAATACATTTT
1 TATTTGTAAAATACATTTT
13118539 CGGATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
TATTTGTAAAATACATTTTTT
Found at i:13125474 original size:17 final size:18
Alignment explanation
Indices: 13125437--13125475 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13125427 TAAATTAATT
*
13125437 ATTTTATAAATACTTATA
1 ATTTTATAAATACTTAGA
*
13125455 ATTTTAT-AATTCTTAGA
1 ATTTTATAAATACTTAGA
13125472 ATTT
1 ATTT
13125476 CACTTCCGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTATAAATACTTAGA
Found at i:13135266 original size:28 final size:28
Alignment explanation
Indices: 13135234--13135289 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
13135224 TGTCACTCGA
13135234 CTTCGGGATATTGTTTCAGCATCGGTTC
1 CTTCGGGATATTGTTTCAGCATCGGTTC
* *
13135262 CTTCGGGATATTTTTTCAGCATCTGTTC
1 CTTCGGGATATTGTTTCAGCATCGGTTC
13135290 AGCAACAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (28 bp):
CTTCGGGATATTGTTTCAGCATCGGTTC
Found at i:13137251 original size:42 final size:42
Alignment explanation
Indices: 13137141--13137230 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
13137131 TCTCAGGCCA
* *
13137141 TGTAACATTCGAAATAGGGACACACGGCCGTGTCCCAGCTCG
1 TGTAACATTCGAAATAGGGACACACGGCCGTCTCCCAGCCCG
*
13137183 TGTAACATTCGAAATAGGGACACACGGTCGTCTCCCAGCCCG
1 TGTAACATTCGAAATAGGGACACACGGCCGTCTCCCAGCCCG
13137225 TGTAAC
1 TGTAAC
13137231 TCTCTGAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (42 bp):
TGTAACATTCGAAATAGGGACACACGGCCGTCTCCCAGCCCG
Found at i:13143332 original size:16 final size:17
Alignment explanation
Indices: 13143311--13143354 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
13143301 TATATTTAGT
*
13143311 AATATAATTT-ATTACA
1 AATATAATTTCACTACA
*
13143327 AATATAATTATCACTCCA
1 AATATAATT-TCACTACA
13143345 AATATAATTT
1 AATATAATTT
13143355 TAACAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATAATTTCACTACA
Found at i:13144152 original size:17 final size:17
Alignment explanation
Indices: 13144130--13144163 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13144120 ACTTGAATAC
* *
13144130 AAATAAACATGATAATG
1 AAATAAAAATGAAAATG
13144147 AAATAAAAATGAAAATG
1 AAATAAAAATGAAAATG
13144164 GCCATTAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
AAATAAAAATGAAAATG
Found at i:13144545 original size:22 final size:20
Alignment explanation
Indices: 13144497--13144545 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
13144487 TTAAACACCT
13144497 TTTAAAAATAAAATAATCAA
1 TTTAAAAATAAAATAATCAA
* * *
13144517 ATGAAAAATTAAACATAATCAG
1 TTTAAAAA-TAAA-ATAATCAA
13144539 TTTAAAA
1 TTTAAAA
13144546 CATATTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (20 bp):
TTTAAAAATAAAATAATCAA
Found at i:13147625 original size:17 final size:15
Alignment explanation
Indices: 13147595--13147646 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
13147585 ACTACAAAAC
*
13147595 ATTTATTATTAATAT
1 ATTTATTTTTAATAT
13147610 ATTTATAATTTTAATAAAT
1 ATTTAT--TTTTAAT--AT
*
13147629 ATTTATTTTTAAAAT
1 ATTTATTTTTAATAT
13147644 ATT
1 ATT
13147647 AATATTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 11 0.35
17 12 0.39
19 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTATTTTTAATAT
Found at i:13147645 original size:15 final size:15
Alignment explanation
Indices: 13147590--13147646 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
13147580 TTTATACTAC
* *
13147590 AAAACATTTATTATT
1 AAAATATTTATTTTT
*
13147605 AATATATTTATAATTTT
1 AAAATATTTAT--TTTT
13147622 AATAAATATTTATTTTT
1 -A-AAATATTTATTTTT
13147639 AAAATATT
1 AAAATATT
13147647 AATATTGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 16 0.47
16 1 0.03
17 7 0.21
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATATTTATTTTT
Found at i:13150101 original size:20 final size:20
Alignment explanation
Indices: 13150073--13150124 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
13150063 ATAAGGTCCA
*
13150073 TCTCAAGACAGAGTTCCTCG
1 TCTCGAGACAGAGTTCCTCG
**
13150093 TCTCGAGACAAAGAGTTCCTTT
1 TCTCGAGAC--AGAGTTCCTCG
13150115 TCTCGAGACA
1 TCTCGAGACA
13150125 CAACATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.33
22 18 0.67
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (20 bp):
TCTCGAGACAGAGTTCCTCG
Found at i:13150110 original size:22 final size:22
Alignment explanation
Indices: 13150082--13150124 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13150072 ATCTCAAGAC
13150082 AGAGTTCCTCGTCTCGAGACAA
1 AGAGTTCCTCGTCTCGAGACAA
**
13150104 AGAGTTCCTTTTCTCGAGACA
1 AGAGTTCCTCGTCTCGAGACA
13150125 CAACATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (22 bp):
AGAGTTCCTCGTCTCGAGACAA
Found at i:13151722 original size:12 final size:12
Alignment explanation
Indices: 13151693--13151731 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13151683 TTATTTTCCG
13151693 TAAAAATGAAAA
1 TAAAAATGAAAA
**
13151705 CGAAAATGAAAA
1 TAAAAATGAAAA
*
13151717 TAAAAATAAAAA
1 TAAAAATGAAAA
13151729 TAA
1 TAA
13151732 CCTATGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (12 bp):
TAAAAATGAAAA
Found at i:13152258 original size:23 final size:23
Alignment explanation
Indices: 13152232--13152276 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13152222 AGAAAATGTC
* *
13152232 ACAATAAAATTAACCAAAACGTT
1 ACAAAAAAATGAACCAAAACGTT
*
13152255 ACAAAAAAATGAACTAAAACGT
1 ACAAAAAAATGAACCAAAACGT
13152277 CAAAGAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.18
Consensus pattern (23 bp):
ACAAAAAAATGAACCAAAACGTT
Found at i:13156780 original size:7 final size:7
Alignment explanation
Indices: 13156768--13156797 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
13156758 AAAAACCACC
*
13156768 TGGAAAT
1 TGGAAAA
13156775 TGGAAAA
1 TGGAAAA
13156782 TGGAAAA
1 TGGAAAA
13156789 TGGAAAA
1 TGGAAAA
13156796 TG
1 TG
13156798 AAGAACTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (7 bp):
TGGAAAA
Found at i:13176171 original size:22 final size:23
Alignment explanation
Indices: 13176138--13176180 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
13176128 AGTATCTGGA
13176138 ATAGAGGCTGTTTGGTACTATGG
1 ATAGAGGCTGTTTGGTACTATGG
*
13176161 ATAG-GGCTGTTTGGTTCTAT
1 ATAGAGGCTGTTTGGTACTAT
13176181 TTTTCTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.19, C:0.09, G:0.33, T:0.40
Consensus pattern (23 bp):
ATAGAGGCTGTTTGGTACTATGG
Found at i:13176298 original size:18 final size:17
Alignment explanation
Indices: 13176271--13176340 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 17
13176261 AAATAAGTAA
*
13176271 TAAATAATAAAATAAAT
1 TAAAAAATAAAATAAAT
*
13176288 TAAAGTAAT-AAATAAAT
1 TAAA-AAATAAAATAAAT
*
13176305 TAAAGAAAATAAAATAAAA
1 T-AA-AAAATAAAATAAAT
13176324 TAAAAAATAAAAATAAA
1 TAAAAAAT-AAAATAAA
13176341 AATTAGGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
17 18 0.39
18 19 0.41
19 9 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:13176300 original size:17 final size:17
Alignment explanation
Indices: 13176271--13176334 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
13176261 AAATAAGTAA
13176271 TAAA-TAATAAAATAAAT
1 TAAAGTAAT-AAATAAAT
13176288 TAAAGTAATAAATAAAT
1 TAAAGTAATAAATAAAT
*
13176305 TAAAG--A-AAATAAAA
1 TAAAGTAATAAATAAAT
* *
13176319 TAAAATAAAAAATAAA
1 TAAAGTAATAAATAAA
13176335 AATAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.27
15 1 0.02
16 1 0.02
17 24 0.59
18 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
TAAAGTAATAAATAAAT
Found at i:13176341 original size:18 final size:19
Alignment explanation
Indices: 13176269--13176341 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
13176259 CCAAATAAGT
13176269 AATAAATAATAAAATAAATTA
1 AATAAA-AATAAAATAAA-TA
* *
13176290 AAGTAATAAATAAATTAAAGA
1 AA-TAA-AAATAAAATAAATA
13176311 AA-ATAAAATAAAATAAA-A
1 AATA-AAAATAAAATAAATA
13176329 AATAAAAATAAAA
1 AATAAAAATAAAA
13176342 ATTAGGTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 12 0.27
19 13 0.29
20 1 0.02
21 5 0.11
22 13 0.29
23 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (19 bp):
AATAAAAATAAAATAAATA
Found at i:13176342 original size:12 final size:11
Alignment explanation
Indices: 13176269--13176343 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 11
13176259 CCAAATAAGT
13176269 AATAAATAATAA
1 AATAAA-AATAA
*
13176281 AAT-AAATTAA
1 AATAAAAATAA
*
13176291 AGTAATAAAT-A
1 AATAA-AAATAA
* *
13176302 AAT-TAAAGAA
1 AATAAAAATAA
13176312 AAT-AAAATAA
1 AATAAAAATAA
13176322 AATAAAAAATAAA
1 AAT-AAAAAT-AA
13176335 AATAAAAAT
1 AATAAAAAT
13176344 TAGGTTGCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
9 3 0.06
10 18 0.37
11 6 0.12
12 17 0.35
13 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:13182065 original size:17 final size:17
Alignment explanation
Indices: 13182043--13182077 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
13182033 CTTGGGTTCA
13182043 ATCCTCGGCTTTAGATG
1 ATCCTCGGCTTTAGATG
13182060 ATCCTCGGCTTTAGATG
1 ATCCTCGGCTTTAGATG
13182077 A
1 A
13182078 GCCATTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (17 bp):
ATCCTCGGCTTTAGATG
Found at i:13183465 original size:16 final size:18
Alignment explanation
Indices: 13183441--13183483 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
13183431 AAACCTTACT
*
13183441 AAGATAAAAACCCT-GTG
1 AAGAAAAAAACCCTAGTG
*
13183458 -AGAAAAAAATCCTAGTG
1 AAGAAAAAAACCCTAGTG
13183475 AAGAAAAAA
1 AAGAAAAAA
13183484 GAGTACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 3 0.14
18 8 0.36
ACGTcount: A:0.58, C:0.12, G:0.16, T:0.14
Consensus pattern (18 bp):
AAGAAAAAAACCCTAGTG
Found at i:13199785 original size:25 final size:24
Alignment explanation
Indices: 13199752--13199805 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
13199742 TTCCACAGGA
*
13199752 AATTCCTGCTCAAATACATTAAGT
1 AATTCCTGCTCAAATACATGAAGT
*
13199776 AATTNCCTGCTGAAATACATGAAGT
1 AATT-CCTGCTCAAATACATGAAGT
13199801 AATTC
1 AATTC
13199806 GCTTGGATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.31
Consensus pattern (24 bp):
AATTCCTGCTCAAATACATGAAGT
Found at i:13200693 original size:61 final size:61
Alignment explanation
Indices: 13200598--13200841 Score: 479
Period size: 61 Copynumber: 4.0 Consensus size: 61
13200588 TCAAGTGTAT
*
13200598 GATAGTCTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
1 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
13200659 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
1 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
13200720 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
1 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
13200781 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
1 GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
13200842 CTACTTTAGA
Statistics
Matches: 182, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 182 1.00
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (61 bp):
GATAGTTTTTTTGATTGGTTTGGTGGTTAAGAGCTATTCAGCATGCGGTATGGATGTTTCC
Found at i:13203418 original size:56 final size:51
Alignment explanation
Indices: 13203352--13203543 Score: 172
Period size: 50 Copynumber: 3.7 Consensus size: 51
13203342 GGAATGAGAC
* **
13203352 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA-G--ATGAGAGGT
* * * * *
13203408 CCTACGTAAGATCATGTATGGGACAAGGCGTTGGC-ACCGAGATGAGAGGT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGT
* * * **
13203458 CCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAACT
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGT
* * * *
13203508 CCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 CCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
13203544 GTACAGGAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 78 0.70
52 1 0.01
53 3 0.03
56 29 0.26
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (51 bp):
CCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGAGATGAGAGGT
Found at i:13203819 original size:20 final size:20
Alignment explanation
Indices: 13203794--13203832 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13203784 TGAGTTATTT
13203794 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
13203814 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
13203833 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:13204141 original size:20 final size:20
Alignment explanation
Indices: 13204116--13204154 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13204106 TGAGTTATTT
13204116 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
13204136 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
13204155 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:13209190 original size:20 final size:20
Alignment explanation
Indices: 13209165--13209203 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13209155 TACTTTCTTC
13209165 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
13209185 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
13209204 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:13209531 original size:49 final size:50
Alignment explanation
Indices: 13209454--13209598 Score: 195
Period size: 49 Copynumber: 2.9 Consensus size: 50
13209444 TTTCCTGTAC
* **
13209454 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
13209504 TGTCC-ATGCCATGTCCCAGACAT-GTCTTACGGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
13209553 TGCCAATGCCATATCCCAGACATTGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATA
13209599 ACCTCAATAA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
48 2 0.02
49 40 0.49
50 37 0.46
51 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:13211629 original size:45 final size:45
Alignment explanation
Indices: 13211548--13211679 Score: 196
Period size: 45 Copynumber: 3.0 Consensus size: 45
13211538 AATCGTTACA
* * **
13211548 CGGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
* *
13211591 CGGTGGAATCAGCACATAGCAACCACCTTTATAGTCAATGGTACC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
13211636 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
1 CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
13211680 TCAGTACACG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
43 6 0.08
44 13 0.16
45 60 0.76
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACC
Found at i:13219978 original size:29 final size:29
Alignment explanation
Indices: 13219943--13220001 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
13219933 CATTCTTTCG
13219943 CACACATTGAACCTTGAGTTCATTTTTAT
1 CACACATTGAACCTTGAGTTCATTTTTAT
*
13219972 CACACATTGAAGCTTGAGTTCATTTTTAT
1 CACACATTGAACCTTGAGTTCATTTTTAT
13220001 C
1 C
13220002 CTTACACACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (29 bp):
CACACATTGAACCTTGAGTTCATTTTTAT
Found at i:13228617 original size:44 final size:44
Alignment explanation
Indices: 13228568--13228656 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
13228558 CTCCCATGAA
*
13228568 TGCAATATTGTACATTATAAGGAGATAAGAAAGACCTTTAAAAC
1 TGCAATATTGAACATTATAAGGAGATAAGAAAGACCTTTAAAAC
13228612 TGCAATATTGAACATTATAAGGAGATAAGAAAGACCTTTAAAAC
1 TGCAATATTGAACATTATAAGGAGATAAGAAAGACCTTTAAAAC
13228656 T
1 T
13228657 AAATAAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (44 bp):
TGCAATATTGAACATTATAAGGAGATAAGAAAGACCTTTAAAAC
Found at i:13239432 original size:17 final size:16
Alignment explanation
Indices: 13239398--13239428 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13239388 AAACGCTTTC
13239398 AGCTAGAAGTATTTTA
1 AGCTAGAAGTATTTTA
13239414 AGCTAGAAGTATTTT
1 AGCTAGAAGTATTTT
13239429 TAAGTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (16 bp):
AGCTAGAAGTATTTTA
Found at i:13239627 original size:17 final size:17
Alignment explanation
Indices: 13239605--13239643 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13239595 CTGACTCTAT
*
13239605 TTTTAT-TTTCTAGTTTA
1 TTTTATATTT-TAGTATA
13239622 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
13239639 TTTTA
1 TTTTA
13239644 CATCTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:13240574 original size:28 final size:28
Alignment explanation
Indices: 13240532--13240587 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
13240522 TCCAACAAGA
**
13240532 AGTGTTTTTTTGCAAATCACCTGAAAAC
1 AGTGTTTTTCCGCAAATCACCTGAAAAC
13240560 AGTGTTTTTCCGCAAATCACCTGAAAAC
1 AGTGTTTTTCCGCAAATCACCTGAAAAC
13240588 TTGTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (28 bp):
AGTGTTTTTCCGCAAATCACCTGAAAAC
Found at i:13241385 original size:40 final size:40
Alignment explanation
Indices: 13241329--13241627 Score: 161
Period size: 40 Copynumber: 7.8 Consensus size: 40
13241319 TTTTGAGACA
*
13241329 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAAT
1 AAAATCTTAAGTAATTGTGACAAAATTAAATTGTCACAAT
* * *
13241369 AAAATCTTAAGCAATTGTGACAAATTTAAA-TGATCATAAT
1 AAAATCTTAAGTAATTGTGACAAAATTAAATTG-TCACAAT
* * ** * * *
13241409 --TAT-TTAATTTGTTTGTGATC-GAATT--TTTGGT---ATT
1 AAAATCTTAA-GTAATTGTGA-CAAAATTAAATT-GTCACAAT
*
13241443 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAAT
1 AAAATCTTAAGTAATTGTGACAAAATTAAATTGTCACAAT
* * *
13241483 AAAATCTTAAGCAATTGTGACAAATTTAAA-TGATCATAAT
1 AAAATCTTAAGTAATTGTGACAAAATTAAATTG-TCACAAT
* * ** * * *
13241523 --TAT-TTAATTTGTTTGTGATC-GAATT--TTTGGT---ATT
1 AAAATCTTAA-GTAATTGTGA-CAAAATTAAATT-GTCACAAT
*
13241557 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAAT
1 AAAATCTTAAGTAATTGTGACAAAATTAAATTGTCACAAT
* *
13241597 AAAATCTTAAGCAATTGTGACAAATTTAAAT
1 AAAATCTTAAGTAATTGTGACAAAATTAAAT
13241628 GATCATAATT
Statistics
Matches: 186, Mismatches: 45, Indels: 56
0.65 0.16 0.20
Matches are distributed among these distances:
34 4 0.02
35 2 0.01
36 26 0.14
37 22 0.12
38 28 0.15
39 6 0.03
40 98 0.53
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (40 bp):
AAAATCTTAAGTAATTGTGACAAAATTAAATTGTCACAAT
Found at i:13241712 original size:114 final size:114
Alignment explanation
Indices: 13241329--13241701 Score: 746
Period size: 114 Copynumber: 3.3 Consensus size: 114
13241319 TTTTGAGACA
13241329 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
1 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
13241394 TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
66 TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
13241443 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
1 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
13241508 TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
66 TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
13241557 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
1 AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
13241622 TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
66 TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
13241671 AAAATCATAAGTAATTGTGACAAAATTAAAT
1 AAAATCATAAGTAATTGTGACAAAATTAAAT
13241702 GGTAATAATA
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 259 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (114 bp):
AAAATCATAAGTAATTGTGACAAAATTAAATTGTCACAATAAAATCTTAAGCAATTGTGACAAAT
TTAAATGATCATAATTATTTAATTTGTTTGTGATCGAATTTTTGGTATT
Found at i:13241920 original size:18 final size:18
Alignment explanation
Indices: 13241897--13241932 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13241887 AGTGTTTCAT
*
13241897 AAGCTATATCACAAATAC
1 AAGCTACATCACAAATAC
13241915 AAGCTACATCACAAATAC
1 AAGCTACATCACAAATAC
13241933 CTCTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (18 bp):
AAGCTACATCACAAATAC
Found at i:13244843 original size:63 final size:63
Alignment explanation
Indices: 13244771--13244897 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
13244761 AAATAAATAG
13244771 AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
1 AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
13244834 AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
1 AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
13244897 A
1 A
13244898 TATACATATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.35
Consensus pattern (63 bp):
AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
Found at i:13244850 original size:21 final size:21
Alignment explanation
Indices: 13244771--13244864 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
13244761 AAATAAATAG
13244771 AGAAAATATACGTGTATATAT
1 AGAAAATATACGTGTATATAT
* * * *
13244792 ATAAATTATAAG-ATATAGTA-
1 AGAAAATATACGTGTATA-TAT
* * *
13244812 AGAAATGTATATGAGTATATAT
1 AGAAA-ATATACGTGTATATAT
13244834 AGAAAATATACGTGTATATAT
1 AGAAAATATACGTGTATATAT
* *
13244855 ATAAATTATA
1 AGAAAATATA
13244865 AGATATAGTA
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
20 8 0.14
21 39 0.70
22 9 0.16
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (21 bp):
AGAAAATATACGTGTATATAT
Found at i:13244934 original size:63 final size:62
Alignment explanation
Indices: 13244771--13244921 Score: 171
Period size: 63 Copynumber: 2.4 Consensus size: 62
13244761 AAATAAATAG
* * * *
13244771 AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
1 AGAAAATATAC-TATATAGAGAAAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
* * * *
13244834 AGAAAATATACGTGTATATATATAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
1 AGAAAATATAC-TATATAGAGAAAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
* *
13244897 ATATACATATA-TAT-TAGAGAAAAAT
1 AGA-AAATATACTATATAGAGAAAAAT
13244922 GTGTACGTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
61 8 0.10
62 2 0.02
63 65 0.80
64 6 0.07
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.34
Consensus pattern (62 bp):
AGAAAATATACTATATAGAGAAAAATTATAAGATATAGTAAGAAATGTATATGAGTATATAT
Found at i:13245049 original size:16 final size:16
Alignment explanation
Indices: 13245025--13245055 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13245015 TATGTACCGA
*
13245025 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
13245041 AAATATAAATAAATA
1 AAATATAAATAAATA
13245056 GATAACAATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:13246140 original size:15 final size:15
Alignment explanation
Indices: 13246120--13246151 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13246110 GAGAGTTGGA
13246120 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
13246135 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
13246150 GG
1 GG
13246152 GGCCACGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.56, T:0.06
Consensus pattern (15 bp):
GGCGTGGCAGACGAG
Found at i:13246959 original size:21 final size:21
Alignment explanation
Indices: 13246933--13246975 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13246923 ATAAGAATAA
13246933 ACTATGGATAAATGAGTGTAT
1 ACTATGGATAAATGAGTGTAT
*
13246954 ACTATGGATAAATGGGTGTAT
1 ACTATGGATAAATGAGTGTAT
13246975 A
1 A
13246976 TGTAATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (21 bp):
ACTATGGATAAATGAGTGTAT
Found at i:13251123 original size:41 final size:41
Alignment explanation
Indices: 13251078--13251162 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
13251068 TAGCAGAATC
*
13251078 CCAGACAATTGGATGTAACATTTCACTATAGAATAAAGCCA
1 CCAGACAATTGGATATAACATTTCACTATAGAATAAAGCCA
* *
13251119 CCAGACATTTGGATATAACGTTTCACTATAGAATAAAGCCA
1 CCAGACAATTGGATATAACATTTCACTATAGAATAAAGCCA
13251160 CCA
1 CCA
13251163 TCTAGAACAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (41 bp):
CCAGACAATTGGATATAACATTTCACTATAGAATAAAGCCA
Found at i:13252113 original size:14 final size:14
Alignment explanation
Indices: 13252094--13252130 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
13252084 AAAAGGTCTA
13252094 GTTGAACCGCATTG
1 GTTGAACCGCATTG
*
13252108 GTTGAATCGCATTG
1 GTTGAACCGCATTG
13252122 GTTGAACCG
1 GTTGAACCG
13252131 AATCTAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (14 bp):
GTTGAACCGCATTG
Found at i:13259992 original size:45 final size:45
Alignment explanation
Indices: 13259928--13260023 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
13259918 TGATTATTAC
*
13259928 AATAAATTGTTATATTAGCTTAATAATGACGTGAAATGTATTTCT
1 AATAAATTGTTATATTAGCTTAATAATGACATGAAATGTATTTCT
13259973 AATAAATTGTTATATTAGCTTAATAATGACATGAAATGTATTTCT
1 AATAAATTGTTATATTAGCTTAATAATGACATGAAATGTATTTCT
13260018 AATAAA
1 AATAAA
13260024 GCATGCGAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (45 bp):
AATAAATTGTTATATTAGCTTAATAATGACATGAAATGTATTTCT
Found at i:13259998 original size:21 final size:21
Alignment explanation
Indices: 13259928--13259998 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
13259918 TGATTATTAC
13259928 AATAAATTGTTATATTAGCTT
1 AATAAATTGTTATATTAGCTT
* * * **
13259949 AAT-AATGACGTGAAATGTATTTCT
1 AATAAAT--TGTTATAT-TAGCT-T
13259973 AATAAATTGTTATATTAGCTT
1 AATAAATTGTTATATTAGCTT
13259994 AATAA
1 AATAA
13259999 TGACATGAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 3 0.09
21 9 0.26
22 8 0.23
23 8 0.23
24 4 0.11
25 3 0.09
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (21 bp):
AATAAATTGTTATATTAGCTT
Found at i:13261090 original size:18 final size:19
Alignment explanation
Indices: 13261067--13261105 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13261057 ATTGTCGAAC
13261067 AATAATTAAA-TATGATAA
1 AATAATTAAATTATGATAA
*
13261085 AATAATTAAATTATGTTAA
1 AATAATTAAATTATGATAA
13261104 AA
1 AA
13261106 ATATGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AATAATTAAATTATGATAA
Found at i:13266559 original size:3 final size:3
Alignment explanation
Indices: 13266551--13266583 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
13266541 TCCATTTTCC
13266551 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
13266584 AACTTTCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:13282691 original size:24 final size:25
Alignment explanation
Indices: 13282636--13282695 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
13282626 AAGGCCCTTT
*
13282636 CATGAGCTTCCTAATTAATGGCTCT
1 CATGAGCTTCCTAATTAATGGCTCG
** *
13282661 CCGGAGCTTCCTAA-TATTGGCTCG
1 CATGAGCTTCCTAATTAATGGCTCG
13282685 CATGAGCTTCC
1 CATGAGCTTCC
13282696 CGATTATCGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (25 bp):
CATGAGCTTCCTAATTAATGGCTCG
Found at i:13282749 original size:25 final size:26
Alignment explanation
Indices: 13282678--13282778 Score: 66
Period size: 25 Copynumber: 4.0 Consensus size: 26
13282668 TTCCTAATAT
*
13282678 TGGCTCGCATGAGCTTCCCGATT--A
1 TGGCTCACATGAGCTTCCCGATTACA
* ** * * *
13282702 TCGCTCTTATAAGCTTTCTG-TTACA
1 TGGCTCACATGAGCTTCCCGATTACA
*
13282727 TGGCTCACATGAGCTTCCCG-TTATA
1 TGGCTCACATGAGCTTCCCGATTACA
* * * *
13282752 TGGATCAAAAGAGCTTCCCGTTTACA
1 TGGCTCACATGAGCTTCCCGATTACA
13282778 T
1 T
13282779 TCTTGTATAA
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
23 2 0.04
24 14 0.25
25 36 0.63
26 5 0.09
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
TGGCTCACATGAGCTTCCCGATTACA
Found at i:13286823 original size:50 final size:50
Alignment explanation
Indices: 13286719--13286908 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
13286709 AAAGAGATCT
* *
13286719 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
*
13286775 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** ** *** **
13286825 CCCGTAAGACCATGTCTGGGACATGGCACGGGCACCTCTATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
13286875 CATGTAAGACCATATCTGGGATATGGCACTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
13286909 GTACAAGAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.68
53 3 0.03
55 1 0.01
56 33 0.28
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:13293809 original size:39 final size:39
Alignment explanation
Indices: 13293736--13293947 Score: 194
Period size: 40 Copynumber: 5.4 Consensus size: 39
13293726 TTTGTATGAT
* *
13293736 TGCACATACGTGCCCCTATTTGTACTTC-AGTACCCTTGAA
1 TGCACATACGTG-CCCTGTTTGTACTTCGA-TACCCCTGAA
*
13293776 TGCACATACGTGCCCTGTTTGTACTTTGATACCCCTGAA
1 TGCACATACGTGCCCTGTTTGTACTTCGATACCCCTGAA
* * * * *
13293815 CGCACATACTTGCCCTGCCTT-TACTTCGACACCCCTGAT
1 TGCACATACGTGCCCTG-TTTGTACTTCGATACCCCTGAA
** * * *
13293854 TGCACATGTGTGCCCATGTTTGTACTTCGGTACACCTGAT
1 TGCACATACGTGCCC-TGTTTGTACTTCGATACCCCTGAA
* * *
13293894 TGCACATACGTGCCCCTATATGTACTTCGGTACCCCTGAA
1 TGCACATACGTG-CCCTGTTTGTACTTCGATACCCCTGAA
* **
13293934 CGCATTTACGTGCC
1 TGCACATACGTGCC
13293948 TTAACTGTAC
Statistics
Matches: 141, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
39 67 0.48
40 71 0.50
41 3 0.02
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.31
Consensus pattern (39 bp):
TGCACATACGTGCCCTGTTTGTACTTCGATACCCCTGAA
Found at i:13293892 original size:40 final size:39
Alignment explanation
Indices: 13293732--13293932 Score: 206
Period size: 39 Copynumber: 5.1 Consensus size: 39
13293722 AATATTTGTA
* * *
13293732 TGATTGCACATACGTGCCCCTATTTGTACTTCAGTACCCT
1 TGATTGCACATACGTG-CCCTGTTTGTACTTCGGTACCCC
* * *
13293772 TGAATGCACATACGTGCCCTGTTTGTACTTTGATACCCC
1 TGATTGCACATACGTGCCCTGTTTGTACTTCGGTACCCC
** * * **
13293811 TGAACGCACATACTTGCCCTGCCTT-TACTTCGACACCCC
1 TGATTGCACATACGTGCCCTG-TTTGTACTTCGGTACCCC
** *
13293850 TGATTGCACATGTGTGCCCATGTTTGTACTTCGGTACACC
1 TGATTGCACATACGTGCCC-TGTTTGTACTTCGGTACCCC
* *
13293890 TGATTGCACATACGTGCCCCTATATGTACTTCGGTACCCC
1 TGATTGCACATACGTG-CCCTGTTTGTACTTCGGTACCCC
13293930 TGA
1 TGA
13293933 ACGCATTTAC
Statistics
Matches: 132, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 65 0.49
40 64 0.48
41 3 0.02
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCTGTTTGTACTTCGGTACCCC
Found at i:13295687 original size:16 final size:17
Alignment explanation
Indices: 13295666--13295704 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
13295656 TAGAAATTTC
13295666 TATAAT-TTCTATTTTT
1 TATAATATTCTATTTTT
*
13295682 TATAATATTTTATTTTT
1 TATAATATTCTATTTTT
13295699 TCATAA
1 T-ATAA
13295705 AATATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 10 0.50
18 4 0.20
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (17 bp):
TATAATATTCTATTTTT
Found at i:13296991 original size:81 final size:83
Alignment explanation
Indices: 13296839--13296999 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 83
13296829 TTTTTCTTGG
**
13296839 TTTTTGTTAAAATAAAAAAGACTAAAATACCCTCAAATAATATGACTCATTTTAATTACGAAGGG
1 TTTTTGTTAAAATAAAAAAGACTAAAATACCCTCAAATAATATGACTCATTTTAATTACGAAAAG
*
13296904 ATATTTTCGTAATTTCCT
66 ACATTTTCGTAATTTCCT
* * * * * *
13296922 TTTTTGTTAAAAT-GAAAATATTAAAATA-CTTCAAATAATATGACTCATTTTAATTATGAAAAT
1 TTTTTGTTAAAATAAAAAAGACTAAAATACCCTCAAATAATATGACTCATTTTAATTACGAAAAG
*
13296985 ACATTTTCTTAATTT
66 ACATTTTCGTAATTT
13297000 TTTTAATCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 43 0.63
82 12 0.18
83 13 0.19
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (83 bp):
TTTTTGTTAAAATAAAAAAGACTAAAATACCCTCAAATAATATGACTCATTTTAATTACGAAAAG
ACATTTTCGTAATTTCCT
Found at i:13297671 original size:22 final size:22
Alignment explanation
Indices: 13297627--13297671 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13297617 TTATGTTGAT
* *
13297627 TCATAGAGCTGATTTCTAGGGA
1 TCATAGAACTGATTTCTAAGGA
* *
13297649 TCATAGAATTGATTTGTAAGGA
1 TCATAGAACTGATTTCTAAGGA
13297671 T
1 T
13297672 TTGGTTTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (22 bp):
TCATAGAACTGATTTCTAAGGA
Found at i:13297685 original size:23 final size:23
Alignment explanation
Indices: 13297656--13297709 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
13297646 GGATCATAGA
*
13297656 ATTGATTTGTAAGGATTTGGTTT
1 ATTGATTTGCAAGGATTTGGTTT
13297679 ATTGATTTGCAAGGATTTGGTTT
1 ATTGATTTGCAAGGATTTGGTTT
*
13297702 ATTTATTT
1 ATTGATTT
13297710 CTTTCCTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.54
Consensus pattern (23 bp):
ATTGATTTGCAAGGATTTGGTTT
Found at i:13301804 original size:22 final size:22
Alignment explanation
Indices: 13301776--13301820 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
13301766 ACAGTTAGAT
*
13301776 TCATAGAGCTGATTTGTAGGGA
1 TCATAGAACTGATTTGTAGGGA
*
13301798 TCATAGAATTGATTTGTAGGGA
1 TCATAGAACTGATTTGTAGGGA
13301820 T
1 T
13301821 TTTTTTCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (22 bp):
TCATAGAACTGATTTGTAGGGA
Found at i:13301964 original size:6 final size:6
Alignment explanation
Indices: 13301953--13302015 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
13301943 TGCTAATATT
13301953 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
13302001 TATACA TATACA TAT
1 TATACA TATACA TAT
13302016 GTTGGAATCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (6 bp):
TATACA
Found at i:13302056 original size:32 final size:32
Alignment explanation
Indices: 13302015--13302077 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
13302005 CATATACATA
13302015 TGTTGGAATCCCTATAATTAAGGATAGAAATT
1 TGTTGGAATCCCTATAATTAAGGATAGAAATT
*
13302047 TGTTGGAATCCCTATAATTAATGATAGAAAT
1 TGTTGGAATCCCTATAATTAAGGATAGAAAT
13302078 CTTACCTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTTGGAATCCCTATAATTAAGGATAGAAATT
Found at i:13306706 original size:32 final size:32
Alignment explanation
Indices: 13306665--13306729 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
13306655 TTGAGGGGAG
*
13306665 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGAATAGAAATC
13306697 TGTTGGAATCCCTATAATTAAGAATAGAAATC
1 TGTTGGAATCCCTATAATTAAGAATAGAAATC
13306729 T
1 T
13306730 TACCTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTTGGAATCCCTATAATTAAGAATAGAAATC
Found at i:13312163 original size:17 final size:17
Alignment explanation
Indices: 13312141--13312174 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13312131 ACCCCAAACA
13312141 GCCGAGTCCGGGTAACG
1 GCCGAGTCCGGGTAACG
13312158 GCCGAGTCCGGGTAACG
1 GCCGAGTCCGGGTAACG
13312175 AAGGTTGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.41, T:0.12
Consensus pattern (17 bp):
GCCGAGTCCGGGTAACG
Found at i:13318492 original size:46 final size:46
Alignment explanation
Indices: 13318425--13318516 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
13318415 AGGCTAAAAA
*
13318425 GTTAATCGATTTACCAAGAACATTGCACTATTGAATG-TTTCATGCC
1 GTTAATCGATTTACCAAGAACACTGCACTATTGAATGCTTT-ATGCC
* *
13318471 GTTAATCGATTTATCAAGAACACTGCATTATTGAATGCTTTATGCC
1 GTTAATCGATTTACCAAGAACACTGCACTATTGAATGCTTTATGCC
13318517 AATAGTACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 39 0.93
47 3 0.07
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (46 bp):
GTTAATCGATTTACCAAGAACACTGCACTATTGAATGCTTTATGCC
Found at i:13321367 original size:31 final size:30
Alignment explanation
Indices: 13321329--13321390 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
13321319 TGTCAAAATT
* **
13321329 AAAATATATAGATTAAATATCAAATTTAAAC
1 AAAATATAGAGACCAAAT-TCAAATTTAAAC
*
13321360 AAAATATAGAGACCAAATTGAAATTTAAAC
1 AAAATATAGAGACCAAATTCAAATTTAAAC
13321390 A
1 A
13321391 TTCTTGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (30 bp):
AAAATATAGAGACCAAATTCAAATTTAAAC
Done.