Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 246 of 295
Found at i:84557690 original size:38 final size:38
Alignment explanation
Indices: 84557639--84557717 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
84557629 AGTTTGTGTC
84557639 TTTAATTATGTCATAGTTTGAACATCATTAATATGAGT
1 TTTAATTATGTCATAGTTTGAACATCATTAATATGAGT
* *
84557677 TTTAATTATGTCATAGTTTGAATATCATTAATATGTGT
1 TTTAATTATGTCATAGTTTGAACATCATTAATATGAGT
84557715 TTT
1 TTT
84557718 GCATTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (38 bp):
TTTAATTATGTCATAGTTTGAACATCATTAATATGAGT
Found at i:84561249 original size:46 final size:44
Alignment explanation
Indices: 84561166--84561335 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 44
84561156 CTCGTAGTCT
* * * *
84561166 ATGCATATCCCAGACATGTCTTACATTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCCT-CGTCTC-AGGCCG
** *
84561212 ATGCATGTCTTAGACATGTCTTACACTAGCACTCGTCTCAAAGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-CTCGTCTC-AGGCCG
* * * *
84561258 ATAACATGTCCCAGACATGGTCTTACACAAGCTCTCATAAT-ATGGCCG
1 AT-GCATGTCCCAGACAT-GTCTTACACTAGC-CTCGT-CTCA-GGCCG
*
84561306 TTGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
84561336 TCACAATAAC
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
46 50 0.50
47 28 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCCTCGTCTCAGGCCG
Found at i:84562225 original size:12 final size:12
Alignment explanation
Indices: 84562208--84562233 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84562198 AAAACAGGGC
84562208 TTTAGCGGCATT
1 TTTAGCGGCATT
84562220 TTTAGCGGCATT
1 TTTAGCGGCATT
84562232 TT
1 TT
84562234 ACCAAAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCATT
Found at i:84562293 original size:40 final size:41
Alignment explanation
Indices: 84562238--84562373 Score: 206
Period size: 40 Copynumber: 3.4 Consensus size: 41
84562228 CATTTTACCA
*
84562238 AAAACGCCGCTAAAAACAGAGCAATAGTGGCG-TTTCTGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCTGGT
*
84562278 AAAACGTCGCTAAAAACAGAGCAATAGCGGCGCTTT-TGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCTGGT
* *
84562318 AAAACGCCGCTAAAATCTAGAGCATTAGCGGCGCTTTC-GGT
1 AAAACGCCGCTAAAAAC-AGAGCAATAGCGGCGCTTTCTGGT
84562359 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
84562374 GTCATATAAC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
40 49 0.56
41 39 0.44
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCTGGT
Found at i:84562699 original size:15 final size:15
Alignment explanation
Indices: 84562676--84562729 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
84562666 TATTTTAAGT
*
84562676 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
84562691 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
84562705 TTTAAGGG-TTAGGGG
1 TTT-AGGGATTATGGG
*
84562720 TCTA-GGATTA
1 TTTAGGGATTA
84562730 AGAGTTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:84562702 original size:22 final size:21
Alignment explanation
Indices: 84562677--84562736 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
84562667 ATTTTAAGTT
*
84562677 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
84562699 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
*
84562720 TCTA-GGATTAAGAGTTA
1 T-TATGGATTAAGGGTTA
84562737 TATTTTAGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.25, C:0.02, G:0.35, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:84563387 original size:6 final size:6
Alignment explanation
Indices: 84563371--84563422 Score: 70
Period size: 6 Copynumber: 8.3 Consensus size: 6
84563361 AACAACATTG
84563371 ATAACAA ATAAAA ATAAAA TATAAAA ATAAAA AT-AAA ATATAAA ATAAAA
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA ATA-AAA ATAAAA
84563421 AT
1 AT
84563423 TAGTAGCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.12
6 21 0.50
7 16 0.38
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:84563398 original size:19 final size:19
Alignment explanation
Indices: 84563371--84563422 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
84563361 AACAACATTG
84563371 ATAACAAATAAAAATAAAAT
1 ATAA-AAATAAAAATAAAAT
84563391 ATAAAAATAAAAATAAAAT
1 ATAAAAATAAAAATAAAAT
84563410 AT-AAAATAAAAAT
1 ATAAAAATAAAAAT
84563423 TAGTAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.34
19 17 0.53
20 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAT
Found at i:84563422 original size:13 final size:12
Alignment explanation
Indices: 84563371--84563422 Score: 70
Period size: 13 Copynumber: 4.2 Consensus size: 12
84563361 AACAACATTG
84563371 ATAACAAATAAAA
1 ATAA-AAATAAAA
84563384 ATAAAATATAAAA
1 ATAAAA-ATAAAA
84563397 ATAAAAAT-AAA
1 ATAAAAATAAAA
84563408 ATATAAAATAAAA
1 ATA-AAAATAAAA
84563421 AT
1 AT
84563423 TAGTAGCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.17
12 9 0.25
13 21 0.58
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:84568622 original size:14 final size:15
Alignment explanation
Indices: 84568605--84568633 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
84568595 AATAAAGTGG
84568605 AAAAAAGAG-GGGAA
1 AAAAAAGAGAGGGAA
84568619 AAAAAAGAGAGGGAA
1 AAAAAAGAGAGGGAA
84568634 TGAGAGGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AAAAAAGAGAGGGAA
Found at i:84570683 original size:20 final size:19
Alignment explanation
Indices: 84570655--84570694 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
84570645 GTTTCTTTCT
*
84570655 AAAAGAAAAAAGAATGCAAA
1 AAAAGAAAAAAAAATG-AAA
*
84570675 AAAATAAAAAAAAATGAAA
1 AAAAGAAAAAAAAATGAAA
84570694 A
1 A
84570695 TTGGCCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAAGAAAAAAAAATGAAA
Found at i:84571087 original size:24 final size:24
Alignment explanation
Indices: 84571060--84571105 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
84571050 AAAACATGTA
84571060 TTTA-AACAATTATATATATATTGC
1 TTTAGAAC-ATTATATATATATTGC
* *
84571084 TTTAGATCTTTATATATATATT
1 TTTAGAACATTATATATATATT
84571106 AATTCTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTAGAACATTATATATATATTGC
Found at i:84571318 original size:24 final size:24
Alignment explanation
Indices: 84571291--84571378 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
84571281 TTTATATACG
*
84571291 TTATTTATTTTAAACTTTTACATA
1 TTATTTATTTTAAACTTTTAAATA
*
84571315 TTATTTATCTTAAA--TTTAAATACA
1 TTATTTATTTTAAACTTTTAAAT--A
* * *
84571339 TTATGTA-GTTAAACTAATTTATATA
1 TTATTTATTTTAAACT--TTTAAATA
84571364 TTATTTATTTTAAAC
1 TTATTTATTTTAAAC
84571379 CCTCTTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
22 6 0.12
23 5 0.10
24 20 0.40
25 7 0.14
26 6 0.12
27 6 0.12
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTTATTTTAAACTTTTAAATA
Found at i:84575381 original size:19 final size:20
Alignment explanation
Indices: 84575354--84575396 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
84575344 TCTTTTTGCA
* *
84575354 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
84575374 TTCA-TCATGTGCATTAAAT
1 TTCATTCATGTGCATTAAAT
84575393 TTCA
1 TTCA
84575397 CGAAAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:84583764 original size:87 final size:87
Alignment explanation
Indices: 84583403--84584099 Score: 972
Period size: 87 Copynumber: 8.0 Consensus size: 87
84583393 AGAATGGTGT
* * * * *
84583403 AACAGATCGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCGAA-TTGCAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* *
84583467 TTATCTCCCTAAGCAGTAGTGG-
66 TTAACCCCCTAAGCAGTAG-GGA
* * ** * * *
84583489 AGCAGATCGAAGATGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* *
84583553 TTATCTCCCTAAGCAGTAGTGG-
66 TTAACCCCCTAAGCAGTAG-GGA
* * ** * *
84583575 AGCAGATCGAAGATGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* * *
84583639 TTATCTCCCTAAGAAGTAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
84583661 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
*
84583726 TTAACCCCTTAAGCAGTAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
* *
84583748 AACAGATCGAATACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTCAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
*
84583813 TTAACCCCCGAAGCAGTAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
* * * *
84583835 AATAGATCGAATACGAAGGGCCTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
*
84583900 TTAACCCCCTAAGCACTAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
* *
84583922 AACAGATCGAAGGCGAAAGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* *
84583987 TTAACCCCCCAAGCAGTAAGGA
66 TTAACCCCCTAAGCAGTAGGGA
*
84584009 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACGGGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* *
84584074 TTAACCCCCTAAGTAGTAGGGT
66 TTAACCCCCTAAGCAGTAGGGA
84584096 AACA
1 AACA
84584100 AGCTGGAAAT
Statistics
Matches: 564, Mismatches: 45, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
85 2 0.00
86 208 0.37
87 354 0.63
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (87 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
TTAACCCCCTAAGCAGTAGGGA
Found at i:84585119 original size:19 final size:18
Alignment explanation
Indices: 84585092--84585130 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
84585082 GTTTCTTTCT
*
84585092 AAAAGAAAAAAGAATGCAA
1 AAAAGAAAAAAAAATG-AA
*
84585111 AAAATAAAAAAAAATGAA
1 AAAAGAAAAAAAAATGAA
84585129 AA
1 AA
84585131 TTGGCCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAAAAAATGAA
Found at i:84585752 original size:24 final size:24
Alignment explanation
Indices: 84585725--84585812 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
84585715 TTTATATACG
*
84585725 TTATTTATTTTAAACTTTTACATA
1 TTATTTATTTTAAACTTTTAAATA
*
84585749 TTATTTATCTTAAA--TTTAAATACA
1 TTATTTATTTTAAACTTTTAAAT--A
* * *
84585773 TTATGTA-GTTAAACTAATTTATATA
1 TTATTTATTTTAAACT--TTTAAATA
84585798 TTATTTATTTTAAAC
1 TTATTTATTTTAAAC
84585813 CCTCTTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
22 6 0.12
23 5 0.10
24 20 0.40
25 7 0.14
26 6 0.12
27 6 0.12
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (24 bp):
TTATTTATTTTAAACTTTTAAATA
Found at i:84590304 original size:43 final size:43
Alignment explanation
Indices: 84590242--84590370 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
84590232 ATAGGATTTA
* **
84590242 CGATATGTGATTGTGTGTAAGACCATGTCTGGGACA-TCGGCAT
1 CGATATGTAATTACGTGTAAGACCATGTCTGGGACAGT-GGCAT
*
84590285 CGTATATGTAATT-CGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CG-ATATGTAATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
84590328 CGATATGTGATTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATGTAATTACGTGTAAGACCATGTCTGGGACAG-TGGCAT
84590371 TGTACGTTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
42 10 0.13
43 55 0.73
44 10 0.13
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
CGATATGTAATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:84597379 original size:132 final size:132
Alignment explanation
Indices: 84597154--84597417 Score: 528
Period size: 132 Copynumber: 2.0 Consensus size: 132
84597144 ATATATATAT
84597154 ATATATATAGCAGAATACAAAACAAAACCAAAGCTGGCTTGCCTGCTTGAATAATGTAAGAGCAA
1 ATATATATAGCAGAATACAAAACAAAACCAAAGCTGGCTTGCCTGCTTGAATAATGTAAGAGCAA
84597219 ACGTGGCTTATTTATGCCATGCCATGGTTACTTGAGTACTTGGCTTGTGATGGTAAAATACAGTA
66 ACGTGGCTTATTTATGCCATGCCATGGTTACTTGAGTACTTGGCTTGTGATGGTAAAATACAGTA
84597284 CA
131 CA
84597286 ATATATATAGCAGAATACAAAACAAAACCAAAGCTGGCTTGCCTGCTTGAATAATGTAAGAGCAA
1 ATATATATAGCAGAATACAAAACAAAACCAAAGCTGGCTTGCCTGCTTGAATAATGTAAGAGCAA
84597351 ACGTGGCTTATTTATGCCATGCCATGGTTACTTGAGTACTTGGCTTGTGATGGTAAAATACAGTA
66 ACGTGGCTTATTTATGCCATGCCATGGTTACTTGAGTACTTGGCTTGTGATGGTAAAATACAGTA
84597416 CA
131 CA
84597418 GTATCTTCAT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (132 bp):
ATATATATAGCAGAATACAAAACAAAACCAAAGCTGGCTTGCCTGCTTGAATAATGTAAGAGCAA
ACGTGGCTTATTTATGCCATGCCATGGTTACTTGAGTACTTGGCTTGTGATGGTAAAATACAGTA
CA
Found at i:84607461 original size:12 final size:12
Alignment explanation
Indices: 84607444--84607469 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84607434 TCTGAGAGCA
84607444 TGGGTTGATTCT
1 TGGGTTGATTCT
84607456 TGGGTTGATTCT
1 TGGGTTGATTCT
84607468 TG
1 TG
84607470 AAAACAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.35, T:0.50
Consensus pattern (12 bp):
TGGGTTGATTCT
Found at i:84608575 original size:14 final size:14
Alignment explanation
Indices: 84608547--84608603 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
84608537 TGCCACAATT
*
84608547 AACACTTCA-ATTC
1 AACAATTCATATTC
84608560 AACAATTCATATTC
1 AACAATTCATATTC
* *
84608574 AACCATTCACATGTC
1 AACAATTCATAT-TC
84608589 AACAATTCATCATTC
1 AACAATTCAT-ATTC
84608604 TCACATGCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 8 0.22
14 14 0.39
15 12 0.33
16 2 0.06
ACGTcount: A:0.39, C:0.28, G:0.02, T:0.32
Consensus pattern (14 bp):
AACAATTCATATTC
Found at i:84618372 original size:30 final size:30
Alignment explanation
Indices: 84618336--84618396 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
84618326 TTCCCGAGCC
*
84618336 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
* * *
84618366 TAGGGGCAAAATTATAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGCAAAAGTT
84618396 T
1 T
84618397 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGCAAAAGTT
Found at i:84631587 original size:90 final size:90
Alignment explanation
Indices: 84631423--84631588 Score: 201
Period size: 90 Copynumber: 1.8 Consensus size: 90
84631413 ATGCCAAAGC
* * * *
84631423 CATGTCCCCGACATGGTCTTATATAGGTCTACATACCGATGCCATATCCCAGATATGGTCTTATA
1 CATGTCCCAGACATGGTCTTATACAGGCCTACATACCGATGCCATATCCCAGACATGGTCTTATA
*
84631488 CGAAGTCTCATGTCGGTGCCGATGT
66 CGAAATCTCATGTCGGTGCCGATGT
* * * * * *
84631513 CATGTCCCAGACATGGTCTTATACGGGACCT-CATATCGATTCCATGTCCCCGACATGGTGTTA-
1 CATGTCCCAGACATGGTCTTATACAGG-CCTACATACCGATGCCATATCCCAGACATGGTCTTAT
84631576 AGCGAAATCTCAT
65 A-CGAAATCTCAT
84631589 ATCAATGCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.02
90 60 0.95
91 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (90 bp):
CATGTCCCAGACATGGTCTTATACAGGCCTACATACCGATGCCATATCCCAGACATGGTCTTATA
CGAAATCTCATGTCGGTGCCGATGT
Found at i:84636640 original size:37 final size:39
Alignment explanation
Indices: 84636573--84636657 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 39
84636563 TCGCACGAAT
*
84636573 GCCTTCGGGACTTAACCCGGATTTAATATCT-CACAAAG
1 GCCTTCGGGACTTAACCCGGACTTAATATCTCCACAAAG
* *
84636611 GCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACAAAT
1 GCCTTCGGGACTTAACCCGG-ACTTAATATCTC-CACAAAG
84636650 GCCTTCGG
1 GCCTTCGG
84636658 ATCTTAGTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 15 0.37
38 12 0.29
39 14 0.34
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGACTTAATATCTCCACAAAG
Found at i:84644006 original size:40 final size:38
Alignment explanation
Indices: 84643913--84644132 Score: 178
Period size: 40 Copynumber: 5.6 Consensus size: 38
84643903 TCCTCGTTCA
* * * * *
84643913 AATGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCAC
84643951 AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAAT-ACTCGCAC
84643990 GAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATA-CTCGCAC
* *
84644030 AAAGGCCTTCGGGGCTTAACCCGGAACTTGT-AT-CTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-A-TT-TAATACTCGCAC
** * * *
84644070 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAAT-AC-TCGCAC
* *
84644111 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAACCCG
84644133 TACAGCATTC
Statistics
Matches: 152, Mismatches: 18, Indels: 22
0.79 0.09 0.11
Matches are distributed among these distances:
37 1 0.01
38 21 0.14
39 17 0.11
40 99 0.65
41 9 0.06
42 4 0.03
43 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATACTCGCAC
Found at i:84649929 original size:42 final size:42
Alignment explanation
Indices: 84649870--84649985 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 42
84649860 GTCGGTGCTG
* **
84649870 ATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATATCA
* *
84649912 ATGCCATGTCCCCGACATGGTCTTACACGAAATCTCATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATATCA
* * * * *
84649954 ACGCCATATCCTAGATATGGTCTTACATGAAA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAA
84649986 TCGCATACCG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAACCTCATATCA
Found at i:84654014 original size:42 final size:42
Alignment explanation
Indices: 84653918--84654140 Score: 234
Period size: 42 Copynumber: 5.2 Consensus size: 42
84653908 TGAGATATCG
* * *
84653918 TGTAAGACCGTGTCTGGGACATAGGCCTCG-ATTTGATATTTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCGTATCTG--ATTT-CA
* * *
84653962 TGTAAGACCATGTTTGGGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTTCA
* * * *
84654004 TGTAAGACCATGTTTGGGACATCGGCATCATATCAGATTTCA
1 TGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTTCA
* * *
84654046 TGTAAGACCATGTCTGGGACATCGGCATTGTATCTGATTTCG
1 TGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTTCA
* * * *
84654088 TATAAGACCCTGTCTGGGACAGAGGCATCG-ATACTGAATTACA
1 TGTAAGACCATGTCTGGGACATAGGCATCGTAT-CTG-ATTTCA
84654131 TGTAAGACCA
1 TGTAAGACCA
84654141 CATTTGAGAC
Statistics
Matches: 152, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.01
42 104 0.68
43 16 0.11
44 26 0.17
45 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTTCA
Found at i:84654064 original size:84 final size:85
Alignment explanation
Indices: 84653915--84654140 Score: 285
Period size: 84 Copynumber: 2.7 Consensus size: 85
84653905 ATCTGAGATA
* * * * * *
84653915 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTTGATATTTACATGTAAGACCATGTTTGGG
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGATATCAGATTT-CATGTAAGACCATGTCTGGG
*
84653980 ACATTGGCATCGTATCTGATT
65 ACATCGGCATCGTATCTGATT
* *
84654001 TCGTGTAAGACCATGTTTGGGACATCGGCATC-ATATCAGATTTCATGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGATATCAGATTTCATGTAAGACCATGTCTGGGA
*
84654065 CATCGGCATTGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * * *
84654085 TCGTATAAGACCCTGTCTGGGACAGAGGCATCGATA-CTGAATTACATGTAAGACCA
1 TCGTGTAAGACCATGTCTGGGACATAGGCATCGATATCAG-ATTTCATGTAAGACCA
84654141 CATTTGAGAC
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 67 0.55
85 26 0.21
86 28 0.23
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (85 bp):
TCGTGTAAGACCATGTCTGGGACATAGGCATCGATATCAGATTTCATGTAAGACCATGTCTGGGA
CATCGGCATCGTATCTGATT
Found at i:84661305 original size:42 final size:42
Alignment explanation
Indices: 84661209--84661399 Score: 204
Period size: 42 Copynumber: 4.5 Consensus size: 42
84661199 TGAGATATCG
* * * * * *
84661209 TGTAAGACCGTGTCTAGGACATAGGCCTCG-ATTTGATATTTACG
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTG--ATTT-CC
* *
84661253 TGTAAGACCATGTCTGAGACATCGACATCGTATCTGATTTCC
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCC
* *
84661295 TGTAAGACCATGTCTGGGACATCGGTATCGTATCTGATTTCT
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCC
* * **
84661337 TGTAAGACCATGTTTGGGACATCGGCATTGTATCTGATTTTG
1 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCC
* *
84661379 TATAAGACCCTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
84661400 GAGGCATTGA
Statistics
Matches: 126, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 94 0.75
43 4 0.03
44 24 0.19
45 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCC
Found at i:84671632 original size:79 final size:80
Alignment explanation
Indices: 84671521--84671701 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
84671511 GCTACTCGTT
* *
84671521 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATGCCTTC-GGATCTTAACCCG
* *
84671585 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
84671601 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
* *
84671664 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
84671680 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
84671702 AGACATCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 3 0.03
78 34 0.39
79 37 0.42
80 14 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:84671638 original size:39 final size:40
Alignment explanation
Indices: 84671521--84671701 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
84671511 GCTACTCGTT
*
84671521 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
84671561 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
84671601 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
84671640 C-AATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
84671680 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
84671702 AGACATCATT
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.02
38 9 0.07
39 37 0.30
40 67 0.55
41 7 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84677055 original size:21 final size:21
Alignment explanation
Indices: 84677031--84677078 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
84677021 CACGAGTATT
*
84677031 GATACTCATAGTAAAATAATC
1 GATACTCAGAGTAAAATAATC
84677052 GATAGC-CAGAGTAAAATAATC
1 GATA-CTCAGAGTAAAATAATC
84677073 GATACT
1 GATACT
84677079 TTATGAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (21 bp):
GATACTCAGAGTAAAATAATC
Found at i:84689357 original size:42 final size:43
Alignment explanation
Indices: 84689265--84689370 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 43
84689255 AATGCCAACG
* *
84689265 TCCCAGAC-GCGGTCTTACATGTAATCAAACATCGATGCCACTA
1 TCCCAGACAG-GGTCTTACACGAAATCAAACATCGATGCCACTA
* *
84689308 TCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGCCGA-TG
1 TCCCAGACAGGGTCTTACACGAAATCAAACATCGATGCC-ACTA
* *
84689350 TCTCAGACATGGTCTTACACG
1 TCCCAGACAGGGTCTTACACG
84689371 TAAAACAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 27 0.49
43 27 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCAAACATCGATGCCACTA
Found at i:84689407 original size:44 final size:42
Alignment explanation
Indices: 84689256--84689409 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
84689246 AACATATACA
* * *
84689256 ATGCCAACGTCCCAGACGCGGTCTTACATGT-AATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCG
* *
84689299 ATGCCACTATCCCAGACAG-GGTCTTACACG-AAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAATCAAAT-CG
* * * *
84689341 ATGCCGATGTCTCAGACATGGTCTTACACGTAAAACAGAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCG
*
84689385 ATACCAATGTCCCAGACGTGGTCTT
1 ATGCCAATGTCCCAGACGTGGTCTT
84689410 TCATGAAATC
Statistics
Matches: 90, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 33 0.37
44 26 0.29
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAATCG
Found at i:84719348 original size:46 final size:48
Alignment explanation
Indices: 84719244--84719363 Score: 129
Period size: 48 Copynumber: 2.5 Consensus size: 48
84719234 TGTCTTCGAC
* *
84719244 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGATCATTCCTGTCTCCAATGCCATATATATATAAT
* * * * *
84719292 ATGGGCTTACATGGGTCATTCCTTTCTCCAAAT-CCATATA-A-CTGAT
1 ATGGACTTACATGGATCATTCCTGTCTCC-AATGCCATATATATATAAT
* *
84719338 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGATCATTCCTGTC
84719364 CTGTCCTGTC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 25 0.42
47 1 0.02
48 31 0.52
49 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGGATCATTCCTGTCTCCAATGCCATATATATATAAT
Found at i:84726011 original size:21 final size:20
Alignment explanation
Indices: 84725985--84726024 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
84725975 GTTATAATGA
84725985 CCACACGTGCGTGT-TGCCCTT
1 CCACACG-G-GTGTGTGCCCTT
84726006 CCACACGGGTGTGTGCCCT
1 CCACACGGGTGTGTGCCCT
84726025 ATTTCATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (20 bp):
CCACACGGGTGTGTGCCCTT
Found at i:84728020 original size:46 final size:46
Alignment explanation
Indices: 84727925--84728039 Score: 119
Period size: 46 Copynumber: 2.5 Consensus size: 46
84727915 GCCAATACCT
* * *
84727925 TGTCCCAGTCATGGTCTTACACTGGCTCATAGCTTAAGTCGATGCCA
1 TGTCCCAG-AATGGTCTTACACTGACTCATAGCTTAAGCCGATGCCA
* *
84727972 TGTCCCAGAATGGTCTTACACTGACT-ATCATCTCTTAGCCGATG-CA
1 TGTCCCAGAATGGTCTTACACTGACTCAT-AGCT-TAAGCCGATGCCA
*
84728018 TGTCCCAGACAT-GCCTTACACT
1 TGTCCCAGA-ATGGTCTTACACT
84728040 AGCCCTCGTC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.03
46 39 0.66
47 18 0.31
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (46 bp):
TGTCCCAGAATGGTCTTACACTGACTCATAGCTTAAGCCGATGCCA
Found at i:84731051 original size:8 final size:8
Alignment explanation
Indices: 84731038--84731063 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
84731028 GCCCACATAT
84731038 TTCACAAA
1 TTCACAAA
84731046 TTCACAAA
1 TTCACAAA
84731054 TTCACAAA
1 TTCACAAA
84731062 TT
1 TT
84731064 TACTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (8 bp):
TTCACAAA
Found at i:84736706 original size:40 final size:40
Alignment explanation
Indices: 84736659--84736803 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
84736649 CTCGCACAAG
* * * * *
84736659 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
84736699 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
84736739 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
84736780 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
84736804 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:84739482 original size:63 final size:63
Alignment explanation
Indices: 84739394--84739597 Score: 169
Period size: 63 Copynumber: 3.2 Consensus size: 63
84739384 CGTTATGGTT
* * * * * * *
84739394 AAGCCACTGAATACTGCAGACAAGCTGC-TCGTTAGGGTCAAACCATTGAATAACGTTGTGGCC
1 AAGCCACTCAATATTGCAAACAAGCTGCAT-ATTAGGGTCAAACCACTAAATAACGTTGTGACC
* * *
84739457 AAGCCACTCAATATTGCATACAAGCTGCATATTATGGTCAAACCACTAAATAATGTTGTGACC
1 AAGCCACTCAATATTGCAAACAAGCTGCATATTAGGGTCAAACCACTAAATAACGTTGTGACC
* * * * * * * * ** *
84739520 AAGACATTCAATATCGCAAACAAGTTACATGTT-GTGGTCAAGCCACTTAATAATATTGTGGCC
1 AAGCCACTCAATATTGCAAACAAGCTGCATATTAG-GGTCAAACCACTAAATAACGTTGTGACC
* *
84739583 AAGCAACTCAGTATT
1 AAGCCACTCAATATT
84739598 ACAGTAAAAC
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
63 112 0.99
64 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (63 bp):
AAGCCACTCAATATTGCAAACAAGCTGCATATTAGGGTCAAACCACTAAATAACGTTGTGACC
Found at i:84739883 original size:16 final size:17
Alignment explanation
Indices: 84739845--84739883 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
84739835 ACACATAATT
* *
84739845 TCACAACAATTATTAAA
1 TCACATCAATTATAAAA
84739862 TCACATCAATTATAAAA
1 TCACATCAATTATAAAA
84739879 T-ACAT
1 TCACAT
84739884 GCAAAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (17 bp):
TCACATCAATTATAAAA
Found at i:84741480 original size:16 final size:16
Alignment explanation
Indices: 84741459--84741500 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
84741449 TTCCAATTCC
* *
84741459 AATTCATTTAGTAATT
1 AATTCATTCAATAATT
84741475 AATTCATTCAATAATT
1 AATTCATTCAATAATT
84741491 AATTCATTCA
1 AATTCATTCA
84741501 TTACCTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (16 bp):
AATTCATTCAATAATT
Found at i:84741993 original size:26 final size:26
Alignment explanation
Indices: 84741964--84742018 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
84741954 GGGAATGAAT
84741964 GGTGTGTTGAATGAGAAGGGAATAGA
1 GGTGTGTTGAATGAGAAGGGAATAGA
*
84741990 GGTGTGTTGGATGAGAAGGGAATAGA
1 GGTGTGTTGAATGAGAAGGGAATAGA
84742016 GGT
1 GGT
84742019 ATTTATAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.45, T:0.24
Consensus pattern (26 bp):
GGTGTGTTGAATGAGAAGGGAATAGA
Found at i:84750234 original size:48 final size:47
Alignment explanation
Indices: 84750067--84750254 Score: 193
Period size: 48 Copynumber: 3.9 Consensus size: 47
84750057 CATAGGGTAT
* *
84750067 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC
1 AATGCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTC-TCACATC
* * *
84750115 AA-GTCGATGCCATGTTCCAGACATGGTCTTACACTAACTAC-CGAAATC
1 AATGCCGATGCCATG-TCCAGACATGGTCTTACACTAGCT-CTC-ACATC
* * * *
84750163 GAGGCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACCTC
1 AATGCCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCACATC
* *
84750211 AATGCCGATGCCATGTCACAGACATGGTCTTACATTGGCTCTCA
1 AATGCCGATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCA
84750255 TATTGTGGCC
Statistics
Matches: 116, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
46 1 0.01
47 31 0.27
48 52 0.45
49 32 0.28
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCAGACATGGTCTTACACTAGCTCTCACATC
Found at i:84750266 original size:48 final size:46
Alignment explanation
Indices: 84750064--84750295 Score: 163
Period size: 48 Copynumber: 4.9 Consensus size: 46
84750054 AAACATAGGG
* * *
84750064 TATAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCA
1 TATAGTGCCGATGCCATGT-CCAGACATGGTCTTACACTAGCTC-T-CA
*
84750113 TCA-AGT--CGATGCCATGTTCCAGACATGGTCTTACACTAACTAC-CGA
1 T-ATAGTGCCGATGCCATG-TCCAGACATGGTCTTACACTAGCT-CTC-A
* *
84750159 AATCGAG-GCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCA
1 TAT--AGTGCCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCA
** * * *
84750207 CCTCAATGCCGATGCCATGTCACAGACATGGTCTTACATTGGCTCTCA
1 TAT-AGTGCCGATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCA
* * *
84750255 TATTGTGGCCGATG-CATGTGCCAAACAT-GTCTTATACTAGC
1 TATAGT-GCCGATGCCATGT-CCAGACATGGTCTTACACTAGC
84750296 ACAAAAGTAA
Statistics
Matches: 146, Mismatches: 22, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
45 2 0.01
46 11 0.08
47 43 0.29
48 55 0.38
49 34 0.23
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
TATAGTGCCGATGCCATGTCCAGACATGGTCTTACACTAGCTCTCA
Found at i:84758593 original size:304 final size:304
Alignment explanation
Indices: 84758039--84758633 Score: 831
Period size: 304 Copynumber: 2.0 Consensus size: 304
84758029 AGGTACTAAG
* * * *
84758039 TGTAACAACCATTTTTCAGTGAAATTGGAACATTGATTTTGGGACCACAAATCCAATCTAAAAAT
1 TGTAACAACCATTTTTCAGTGAAATCGGAACAGTGATTTTAGGACCACAAATCCAATCCAAAAAT
** * * * **
84758104 AAGGTTTATTTTTATTCCATTATATGGTCTGTATTATAATAGGCATGTCATGTGAAAATTTTGAC
66 AAGGTTTATTTTTATTCCACCATATGGCCCGTAATATAATAGAAATGTCATGTGAAAATTTTGAC
*
84758169 ATGAAAATTTTATCAATTAAGTGCTTAATTACAAGAAGGACTAAATCGCATAAAATGTAAAAGTT
131 ATGAAAATTTTATCAATTAAGTGCCTAATTACAAGAAGGACTAAATCGCATAAAATGTAAAAGTT
* *
84758234 AAATTCTAGTAGCTATAAGGATCAAATAGCTATGGAATTCAAGACAAGAGGTCCTTATATGGTAA
196 AAATTCTAGTAGCTATAAGGATCAAATAGCTATGGAATTCAAAACAAGAGGTCCTTATATGGAAA
*
84758299 TTAGACCATTAAGCAAAGTATGTAGATTTTTCTTAGTGACTTAT
261 TTAGACCATTAAGAAAAGTATGTAGATTTTTCTTAGTGACTTAT
* **
84758343 TGTAACAACCCATTTTTCAGTGAAATCGGAACAGTGGTTTTAGGACCACAAATCTGATCC-AAAA
1 TGTAACAA-CCATTTTTCAGTGAAATCGGAACAGTGATTTTAGGACCACAAATCCAATCCAAAAA
* ** * *
84758407 TATA-TTTTATTTTTATTTTACCATATGGCCCGTAATATGATAGAAATGAT-GTGTGAAAATTTT
65 TA-AGGTTTATTTTTATTCCACCATATGGCCCGTAATATAATAGAAATG-TCATGTGAAAATTTT
* * * *
84758470 GATATGAAAATTTTATCGATTTAA-TGCCTAATTATAAGAAGGACTAAATCGCATAAAATGTGAA
128 GACATGAAAATTTTATC-AATTAAGTGCCTAATTACAAGAAGGACTAAATCGCATAAAATGTAAA
* * *
84758534 AGTTGAATTCTAGTAGCTATAAGGATCAAATAGCTATGGAATTCAAAACTTA-TGGTCCTTATAT
192 AGTTAAATTCTAGTAGCTATAAGGATCAAATAGCTATGGAATTCAAAAC-AAGAGGTCCTTATAT
*
84758598 GGAAATTAGACCATTAATAAAAGTATGTAGATTTTT
256 GGAAATTAGACCATTAAGAAAAGTATGTAGATTTTT
84758634 ATGGTGACTC
Statistics
Matches: 255, Mismatches: 31, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
304 203 0.80
305 52 0.20
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (304 bp):
TGTAACAACCATTTTTCAGTGAAATCGGAACAGTGATTTTAGGACCACAAATCCAATCCAAAAAT
AAGGTTTATTTTTATTCCACCATATGGCCCGTAATATAATAGAAATGTCATGTGAAAATTTTGAC
ATGAAAATTTTATCAATTAAGTGCCTAATTACAAGAAGGACTAAATCGCATAAAATGTAAAAGTT
AAATTCTAGTAGCTATAAGGATCAAATAGCTATGGAATTCAAAACAAGAGGTCCTTATATGGAAA
TTAGACCATTAAGAAAAGTATGTAGATTTTTCTTAGTGACTTAT
Found at i:84772253 original size:43 final size:43
Alignment explanation
Indices: 84772170--84772256 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
84772160 ACAAGTCGTA
**
84772170 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATAT
84772213 CAATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATAT
84772256 C
1 C
84772257 GGAATCACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 35 0.90
44 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATAT
Found at i:84772285 original size:44 final size:44
Alignment explanation
Indices: 84772234--84772350 Score: 198
Period size: 44 Copynumber: 2.7 Consensus size: 44
84772224 TCCCAGACAG
* *
84772234 GGTCTTACTCGTAAACACATATCGGAATCACATATCGATGCCAT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAT
*
84772278 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAT
*
84772322 GGTCTTACTCGCACACACATATCGAAATC
1 GGTCTTACTCGCACACACATATCGGAATC
84772351 CTATGTCATG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (44 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAT
Found at i:84780007 original size:12 final size:13
Alignment explanation
Indices: 84779969--84780007 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
84779959 AAATATTTGA
84779969 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
84779982 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
84779996 CTTGTT-TTAATT
1 CTTGTTCTTAATT
84780008 TTCCAGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:84792839 original size:20 final size:20
Alignment explanation
Indices: 84792811--84792855 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
84792801 AGGGACTAAA
*
84792811 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAGTTCTAAAATTTG
* * *
84792831 ATGAGAAGTTCTGAAATTTT
1 ATGAAAAGTTCTAAAATTTG
84792851 ATGAA
1 ATGAA
84792856 TACATGTGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (20 bp):
ATGAAAAGTTCTAAAATTTG
Found at i:84802102 original size:40 final size:40
Alignment explanation
Indices: 84802003--84802174 Score: 224
Period size: 40 Copynumber: 4.3 Consensus size: 40
84801993 TTGAATGATG
* * * * * *
84802003 TCCGGGCTAAGTCCCGAAGGCTTTGTGTGCTAGGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATT-TGTGCGA-GTTACTAAA
**
84802045 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
84802085 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
84802125 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
84802164 -CCGGGTTAAGT
1 TCCGGGTTAAGT
84802175 GAACATCGGG
Statistics
Matches: 120, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 11 0.09
39 3 0.03
40 79 0.66
41 6 0.05
42 20 0.17
43 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84803245 original size:30 final size:30
Alignment explanation
Indices: 84803210--84803270 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
84803200 ATATATGTAT
84803210 AGATTCCTCTTTGAGTCTAGTTTCTATAGA
1 AGATTCCTCTTTGAGTCTAGTTTCTATAGA
84803240 AGATTCCTCTTTGAGTCTAGTTTCTATAGA
1 AGATTCCTCTTTGAGTCTAGTTTCTATAGA
84803270 A
1 A
84803271 ACAAACGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (30 bp):
AGATTCCTCTTTGAGTCTAGTTTCTATAGA
Found at i:84809562 original size:40 final size:40
Alignment explanation
Indices: 84809480--84809664 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
84809470 TTGAATGATG
* * * *
84809480 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84809519 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84809559 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
84809599 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
84809640 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84809665 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 19 0.14
40 112 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:84809671 original size:80 final size:79
Alignment explanation
Indices: 84809480--84809697 Score: 230
Period size: 80 Copynumber: 2.7 Consensus size: 79
84809470 TTGAATGATG
** * * * *
84809480 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGT-GACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAG-CTAAATCCGG-TTAA-ATCCCGAAGGCAT
84809542 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* ** *
84809559 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATCCCGAAGGCATT
84809623 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* * *
84809640 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCCGAAGG
84809698 TACGAGATTT
Statistics
Matches: 119, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
79 37 0.31
80 77 0.65
81 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:84812530 original size:8 final size:8
Alignment explanation
Indices: 84812517--84812546 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
84812507 CTAGATCGGC
84812517 AAAAGCCG
1 AAAAGCCG
84812525 AAAAGCCG
1 AAAAGCCG
*
84812533 AAATGCCG
1 AAAAGCCG
84812541 AAAAGC
1 AAAAGC
84812547 TGGCATCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:84812808 original size:27 final size:27
Alignment explanation
Indices: 84812778--84812839 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
84812768 AAACCCTAAA
84812778 ATACCCCTAAGTATG-AAAATTACCACT
1 ATACCCCTAAG-ATGCAAAATTACCACT
* *
84812805 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCACT
84812831 ATACCCCTA
1 ATACCCCTA
84812840 GGGTTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 2 0.06
26 21 0.68
27 8 0.26
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCACT
Found at i:84812987 original size:28 final size:28
Alignment explanation
Indices: 84812956--84813052 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
84812946 CTGTTGGTTA
84812956 TGCCACAAATATCTATTTCTGGTGGCTC
1 TGCCACAAATATCTATTTCTGGTGGCTC
* *
84812984 TGCCACAAACATCTGA-TTCTGGTGGCAC
1 TGCCACAAATATCT-ATTTCTGGTGGCTC
** * *
84813012 TGCCACAAATATCCGTATCTGGTGACTC
1 TGCCACAAATATCTATTTCTGGTGGCTC
*
84813040 TGTCAC-AATATCT
1 TGCCACAAATATCT
84813053 GTTCTGGCAG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
27 6 0.11
28 50 0.88
29 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
TGCCACAAATATCTATTTCTGGTGGCTC
Found at i:84813033 original size:56 final size:54
Alignment explanation
Indices: 84812956--84813059 Score: 136
Period size: 56 Copynumber: 1.9 Consensus size: 54
84812946 CTGTTGGTTA
* * *
84812956 TGCCACAAATATCTATTTCTGGTGGCTCTGCCACAAACATCTGATTCTGGTGGCAC
1 TGCCACAAATATCCATATCTGGTGACTCTGCCAC-AACATCTG-TTCTGGTGGCAC
* * *
84813012 TGCCACAAATATCCGTATCTGGTGACTCTGTCACAATATCTGTTCTGG
1 TGCCACAAATATCCATATCTGGTGACTCTGCCACAACATCTGTTCTGG
84813060 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 6 0.14
55 7 0.17
56 29 0.69
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (54 bp):
TGCCACAAATATCCATATCTGGTGACTCTGCCACAACATCTGTTCTGGTGGCAC
Found at i:84815610 original size:20 final size:19
Alignment explanation
Indices: 84815567--84815676 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 19
84815557 GTAATTCATC
*
84815567 CAGTAGTTCATCCA-TATAA
1 CAGTAATTCAT-CAGTATAA
84815586 CCAGTAATTCATCAGTAATAA
1 -CAGTAATTCATCAGT-ATAA
* *
84815607 CAGTAATTTATCTGTATCAA
1 CAGTAATTCATCAGTAT-AA
* *
84815627 CAGTAATTAATCTGTATCAA
1 CAGTAATTCATCAGTAT-AA
* *
84815647 CAATATTTCATTC-GTATCAA
1 CAGTAATTCA-TCAGTAT-AA
*
84815667 CAATAATTCA
1 CAGTAATTCA
84815677 ACCATTTCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.05
20 68 0.87
21 6 0.08
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (19 bp):
CAGTAATTCATCAGTATAA
Found at i:84815631 original size:40 final size:40
Alignment explanation
Indices: 84815587--84815676 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
84815577 TCCATATAAC
*
84815587 CAGTAATTCATCAGTAAT-AACAGTAATTT-A-TCTGTATCAA
1 CAGTAATTCATCAGT-ATCAACAAT-ATTTCATTC-GTATCAA
* *
84815627 CAGTAATTAATCTGTATCAACAATATTTCATTCGTATCAA
1 CAGTAATTCATCAGTATCAACAATATTTCATTCGTATCAA
*
84815667 CAATAATTCA
1 CAGTAATTCA
84815677 ACCATTTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
39 6 0.14
40 34 0.81
41 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
CAGTAATTCATCAGTATCAACAATATTTCATTCGTATCAA
Found at i:84815881 original size:23 final size:24
Alignment explanation
Indices: 84815832--84815891 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
84815822 GCCATGACCG
*
84815832 GTAAGCTCCTCTTGAGCTGATAAACA
1 GTAAGCT-CTATTGAGCTGA-AAACA
*
84815858 GTAAGCTCTATTGAGCTG-ACACA
1 GTAAGCTCTATTGAGCTGAAAACA
84815881 GTAAGCTCTAT
1 GTAAGCTCTAT
84815892 CAAGCTTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 15 0.47
25 10 0.31
26 7 0.22
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTATTGAGCTGAAAACA
Found at i:84815908 original size:22 final size:22
Alignment explanation
Indices: 84815854--84815910 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
84815844 TGAGCTGATA
**
84815854 AACAGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATCAAGCTG
*
84815876 ACACAGTAAGCTCTATCAAGCTT
1 A-ACAGTAAGCTCTATCAAGCTG
*
84815899 AACAGCAAGCTC
1 AACAGTAAGCTC
84815911 ATACGAGCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (22 bp):
AACAGTAAGCTCTATCAAGCTG
Found at i:84816262 original size:40 final size:40
Alignment explanation
Indices: 84816190--84816379 Score: 139
Period size: 40 Copynumber: 4.7 Consensus size: 40
84816180 AAACAGGTTT
* * *
84816190 TTAGCGGCGTTTTTTTATCCAAACGCCGCTATAGATAGAGCA
1 TTAGCGGCGTTTTTTGA--AAAACGCCACTATAGATAGAGCA
* *
84816232 TTAGCGGCGTTTTTTGAAAAATGCCACTATAGATCA-AGTA
1 TTAGCGGCGTTTTTTGAAAAACGCCACTATAGAT-AGAGCA
* * * ** * * * *
84816272 TTAGTGGTGCTTTTTGAAAAACAACGCTATAGGTCGACCA
1 TTAGCGGCGTTTTTTGAAAAACGCCACTATAGATAGAGCA
* ** * *
84816312 TTACCGGCACTTTTTGAAAAACTCCACTATAGATCGAGCA
1 TTAGCGGCGTTTTTTGAAAAACGCCACTATAGATAGAGCA
** *
84816352 TTAGCAACGCTTTTTTAAAAAACGCCAC
1 TTAGCGGCG-TTTTTTGAAAAACGCCAC
84816380 AAAAACATTT
Statistics
Matches: 113, Mismatches: 32, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
40 81 0.72
41 16 0.14
42 16 0.14
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (40 bp):
TTAGCGGCGTTTTTTGAAAAACGCCACTATAGATAGAGCA
Found at i:84816475 original size:40 final size:40
Alignment explanation
Indices: 84816420--84816505 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
84816410 ATCTTTAGTG
* *
84816420 GCATTAGCGTCGCTTTTTGAAAAACACAGCTATAGTTTGA
1 GCATTAGCGTCGCTTTTTGAAAAACACAGCTATAGATCGA
* * *
84816460 GCATTAGCTGT-GCTTTTTTAAAAACGCCGCTATAGATCGA
1 GCATTAGC-GTCGCTTTTTGAAAAACACAGCTATAGATCGA
84816500 GCATTA
1 GCATTA
84816506 ACGACGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 38 0.95
41 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (40 bp):
GCATTAGCGTCGCTTTTTGAAAAACACAGCTATAGATCGA
Found at i:84816570 original size:20 final size:20
Alignment explanation
Indices: 84816545--84816591 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
84816535 TTTATCTGTC
*
84816545 TATTTATTATTTAACTGTTT
1 TATTTATTATTTAACTGGTT
84816565 TATTTATTATTTAACTGGTT
1 TATTTATTATTTAACTGGTT
84816585 TATTTAT
1 TATTTAT
84816592 AGTTAGTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (20 bp):
TATTTATTATTTAACTGGTT
Found at i:84817387 original size:7 final size:7
Alignment explanation
Indices: 84817372--84817432 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
84817362 AAATCTTCAA
84817372 AAAAATT
1 AAAAATT
*
84817379 AAAATTT
1 AAAAATT
*
84817386 AAAAATA
1 AAAAATT
*
84817393 AAAAATAA
1 AAAAAT-T
*
84817401 AAAAATA
1 AAAAATT
*
84817408 AAAAATA
1 AAAAATT
84817415 AAAAACTT
1 AAAAA-TT
*
84817423 AAATATT
1 AAAAATT
84817430 AAA
1 AAA
84817433 TATTTAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
7 35 0.74
8 12 0.26
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:84817397 original size:8 final size:7
Alignment explanation
Indices: 84817371--84817419 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
84817361 AAAATCTTCA
84817371 AAAAAAT
1 AAAAAAT
* *
84817378 TAAAATT
1 AAAAAAT
*
84817385 TAAAAAT
1 AAAAAAT
84817392 AAAAAAT
1 AAAAAAT
84817399 AAAAAAAT
1 -AAAAAAT
84817407 AAAAAAT
1 AAAAAAT
84817414 AAAAAA
1 AAAAAA
84817420 CTTAAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 30 0.81
8 7 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:84817414 original size:15 final size:15
Alignment explanation
Indices: 84817386--84817419 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
84817376 ATTAAAATTT
84817386 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
84817401 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
84817416 AAAA
1 AAAA
84817420 CTTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:84817571 original size:16 final size:18
Alignment explanation
Indices: 84817542--84817574 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
84817532 AAAAATTAGA
84817542 AAAAAATATGTTAAAATG
1 AAAAAATATGTTAAAATG
84817560 AAAAAA-AT-TTAAAAT
1 AAAAAATATGTTAAAAT
84817575 TGAGAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (18 bp):
AAAAAATATGTTAAAATG
Found at i:84818146 original size:21 final size:21
Alignment explanation
Indices: 84818104--84818153 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
84818094 AGAAGTTGAA
84818104 AAGAAGGAGAATGAGGAAGAGG
1 AAGAA-GAGAATGAGGAAGAGG
*
84818126 AAGAAGAGAA-GATGGAGGAGG
1 AAGAAGAGAATGA-GGAAGAGG
84818147 AAGAAGA
1 AAGAAGA
84818154 AGAGAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGAAGAGAATGAGGAAGAGG
Found at i:84821238 original size:42 final size:40
Alignment explanation
Indices: 84821149--84821238 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 40
84821139 GGTGTTTGAG
**
84821149 GGAAAAGCACCGCTAAAGGTCTATTTATAGTGGCGTTTAT
1 GGAAAAGCACCGCTAAAGGTCTATTTATAGCAGCGTTTAT
* * * *
84821189 GGCAAAAGCGCTGCTAAAGGTCTATTCTATAGCATCGTTTGT
1 GG-AAAAGCACCGCTAAAGGTCTATT-TATAGCAGCGTTTAT
84821231 AGGAAAAG
1 -GGAAAAG
84821239 TGCCCCTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.05
41 21 0.51
42 16 0.39
43 2 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (40 bp):
GGAAAAGCACCGCTAAAGGTCTATTTATAGCAGCGTTTAT
Found at i:84821311 original size:42 final size:42
Alignment explanation
Indices: 84821119--84821385 Score: 202
Period size: 42 Copynumber: 6.4 Consensus size: 42
84821109 AAATATTTTT
* * * *
84821119 TAAAGGTCATGTTATTTAGCGGTGTTTGAGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AAAGCGCCGC
* * * * * *
84821162 TAAAGGTC-TATT-TATAGTGGCGTTTATGGCAAAAGCGCTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGG-GAAAGCGCCGC
* * ** * * *
84821203 TAAAGGTC-TATTCTATAGCATCGTTTGTAGGAAAAGTGCCCC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GGGAAAGCGCCGC
* * * * *
84821245 TAAAAGTCATTTTCTTTAGTGGCG-TTGTGGGAAAAGCACCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AAAGCGCCGC
* * *
84821287 TAAAGGTCATGTTCTTTAACGGCGTTTTTGGGAGAGACGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAG-CGCCGC
* *
84821330 T-AATGTCATGTTCTTTAGCGGCGTTTGTGGGAAAGCGCTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAGCGCCGC
*
84821371 TAAAGATCATGTTCT
1 TAAAGGTCATGTTCT
84821386 ATAGTGGCCT
Statistics
Matches: 174, Mismatches: 42, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
41 40 0.23
42 103 0.59
43 31 0.18
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAGCGCCGC
Found at i:84827031 original size:46 final size:48
Alignment explanation
Indices: 84826884--84827060 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 48
84826874 CACTCATGTA
* * *
84826884 AGCCAGTGTAAGACCATGTCTGGGTCATGGCATCGAC-ATTGAGATGA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-AGAGATGAT
* ** * * *
84826931 AGGCTAGTGTAAGA-CATGTCTCAGACAT-GCACCGGCCT-CGAGA-CAT
1 A-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTAAGAGATGAT
84826977 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAAGAGATGAT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAAGAGATGAT
* *
84827024 AGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
84827061 ACTTAACCCA
Statistics
Matches: 105, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.03
46 54 0.51
47 29 0.28
48 19 0.18
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAAGAGATGAT
Found at i:84828102 original size:21 final size:21
Alignment explanation
Indices: 84828076--84828148 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
84828066 AGTGTGGGGT
84828076 ACGGGAGTGTTACCCTCCCAC
1 ACGGGAGTGTTACCCTCCCAC
84828097 ACGGGAGTGTTACCCTCCCAC
1 ACGGGAGTGTTACCCTCCCAC
* *
84828118 ACGGGCGTGTTACCCTTCCAC
1 ACGGGAGTGTTACCCTCCCAC
*
84828139 ACGGGCGTGT
1 ACGGGAGTGT
84828149 GCCCTGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.16, C:0.36, G:0.27, T:0.21
Consensus pattern (21 bp):
ACGGGAGTGTTACCCTCCCAC
Found at i:84829264 original size:27 final size:27
Alignment explanation
Indices: 84829226--84829284 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
84829216 CATCCGAGTG
84829226 TTTGTTGCCATTTTAGAGCTATGGGAA
1 TTTGTTGCCATTTTAGAGCTATGGGAA
84829253 TTTGTTGCCATTTTAGAGCTATGGGAA
1 TTTGTTGCCATTTTAGAGCTATGGGAA
84829280 TTTGT
1 TTTGT
84829285 AGCCCTTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.44
Consensus pattern (27 bp):
TTTGTTGCCATTTTAGAGCTATGGGAA
Found at i:84834427 original size:47 final size:47
Alignment explanation
Indices: 84834357--84834717 Score: 235
Period size: 46 Copynumber: 7.7 Consensus size: 47
84834347 TCGTGTAAGC
* * *
84834357 AGTGTAAGACGATGTCGGGGACATGGCATTGACATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
* * * *
84834405 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
* * * * * * * *
84834451 AGTTTAAGACATGACTAGGACAT-ACATCGGCGA-AGAAATGATAGTCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-ATTGAGACGAGAG-CT
* * * * *
84834498 -GTGTAAGACCATGTCTAGGACATGGCATTGAC-TTGAG-CTATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCT
* *
84834544 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGGGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
* * * * * *
84834592 AGTGTAAGACATGTCTGGGACAT-GCACCGGCCTCGAGA-AATAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACGA-GAGCT
* * * *
84834638 AGTGTAAGACATGTCTGGGACAT-ACATCGGCTAAGTGATA--ATAG-T
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC--ATTGAGACGAGAGCT
84834683 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 -AGTGTAAGA-CATGTCTGGGACATGGCATCGGCA
84834718 CTTAACCCAT
Statistics
Matches: 249, Mismatches: 47, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.01
46 113 0.45
47 89 0.36
48 42 0.17
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
Found at i:84834472 original size:46 final size:46
Alignment explanation
Indices: 84834405--84834716 Score: 247
Period size: 46 Copynumber: 6.7 Consensus size: 46
84834395 GACGAGAGCT
*
84834405 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
* * * * *** * *
84834451 AGTTTAAGACATGACTAGGACATACATCGGCGAAGAAATGAT-AGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT-ATAAGCC
* * * * * * *
84834497 TGTGTAAGACCATGTCTAGGACATGGCAT-TGACTTGAGCTATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATATAAGCC
* * * * *
84834544 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACA-AGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATATA-AGCC
* *
84834592 AGTGTAAGACATGTCTGGGACATGCACCGGCCTCGAGAAATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
* * * *
84834638 AGTGTAAGACATGTCTGGGACATACATCGG-CTAAGTGATA-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATATA-AGCC
84834684 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
84834717 ACTTAACCCA
Statistics
Matches: 209, Mismatches: 45, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
45 3 0.01
46 102 0.49
47 77 0.37
48 27 0.13
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAGCC
Found at i:84834651 original size:140 final size:136
Alignment explanation
Indices: 84834352--84834717 Score: 350
Period size: 140 Copynumber: 2.6 Consensus size: 136
84834342 GTCACTCGTG
* * *
84834352 TAAGCAGTGTAAGACGATGTCGGGGACATGGCATTGACATTGAGACGA-GAGCTAGTGTAAGA-C
1 TAAGCAGTGTAAGAC-ATGTCTGGGACATGGCATTGAC-TTGAG-CTATGAGCCAGTGTAAGACC
* * * *
84834415 ATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAGTTTAAGACATGACTAGGACATACATC
63 ATGTCTGGGACATGGCATCGGCATCGAGA-GCAAGCCAGTGTAAGACATGACTAGGACATACACC
84834479 GGCGAAGAAA
127 GGCGAAGAAA
* *
84834489 TGATAGTCTGTGTAAGACCATGTCTAGGACATGGCATTGACTTGAGCTATGAGCCAGTGTAAGAC
1 T-A-AG-CAGTGTAAGA-CATGTCTGGGACATGGCATTGACTTGAGCTATGAGCCAGTGTAAGAC
* * * * *
84834554 CATGTCTGGGACATGGCATCGGCATTGAGA-CAAGGGCTAGTGTAAGACATGTCTGGGACATGCA
62 CATGTCTGGGACATGGCATCGGCATCGAGAGCAA--GCCAGTGTAAGACATGACTAGGACATACA
84834618 CCGGCCTCG-AGAAA
125 CCGG---CGAAGAAA
* * * * * * *
84834632 TAAGCCAGTGTAAGACATGTCTGGGACAT-ACATCGGCTAAGTGATAAT-AGTCAGTGTAAGACC
1 TAAG-CAGTGTAAGACATGTCTGGGACATGGCATTGACT-TGAGCT-ATGAGCCAGTGTAAGACC
84834695 ATGTCTGGGACATGGCATCGGCA
63 ATGTCTGGGACATGGCATCGGCA
84834718 CTTAACCCAT
Statistics
Matches: 191, Mismatches: 24, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
137 1 0.01
138 3 0.02
139 28 0.15
140 96 0.50
141 54 0.28
142 1 0.01
143 6 0.03
144 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (136 bp):
TAAGCAGTGTAAGACATGTCTGGGACATGGCATTGACTTGAGCTATGAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATCGAGAGCAAGCCAGTGTAAGACATGACTAGGACATACACCGGCG
AAGAAA
Found at i:84834691 original size:187 final size:187
Alignment explanation
Indices: 84834356--84834712 Score: 552
Period size: 187 Copynumber: 1.9 Consensus size: 187
84834346 CTCGTGTAAG
* * *
84834356 CAGTGTAAGACGATGTCGGGGACATGGCATTGACATTGAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCGGGGACATGGCATCGACATTGAGACAAGAGCTAGTGTAAGACATGTCT
* ** *
84834421 GGGACATGCATCGGCCTCGAGATGTAAGCCAGTTTAAGACATGACTAGGACATACATCGGCGAAG
66 GGGACATGCACCGGCCTCGAGAAATAAGCCAGTGTAAGACATGACTAGGACATACATCGGCGAAG
* *
84834486 AAATGATAGTCTGTGTAAGACCATGTCTAGGACATGGCATTGACTTGAGCTATGAGC
131 AAATAATAGTCAGTGTAAGACCATGTCTAGGACATGGCATTGACTTGAGCTATGAGC
* * *
84834543 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGGGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCGGGGACATGGCATCGACATTGAGACAAGAGCTAGTGTAAGACATGTCT
* * *
84834608 GGGACATGCACCGGCCTCGAGAAATAAGCCAGTGTAAGACATGTCTGGGACATACATCGGCTAAG
66 GGGACATGCACCGGCCTCGAGAAATAAGCCAGTGTAAGACATGACTAGGACATACATCGGCGAAG
** *
84834673 TGATAATAGTCAGTGTAAGACCATGTCTGGGACATGGCAT
131 AAATAATAGTCAGTGTAAGACCATGTCTAGGACATGGCAT
84834713 CGGCACTTAA
Statistics
Matches: 152, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
187 152 1.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (187 bp):
CAGTGTAAGACCATGTCGGGGACATGGCATCGACATTGAGACAAGAGCTAGTGTAAGACATGTCT
GGGACATGCACCGGCCTCGAGAAATAAGCCAGTGTAAGACATGACTAGGACATACATCGGCGAAG
AAATAATAGTCAGTGTAAGACCATGTCTAGGACATGGCATTGACTTGAGCTATGAGC
Found at i:84841709 original size:17 final size:18
Alignment explanation
Indices: 84841682--84841717 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
84841672 AATCAAATAT
84841682 ATGCTTATTAAATTATTA
1 ATGCTTATTAAATTATTA
*
84841700 ATGC-TATTAATTTATTA
1 ATGCTTATTAAATTATTA
84841717 A
1 A
84841718 AACAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCTTATTAAATTATTA
Found at i:84845985 original size:16 final size:16
Alignment explanation
Indices: 84845964--84846000 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
84845954 AGTTGATCAG
84845964 AATTAGCTGGTTCTGA
1 AATTAGCTGGTTCTGA
84845980 AATTAGCTGGTTCTGA
1 AATTAGCTGGTTCTGA
84845996 AATTA
1 AATTA
84846001 CCTTGTCGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (16 bp):
AATTAGCTGGTTCTGA
Found at i:84863200 original size:26 final size:26
Alignment explanation
Indices: 84863164--84863216 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
84863154 TTAGATTAAT
84863164 TTAAGGGTATGATGCATC-ATTGACTA
1 TTAAGGGTATGATGCA-CAATTGACTA
84863190 TTAAGGGTATGATGCACAATTGACTA
1 TTAAGGGTATGATGCACAATTGACTA
84863216 T
1 T
84863217 GTCAAGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (26 bp):
TTAAGGGTATGATGCACAATTGACTA
Found at i:84869637 original size:19 final size:20
Alignment explanation
Indices: 84869613--84869650 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
84869603 GGTACCACCA
84869613 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
84869632 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
84869651 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:84870010 original size:93 final size:93
Alignment explanation
Indices: 84869879--84870049 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
84869869 GCCCATAAGT
* * * *
84869879 GAACTCGGACTCAACTCAATGAGCTCCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACACAACTCAACGAGCTCCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
84869944 CGAGTTCGAATGCCTAGTTACATTTCAC
66 CGAGTTCGAATGCCTAGTTACATTTCAC
* *
84869972 GAACTCAGACACAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCC
1 GAACTCAGACACAACTCAACGAGCTCCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
84870036 ACGAGTTCGGATGC
65 ACGAGTTCGAATGC
84870050 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACACAACTCAACGAGCTCCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATTTCAC
Found at i:84870040 original size:46 final size:46
Alignment explanation
Indices: 84869871--84870046 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
84869861 TGTAACCCGC
* * *
84869871 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
*
84869917 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* * * * *
84869963 ACATTTCA-CGAACTCAGACACAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
84870010 CCATAAGTGAACTCGGACTCAACTCCACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
84870047 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 59 0.57
47 27 0.26
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:84870502 original size:30 final size:30
Alignment explanation
Indices: 84870468--84870528 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
84870458 CATTTAATAC
84870468 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
84870498 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
84870528 A
1 A
84870529 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:84877474 original size:46 final size:46
Alignment explanation
Indices: 84877407--84877535 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
84877397 TGTAACCCGC
* *
84877407 CCATAAGTGAACTC-AGACTCAACTCAATGAGCTCCGG-CGTTCGCAT
1 CCATAAGTGAACTCGA-ACTCAACTCAACGAG-TCCGGACATTCGCAT
*
84877453 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTCCGGACATTCGCAT
* * * *
84877499 CCATAAGTGAAGTCGGACTCAACTCCACGAGTTCGGA
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTCCGGA
84877536 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 4 0.05
46 70 0.93
47 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGTCCGGACATTCGCAT
Found at i:84877992 original size:30 final size:30
Alignment explanation
Indices: 84877958--84878017 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
84877948 ATTTAATACG
*
84877958 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
84877988 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
84878018 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:84883138 original size:17 final size:19
Alignment explanation
Indices: 84883102--84883140 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
84883092 AAAGCTCATA
84883102 ACATGACCCATGTGGGCCC
1 ACATGACCCATGTGGGCCC
*
84883121 ACATG-CCCGTGT-GGCCC
1 ACATGACCCATGTGGGCCC
84883138 ACA
1 ACA
84883141 AAGTCCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (19 bp):
ACATGACCCATGTGGGCCC
Found at i:84891367 original size:43 final size:43
Alignment explanation
Indices: 84891313--84891398 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
84891303 ATTTAAGCCC
84891313 TTTAGCTTATAGAACTCAAGTTTTGCATCTTTTCCAATTTAAT
1 TTTAGCTTATAGAACTCAAGTTTTGCATCTTTTCCAATTTAAT
84891356 TTTAGCTTATAGAACTCAAGTTTTGCATCTTTTCCAATTTAAT
1 TTTAGCTTATAGAACTCAAGTTTTGCATCTTTTCCAATTTAAT
84891399 CTTTTTATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (43 bp):
TTTAGCTTATAGAACTCAAGTTTTGCATCTTTTCCAATTTAAT
Found at i:84894178 original size:54 final size:54
Alignment explanation
Indices: 84894096--84894199 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
84894086 TCGACTAAGG
84894096 ATACTTATTCTTAATTGCAACCTTGTTAAGCTGACGATAGTCGATACACAAAGC
1 ATACTTATTCTTAATTGCAACCTTGTTAAGCTGACGATAGTCGATACACAAAGC
*
84894150 ATACTTATTCTTAATTGTAACCTTGTTAAGCTGACGATAGTCGATACACA
1 ATACTTATTCTTAATTGCAACCTTGTTAAGCTGACGATAGTCGATACACA
84894200 GTCTCATTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (54 bp):
ATACTTATTCTTAATTGCAACCTTGTTAAGCTGACGATAGTCGATACACAAAGC
Found at i:84907933 original size:20 final size:19
Alignment explanation
Indices: 84907897--84907947 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
84907887 AATGGCTATT
*
84907897 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
84907916 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
84907936 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
84907948 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:84908503 original size:46 final size:46
Alignment explanation
Indices: 84908452--84908570 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
84908442 TATGTGTGCT
*
84908452 AGTGTAAGACATATCTGGGACATGCATTGGCCACATT-ATGA-GAG-CC
1 AGTGTAAGACATGTCTGGGACATGCATT--CCACATTGA-GACGAGACC
* *
84908498 AGTGTAAGACATGTCTGGGACATG-AATCGACATTGAGACGAGAACC
1 AGTGTAAGACATGTCTGGGACATGCATTCCACATTGAGACGAG-ACC
84908544 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
84908571 CAGCCTCGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
43 8 0.12
44 4 0.06
45 2 0.03
46 49 0.77
47 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTCCACATTGAGACGAGACC
Found at i:84908714 original size:50 final size:49
Alignment explanation
Indices: 84908489--84908808 Score: 200
Period size: 49 Copynumber: 6.7 Consensus size: 49
84908479 TGGCCACATT
* * * * * *
84908489 ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GAATCGACATTG--AG
1 ATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAA
* * * *
84908535 ACGAGAA-CCAGTGTAAGACATGTCTGGGACAT-GCATC-AGCCTCGAGAT
1 ATGA-AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATAA
** * * *
84908583 ATTCAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTC-AGCT---T-A
1 ATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAA
* *** * *
84908627 TTGTGTGTCAGCGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAAA
1 ATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGAT-AA
* * * *
84908677 ATGAGAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATAT
1 ATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAA
* * * *
84908726 ATGAAAGTCAGTGTAAGACCTGTCTGAGACATGGCATCGACTTTGAT--
1 ATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAA
* ** *
84908773 GTGCTAGCCAGTGTAAGACCATGTATGGGACATGGC
1 ATGAAAGCCAGTGTAAGACC-TGTCTGGGACATGGC
84908809 GTCGGCATCT
Statistics
Matches: 213, Mismatches: 46, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
44 29 0.14
45 2 0.01
46 36 0.17
47 19 0.09
48 41 0.19
49 47 0.22
50 39 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
ATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAA
Found at i:84908757 original size:49 final size:49
Alignment explanation
Indices: 84908543--84908764 Score: 208
Period size: 49 Copynumber: 4.6 Consensus size: 49
84908533 AGACGAGAAC
* * * **
84908543 CAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATATTCAAG-
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
* * ***
84908590 CTAGTGTAAGACCTGTCTGGGACATGGCGTCAG-CT---TAT-TGTGTGT
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
* * * * *
84908635 CAGCGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAAAATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGAT-ATATGAAAGT
*
84908685 CAGTGTAAGACTTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
*
84908734 CAGTGTAAGACCTGTCTGAGACATGGCATCG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCG
84908765 ACTTTGATGT
Statistics
Matches: 141, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 29 0.21
45 3 0.02
46 1 0.01
47 1 0.01
48 25 0.18
49 44 0.31
50 38 0.27
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGT
Found at i:84923108 original size:26 final size:28
Alignment explanation
Indices: 84923064--84923115 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
84923054 TACAAGGGTA
84923064 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
84923091 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
84923116 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:84923190 original size:27 final size:27
Alignment explanation
Indices: 84923137--84923373 Score: 183
Period size: 27 Copynumber: 8.7 Consensus size: 27
84923127 TTTCATCCTA
* * *
84923137 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
84923164 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
84923191 CAATGGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* ** *
84923220 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* * * *
84923247 TAGGGGTATTTTGGGAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
84923274 TAAGGGTATTTCT-GTAATTTCACAAAC
1 CAAGGGTATTT-TGGTAATTTTACAAAC
*
84923301 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
84923328 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
84923355 TAAGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
84923374 CTATCCTACA
Statistics
Matches: 170, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.02
27 136 0.80
28 16 0.09
29 14 0.08
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:84923340 original size:81 final size:81
Alignment explanation
Indices: 84923224--84923373 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
84923214 GAAAGTCAAG
* ** * *
84923224 GGTATTTCTATAATTTTGTAAATTAGGGGTATTTTGGGAATTTTACAAATTAAGGGTATTTCT-G
1 GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGGAATTTTACAAACTAAGGGTATTT-TGG
84923288 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
* *
84923305 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGT
1 GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGGAATTTTACAAACTAAGGGTATTTTGGT
84923370 AATT
66 AATT
84923374 CTATCCTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.02
81 60 0.98
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGGAATTTTACAAACTAAGGGTATTTTGGT
AATTTCACAAACCAGT
Found at i:84923390 original size:81 final size:81
Alignment explanation
Indices: 84923223--84923406 Score: 214
Period size: 81 Copynumber: 2.3 Consensus size: 81
84923213 AGAAAGTCAA
** * *
84923223 GGGTATTTCTA-TAATTTTGTAAATTAGGGGTATTTTGGGAATTTTACAAATTAAGGGTATTTCT
1 GGGTATTTC-AGTAATTTTACAAACTAGGGGTATTTTGGGAATTTTACAAACTAAGGGTATTTCT
84923287 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
* * *
84923304 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT-TG
1 GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGGAATTTTACAAACTAAGGGTATTTCT-
**
84923368 GTAA-TTCTATCCTA-CAG
65 GTAATTTC-A-CAAACCAG
*
84923385 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
84923407 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
80 4 0.05
81 81 0.93
82 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGGAATTTTACAAACTAAGGGTATTTCTG
TAATTTCACAAACCAG
Found at i:84923413 original size:27 final size:27
Alignment explanation
Indices: 84923247--84923406 Score: 144
Period size: 27 Copynumber: 5.9 Consensus size: 27
84923237 TTTTGTAAAT
* * * *
84923247 TAGGGGTATTTTGGGAATTTTACAAAT
1 TAGGGGTATTTCGGTAATTTCACAAAC
* *
84923274 TAAGGGTATTTCTGTAATTTCACAAAC
1 TAGGGGTATTTCGGTAATTTCACAAAC
* * *
84923301 CAGTGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTCGGTAATTTCACAAAC
* *
84923328 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTCGGTAATTTCACAAAC
* * **
84923355 TAAGGGTATTTTGGTAA-TTCTATCCTAC
1 TAGGGGTATTTCGGTAATTTC-A-CAAAC
*
84923383 -AGGGGTATTTCAGTAATTTCACAA
1 TAGGGGTATTTCGGTAATTTCACAA
84923407 TCGAGGGTAA
Statistics
Matches: 107, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.03
27 98 0.92
28 6 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTCGGTAATTTCACAAAC
Found at i:84923438 original size:27 final size:27
Alignment explanation
Indices: 84923405--84923547 Score: 198
Period size: 27 Copynumber: 5.3 Consensus size: 27
84923395 GTAATTTCAC
* *
84923405 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
84923432 AACCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
84923459 AATCGAGGGTAAAACGATAA-TCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
84923485 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
84923512 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
84923539 AATCGAGGG
1 AATCGAGGG
84923548 CATTTAAGTA
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 23 0.22
27 80 0.78
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:84923452 original size:53 final size:54
Alignment explanation
Indices: 84923395--84923547 Score: 177
Period size: 53 Copynumber: 2.9 Consensus size: 54
84923385 GGGTATTTCA
* * * *
84923395 GTAATTTCA-CAATCGAGGGTAAAACGGTAATTTTGTAAACCGAGGGTAAAATG
1 GTAATTTCATAAATCGAGGGTAAAACGGTAATTCTATAAACCGAGGGTAAAACG
* * * *
84923448 GTAATTTTATAAATCGAGGGTAAAACGATAA-TCTATAAATCGAGGGTGAAACG
1 GTAATTTCATAAATCGAGGGTAAAACGGTAATTCTATAAACCGAGGGTAAAACG
* * *
84923501 GTAA-TTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 GTAATTTC-ATAAATCGAGGGTAAAACGGTAATTCTATAAACCGAGGG
84923548 CATTTAAGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 50 0.59
54 33 0.39
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (54 bp):
GTAATTTCATAAATCGAGGGTAAAACGGTAATTCTATAAACCGAGGGTAAAACG
Found at i:84923469 original size:80 final size:78
Alignment explanation
Indices: 84923385--84923562 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 78
84923375 TATCCTACAG
* *
84923385 GGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAACCGAGGGTAAAATGGT
1 GGGTATTTCAGTAATTT-A-AATCGAGGGTAAAACGGTAATTCTATAAACCGAGGGTAAAATGGT
* *
84923450 AATTTTATAAATCGA
64 AATTCTACAAATCGA
*** * *
84923465 GGGTAAAAC-GATAATCTATAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGG
1 GGGTATTTCAG-TAAT-T-TAAATCGAGGGTAAAACGGTAATTCTATAAACCGAGGGTAAAATGG
84923529 TAATTCTACAAATCGA
63 TAATTCTACAAATCGA
* *
84923545 GGGCATTTAAGTAATTTA
1 GGGTATTTCAGTAATTTA
84923563 GTAAACTAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
78 2 0.03
79 2 0.03
80 72 0.90
81 3 0.04
82 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (78 bp):
GGGTATTTCAGTAATTTAAATCGAGGGTAAAACGGTAATTCTATAAACCGAGGGTAAAATGGTAA
TTCTACAAATCGA
Found at i:84925846 original size:26 final size:25
Alignment explanation
Indices: 84925785--84925846 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
84925775 ATATTCATCA
84925785 TTTTACCATACAAGGGTATTACGGTC
1 TTTTACC-TACAAGGGTATTACGGTC
* *
84925811 CTTTACCCTACAAGGGCT-TTATGGTC
1 TTTTA-CCTACAAGGG-TATTACGGTC
84925837 TTTTTACCTA
1 -TTTTACCTA
84925847 TTAGGGGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (25 bp):
TTTTACCTACAAGGGTATTACGGTC
Found at i:84925928 original size:27 final size:27
Alignment explanation
Indices: 84925875--84926111 Score: 190
Period size: 27 Copynumber: 8.7 Consensus size: 27
84925865 TTTCATCCTA
* * * *
84925875 CAAGGGTGTTTCGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
84925902 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
84925929 CAATGGTATTTTTATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* ** *
84925958 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* *
84925985 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
84926012 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
84926039 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* *
84926066 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
84926093 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
84926112 CTATCCTACA
Statistics
Matches: 174, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 141 0.81
28 15 0.09
29 14 0.08
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:84926125 original size:54 final size:54
Alignment explanation
Indices: 84925985--84926144 Score: 187
Period size: 54 Copynumber: 3.0 Consensus size: 54
84925975 TTTTGTAAAT
* * * *
84925985 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAAC
1 CAGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
* * * *
84926039 CAGTGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
* * ** *
84926093 TAGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 CAGGGGTATTTCGGTAATTCTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
84926145 TCGAGGGTGA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 87 0.97
55 3 0.03
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTCACAAAC
Found at i:84926128 original size:81 final size:81
Alignment explanation
Indices: 84925986--84926144 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 81
84925976 TTTGTAAATC
* *
84925986 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
* *
84926051 GGTAATTTTACAAACT
66 AGTAATTTCACAAACT
* * **
84926067 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTATT
84926130 TCAGTAATTTCACAA
64 TCAGTAATTTCACAA
84926145 TCGAGGGTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.04
81 63 0.93
82 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTC
AGTAATTTCACAAACT
Found at i:84926151 original size:27 final size:27
Alignment explanation
Indices: 84925986--84926144 Score: 169
Period size: 27 Copynumber: 5.9 Consensus size: 27
84925976 TTTGTAAATC
* * *
84925986 AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
84926013 AAGGGTATTTCGGTAATTTCACAAACC
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
84926040 AGTGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* *
84926067 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTTCACAAACT
* **
84926094 AGGGGTATTTTGGTAA-TTCTATCCTAC-
1 AGGGGTATTTCGGTAATTTC-A-CAAACT
*
84926121 AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTTCACAA
84926145 TCGAGGGTGA
Statistics
Matches: 111, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 102 0.92
28 6 0.05
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAACT
Found at i:84926176 original size:26 final size:27
Alignment explanation
Indices: 84926143--84926204 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
84926133 GTAATTTCAC
* *
84926143 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTACA
*
84926170 AAT-GAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTACA
84926196 AATCGAGGG
1 AATCGAGGG
84926205 CATTTCAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTACA
Found at i:84929040 original size:36 final size:36
Alignment explanation
Indices: 84928993--84929100 Score: 198
Period size: 36 Copynumber: 3.0 Consensus size: 36
84928983 CGGCAGACAC
*
84928993 TACGTGTCCCAGAAATGTCACTTCTCATAGCTAGAA
1 TACGTTTCCCAGAAATGTCACTTCTCATAGCTAGAA
84929029 TACGTTTCCCAGAAATGTCACTTCTCATAGCTAGAA
1 TACGTTTCCCAGAAATGTCACTTCTCATAGCTAGAA
*
84929065 TACGTTTCCCAGAAATGTCACTTCTCGTAGCTAGAA
1 TACGTTTCCCAGAAATGTCACTTCTCATAGCTAGAA
84929101 CTCACACTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (36 bp):
TACGTTTCCCAGAAATGTCACTTCTCATAGCTAGAA
Found at i:84939823 original size:21 final size:21
Alignment explanation
Indices: 84939789--84939837 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
84939779 CTACACCAGA
* *
84939789 AACACGCCCCAGTTTGTTTCT
1 AACACTCCCCAGTTTGTTTCC
*
84939810 AACACTCCCTAGTTTGTTTCC
1 AACACTCCCCAGTTTGTTTCC
84939831 AACACTC
1 AACACTC
84939838 ACCCTGGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.10, T:0.33
Consensus pattern (21 bp):
AACACTCCCCAGTTTGTTTCC
Found at i:84942340 original size:12 final size:12
Alignment explanation
Indices: 84942311--84942340 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
84942301 ATTTTGGATG
*
84942311 TTATTGTTATTA
1 TTATTTTTATTA
84942323 TTATTTTTATTA
1 TTATTTTTATTA
84942335 TTATTT
1 TTATTT
84942341 CGTATGTTTA
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:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:84944852 original size:40 final size:39
Alignment explanation
Indices: 84944815--84945028 Score: 188
Period size: 40 Copynumber: 5.5 Consensus size: 39
84944805 ATATCCGGAC
*
84944815 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
84944855 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
84944895 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCC--G-
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
84944932 -AAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
84944971 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
84945010 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
84945029 AACGAGGAGC
Statistics
Matches: 150, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
36 34 0.23
38 2 0.01
39 33 0.22
40 79 0.53
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:84952574 original size:39 final size:40
Alignment explanation
Indices: 84952330--84952592 Score: 273
Period size: 40 Copynumber: 6.6 Consensus size: 40
84952320 TTGAATGCTG
* * * * * *
84952330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
84952370 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * *
84952410 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
84952450 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
84952490 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
84952530 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
84952569 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
84952593 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.18
40 149 0.77
41 10 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:84952612 original size:79 final size:80
Alignment explanation
Indices: 84952331--84952627 Score: 221
Period size: 80 Copynumber: 3.7 Consensus size: 80
84952321 TGAATGCTGT
* ** * * * **
84952331 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * **
84952394 TGTGCGAGATAC-AAGTT
64 CGTGCGAGTTACTAA-AA
* * * * **
84952411 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
84952475 GTGCGAGTTGTTAAAT
65 GTGCGAGTTACTAAAA
* ** * *
84952491 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
84952555 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
84952570 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
84952628 TATGTGATTT
Statistics
Matches: 182, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
78 16 0.09
79 46 0.25
80 110 0.60
81 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:84955318 original size:27 final size:28
Alignment explanation
Indices: 84955284--84955390 Score: 130
Period size: 28 Copynumber: 3.9 Consensus size: 28
84955274 ATTCTAGTGG
* *
84955284 CTCTGCCACAAATATCTG-ATCTGGTGG
1 CTCTGCCATAAATATCTGTATCTGGTGA
*
84955311 CTCTGCCATAAATATCTGTTTCTGGTGA
1 CTCTGCCATAAATATCTGTATCTGGTGA
* * *
84955339 CTCTACCGTAATTATCTGTATCTGGTGA
1 CTCTGCCATAAATATCTGTATCTGGTGA
*
84955367 CTCTGTCATAAA-ATCTGT-TCTGGT
1 CTCTGCCATAAATATCTGTATCTGGT
84955391 AGCCATGCTG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.09
27 23 0.34
28 39 0.57
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.37
Consensus pattern (28 bp):
CTCTGCCATAAATATCTGTATCTGGTGA
Found at i:84959660 original size:27 final size:28
Alignment explanation
Indices: 84959623--84959731 Score: 150
Period size: 28 Copynumber: 4.0 Consensus size: 28
84959613 GAGGAAGCAT
84959623 TTTGGTGGCTCTGCCACAAATATCTG-A
1 TTTGGTGGCTCTGCCACAAATATCTGTA
* * *
84959650 TTTGGTGGCTCTGCTAAAAATATCTGTT
1 TTTGGTGGCTCTGCCACAAATATCTGTA
*
84959678 TTTGGTGGCTCTGCCACAATTATCTGTA
1 TTTGGTGGCTCTGCCACAAATATCTGTA
* *
84959706 TCTGGTGACTCTGCCAC-AATATCTGT
1 TTTGGTGGCTCTGCCACAAATATCTGT
84959732 TCTGGCAGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 32 0.45
28 39 0.55
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (28 bp):
TTTGGTGGCTCTGCCACAAATATCTGTA
Found at i:84959727 original size:55 final size:55
Alignment explanation
Indices: 84959622--84959732 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 55
84959612 GGAGGAAGCA
* *
84959622 TTTTGGTGGCTCTGCCACAAATATCTGATTTGGTGGCTCTGCTAAAAATATCTGT
1 TTTTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCTAAAAATATCTGT
* * *
84959677 TTTTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGC-CACAATATCTGT
1 TTTTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCTAAAAATATCTGT
84959732 T
1 T
84959733 CTGGCAGCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
55 37 0.74
56 13 0.26
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (55 bp):
TTTTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCTAAAAATATCTGT
Found at i:84960933 original size:43 final size:43
Alignment explanation
Indices: 84960868--84960988 Score: 192
Period size: 43 Copynumber: 2.9 Consensus size: 43
84960858 TATGATGAAT
*
84960868 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAATA
1 TCGGGCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATAATA
* * *
84960911 TCGGGCCTCGAGCCTAGTAGGCTATAATACCAGTGAAATAATA
1 TCGGGCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATAATA
84960954 TCGGGCTTCGAGCCTAGTAGGCTA-AATG-CGGTGAA
1 TCGGGCTTCGAGCCTAGTAGGCTATAATGCCGGTGAA
84960989 TGAATTCAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
41 6 0.08
42 3 0.04
43 62 0.87
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATAATA
Found at i:84968532 original size:40 final size:40
Alignment explanation
Indices: 84968434--84968537 Score: 102
Period size: 39 Copynumber: 2.6 Consensus size: 40
84968424 GGGCTTCGAG
* *
84968434 CCTAGCAGGCAAAATGCCGGTGAATGAATTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* ** ** **
84968475 TCTAGCAGGCT-CGTGCCGGTGATGAATTTGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
*
84968514 CCTAGCAGGCTAATTGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
84968538 TTGATAACAG
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
39 23 0.46
40 18 0.36
41 9 0.18
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Done.