Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 98 of 106
Found at i:37256304 original size:3 final size:3
Alignment explanation
Indices: 37256296--37256320 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37256286 TGCATCATGC
37256296 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
37256321 CTTTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:37257325 original size:12 final size:12
Alignment explanation
Indices: 37257300--37257357 Score: 55
Period size: 12 Copynumber: 4.6 Consensus size: 12
37257290 ATCCCCCTTT
*
37257300 TTTTATTTATTTA
1 TTTT-TTTAATTA
37257313 TTTTTTTAATTA
1 TTTTTTTAATTA
37257325 TTTTTATT-ATTA
1 TTTTT-TTAATTA
*
37257337 TATTTTTATATTTA
1 T-TTTTT-TAATTA
37257351 TTTTTTT
1 TTTTTTT
37257358 TATTTAGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 19 0.49
13 16 0.41
14 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTAATTA
Found at i:37257340 original size:26 final size:25
Alignment explanation
Indices: 37257299--37257363 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 25
37257289 TATCCCCCTT
*
37257299 TTTTTATTTATTTATTTTTTTAATTA
1 TTTTTA-TTATTTATTTTTATAATTA
*
37257325 TTTTTATTATTATATTTTTATATTTA
1 TTTTTATTATT-TATTTTTATAATTA
*
37257351 TTTTTTTTATTTA
1 TTTTTATTATTTA
37257364 GGTGTCTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTTATTATTTATTTTTATAATTA
Found at i:37257361 original size:13 final size:13
Alignment explanation
Indices: 37257299--37257363 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
37257289 TATCCCCCTT
37257299 TTTTTATTTATTTA
1 TTTTT-TTTATTTA
*
37257313 -TTTTTTTAATTA
1 TTTTTTTTATTTA
*
37257325 TTTTTATTA-TTA
1 TTTTTTTTATTTA
*
37257337 TATTTTTATATTTA
1 T-TTTTTTTATTTA
37257351 TTTTTTTTATTTA
1 TTTTTTTTATTTA
37257364 GGTGTCTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
12 11 0.26
13 28 0.65
14 4 0.09
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTATTTA
Found at i:37259101 original size:29 final size:28
Alignment explanation
Indices: 37259019--37259104 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 28
37259009 AGAAAAGAGG
*
37259019 TGTACAAGAATAGGTATAAGAGAAGAAGC
1 TGTAC-AGAATAGGTATAAGAGAATAAGC
*
37259048 TGTACGAGAATAGGTACAAGAGAATAAGC
1 TGTAC-AGAATAGGTATAAGAGAATAAGC
* *
37259077 TGTACATGAATAAGTATACGAGAATAAG
1 TGTACA-GAATAGGTATAAGAGAATAAG
37259105 GTAAGAGGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 1 0.02
29 49 0.98
ACGTcount: A:0.47, C:0.08, G:0.26, T:0.20
Consensus pattern (28 bp):
TGTACAGAATAGGTATAAGAGAATAAGC
Found at i:37259103 original size:14 final size:14
Alignment explanation
Indices: 37259025--37259104 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
37259015 GAGGTGTACA
* *
37259025 AGAATAGGTATAAG
1 AGAATAAGTATACG
* *
37259039 AGAAGAAGCTGTACG
1 AGAATAAG-TATACG
* * *
37259054 AGAATAGGTACAAG
1 AGAATAAGTATACG
*
37259068 AGAATAAGCTGTAC-
1 AGAATAAG-TATACG
37259082 ATGAATAAGTATACG
1 A-GAATAAGTATACG
37259097 AGAATAAG
1 AGAATAAG
37259105 GTAAGAGGGT
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
14 28 0.58
15 20 0.42
ACGTcount: A:0.47, C:0.07, G:0.26, T:0.19
Consensus pattern (14 bp):
AGAATAAGTATACG
Found at i:37259379 original size:26 final size:26
Alignment explanation
Indices: 37259346--37259454 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
37259336 CTTTTTTTAA
* * **
37259346 TTGTTCTGCTTTAAGTAGTACTTCAC
1 TTGTTCTGCGTGAAGTAGCGCTTCAC
* *
37259372 TTATTCTGCATGAAGTAGCGCTTCAC
1 TTGTTCTGCGTGAAGTAGCGCTTCAC
*
37259398 TTGTTTTGCGTGAAGTAGCGCTTCAC
1 TTGTTCTGCGTGAAGTAGCGCTTCAC
37259424 TTGTTCTGCGTGAAGTAGCGCTTCAC
1 TTGTTCTGCGTGAAGTAGCGCTTCAC
37259450 TTGTT
1 TTGTT
37259455 TTAGTTATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.40
Consensus pattern (26 bp):
TTGTTCTGCGTGAAGTAGCGCTTCAC
Found at i:37260516 original size:28 final size:29
Alignment explanation
Indices: 37260462--37260516 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
37260452 AGAAAACAAC
*
37260462 ATTTAAATTGATTATATTTTGAGAATAGT
1 ATTTAAATTGATTATATTTTGAAAATAGT
*
37260491 ATTTAAA-TGA-TCTATTTTGATAAATA
1 ATTTAAATTGATTATATTTTGA-AAATA
37260517 AAAGGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 7 0.30
29 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (29 bp):
ATTTAAATTGATTATATTTTGAAAATAGT
Found at i:37262669 original size:18 final size:18
Alignment explanation
Indices: 37262646--37262680 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37262636 TATATTTCTA
*
37262646 AAATAAAGTAAACGAAAG
1 AAATAAAGTAAAAGAAAG
37262664 AAATAAAGTAAAAGAAA
1 AAATAAAGTAAAAGAAA
37262681 TGGTATAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.14, T:0.11
Consensus pattern (18 bp):
AAATAAAGTAAAAGAAAG
Found at i:37270319 original size:17 final size:19
Alignment explanation
Indices: 37270299--37270339 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
37270289 CGAAACTAAG
*
37270299 TAAAATGAAAT-ATAA-AA
1 TAAAATAAAATAATAATAA
37270316 TAAAATAAAATAATAATAA
1 TAAAATAAAATAATAATAA
37270335 TAAAA
1 TAAAA
37270340 ATGGTGTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
TAAAATAAAATAATAATAA
Found at i:37291533 original size:85 final size:87
Alignment explanation
Indices: 37291400--37291646 Score: 245
Period size: 89 Copynumber: 2.8 Consensus size: 87
37291390 TTTATTATTA
*
37291400 TAATAT-ATGATTATTT-TTTTTATTTTTTTATTTTTAAAATATTAATAATTTATAATGTATTTA
1 TAATATCATGATTATTTATTTTTA---TTTTA-TTTTAAAATATTAATAATTTATAATATATTTA
37291463 AAATATTAATA-ATTAATAATTTAA-
62 AAATATTAATATATTAATAATTTAAC
* * *
37291487 TATTATCATGATTATTTATTTTTATTTTATTTTAAAATATTTATAATTTAATCATTAATATTTTA
1 TAATATCATGATTATTTATTTTTATTTTATTTTAAAATATTAATAATTT-AT-AAT-ATA-TTTA
* *
37291552 TAATATTAATATTTTATTTATAATTTAAC
62 AAATATTAATA---TATTAATAATTTAAC
** * * *
37291581 TAATATTGTGATTATTTATTTTTATTTAATTTT--ATTGATTAATAATTTATAATTTATTTAAAA
1 TAATATCATGATTATTTATTTTTATTTTATTTTAAAAT-ATTAATAATTTATAATATATTTAAAA
37291644 TAT
65 TAT
37291647 ATTTTTTATT
Statistics
Matches: 133, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
85 19 0.14
86 7 0.05
87 7 0.05
88 12 0.09
89 29 0.22
90 2 0.02
91 2 0.02
92 4 0.03
93 22 0.17
94 29 0.22
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (87 bp):
TAATATCATGATTATTTATTTTTATTTTATTTTAAAATATTAATAATTTATAATATATTTAAAAT
ATTAATATATTAATAATTTAAC
Found at i:37291561 original size:16 final size:16
Alignment explanation
Indices: 37291514--37291568 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
37291504 ATTTTTATTT
* *
37291514 TATTTTAAAATATTTA
1 TATTTTATAATATTAA
*
37291530 TA-ATT-TAATCATTAA
1 TATTTTATAAT-ATTAA
37291545 TATTTTATAATATTAA
1 TATTTTATAATATTAA
37291561 TATTTTAT
1 TATTTTAT
37291569 TTATAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 3 0.09
15 8 0.25
16 17 0.53
17 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTATAATATTAA
Found at i:37291565 original size:58 final size:57
Alignment explanation
Indices: 37291431--37291579 Score: 135
Period size: 58 Copynumber: 2.6 Consensus size: 57
37291421 ATTTTTTTAT
* * * *
37291431 TTTTAAAATATTAATAATTTATAATGTATTTAAAATATTAATAATTAATAATTTAATA
1 TTTTATAATATTAAT-ATTTTTATTTTATTTAAAATATTAATAATTAATAATTTAATA
* * * *
37291489 --TTATCATGATTATTTATTTTTATTTTATTTTAAAATATTTATAATTTAATCA-TTAATA
1 TTTTATAAT-ATTA-ATATTTTTATTTTA-TTTAAAATATTAATAA-TTAATAATTTAATA
37291547 TTTTATAATATTAATA-TTTTATTTATAATTTAA
1 TTTTATAATATTAATATTTTTATTT-T-ATTTAA
37291580 CTAATATTGT
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
56 5 0.07
57 21 0.29
58 30 0.41
59 11 0.15
60 6 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (57 bp):
TTTTATAATATTAATATTTTTATTTTATTTAAAATATTAATAATTAATAATTTAATA
Found at i:37291659 original size:19 final size:18
Alignment explanation
Indices: 37291633--37291668 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
37291623 TAATTTATAA
37291633 TTTATTTAAAATATATTT
1 TTTATTTAAAATATATTT
*
37291651 TTTATTTTAATATATATT
1 TTTA-TTTAAAATATATT
37291669 AATATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTTAAAATATATTT
Found at i:37291676 original size:23 final size:22
Alignment explanation
Indices: 37291609--37291679 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 22
37291599 TTTTTATTTA
37291609 ATTTTATTGATTAATAAT-TT-AT
1 ATTTTATT--TTAATAATATTAAT
*
37291631 AATTTA-TTTAA-AATA-T-AT
1 ATTTTATTTTAATAATATTAAT
*
37291649 TTTTTATTTTAATATATATTAAT
1 ATTTTATTTTAATA-ATATTAAT
37291672 ATTTTATT
1 ATTTTATT
37291680 AGAAGTTGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
18 10 0.26
19 9 0.23
20 1 0.03
21 4 0.10
22 6 0.15
23 9 0.23
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
ATTTTATTTTAATAATATTAAT
Found at i:37293317 original size:2 final size:2
Alignment explanation
Indices: 37293304--37293335 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
37293294 GAACCAAGAG
*
37293304 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37293336 TAGCTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:37299636 original size:17 final size:16
Alignment explanation
Indices: 37299613--37299655 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
37299603 TTAATTTAGT
37299613 ATGATAATATATCATTA
1 ATGATAATATAT-ATTA
*
37299630 TTGATAATAATATATTA
1 ATGATAAT-ATATATTA
37299647 ATG-TAATAT
1 ATGATAATAT
37299656 GAAGACATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 2 0.09
16 4 0.17
17 13 0.57
18 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (16 bp):
ATGATAATATATATTA
Found at i:37300614 original size:618 final size:624
Alignment explanation
Indices: 37299702--37300947 Score: 1835
Period size: 618 Copynumber: 2.0 Consensus size: 624
37299692 GATTAATATT
* *
37299702 AATTAGTTAAATATTAGTAATAGAATCTATTTTATCTAAAACAAAAATATATAAATTTAATTAAA
1 AATTAGTAAAATATTAGTAATAGAATCTATTTTATCTAAAACAAAAATATATAAACTTAATTAAA
*
37299767 TATAATAAAAAATAAAAATACATTTAAATTTTTTCAAATAGATTAATTTTTTAAAAAAATATTAT
66 TATAATAAAAAATAAAAATACATTTAAATTTTTTCAAATAGATTAAATTTTTAAAAAAATATTAT
* * *
37299832 GTATTCTTTTTATTAATTTATCAAAATTCTTAATAATATATTAAGAAGTAAATAGCATTTAATTT
131 GCATTCTTTTTATTAATTTATCAAAATTCTTAATAACATATTAAGAAGTAAATAGCATTTAAGTT
* *
37299897 AAGTTGCTAGCGCTTCCCCATGGTACAGATGGATTTAGGTTAGAGAAGTGGTTAATATAGAATAA
196 AAGTTGCTAGAGCTTCCCCATGATACAGATGGATTTAGGTTAGAGAAGTGGTTAATATAGAATAA
* * *
37299962 CAAGAATCATATAATCCATGGGAAATGATAAAAAAATCATAATTGAATAAGCTAAATGGGACATA
261 CAAGAATCATATAATACATGGGAAATGATAAAAAAATCATAACTGAATAAGCTAAATAGGACATA
*
37300027 CAAAATTTATATCCTTAAGTTTGAAATAGTTATATTCATTATTATTATTTTTGCTTTCTCTCTTA
326 CAAAATTTATATCCTTAAGTTTGAAATAGTTATACTCATTATTATTATTTTTGCTTTCTCTCTTA
37300092 CAATATCAAAATAATACACTGAGTTTTCTTTAATTATTTAATGTCAAC-TACGTTT-TAGTAC-C
391 CAATATCAAAATAATACACTGAGTTTTCTTTAATTATTTAATGTC-ACTTAC-TTTGTAGTACAC
*
37300154 TTT-TTA-A-TTATCA-CTT-AC-ATGTTTAACACAATTTAATGGAGAAAAGTTGAATAATCCAT
454 TTTATTACACTTA-CAGCTTAACAATGTTTAACACAATGTAATGGAGAAAAGTTGAATAATCCAT
*
37300213 GTTTAACACAATGTGTAATAA-TTTGTTTCGTATTT-TGGATAGGAGTGTAATAATTAAGCAAGT
518 GTTTAACACAATGTGTAATAATTTTGTTTC-T-TTTGTGGATAAGAGTGTAATAATTAAGCAAGT
* * *
37300276 TCAATTAATTTGTGGTGTACTTTATCATGAATTATTCAAATAAC
581 TCAATTAATTCGTGGTATACTTCATCATGAATTATTCAAATAAC
** * *
37300320 AATTAGTAAAATATTAGTAATAGGGTTTATTTTATCTAAAACAAAAATATATGAACTTAATTAAA
1 AATTAGTAAAATATTAGTAATAGAATCTATTTTATCTAAAACAAAAATATATAAACTTAATTAAA
* *
37300385 TGTAATAAAAAAATAAAAATATATTTAAATTTTCTT-AAATAG-TGTAAGAATTTTT-AAAAAAT
66 TATAAT-AAAAAATAAAAATACATTTAAATTTT-TTCAAATAGAT-T-A-AATTTTTAAAAAAAT
*
37300447 ATTATGCA-T-TTTTT-TTAATTTATCAAAATTTTTAATAACATATTAAGAAGTAAATAGCATTT
126 ATTATGCATTCTTTTTATTAATTTATCAAAATTCTTAATAACATATTAAGAAGTAAATAGCATTT
* * *
37300509 AAGTTAAGTTGTTAGAGCTTCCCCCATGATAGAGGTGGATTTAGGTTAGAGAAGTGGTTAATATA
191 AAGTTAAGTTGCTAGAGCTT-CCCCATGATACAGATGGATTTAGGTTAGAGAAGTGGTTAATATA
* * * *
37300574 GCAA-AACAAGTATCATATAATAGATGGGAAATGATAAAAAAATCATGACTGAATAAGCTACATA
255 G-AATAACAAGAATCATATAATACATGGGAAATGATAAAAAAATCATAACTGAATAAGCTAAATA
* *
37300638 GGACATATAAAATTTATATCCTTAAGTTTGAAATAGTTATGCTCATTATTATTATTTTTGCTTTC
319 GGACATACAAAATTTATATCCTTAAGTTTGAAATAGTTATACTCATTATTATTATTTTTGCTTTC
* *
37300703 TCTCTTACAATATCAAAATAATATACTGAGTTTTCTTTCATTATTTAATGTCACTTACTTTGTAG
384 TCTCTTACAATATCAAAATAATACACTGAGTTTTCTTTAATTATTTAATGTCACTTACTTTGTAG
* *
37300768 TACACTTTCAATTATCACTTACATGTTTAACATGATGTTTAACACAATGTAATGGCGAAAAGTTG
449 TACACTTT--ATTA-CACTTACA-GCTTAACA--ATGTTTAACACAATGTAATGGAGAAAAGTTG
*
37300833 AATAATCCATGTTTAACACAATGTGTAATAATTTTTTTTCTTTTGGTGGATAAGAGTGTAATAAT
508 AATAATCCATGTTTAACACAATGTGTAATAATTTTGTTTCTTTT-GTGGATAAGAGTGTAATAAT
* *
37300898 TGAGCAAGTTCAATTAATTCGTGGTATAGTTCATCATGAATTATTCAAAT
572 TAAGCAAGTTCAATTAATTCGTGGTATACTTCATCATGAATTATTCAAAT
37300948 TCCATACACA
Statistics
Matches: 563, Mismatches: 40, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
617 68 0.12
618 286 0.51
619 39 0.07
620 17 0.03
621 6 0.01
622 3 0.01
624 3 0.01
625 3 0.01
626 2 0.00
627 2 0.00
629 3 0.01
630 61 0.11
631 70 0.12
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (624 bp):
AATTAGTAAAATATTAGTAATAGAATCTATTTTATCTAAAACAAAAATATATAAACTTAATTAAA
TATAATAAAAAATAAAAATACATTTAAATTTTTTCAAATAGATTAAATTTTTAAAAAAATATTAT
GCATTCTTTTTATTAATTTATCAAAATTCTTAATAACATATTAAGAAGTAAATAGCATTTAAGTT
AAGTTGCTAGAGCTTCCCCATGATACAGATGGATTTAGGTTAGAGAAGTGGTTAATATAGAATAA
CAAGAATCATATAATACATGGGAAATGATAAAAAAATCATAACTGAATAAGCTAAATAGGACATA
CAAAATTTATATCCTTAAGTTTGAAATAGTTATACTCATTATTATTATTTTTGCTTTCTCTCTTA
CAATATCAAAATAATACACTGAGTTTTCTTTAATTATTTAATGTCACTTACTTTGTAGTACACTT
TATTACACTTACAGCTTAACAATGTTTAACACAATGTAATGGAGAAAAGTTGAATAATCCATGTT
TAACACAATGTGTAATAATTTTGTTTCTTTTGTGGATAAGAGTGTAATAATTAAGCAAGTTCAAT
TAATTCGTGGTATACTTCATCATGAATTATTCAAATAAC
Found at i:37312389 original size:2 final size:2
Alignment explanation
Indices: 37312384--37312416 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
37312374 TTTTTTTCTG
*
37312384 TA TA TA TA TA TA TA TA TA TA TA TA NA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37312417 AAAAAGTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:37324141 original size:7 final size:7
Alignment explanation
Indices: 37324125--37324153 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
37324115 CTTGTCTAGT
37324125 AAAA-AA
1 AAAAGAA
37324131 AAAAGAA
1 AAAAGAA
37324138 AAAAGAA
1 AAAAGAA
37324145 AAAAGAA
1 AAAAGAA
37324152 AA
1 AA
37324154 GGGGATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:37324449 original size:316 final size:314
Alignment explanation
Indices: 37323708--37324473 Score: 1380
Period size: 318 Copynumber: 2.4 Consensus size: 314
37323698 TCTCAGCATC
*
37323708 AGTGAGTATGGCAGCTTTATCAAGGCACCCGTAACAAGATGGACTTAGCAATACTAGCACTGAAA
1 AGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAATACTAGCACTGAAA
*
37323773 GAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTA-T-AAAAAAA-CAAAAAGAAAAAAGA
66 GAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTATTAAAAAAAAGAAAAAAGAAAAAAGA
*
37323835 AAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACCTACAATTACAAACCAACAAGTTG
131 AAAGGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACCTACAATTACAAACCAACAAGTTG
37323900 ATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAAATCAGATAAAACTCTCTCCAATA
196 ATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAAATCAGATAAAACTCTCTCCAATA
37323965 AGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTATGAGAAAGGAGAATT
261 AGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTATGAGAAAGGAGAATT
*
37324019 AGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAATACCAGCACTGAAA
1 AGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAATACTAGCACTGAAA
*
37324084 GAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTAGTAAAAAAAAAAGAAAAAAGAAAAAA
66 GAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTA-T-TAAAAAAAAGAAAAAAGAAAAAA
37324149 GAAAAGGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACCTACAATTACAAACCAACAAGT
129 GAAAAGGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACCTACAATTACAAACCAACAAGT
* *
37324214 TGATAGATGACAATTTCTTAAATCAGTGATAATTTCCCAAATAAATCAGATAAAACTTTCTCTCC
194 TGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAAATCAGATAAAAC--TCTCTCC
37324279 AATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTATGAGAAAGGAGAATT
257 AATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTATGAGAAAGGAGAATT
37324337 AGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAATACTAGCACTGAAA
1 AGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAATACTAGCACTGAAA
* *
37324402 GAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTATTAAAAAAAAGAAAAAA-AAGAAA-A
66 GAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTATTAAAAAAAAGAAAAAAGAAAAAAGA
37324465 AAAGGGGAT
131 AAAGGGGAT
37324474 ACCNTAGCAC
Statistics
Matches: 437, Mismatches: 11, Indels: 11
0.95 0.02 0.02
Matches are distributed among these distances:
311 102 0.23
314 10 0.02
315 12 0.03
316 145 0.33
317 1 0.00
318 167 0.38
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.24
Consensus pattern (314 bp):
AGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAATACTAGCACTGAAA
GAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTATTAAAAAAAAGAAAAAAGAAAAAAGA
AAAGGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACCTACAATTACAAACCAACAAGTTG
ATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAAATCAGATAAAACTCTCTCCAATA
AGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTATGAGAAAGGAGAATT
Found at i:37324468 original size:8 final size:9
Alignment explanation
Indices: 37324443--37324467 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37324433 CTTGTCTATT
37324443 AAAAAAAAG
1 AAAAAAAAG
37324452 AAAAAAAAG
1 AAAAAAAAG
37324461 AAAAAAA
1 AAAAAAA
37324468 GGGGATACCN
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:37324534 original size:1 final size:1
Alignment explanation
Indices: 37324528--37324561 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
37324518 AGAAAGAAAC
*
37324528 AAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37324562 GGAAAAGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:37324566 original size:8 final size:8
Alignment explanation
Indices: 37324520--37324567 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
37324510 AGAGAGAGAG
37324520 AAAGAAACA
1 AAAGAAA-A
37324529 AAA-AAAA
1 AAAGAAAA
*
37324536 AAAAAAAA
1 AAAGAAAA
*
37324544 AAAAAAAA
1 AAAGAAAA
37324552 AAAGAAAA
1 AAAGAAAA
*
37324560 AAGGAAAA
1 AAAGAAAA
37324568 GGGATTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 4 0.11
8 29 0.81
9 3 0.08
ACGTcount: A:0.90, C:0.02, G:0.08, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:37324567 original size:7 final size:7
Alignment explanation
Indices: 37324520--37324567 Score: 50
Period size: 6 Copynumber: 7.1 Consensus size: 7
37324510 AGAGAGAGAG
37324520 AAAGAAA
1 AAAGAAA
37324527 CAAA-AAA
1 -AAAGAAA
37324534 AAA-AAA
1 AAAGAAA
37324540 AAA-AAA
1 AAAGAAA
37324546 AAA-AAA
1 AAAGAAA
37324552 AAAGAAA
1 AAAGAAA
37324559 AAAGGAAA
1 AAA-GAAA
37324567 A
1 A
37324568 GGGATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 21 0.55
7 9 0.24
8 8 0.21
ACGTcount: A:0.90, C:0.02, G:0.08, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:37325112 original size:316 final size:314
Alignment explanation
Indices: 37324541--37326000 Score: 2667
Period size: 316 Copynumber: 4.7 Consensus size: 314
37324531 AAAAAAAAAA
37324541 AAAAAAAAAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACC
1 AAAAAAAAAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACC
* *
37324606 TACAATTACAAACCAACAAGTTGATAGATGACAATTTCTTAAATCAGTGATAATTTCCCAAATAA
66 TACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAA
37324671 ATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTAT
131 ATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTAT
37324736 GAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAA
196 GAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAA
* *
37324801 TACCAGCACTGAAAGAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTAT
261 TACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
37324855 AAAAAAAACGAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAA
1 AAAAAAAA--AAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAA
* *
37324920 CCTACAATTACAAACCAACAAGTTGATAGATGACAATTTCTTAAATCAGTGATAATTTCCCAAAT
64 CCTACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAAT
37324985 AAATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCT
129 AAATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCT
37325050 ATGAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGC
194 ATGAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGC
37325115 AATACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
259 AATACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
* *
37325171 ----TAAAAAAAAAG-AAAAAGGAAAAAGGGTATTTAAAAGACGTGCAAGTTGAAACTTCAATGA
1 AAAAAAAAAAAAAAGAAAAAAGG-AAAAGGG-ATTT-AAAGACATGCAAGTTGAAACTTCAATGA
37325231 ACCTACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAA
63 ACCTACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAA
*
37325296 TAAATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAAGGTAGTGC
128 TAAATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGC
*
37325361 TATGAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAAAAAGATGGACTTAG
193 TATGAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAG
*
37325426 CAATACTAGCACTGAAAGAAACTGTATGGCTGTTACGACTTCAAGAAACTTGTCTAT
258 CAATACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
37325483 -----AAAAAAAAA-AAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACC
1 AAAAAAAAAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACC
37325542 TACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAA
66 TACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAA
37325607 ATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTAT
131 ATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTAT
37325672 GAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAA
196 GAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAA
37325737 TACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
261 TACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
37325791 AAAAAAAAAAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAAC
1 -AAAAAAAAAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAAC
37325856 CTACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATA
65 CTACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATA
37325921 AATCAGATAAAAC--TCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTA
130 AATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTA
*
37325984 TAAGAAAGGAGAATTAG
195 TGAGAAAGGAGAATTAG
37326001 AACTAGTAAA
Statistics
Matches: 1119, Mismatches: 14, Indels: 27
0.96 0.01 0.02
Matches are distributed among these distances:
308 276 0.25
309 11 0.01
310 21 0.02
311 20 0.02
312 277 0.25
313 66 0.06
314 17 0.02
315 127 0.11
316 304 0.27
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (314 bp):
AAAAAAAAAAAAAAGAAAAAAGGAAAAGGGATTTAAAGACATGCAAGTTGAAACTTCAATGAACC
TACAATTACAAACCAACAAGTTGATAGATGACAATTGCTTAAATCAGTGATAATTTCCAAAATAA
ATCAGATAAAACTTTCTCTCCAATAAGTGCCTCAGTGGAGTTTTTAAGAAAAAATGTAGTGCTAT
GAGAAAGGAGAATTAGTGAGTATGGCAGCTTTATCAAGGCACCTGTAACAAGATGGACTTAGCAA
TACTAGCACTGAAAGAAACTGTATGGCTGTTAAGACTTCAAGAAACTTGTCTAT
Found at i:37331841 original size:17 final size:16
Alignment explanation
Indices: 37331805--37331846 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
37331795 TATAGGATTT
*
37331805 TATAT-AATGGTTAAA
1 TATATAAATAGTTAAA
37331820 TATATAAATAGTTAAA
1 TATATAAATAGTTAAA
37331836 TAATATAAATA
1 T-ATATAAATA
37331847 AAAAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (16 bp):
TATATAAATAGTTAAA
Found at i:37332275 original size:51 final size:50
Alignment explanation
Indices: 37332153--37332290 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 50
37332143 GAAAACTATT
* * *
37332153 AAAAATATATA-GTAAATAAATAATT-TCATAAATTTTGAAAGGAACCATTA
1 AAAAATATATATATAAATAAAAAATTCT-AAAAATTTTGAAAGG-ACCATTA
* *
37332203 AAAAATATATA-ATAAATAAAAACTTCTAAAAATTTTAGAAAGG-TCATTA
1 AAAAATATATATATAAATAAAAAATTCTAAAAATTTT-GAAAGGACCATTA
* * *
37332252 ATATATATATATATAAATAAAAAATTTTAAAAATTTTGA
1 AAAAATATATATATAAATAAAAAATTCTAAAAATTTTGA
37332291 GGGGGCCGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
49 16 0.21
50 53 0.70
51 7 0.09
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (50 bp):
AAAAATATATATATAAATAAAAAATTCTAAAAATTTTGAAAGGACCATTA
Found at i:37342736 original size:18 final size:19
Alignment explanation
Indices: 37342713--37342750 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
37342703 TCTCTATAAA
37342713 AACTAATAAAAAA-AAAAG
1 AACTAATAAAAAACAAAAG
37342731 AACTAATAAAAAACAAAAG
1 AACTAATAAAAAACAAAAG
37342750 A
1 A
37342751 CTTAACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.76, C:0.08, G:0.05, T:0.11
Consensus pattern (19 bp):
AACTAATAAAAAACAAAAG
Found at i:37356742 original size:26 final size:24
Alignment explanation
Indices: 37356702--37356781 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 24
37356692 CCATATCAGG
37356702 ATATT-TT-AACTAATGATAATTA
1 ATATTATTCAACTAATGATAATTA
* *
37356724 ATATTATTCATA-TAAAATGATAAGTG
1 ATATTATTCA-ACT--AATGATAATTA
37356750 ATATT-TT-AACTAATGATAATTA
1 ATATTATTCAACTAATGATAATTA
37356772 ATATTATTCA
1 ATATTATTCA
37356782 CATCCAATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
22 19 0.41
23 5 0.11
24 5 0.11
25 3 0.07
26 14 0.30
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (24 bp):
ATATTATTCAACTAATGATAATTA
Found at i:37360596 original size:20 final size:20
Alignment explanation
Indices: 37360555--37360596 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
37360545 GTCATTGGTG
* *
37360555 AAGTCTTCCACTAACCCAAA
1 AAGTCTTCCAATAAACCAAA
37360575 AAGT-TTCCAATAAACCAGAA
1 AAGTCTTCCAATAAACCA-AA
37360595 AA
1 AA
37360597 AGTAATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (20 bp):
AAGTCTTCCAATAAACCAAA
Found at i:37369298 original size:54 final size:54
Alignment explanation
Indices: 37369216--37369325 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
37369206 CCTGAAGTGC
37369216 AGAATGCTCTGGTAGGTGGAAAAGGTGGGAAGTAAAATCAGTAGGATGATAGGA
1 AGAATGCTCTGGTAGGTGGAAAAGGTGGGAAGTAAAATCAGTAGGATGATAGGA
37369270 AGAATGCTCTGGTAGGTGGAAAAGGTGGGAAGTAAAATCAGTAGGATGATAGGA
1 AGAATGCTCTGGTAGGTGGAAAAGGTGGGAAGTAAAATCAGTAGGATGATAGGA
37369324 AG
1 AG
37369326 CGTGAAGTAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.20
Consensus pattern (54 bp):
AGAATGCTCTGGTAGGTGGAAAAGGTGGGAAGTAAAATCAGTAGGATGATAGGA
Found at i:37376369 original size:25 final size:25
Alignment explanation
Indices: 37376331--37376402 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 25
37376321 AAGAAAATAA
* *
37376331 AATCCCTATTATTATGATGATTCCC
1 AATCCCTATAATTATGATAATTCCC
* * *
37376356 AATCCCTATAATTATGGTAATTTCT
1 AATCCCTATAATTATGATAATTCCC
* *
37376381 AATTCCTATAATTATGTTAATT
1 AATCCCTATAATTATGATAATT
37376403 AATAAAAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (25 bp):
AATCCCTATAATTATGATAATTCCC
Found at i:37379516 original size:2 final size:2
Alignment explanation
Indices: 37379503--37379564 Score: 88
Period size: 2 Copynumber: 31.0 Consensus size: 2
37379493 TACTCTTTGC
* * * *
37379503 AT AT AT AA AT AT AT AT AT AT AT GT GT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37379545 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
37379565 CTATGAGTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37384958 original size:2 final size:2
Alignment explanation
Indices: 37384951--37384977 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37384941 NNNNNNNNNN
37384951 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
37384978 CACACACGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37386064 original size:15 final size:16
Alignment explanation
Indices: 37386046--37386075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37386036 TTAACAATAA
37386046 TTATT-TTTATTTTTT
1 TTATTATTTATTTTTT
37386061 TTATTATTTATTTTT
1 TTATTATTTATTTTT
37386076 AAATTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTATTATTTATTTTTT
Found at i:37386802 original size:235 final size:236
Alignment explanation
Indices: 37386520--37386957 Score: 621
Period size: 239 Copynumber: 1.8 Consensus size: 236
37386510 AAGGTTTTTC
*
37386520 AATGATAACTTTTAACAATAATTATTCTTATCTTCATAATTATTTATTTTTAAATTAAAATTTAT
1 AATGACAACTTTTAACAATAATTATTCTTATCTTCATAATTATTTATTTTTAAATTAAAATTTAT
* * * *
37386585 AAATTG-TTAAATAGTTTT-AGTCCAATAATATAAATTTAAATATTTATTTTTTATTAAAATTAG
66 AAATTGATTAAATACTTTTAACT-CAAGAATATAAATTTAAATATTTATTTTTCATTAAAATTAG
*
37386648 AATTTTGTAACTTAATTAACTTGTAACATTAACTCTCACACATTTAAATTAAGATTTTAAATATA
130 AATTTTGTAACTTAATTAACCTGTAACATTAACTCTCACACATTTAAATTAAGATTTTAAATATA
*
37386713 TTTGTTCTACATCTAAGATTTTGAATTACGATAAAGCTTCTT
195 CTTGTTCTACATCTAAGATTTTGAATTACGATAAAGCTTCTT
* *
37386755 AATGACAACTTTTAACAATAATTATTTTTATCCTT-ATTATTATTTATTTTTAAATTAAAATTTA
1 AATGACAACTTTTAACAATAATTATTCTTAT-CTTCATAATTATTTATTTTTAAATTAAAATTTA
* * *
37386819 TAAATTGTTAATTAAATACTTTTAACTCGAGAATATAAATTTAAATGTTTGTTTTTCATTAAAAT
65 TAAATTG---ATTAAATACTTTTAACTCAAGAATATAAATTTAAATATTTATTTTTCATTAAAAT
* * * * * *** *
37386884 TAGATTTTTGTGACTTAATTGACCTGTTACATTAATTCTTGTACATTTACATTAAGATTTTAAAT
127 TAGAATTTTGTAACTTAATTAACCTGTAACATTAACTCTCACACATTTAAATTAAGATTTTAAAT
37386949 ATACTTGTT
192 ATACTTGTT
37386958 TCACCTTTAT
Statistics
Matches: 176, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
235 64 0.36
236 3 0.02
239 107 0.61
240 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (236 bp):
AATGACAACTTTTAACAATAATTATTCTTATCTTCATAATTATTTATTTTTAAATTAAAATTTAT
AAATTGATTAAATACTTTTAACTCAAGAATATAAATTTAAATATTTATTTTTCATTAAAATTAGA
ATTTTGTAACTTAATTAACCTGTAACATTAACTCTCACACATTTAAATTAAGATTTTAAATATAC
TTGTTCTACATCTAAGATTTTGAATTACGATAAAGCTTCTT
Found at i:37386998 original size:20 final size:20
Alignment explanation
Indices: 37386973--37387022 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
37386963 TTTATGAATT
37386973 TTTACGTCAATTCTTATAAC
1 TTTACGTCAATTCTTATAAC
*
37386993 TTTACGTCCATTCTTATAAC
1 TTTACGTCAATTCTTATAAC
*
37387013 TTTACATCAA
1 TTTACGTCAA
37387023 GACTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (20 bp):
TTTACGTCAATTCTTATAAC
Found at i:37387385 original size:5 final size:6
Alignment explanation
Indices: 37387369--37387394 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37387359 ACTTTTAGCC
37387369 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
37387395 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:37387834 original size:251 final size:251
Alignment explanation
Indices: 37386993--37388086 Score: 1040
Period size: 251 Copynumber: 4.3 Consensus size: 251
37386983 TTCTTATAAC
* *
37386993 TTTACGTCCATTCTTATAACTTTACATCAAGACTTTTTAATGACAACTTTTAACAATAATTATTT
1 TTTACGTCAATTCTTATAACTTTA-ATCAAGACTTTTCAATGACAACTTTTAACAATAATTATTT
* ** * * *
37387058 TTATCTTTATTATTATTTATTTTTAAATTAAAATTTGTAAATTGTTAAATATTTTTAACCTGAA-
65 TTATCCTTATTATTATTTATTTTTAAATTAAAATTTACAAATTGTTAAATACTTTT-AGCTTAAG
** * * * *
37387122 AATATAAATTTCAATGTTTGTTTTTCATTAAAATTAGAATTTTATGACTTAATTGACTTGTTATA
129 AATATAAATTAAAATATTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACTTGTTACA
* * ** * * *
37387187 TTGTCTCTCACACATTTATGTTAACATTTTAAATATTCTTATTCCACATTTATGAGTT
194 TTATCTCTCATACATTTACATTAAGATTTTAAATATACTTGTTCCACATTTATGAGTT
* * * ** * * **
37387245 TTTATGTTAATTCTTACAGTTTTACA-CAAGACTTTTCAATGATAATTTTTAATTATAATTATTT
1 TTTACGTCAATTCTTATAACTTTA-ATCAAGACTTTTCAATGACAACTTTTAACAATAATTATTT
* * * * * *
37387309 TTATCCTTATTATTCTTTATTTTAAAATTAAAATTTGCATATTGTTAAATACTTTTAGCCTAAAA
65 TTATCCTTATTATTATTTATTTTTAAATTAAAATTTACAAATTGTTAAATACTTTTAGCTTAAGA
* * ** * *
37387374 ATAAAAATAAAAATAAAAATATTTATTAAAATTAAAATTAAAATTTTT-TGACTTAATTGACTTG
130 ATATAAATTAAAAT--ATTTATTT-TT--CATTAAAATT-AGATTTTTATGACTTAATTGACTTG
* * * *
37387438 TTACATTAACTCTCATACATTTACATT-AGATTTTAAATATGCTTGTTCCACTTTTATAAGTT
189 TTACATTATCTCTCATACATTTACATTAAGATTTTAAATATACTTGTTCCACATTTATGAGTT
* * * * *
37387500 TTTACATCAATTTTTATAACTTTAAATTAA-AGCTTTTCAAATG-CAATTTTTAAAAATAATTAT
1 TTTACGTCAATTCTTATAACTTT-AATCAAGA-CTTTTC-AATGACAACTTTTAACAATAATTAT
* * *
37387563 TTTTATCCTTATTATTATTTATTTTTAAATTAAAATTTACAAGTCGTTAAATACTTTTAGTTTAA
63 TTTTATCCTTATTATTATTTATTTTTAAATTAAAATTTACAAATTGTTAAATACTTTTAGCTTAA
* ** * *
37387628 GAATATAAATTTAAACGTTTATTTTTCATTAAAATTAGATTTTTATGACTTGATTGACTTATTAC
128 GAATATAAATTAAAATATTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACTTGTTAC
* * *
37387693 GTTATCTCTCATACATTTACATTAAGATTTTAAATATACTTGTTCCATC-TTTGTGATTT
193 ATTATCTCTCATACATTTACATTAAGATTTTAAATATACTTGTTCCA-CATTTATGAGTT
* * * * * *
37387752 TTTATGTCAATTCTTATAATTTTATGTCAAGGCTTTTCAGTGACAACTTTTAACAATGATT-TTT
1 TTTACGTCAATTCTTATAACTTTA-ATCAAGACTTTTCAATGACAACTTTTAACAATAATTATTT
* * *
37387816 TTATCCTTATTATTATTTATTTTTAAATTAAAATTTATAAATTGTTAAATACTTTTAACTTGAGA
65 TTATCCTTATTATTATTTATTTTTAAATTAAAATTTACAAATTGTTAAATACTTTTAGCTTAAGA
* * ** * * * *
37387881 ATATAAAGTAAAATATTTGTTTTTCACAAAAATTAGATTTTTTTTTACTCAATTGACATG-TACA
130 ATATAAATTAAAATATTTATTTTTCATTAAAATTAGA-TTTTTATGACTTAATTGACTTGTTACA
* * * * * * * * * *
37387945 TTAACTCTCACACATTTACGTTAGGGTTTTAAATTTATTTGTTCTACTTTTATAAGTT
194 TTATCTCTCATACATTTACATTAAGATTTTAAATATACTTGTTCCACATTTATGAGTT
* * * ** * * * ** **
37388003 TTTATGTTAATTCTTACATTTTTACGTTAAGTC-TTTCAATGGTAACTTTTAATGATAATTATTT
1 TTTACGTCAATTCTTATAACTTTA-ATCAAGACTTTTCAATGACAACTTTTAACAATAATTATTT
* *
37388067 TTAT-TTTTTTATTATTTATT
65 TTATCCTTATTATTATTTATT
37388087 AGAGAGTCCT
Statistics
Matches: 687, Mismatches: 135, Indels: 42
0.80 0.16 0.05
Matches are distributed among these distances:
250 47 0.07
251 320 0.47
252 108 0.16
253 7 0.01
254 7 0.01
255 48 0.07
256 140 0.20
257 10 0.01
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.49
Consensus pattern (251 bp):
TTTACGTCAATTCTTATAACTTTAATCAAGACTTTTCAATGACAACTTTTAACAATAATTATTTT
TATCCTTATTATTATTTATTTTTAAATTAAAATTTACAAATTGTTAAATACTTTTAGCTTAAGAA
TATAAATTAAAATATTTATTTTTCATTAAAATTAGATTTTTATGACTTAATTGACTTGTTACATT
ATCTCTCATACATTTACATTAAGATTTTAAATATACTTGTTCCACATTTATGAGTT
Found at i:37389053 original size:36 final size:36
Alignment explanation
Indices: 37388997--37389091 Score: 106
Period size: 34 Copynumber: 2.7 Consensus size: 36
37388987 AAGCTTTGGC
* *
37388997 GTGTAATATCT-AGTGCTAAAGCTTTTTTGTCCTGAA
1 GTGTAATATCTGA-TGTTAAAGCTTTTTGGTCCTGAA
* *
37389033 GTGTAATATCTGATGTTAAAG--TTTTGGTCTTGAC
1 GTGTAATATCTGATGTTAAAGCTTTTTGGTCCTGAA
* *
37389067 GTGTAATATCTGGTGTTGAAGCTTT
1 GTGTAATATCTGATGTTAAAGCTTT
37389092 AACCTTAGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
34 29 0.58
36 20 0.40
37 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (36 bp):
GTGTAATATCTGATGTTAAAGCTTTTTGGTCCTGAA
Found at i:37392285 original size:26 final size:28
Alignment explanation
Indices: 37392223--37392286 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
37392213 CCTTGATGAT
*
37392223 AAATGAAAATTCTATCTTATCTTTCAATA
1 AAATGAAAA-TCTATATTATCTTTCAATA
* *
37392252 AAA-AAAAATC-ATATTATGTTT-AATA
1 AAATGAAAATCTATATTATCTTTCAATA
37392277 AAATGAAAAT
1 AAATGAAAAT
37392287 GACTTTTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 7 0.23
26 14 0.47
27 2 0.07
28 4 0.13
29 3 0.10
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.36
Consensus pattern (28 bp):
AAATGAAAATCTATATTATCTTTCAATA
Found at i:37394806 original size:29 final size:29
Alignment explanation
Indices: 37394773--37394871 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 29
37394763 CTTGTTCTTG
*
37394773 TGTACCCATTCACGTACACATTCTTCTCT
1 TGTACCTATTCACGTACACATTCTTCTCT
37394802 TGTACCTATTCACGTACA-ATTTCTTCTCT
1 TGTACCTATTCACGTACACA-TTCTTCTCT
* * * *
37394831 TGTATCTGTTTACGTAC-CGCTTCTTCTCT
1 TGTACCTATTCACGTACAC-ATTCTTCTCT
*
37394860 TGTACCTTTTCA
1 TGTACCTATTCA
37394872 TATATACCTC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.02
29 58 0.98
ACGTcount: A:0.17, C:0.29, G:0.09, T:0.44
Consensus pattern (29 bp):
TGTACCTATTCACGTACACATTCTTCTCT
Found at i:37395442 original size:15 final size:16
Alignment explanation
Indices: 37395424--37395479 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 16
37395414 TATTTTATTT
37395424 TTTAAAT-ATTAATAA
1 TTTAAATAATTAATAA
37395439 TTTATAATTAATTAA-AA
1 TTTA-AA-TAATTAATAA
37395456 TATT-AATAATTAATAA
1 T-TTAAATAATTAATAA
37395472 TTTAAATA
1 TTTAAATA
37395480 TCAATATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
15 13 0.37
16 11 0.31
17 4 0.11
18 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTAAATAATTAATAA
Found at i:37395658 original size:16 final size:16
Alignment explanation
Indices: 37395633--37395719 Score: 56
Period size: 16 Copynumber: 5.4 Consensus size: 16
37395623 ATTTATACTC
*
37395633 ATTAAAAATTTAATAT
1 ATTAATAATTTAATAT
37395649 ATTAATAATTTAATA-
1 ATTAATAATTTAATAT
* *
37395664 AATAA-AACATTAATAT
1 ATTAATAA-TTTAATAT
* *
37395680 TTTAA-AATATTTATAT
1 ATTAATAAT-TTAATAT
*
37395696 -TATAATATTTTAATCAT
1 AT-TAATAATTTAAT-AT
37395713 ATTAATA
1 ATTAATA
37395720 TTAATAATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
14 2 0.04
15 11 0.20
16 32 0.58
17 9 0.16
18 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAATAATTTAATAT
Found at i:37395720 original size:25 final size:25
Alignment explanation
Indices: 37395674--37395759 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
37395664 AATAAAACAT
*
37395674 TAATATTTTAA-AATATTTATATTA
1 TAATATTTTAATAATATTAATATTA
*
37395698 TAATATTTTAATCATATTAATATTAA
1 TAATATTTTAATAATATTAATATT-A
* * *
37395724 TAATGTTTAAATTATATATAA-A-TA
1 TAATATTTTAATAATAT-TAATATTA
37395748 TTAATATTTTAA
1 -TAATATTTTAA
37395760 ATTTTACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
24 12 0.24
25 20 0.39
26 16 0.31
27 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
TAATATTTTAATAATATTAATATTA
Found at i:37395748 original size:28 final size:26
Alignment explanation
Indices: 37395647--37395762 Score: 95
Period size: 23 Copynumber: 4.7 Consensus size: 26
37395637 AAAATTTAAT
* *
37395647 ATATTAATAATTT-AA-TAAATA-AA
1 ATATTAATATTTTAAATTATATATAA
* * *
37395670 ACATTAATATTTTAAAATATTTAT-A
1 ATATTAATATTTTAAATTATATATAA
* *
37395695 TTA-TAATATTTT-AATCATAT-T-A
1 ATATTAATATTTTAAATTATATATAA
37395717 ATATTAATAATGTTTAAATTATATATAA
1 ATATTAAT-AT-TTTAAATTATATATAA
37395745 ATATTAATATTTTAAATT
1 ATATTAATATTTTAAATT
37395763 TTACAAATAA
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.05
23 20 0.27
24 13 0.18
25 9 0.12
26 15 0.21
27 3 0.04
28 9 0.12
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (26 bp):
ATATTAATATTTTAAATTATATATAA
Found at i:37397365 original size:26 final size:27
Alignment explanation
Indices: 37397336--37397390 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
37397326 AAAGATTAAA
* * *
37397336 TTAATCTCCTTTACGTCAGGTT-AGAG
1 TTAACCTCCTTAACGTAAGGTTAAGAG
*
37397362 TTAACCTCCTTAATGTAAGGTTAAGAG
1 TTAACCTCCTTAACGTAAGGTTAAGAG
37397389 TT
1 TT
37397391 CTGCTTTGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (27 bp):
TTAACCTCCTTAACGTAAGGTTAAGAG
Found at i:37401272 original size:13 final size:13
Alignment explanation
Indices: 37401233--37401272 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
37401223 AACAAGCAAG
37401233 AAAAAAAAATACA
1 AAAAAAAAATACA
* *
37401246 AATAAGAAATACA
1 AAAAAAAAATACA
*
37401259 AAAAAAAAAAACA
1 AAAAAAAAATACA
37401272 A
1 A
37401273 CAAGAAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.82, C:0.07, G:0.03, T:0.07
Consensus pattern (13 bp):
AAAAAAAAATACA
Found at i:37402100 original size:29 final size:29
Alignment explanation
Indices: 37402068--37402123 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
37402058 CTTGTTCTCG
* *
37402068 TGTACCTATTCACTTACAGCTTCTTCTTT
1 TGTACCTATTCACGTACAGCTTATTCTTT
* *
37402097 TGTACCTGTTTACGTACAGCTTATTCT
1 TGTACCTATTCACGTACAGCTTATTCT
37402124 CTTATACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.11, T:0.46
Consensus pattern (29 bp):
TGTACCTATTCACGTACAGCTTATTCTTT
Found at i:37404227 original size:21 final size:21
Alignment explanation
Indices: 37404189--37404229 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37404179 ATGATTAGAA
37404189 TTTGAAATTCTAACTTGAAAG
1 TTTGAAATTCTAACTTGAAAG
* * *
37404210 TTTGAGATTTTAATTTGAAA
1 TTTGAAATTCTAACTTGAAA
37404230 TTATAAGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (21 bp):
TTTGAAATTCTAACTTGAAAG
Found at i:37404344 original size:2 final size:2
Alignment explanation
Indices: 37404337--37404361 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37404327 ATAATAAAGT
37404337 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
37404362 TCTTAGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37410350 original size:21 final size:21
Alignment explanation
Indices: 37410312--37410355 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
37410302 ACCGCAATTA
* *
37410312 AATTTGAAGAACAAAAAATCC
1 AATTTGAAAAACAAAAAACCC
* *
37410333 AATTTGAAAAATAGAAAACCC
1 AATTTGAAAAACAAAAAACCC
37410354 AA
1 AA
37410356 GTACAAACAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (21 bp):
AATTTGAAAAACAAAAAACCC
Found at i:37470641 original size:31 final size:31
Alignment explanation
Indices: 37470603--37470665 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
37470593 ACTTTGATGT
37470603 TCTCATTTGTTGGAAACTCAATAGTCATAGG
1 TCTCATTTGTTGGAAACTCAATAGTCATAGG
37470634 TCTCATTTGTTGGAAACTCAATAGTCATAGG
1 TCTCATTTGTTGGAAACTCAATAGTCATAGG
37470665 T
1 T
37470666 ATCCTACTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (31 bp):
TCTCATTTGTTGGAAACTCAATAGTCATAGG
Found at i:37473245 original size:4 final size:4
Alignment explanation
Indices: 37473224--37473278 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
37473214 ATTCTTTATC
* * *
37473224 ATTT ATTT -TTT -TTA ATTT ATTT TTATT ATTT ATAT ATTTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT A-TTT ATTT ATTT
37473272 ATTT ATT
1 ATTT ATT
37473279 GTTGGTGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
3 5 0.12
4 31 0.74
5 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:37473248 original size:27 final size:26
Alignment explanation
Indices: 37473205--37473271 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
37473195 TTGTTATTGA
* *
37473205 TTTTTATATATTCTTTATCATTTATTT
1 TTTTTATTTATT-TTTATCATTTATAT
*
37473232 TTTTTAATTTATTTTTATTATTTATAT
1 TTTTT-ATTTATTTTTATCATTTATAT
*
37473259 ATTTTATTTATTT
1 TTTTTATTTATTT
37473272 ATTTATTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.23
27 21 0.60
28 6 0.17
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTATTTATTTTTATCATTTATAT
Found at i:37473263 original size:17 final size:18
Alignment explanation
Indices: 37473241--37473278 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
37473231 TTTTTTAATT
37473241 TATTTTTA-TTATTTATA
1 TATTTTTATTTATTTATA
*
37473258 TA-TTTTATTTATTTATT
1 TATTTTTATTTATTTATA
37473275 TATT
1 TATT
37473279 GTTGGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 5 0.28
17 12 0.67
18 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTATTTATTTATA
Found at i:37473274 original size:13 final size:13
Alignment explanation
Indices: 37473224--37473275 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
37473214 ATTCTTTATC
*
37473224 ATTTATTTTTTTT
1 ATTTATTTATTTT
37473237 AATTTATTT-TTATT
1 -ATTTATTTATT-TT
*
37473251 ATTTATATATTTT
1 ATTTATTTATTTT
37473264 ATTTATTTATTT
1 ATTTATTTATTT
37473276 ATTGTTGGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 22 0.65
14 12 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:37473276 original size:34 final size:37
Alignment explanation
Indices: 37473198--37473278 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 37
37473188 CATTACTTTG
* * *
37473198 TTATTGATTTTTATATATTCTTTATCATTTATTTTTT
1 TTATTTATTTTTATATATTCTATATCATTTATTTTAT
37473235 TTAATTTATTTTTAT-TATT-TATAT-ATTT-TATTTAT
1 TT-ATTTATTTTTATATATTCTATATCATTTAT-TTTAT
37473270 TTATTTATT
1 TTATTTATT
37473279 GTTGGTGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 8 0.21
35 10 0.26
36 4 0.10
37 6 0.15
38 11 0.28
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (37 bp):
TTATTTATTTTTATATATTCTATATCATTTATTTTAT
Found at i:37474144 original size:20 final size:21
Alignment explanation
Indices: 37474115--37474162 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
37474105 TATATACTTA
*
37474115 TTTTACTTTTCAT-ACTA-TAT
1 TTTTA-TTTTTATCACTATTAT
*
37474135 TTTTATTTTTATCATTATTAT
1 TTTTATTTTTATCACTATTAT
37474156 TTTTATT
1 TTTTATT
37474163 AAAATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 8 0.33
21 10 0.42
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTTTATCACTATTAT
Found at i:37475016 original size:21 final size:21
Alignment explanation
Indices: 37474992--37475073 Score: 103
Period size: 21 Copynumber: 3.9 Consensus size: 21
37474982 TTTGGTGATT
37474992 TTTGGGCATTGCGTGACTTAC
1 TTTGGGCATTGCGTGACTTAC
*
37475013 TTTGGACATTGCGTGACTTAC
1 TTTGGGCATTGCGTGACTTAC
* *
37475034 TTTGGGCATTGCGTAAC-TAG
1 TTTGGGCATTGCGTGACTTAC
*
37475054 TTGATAGGCATTGCGTGACT
1 TT--TGGGCATTGCGTGACT
37475074 AGTTAGTAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 4 0.08
21 35 0.67
22 13 0.25
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.37
Consensus pattern (21 bp):
TTTGGGCATTGCGTGACTTAC
Found at i:37475117 original size:23 final size:23
Alignment explanation
Indices: 37475039--37475119 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
37475029 CTTACTTTGG
* *
37475039 GCATTGCGTAACTAGTT-G-ATAG
1 GCATTGCGTGACTAGTTAGTA-AA
*
37475061 GCATTGCGTGACTAGTTAGTAAG
1 GCATTGCGTGACTAGTTAGTAAA
* *
37475084 GTATTACGTGACTAGTTAGTAAA
1 GCATTGCGTGACTAGTTAGTAAA
*
37475107 GCATTGTGTGACT
1 GCATTGCGTGACT
37475120 TAGGCATTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 16 0.32
23 33 0.66
24 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (23 bp):
GCATTGCGTGACTAGTTAGTAAA
Found at i:37475163 original size:22 final size:21
Alignment explanation
Indices: 37475133--37475182 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
37475123 GCATTACTTA
* * *
37475133 AAAATCAGTCACGTAATGTCT
1 AAAACCAGTCACGCAATGCCT
*
37475154 CAAAACCAGTCATGCAATGCCT
1 -AAAACCAGTCACGCAATGCCT
37475176 AAAACCA
1 AAAACCA
37475183 ATTACATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (21 bp):
AAAACCAGTCACGCAATGCCT
Found at i:37475409 original size:33 final size:33
Alignment explanation
Indices: 37475367--37475432 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
37475357 GAAATTGTGC
37475367 ATTTCATAAAAGATAGGTTACAAAACTCCATAA
1 ATTTCATAAAAGATAGGTTACAAAACTCCATAA
*
37475400 ATTTCATAAAAGATAGGTTACAAAACTCTATAA
1 ATTTCATAAAAGATAGGTTACAAAACTCCATAA
37475433 CCCTTCAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (33 bp):
ATTTCATAAAAGATAGGTTACAAAACTCCATAA
Found at i:37481670 original size:2 final size:2
Alignment explanation
Indices: 37481658--37481694 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
37481648 AAACTTTAGA
*
37481658 AT AT A- AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37481695 GCACAGAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:37483125 original size:16 final size:15
Alignment explanation
Indices: 37483104--37483134 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
37483094 TTTAAAATTT
37483104 ATTTTAATATTTTAAA
1 ATTTTAA-ATTTTAAA
37483120 ATTTTAAATTTTAAA
1 ATTTTAAATTTTAAA
37483135 TTCATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTTAAATTTTAAA
Found at i:37490670 original size:2 final size:2
Alignment explanation
Indices: 37490665--37490698 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
37490655 ATAAAAAATA
37490665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37490699 TCTGAGATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37494811 original size:21 final size:21
Alignment explanation
Indices: 37494787--37494859 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
37494777 AGATAAGATA
37494787 TAAATTTAAATTTAATTTATT
1 TAAATTTAAATTTAATTTATT
* * *
37494808 TAAATTTAAA-TAAAGATTACT
1 TAAATTTAAATTTAA-TTTATT
* *
37494829 TACATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTATT
37494850 TAAATTTAAA
1 TAAATTTAAA
37494860 AGTAATATCT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.07
21 35 0.85
22 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
TAAATTTAAATTTAATTTATT
Found at i:37495792 original size:24 final size:24
Alignment explanation
Indices: 37495760--37495995 Score: 89
Period size: 24 Copynumber: 10.2 Consensus size: 24
37495750 ATTTGAAGTT
*
37495760 TCACAGGTTTTTGTACATGGCTTG
1 TCACAGGTTTTTGTACATGGCGTG
*
37495784 TCACAGGTTTTTGTATATGGCGTG
1 TCACAGGTTTTTGTACATGGCGTG
* * * *
37495808 TCACACG---CT-AACCATGGCTTG
1 TCACAGGTTTTTGTA-CATGGCGTG
* *
37495829 TCATAGGCTTTTGTACATGGCGTG
1 TCACAGGTTTTTGTACATGGCGTG
* * * ** * *
37495853 CCACAAG--CTAAT-CATGACTTG
1 TCACAGGTTTTTGTACATGGCGTG
* **
37495874 TCACAGATTTTTGTACATGATGTG
1 TCACAGGTTTTTGTACATGGCGTG
* ** *
37495898 TCACATGTTTTTGTACATAACATG
1 TCACAGGTTTTTGTACATGGCGTG
* * * * *
37495922 TTACACG---CT-AACCATGGCTTG
1 TCACAGGTTTTTGTA-CATGGCGTG
* * *
37495943 TCACAGATTTTTATACATGACGTG
1 TCACAGGTTTTTGTACATGGCGTG
* *
37495967 TCACATGTTTTTGTACATGACGTG
1 TCACAGGTTTTTGTACATGGCGTG
37495991 TCACA
1 TCACA
37495996 CGCTAATCAT
Statistics
Matches: 149, Mismatches: 50, Indels: 26
0.66 0.22 0.12
Matches are distributed among these distances:
20 2 0.01
21 35 0.23
22 2 0.01
23 2 0.01
24 106 0.71
25 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (24 bp):
TCACAGGTTTTTGTACATGGCGTG
Found at i:37495827 original size:45 final size:45
Alignment explanation
Indices: 37495775--37495902 Score: 166
Period size: 45 Copynumber: 2.8 Consensus size: 45
37495765 GGTTTTTGTA
* *
37495775 CATGGCTTGTCACAGGTTTTTGTATATGGCGTGTCACACGCTAAC
1 CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCACAAGCTAAC
* * * *
37495820 CATGGCTTGTCATAGGCTTTTGTACATGGCGTGCCACAAGCTAAT
1 CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCACAAGCTAAC
* * **
37495865 CATGACTTGTCACAGATTTTTGTACATGATGTGTCACA
1 CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCACA
37495903 TGTTTTTGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (45 bp):
CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTCACAAGCTAAC
Found at i:37495900 original size:69 final size:69
Alignment explanation
Indices: 37495827--37496062 Score: 292
Period size: 69 Copynumber: 3.4 Consensus size: 69
37495817 AACCATGGCT
* * * * * *
37495827 TGTCATAGGCTTTTGTACATGGCGTGCCACAAGCTAATCATGACTTGTCACAGATTTTTGTACAT
1 TGTCACAGGTTTTTGTACATGACGTGTCACACGCTAATCATGGCTTGTCACAGATTTTTGTACAT
*
37495892 GATG
66 GACG
* * * * * *
37495896 TGTCACATGTTTTTGTACATAACATGTTACACGCTAACCATGGCTTGTCACAGATTTTTATACAT
1 TGTCACAGGTTTTTGTACATGACGTGTCACACGCTAATCATGGCTTGTCACAGATTTTTGTACAT
37495961 GACG
66 GACG
* * * *
37495965 TGTCACATGTTTTTGTACATGACGTGTCACACGCTAATCATGGCTTATCAGAGATTTTTGTAAAT
1 TGTCACAGGTTTTTGTACATGACGTGTCACACGCTAATCATGGCTTGTCACAGATTTTTGTACAT
37496030 GACG
66 GACG
* * *
37496034 TGTGATAGATTTTTGTACATGACGTGTCA
1 TGTCACAGGTTTTTGTACATGACGTGTCA
37496063 TAGATTTTTA
Statistics
Matches: 142, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 142 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (69 bp):
TGTCACAGGTTTTTGTACATGACGTGTCACACGCTAATCATGGCTTGTCACAGATTTTTGTACAT
GACG
Found at i:37495960 original size:114 final size:114
Alignment explanation
Indices: 37495760--37495971 Score: 282
Period size: 114 Copynumber: 1.9 Consensus size: 114
37495750 ATTTGAAGTT
* * * ** *
37495760 TCACAGGTTTTTGTACATGGCTTGTCACAGGTTTTTGTATATGGCGTGTCACACGCTAACCATGG
1 TCACAGATTTTTGTACATGGATTGTCACAGGTTTTTGTACATAACATGTCACACGCTAACCATGG
* * * *
37495825 CTTGTCATAGGCTTTTGTACATGGCGTGCCACAAGCTAATCATGACTTG
66 CTTGTCACAGACTTTTATACATGACGTGCCACAAGCTAATCATGACTTG
* *
37495874 TCACAGATTTTTGTACAT-GATGTGTCACATGTTTTTGTACATAACATGTTACACGCTAACCATG
1 TCACAGATTTTTGTACATGGAT-TGTCACAGGTTTTTGTACATAACATGTCACACGCTAACCATG
* *
37495938 GCTTGTCACAGATTTTTATACATGACGTGTCACA
65 GCTTGTCACAGACTTTTATACATGACGTGCCACA
37495972 TGTTTTTGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
113 2 0.02
114 81 0.98
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (114 bp):
TCACAGATTTTTGTACATGGATTGTCACAGGTTTTTGTACATAACATGTCACACGCTAACCATGG
CTTGTCACAGACTTTTATACATGACGTGCCACAAGCTAATCATGACTTG
Found at i:37496048 original size:24 final size:24
Alignment explanation
Indices: 37496016--37496084 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
37496006 GGCTTATCAG
* *
37496016 AGATTTTTGTAAATGACGTGTGAT
1 AGATTTTTGTACATGACGTGTCAT
37496040 AGATTTTTGTACATGACGTGTCAT
1 AGATTTTTGTACATGACGTGTCAT
*
37496064 AGATTTTTATACATGACGTGT
1 AGATTTTTGTACATGACGTGT
37496085 AACATGCTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.42
Consensus pattern (24 bp):
AGATTTTTGTACATGACGTGTCAT
Found at i:37504269 original size:14 final size:14
Alignment explanation
Indices: 37504246--37504278 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
37504236 AGAAAATATG
37504246 ATAT-AATATAAAA
1 ATATAAATATAAAA
*
37504259 TTATAAATATAAAA
1 ATATAAATATAAAA
37504273 ATATAA
1 ATATAA
37504279 TGATTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATATAAATATAAAA
Found at i:37510159 original size:23 final size:24
Alignment explanation
Indices: 37510114--37510161 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
37510104 TTTGCAAATT
*
37510114 AACCTATCTTCCTAAACATTCTCA
1 AACCTATCTTCCTAAACACTCTCA
37510138 AACCATATCTT-C-AAACACTCTCA
1 AACC-TATCTTCCTAAACACTCTCA
37510161 A
1 A
37510162 TGCCTTAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 5 0.23
25 6 0.27
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (24 bp):
AACCTATCTTCCTAAACACTCTCA
Found at i:37512105 original size:20 final size:20
Alignment explanation
Indices: 37512055--37512130 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
37512045 TTATAATATT
*
37512055 ATTAATTAATT-AA-TTTAA
1 ATTAACTAATTCAATTTTAA
* *
37512073 ATGAATTATATTCAATTTTAA
1 ATTAACTA-ATTCAATTTTAA
37512094 ATTAACTAATTCAATTTTAA
1 ATTAACTAATTCAATTTTAA
37512114 ATTAACTAATTCAATTT
1 ATTAACTAATTCAATTT
37512131 CATAGACCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 7 0.13
19 3 0.06
20 31 0.60
21 11 0.21
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (20 bp):
ATTAACTAATTCAATTTTAA
Found at i:37514798 original size:62 final size:61
Alignment explanation
Indices: 37514718--37514933 Score: 243
Period size: 62 Copynumber: 3.5 Consensus size: 61
37514708 CCAATCAATC
* *
37514718 TGGCATCCAAGATGTATAAGTCCAATTACGTTAGCACAAAAAGAGTTTAAGCCCAATTTACA
1 TGGCATCCAAGATGTATAAGTCCAATTACATTAGCAC-AAAAGAGTTTAAGCCCAATTTACT
* * * * * *
37514780 TGGCATCCAAGATATATAAGTCTAGTTATATTGGCATGAAAAGAGTTTAAGCCCAATTTACT
1 TGGCATCCAAGATGTATAAGTCCAATTACATTAGCA-CAAAAGAGTTTAAGCCCAATTTACT
* * * * * * * *
37514842 TGGTATCCAAGATGTATAAGTCTAGTTATACTAGCACAAAAGAATTTAAGCCTAAGTTACGT
1 TGGCATCCAAGATGTATAAGTCCAATTACATTAGCACAAAAGAGTTTAAGCCCAATTTAC-T
*
37514904 TGGCATCCAAGATGTATAAGCCCAAGTTAC
1 TGGCATCCAAGATGTATAAGTCCAA-TTAC
37514934 GTTGGCATCC
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
61 20 0.15
62 107 0.82
63 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (61 bp):
TGGCATCCAAGATGTATAAGTCCAATTACATTAGCACAAAAGAGTTTAAGCCCAATTTACT
Found at i:37514973 original size:94 final size:90
Alignment explanation
Indices: 37514827--37515030 Score: 216
Period size: 94 Copynumber: 2.2 Consensus size: 90
37514817 GAAAAGAGTT
* * * * * *
37514827 TAAGCCCAATTTAC-TTGGTATCCAAGATGTATAAGTCTAGTTATACTAGCAC-AAAAGAATTTA
1 TAAGCCCAAGTTACGTTGGCATCCAAGATGTATAAGTCCAATCACACTAGCACAAAAAGAATTTA
* * *
37514890 AGCCTAAGTTACGTTGGCATCCAAGATGTA
66 A---T-A-TCAAGTTAGCATCCAAGATGTA
* * *
37514920 TAAGCCCAAGTTACGTTGGCATCCAAGATGTATAAGTCCAATCACATTGGCACAAAAAGAGTTTA
1 TAAGCCCAAGTTACGTTGGCATCCAAGATGTATAAGTCCAATCACACTAGCACAAAAAGAATTTA
*
37514985 ATATCAATTTAGCATCCAAGATGTA
66 ATATCAAGTTAGCATCCAAGATGTA
*
37515010 TAAGCCC-AGTTATGTTGGCAT
1 TAAGCCCAAGTTACGTTGGCAT
37515031 GAAATGATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
89 13 0.14
90 25 0.26
91 1 0.01
92 1 0.01
93 13 0.14
94 31 0.33
95 11 0.12
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (90 bp):
TAAGCCCAAGTTACGTTGGCATCCAAGATGTATAAGTCCAATCACACTAGCACAAAAAGAATTTA
ATATCAAGTTAGCATCCAAGATGTA
Found at i:37515087 original size:62 final size:62
Alignment explanation
Indices: 37514996--37515525 Score: 476
Period size: 62 Copynumber: 8.5 Consensus size: 62
37514986 TATCAATTTA
* * * **
37514996 GCATCCAAGATGTATAAGCCCAGTTATGTTGGCATGAAATGATTTTAAGTCCAATTTAACTG
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCCAATTTAACTG
** * * * * * ** *
37515058 GCATATAAGATATTTATGTCTAGTTATGTTAGCACAAAAAGAGTTTAAG-CCTAATCAAACTA
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCC-AATTTAACTG
* *
37515120 GCATCCAAGATGTATAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCTAATTTAACTG
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCCAATTTAACTG
* * * ** **
37515182 GCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAACCCAATCAAACTG
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCCAATTTAACTG
* * * * * *
37515244 GCATCCAAGATGTTTAAGTCCAGTTATATTGGCACAAAAAGAGTTTAAGCCCAA-TCATACTG
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCCAATTTA-ACTG
* * * * * * * *
37515306 CCATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAG-CCAAATCTAATTG
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCC-AATTTAACTG
* * * * * * **
37515368 ACATCCAAGATGTATAAGT-TCAGCTACGTTGGCACAAAA-GAGTTTAAGCCCAATCAAACTG
1 GCATCCAAGATGTTTAAGTCT-AGTTATGTTGGCACAAAATGATTTTAAGTCCAATTTAACTG
* * * * *
37515429 GCATCCAAGATGTTTAAGTCTAGTTATATTGGCACGAAATAATTTTAAGCCCAAATTTAACTA
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCC-AATTTAACTG
* * * * *
37515492 GTATCCAAGACGTTTAAGCCCAGTTATCTTGGCA
1 GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCA
37515526 TGAAAGAATT
Statistics
Matches: 388, Mismatches: 70, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
61 53 0.14
62 297 0.77
63 38 0.10
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (62 bp):
GCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCCAATTTAACTG
Found at i:37515152 original size:124 final size:124
Alignment explanation
Indices: 37514936--37515525 Score: 611
Period size: 124 Copynumber: 4.8 Consensus size: 124
37514926 CAAGTTACGT
* * * ** * **
37514936 TGGCATCCAAGATGTATAAGTCCAATCACATTGGCACAAAAAGAGTTT-A---ATATCAATTTAG
1 TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGCCAAATCAAACTAG
* ** * *
37514997 CATCCAAGATGTATAAGCCCAGTTATGTTGGCATGAAATGATTTTAAGTCCAATTTAAC
66 CATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGTCCAATTTAAC
** * * * * *
37515056 TGGCATATAAGATATTTATGTCTAGTTATGTTAGCACAAAAAGAGTTTAAGCCTAATCAAACTAG
1 TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGCCAAATCAAACTAG
* * * *
37515121 CATCCAAGATGTATAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCTAATTTAAC
66 CATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGTCCAATTTAAC
* * *
37515180 TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAACCCAATCAAACTGG
1 TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGCCAAATCAAACTAG
* * * *
37515245 CATCCAAGATGTTTAAGTCCAGTTATATTGGCACAAAAAGAGTTTAAGCCCAA-TCATAC
66 CATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGTCCAATTTA-AC
* * * * *
37515304 TGCCATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAGCCAAATCTAA-TTG
1 TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGCCAAATCAAACTAG
* * * * **
37515368 ACATCCAAGATGTATAAGTTCAGCTACGTTGGCAC-AAAAGAGTTTAAGCCCAATCAAAC
66 -CATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGTCCAATTTAAC
* * * * **
37515427 TGGCATCCAAGATGTTTAAGTCTAGTTATATTGGCACGAAATA-ATTTTAAGCCCAAATTTAACT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCAC-AAAAAGAGTTTAAG-CCAAATCAAACT
* * * * *
37515491 AGTATCCAAGACGTTTAAGCCCAGTTATCTTGGCA
64 AGCATCCAAGATGTATAAGTCCAGTTATGTTGGCA
37515526 TGAAAGAATT
Statistics
Matches: 392, Mismatches: 68, Indels: 16
0.82 0.14 0.03
Matches are distributed among these distances:
120 37 0.09
121 1 0.00
123 63 0.16
124 289 0.74
125 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (124 bp):
TGGCATCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGCCAAATCAAACTAG
CATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAGTCCAATTTAAC
Found at i:37515281 original size:186 final size:184
Alignment explanation
Indices: 37514938--37515525 Score: 666
Period size: 186 Copynumber: 3.2 Consensus size: 184
37514928 AGTTACGTTG
* ** *
37514938 GCATCCAAGATGTATAAGTCCAATCACATTGGCACAAAAAGAGTTTAA-TATCAATTT-A--GCA
1 GCATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAGTCT-AATTTAATGGCA
* * * * * ** **
37514999 TCCAAGATGTATAAGCCCAGTTATGTTGGCATGAAATGATTTTAAGTCCAATTTAACTGGCATAT
65 TCCAAGATGTATAAGTCCAGTTATGTTGGCA-CAAAAGAGTTTAAGCCCAATCAAACTGGCATCC
* * * * *
37515064 AAGATATTTATGTCTAGTTATGTTAGCACAAAAAGAGTTTAAGCCTAATCAAACTA
129 AAGATGTTTAAGTCTAGTTATATTGGCACAAAAAGAGTTTAAGCCAAATCAAACTA
* * * *
37515120 GCATCCAAGATGTATAAGTCTAGTTATGTTGGCACAAAATGATTTTAAGTCTAATTTAACTGGCA
1 GCATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAGTCTAATTTAA-TGGCA
* *
37515185 TCCAAGATGTTTAAGTCCAGTTATGTTGGCACAAAAAGAGTTTAAACCCAATCAAACTGGCATCC
65 TCCAAGATGTATAAGTCCAGTTATGTTGGCAC-AAAAGAGTTTAAGCCCAATCAAACTGGCATCC
* * *
37515250 AAGATGTTTAAGTCCAGTTATATTGGCACAAAAAGAGTTTAAGCCCAATCATACT-
129 AAGATGTTTAAGTCTAGTTATATTGGCACAAAAAGAGTTTAAGCCAAATCAAACTA
* * * *
37515305 GCCATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAGCCAAATCTAATTGAC
1 G-CATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAGTCTAATTTAA-TGGC
* * *
37515370 ATCCAAGATGTATAAGTTCAGCTACGTTGGCACAAAAGAGTTTAAGCCCAATCAAACTGGCATCC
64 ATCCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAGAGTTTAAGCCCAATCAAACTGGCATCC
* * **
37515435 AAGATGTTTAAGTCTAGTTATATTGGCACGAAATA-ATTTTAAGCCCAAATTTAACTA
129 AAGATGTTTAAGTCTAGTTATATTGGCAC-AAAAAGAGTTTAAG-CCAAATCAAACTA
* * * * * *
37515492 GTATCCAAGACGTTTAAGCCCAGTTATCTTGGCA
1 GCATCCAAGATGTATAAGTCCAATTATGTTGGCA
37515526 TGAAAGAATT
Statistics
Matches: 343, Mismatches: 53, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
182 46 0.13
183 3 0.01
185 67 0.20
186 226 0.66
187 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (184 bp):
GCATCCAAGATGTATAAGTCCAATTATGTTGGCACAAAAAGAGTTTAAGTCTAATTTAATGGCAT
CCAAGATGTATAAGTCCAGTTATGTTGGCACAAAAGAGTTTAAGCCCAATCAAACTGGCATCCAA
GATGTTTAAGTCTAGTTATATTGGCACAAAAAGAGTTTAAGCCAAATCAAACTA
Found at i:37515462 original size:31 final size:31
Alignment explanation
Indices: 37514780--37515462 Score: 148
Period size: 31 Copynumber: 22.2 Consensus size: 31
37514770 CCAATTTACA
* * *
37514780 TGGCATCCAAGATATATAAGTCTAGTTATAT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
** * *
37514811 TGGCATGAAAAGA-GTTTAAGCCCAATT-TACT
1 TGGCAT-CCAAGATGTTTAAGTCCAGTTATA-T
* * * *
37514842 TGGTATCCAAGATGTATAAGTCTAGTTATAC
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* * * **
37514873 TAGCA-CAAAAGA-ATTTAAG-CCTAAGTTACGT
1 TGGCATC-CAAGATGTTTAAGTCC--AGTTATAT
* * **
37514904 TGGCATCCAAGATGTATAAGCCCAAGTTACGT
1 TGGCATCCAAGATGTTTAAGTCC-AGTTATAT
* * * *
37514936 TGGCATCCAAGATGTATAAGTCCAATCACAT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* *
37514967 TGGCA-CAAAAAGA-GTTTAA-T--A-TCA-ATT
1 TGGCATC--CAAGATGTTTAAGTCCAGTTATA-T
* * * *
37514994 TAGCATCCAAGATGTATAAGCCCAGTTATGT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
** * *
37515025 TGGCATGAAATGAT-TTTAAGTCCAATT-TAAC
1 TGGCATCCAA-GATGTTTAAGTCCAGTTAT-AT
** * * * *
37515056 TGGCATATAAGATATTTATGTCTAGTTATGT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* * * * * *
37515087 TAGCA-CAAAAAGA-GTTTAAG-CCTAATCAAAC
1 TGGCATC--CAAGATGTTTAAGTCC-AGTTATAT
* * * *
37515118 TAGCATCCAAGATGTATAAGTCTAGTTATGT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* * * *
37515149 TGGCA--CAAAATGATTTTAAGTCTAATT-TAAC
1 TGGCATCCAAGATG--TTTAAGTCCAGTTAT-AT
*
37515180 TGGCATCCAAGATGTTTAAGTCCAGTTATGT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* ** * * * *
37515211 TGGCA-CAAAAAGA-GTTTAAACCCAATCAAAC
1 TGGCATC--CAAGATGTTTAAGTCCAGTTATAT
37515242 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* * * * *
37515273 TGGCA-CAAAAAGA-GTTTAAGCCCAATCATAC
1 TGGCATC--CAAGATGTTTAAGTCCAGTTATAT
* * * *
37515304 TGCCATCCAAGATGTATAAGTCCAATTATGT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* *
37515335 TGGCA-CAAAAAGA-GTTTAAG-CCAAATCTA-AT
1 TGGCATC--CAAGATGTTTAAGTCC-AGT-TATAT
* * * * **
37515366 TGACATCCAAGATGTATAAGTTCAGCTACGT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
* * * * * *
37515397 TGGCA-CAAAAGA-GTTTAAGCCCAATCAAAC
1 TGGCATC-CAAGATGTTTAAGTCCAGTTATAT
*
37515427 TGGCATCCAAGATGTTTAAGTCTAGTTATAT
1 TGGCATCCAAGATGTTTAAGTCCAGTTATAT
37515458 TGGCA
1 TGGCA
37515463 CGAAATAATT
Statistics
Matches: 456, Mismatches: 141, Indels: 110
0.64 0.20 0.16
Matches are distributed among these distances:
26 5 0.01
27 13 0.03
28 2 0.00
29 7 0.02
30 63 0.14
31 282 0.62
32 76 0.17
33 8 0.02
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (31 bp):
TGGCATCCAAGATGTTTAAGTCCAGTTATAT
Found at i:37518248 original size:23 final size:23
Alignment explanation
Indices: 37518218--37518266 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
37518208 TCGGGTTCTC
37518218 AGACCTGTACGTTACAACATTAG
1 AGACCTGTACGTTACAACATTAG
37518241 AGACCTGTACGTTACAACATTAG
1 AGACCTGTACGTTACAACATTAG
37518264 AGA
1 AGA
37518267 GAACGGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (23 bp):
AGACCTGTACGTTACAACATTAG
Found at i:37528360 original size:69 final size:69
Alignment explanation
Indices: 37528275--37528413 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
37528265 TATGATATAA
37528275 TTACTTTTATTTAAAAATTAAGTATATTCAAAGTTTTGAAACATATTAAGAATTTTTTTAAAAAA
1 TTACTTTTATTTAAAAATTAAGTATATTCAAAGTTTTGAAACATATTAAGAATTTTTTTAAAAAA
37528340 AGTT
66 AGTT
37528344 TTACTTTTATTTAAAAATTAAGTATATTCAAAGTTTTGAAACATATTAAGAATTTTTTTAAAAAA
1 TTACTTTTATTTAAAAATTAAGTATATTCAAAGTTTTGAAACATATTAAGAATTTTTTTAAAAAA
37528409 AGTT
66 AGTT
37528413 T
1 T
37528414 AAAATTTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (69 bp):
TTACTTTTATTTAAAAATTAAGTATATTCAAAGTTTTGAAACATATTAAGAATTTTTTTAAAAAA
AGTT
Found at i:37547190 original size:17 final size:17
Alignment explanation
Indices: 37547150--37547191 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
37547140 TGCTAAATTT
37547150 TTCTTCTTTTCTTCAGC
1 TTCTTCTTTTCTTCAGC
* *
37547167 TTTTTCTTTTCCTT-ATC
1 TTCTTCTTTT-CTTCAGC
37547184 TTCTTCTT
1 TTCTTCTT
37547192 CTTTCATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.67
Consensus pattern (17 bp):
TTCTTCTTTTCTTCAGC
Found at i:37550728 original size:20 final size:20
Alignment explanation
Indices: 37550689--37550728 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37550679 TGTACGCTAA
*
37550689 AAGGTTAGTCAAACCCTATT
1 AAGGTTAGTCAAACCATATT
*
37550709 AAGGTTAGTCAAATCATATT
1 AAGGTTAGTCAAACCATATT
37550729 TACTCTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGGTTAGTCAAACCATATT
Found at i:37554558 original size:17 final size:17
Alignment explanation
Indices: 37554538--37554576 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
37554528 CTTAAGTCAG
*
37554538 TTAATCGATTAATTCAA
1 TTAATCGATAAATTCAA
* *
37554555 TTAATGGATAAATTCAG
1 TTAATCGATAAATTCAA
37554572 TTAAT
1 TTAAT
37554577 TTGATTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATCGATAAATTCAA
Found at i:37561651 original size:19 final size:19
Alignment explanation
Indices: 37561627--37561667 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
37561617 ACTCCCCGTG
37561627 GCATACAGTCACTTAAAAA
1 GCATACAGTCACTTAAAAA
*
37561646 GCATACAGTCACTTAACAA
1 GCATACAGTCACTTAAAAA
37561665 GCA
1 GCA
37561668 ATTAGCGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (19 bp):
GCATACAGTCACTTAAAAA
Found at i:37566364 original size:69 final size:69
Alignment explanation
Indices: 37566249--37566502 Score: 244
Period size: 69 Copynumber: 3.7 Consensus size: 69
37566239 GTCCCACATA
* * * * * * *
37566249 ACACACCATGGTGAGAATATGTGACATGCCAT-ATAGGGAATTTGTGACATGCCATGCAGGGAAT
1 ACACACCATGGAGAGAATATGTGACAAGCCATGGTA-AGAATATGTGACATACCATGGAGGGAAT
37566313 ATGTG
65 ATGTG
* *
37566318 ACACACCATGGAGGGAATATGTGACAAGCGATGGTAAGAATATGTGACATACCATGGAGGGAATA
1 ACACACCATGGAGAGAATATGTGACAAGCCATGGTAAGAATATGTGACATACCATGGAGGGAATA
37566383 TGTG
66 TGTG
* * * * * * * *
37566387 AGACGCCATGGTGAGAATATGTGACAGGCTACGGTGAGAATATGTGACACACCATGGAGGGAATA
1 ACACACCATGGAGAGAATATGTGACAAGCCATGGTAAGAATATGTGACATACCATGGAGGGAATA
*
37566452 TATG
66 TGTG
* ** * * *
37566456 AGATGCCATTGACG-GAATATGTG-CAACACCATGGTGAGAATATGTGA
1 ACACACCATGGA-GAGAATATGTGACAA-GCCATGGTAAGAATATGTGA
37566503 GACATCATGG
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
68 2 0.01
69 151 0.97
70 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.22
Consensus pattern (69 bp):
ACACACCATGGAGAGAATATGTGACAAGCCATGGTAAGAATATGTGACATACCATGGAGGGAATA
TGTG
Found at i:37566496 original size:23 final size:23
Alignment explanation
Indices: 37566249--37566540 Score: 198
Period size: 23 Copynumber: 12.7 Consensus size: 23
37566239 GTCCCACATA
37566249 ACACACCATGGTGAGAATATGTG
1 ACACACCATGGTGAGAATATGTG
** * * *
37566272 ACATGCCAT-ATAGGGAATTTGTG
1 ACACACCATGGT-GAGAATATGTG
** ** *
37566295 ACATGCCATGCAGGGAATATGTG
1 ACACACCATGGTGAGAATATGTG
* *
37566318 ACACACCATGGAGGGAATATGTG
1 ACACACCATGGTGAGAATATGTG
* *
37566341 ACA-AGCGATGGTAAGAATATGTG
1 ACACA-CCATGGTGAGAATATGTG
* * *
37566364 ACATACCATGGAGGGAATATGTG
1 ACACACCATGGTGAGAATATGTG
* *
37566387 AGACGCCATGGTGAGAATATGTG
1 ACACACCATGGTGAGAATATGTG
** * *
37566410 ACAGGCTACGGTGAGAATATGTG
1 ACACACCATGGTGAGAATATGTG
* * *
37566433 ACACACCATGGAGGGAATATATG
1 ACACACCATGGTGAGAATATGTG
* **
37566456 AGATGCCAT--TGACGGAATATGTG
1 ACACACCATGGTGA--GAATATGTG
37566479 -CAACACCATGGTGAGAATATGTG
1 AC-ACACCATGGTGAGAATATGTG
* * *
37566502 AGACATCATGGTGAAAATATGTG
1 ACACACCATGGTGAGAATATGTG
* *
37566525 ACGCGCCATGGTGAGA
1 ACACACCATGGTGAGA
37566541 TTTGCGACAC
Statistics
Matches: 207, Mismatches: 52, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
21 1 0.00
22 2 0.01
23 200 0.97
24 1 0.00
25 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.22
Consensus pattern (23 bp):
ACACACCATGGTGAGAATATGTG
Found at i:37601048 original size:10 final size:10
Alignment explanation
Indices: 37601035--37601064 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
37601025 CTTTTTCTTC
37601035 TTTTTTTTTG
1 TTTTTTTTTG
37601045 TTTTTTTTTG
1 TTTTTTTTTG
37601055 TGTTTTTTTT
1 T-TTTTTTTT
37601065 TTGTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:37601051 original size:13 final size:13
Alignment explanation
Indices: 37601035--37601078 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
37601025 CTTTTTCTTC
37601035 TTTTTTTTTG-TT
1 TTTTTTTTTGTTT
*
37601047 TTTTTTTGTGTTT
1 TTTTTTTTTGTTT
37601060 TTTTTTTGTTGTTT
1 TTTTTTT-TTGTTT
37601074 TTTTT
1 TTTTT
37601079 AATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 9 0.32
13 9 0.32
14 10 0.36
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:37601078 original size:12 final size:11
Alignment explanation
Indices: 37601035--37601088 Score: 72
Period size: 12 Copynumber: 4.6 Consensus size: 11
37601025 CTTTTTCTTC
37601035 TTTTTTTTTGT
1 TTTTTTTTTGT
37601046 TTTTTTTTGTGT
1 TTTTTTTT-TGT
37601058 TTTTTTTTTGT
1 TTTTTTTTTGT
*
37601069 TGTTTTTTTTAAT
1 T-TTTTTTTT-GT
37601082 TTTTTTT
1 TTTTTTT
37601089 AAATGAGACT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
11 12 0.31
12 25 0.64
13 2 0.05
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:37601084 original size:23 final size:23
Alignment explanation
Indices: 37601035--37601088 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
37601025 CTTTTTCTTC
**
37601035 TTTTTTTTTGTTTTTTTTTGTGT
1 TTTTTTTTTGTTTTTTTTTGTAA
37601058 TTTTTTTTTGTTGTTTTTTT-TAA
1 TTTTTTTTTGTT-TTTTTTTGTAA
37601081 TTTTTTTT
1 TTTTTTTT
37601089 AAATGAGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTGTTTTTTTTTGTAA
Found at i:37601170 original size:83 final size:83
Alignment explanation
Indices: 37601081--37601244 Score: 240
Period size: 82 Copynumber: 2.0 Consensus size: 83
37601071 TTTTTTTTAA
* * * *
37601081 TTTTTTTTAAATGAGACTCCTCAAAGTTGAGGCGATGAAACTTT-AAAAATAAACTCTTCAAAAT
1 TTTTTTTTAAATGAGACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAAATAAACTCCTCAAAAT
* *
37601145 TGAGGCTACGAAACTTTT
66 TAAGGCTACAAAACTTTT
* * *
37601163 TTTTTTTTAAATGAGATTCCTTAAAGCTGAGGCAACGAAACTTTAAAAAATGAACTCCTCAAAAT
1 TTTTTTTTAAATGAGACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAAATAAACTCCTCAAAAT
37601228 TAAGGCTACAAAACTTT
66 TAAGGCTACAAAACTTT
37601245 AAAAATAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 39 0.54
83 33 0.46
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (83 bp):
TTTTTTTTAAATGAGACTCCTCAAAGCTGAGGCAACGAAACTTTAAAAAATAAACTCCTCAAAAT
TAAGGCTACAAAACTTTT
Found at i:37601243 original size:38 final size:38
Alignment explanation
Indices: 37601089--37601482 Score: 354
Period size: 38 Copynumber: 10.2 Consensus size: 38
37601079 AATTTTTTTT
** * *
37601089 AAATGAGACTCCTCAAAGTTGAGGCGATGAAAC-TTTAA
1 AAATGA-ACTCCTCAAAACTGAGGCAACGAAACTTTTAA
* * * * **
37601127 AAATAAACTCTTCAAAATTGAGGCTACGAAACTTTTTTTTTTTT
1 AAATGAACTCCTCAAAACTGAGGCAACGAAAC------TTTTAA
* * * *
37601171 AAATGAGATTCCTTAAAGCTGAGGCAACGAAACTTTAAA
1 AAATGA-ACTCCTCAAAACTGAGGCAACGAAACTTTTAA
* * * *
37601210 AAATGAACTCCTCAAAATTAAGGCTACAAAAC-TTTAA
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAA
*
37601247 AAATAAAACTCCTCAAAACTGAGGCAACGAAA-TTTTAA
1 AAAT-GAACTCCTCAAAACTGAGGCAACGAAACTTTTAA
* * *
37601285 AAATGAAACTCCCCAAAGCTGAGGCAAC-ATAACTTTTTA
1 AAATG-AACTCCTCAAAACTGAGGCAACGA-AACTTTTAA
** *
37601324 AAATGAACTTTTCAAAGCTGAGGCAACGAAACTTTTTTAA
1 AAATGAACTCCTCAAAACTGAGGCAACGAAAC--TTTTAA
37601364 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTTT-A
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAA
37601401 AAATGAACTCCTCAAAGA-TGAGGCAAC-ATAACTTTT-A
1 AAATGAACTCCTCAAA-ACTGAGGCAACGA-AACTTTTAA
* *
37601438 AAATGAACTTCTCAAAGCTGAGGCAACGAAACTTTTAA
1 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAA
37601476 AAATGAA
1 AAATGAA
37601483 ACTAATTACC
Statistics
Matches: 292, Mismatches: 43, Indels: 42
0.77 0.11 0.11
Matches are distributed among these distances:
36 1 0.00
37 96 0.33
38 113 0.39
39 20 0.07
40 34 0.12
44 8 0.03
45 20 0.07
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.26
Consensus pattern (38 bp):
AAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAA
Found at i:37601327 original size:114 final size:113
Alignment explanation
Indices: 37601185--37601485 Score: 403
Period size: 114 Copynumber: 2.6 Consensus size: 113
37601175 GAGATTCCTT
** * ** * * *
37601185 AAAGCTGAGGCAACGA-AACTTTAAAAAATGAACTCCTCAAAATTAAGGCTACAAAAC-TTTAAA
1 AAAGCTGAGGCAAC-ATAACTTTTTAAAATGAACTTCTCAAAGCTGAGGCAACGAAACTTTTAAA
37601248 AATAAAACTCCTCAAAACTGAGGCAACGAAA-TTTTAAAAATGAAACTCCCC
65 AAT-AAACTCCTCAAAACTGAGGCAACGAAACTTTT-AAAATG-AACTCCCC
*
37601299 AAAGCTGAGGCAACATAACTTTTTAAAATGAACTTTTCAAAGCTGAGGCAACGAAACTTTTTTAA
1 AAAGCTGAGGCAACATAACTTTTTAAAATGAACTTCTCAAAGCTGAGGCAACGAAAC--TTTTAA
* *
37601364 AAATGAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATGAACTCCTC
64 AAATAAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATGAACTCCCC
*
37601414 AAAGATGAGGCAACATAAC-TTTTAAAATGAACTTCTCAAAGCTGAGGCAACGAAACTTTTAAAA
1 AAAGCTGAGGCAACATAACTTTTTAAAATGAACTTCTCAAAGCTGAGGCAACGAAACTTTTAAAA
37601478 ATGAAACT
66 AT-AAACT
37601486 AATTACCCGG
Statistics
Matches: 167, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
112 10 0.06
113 5 0.03
114 82 0.49
115 25 0.15
116 32 0.19
117 13 0.08
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (113 bp):
AAAGCTGAGGCAACATAACTTTTTAAAATGAACTTCTCAAAGCTGAGGCAACGAAACTTTTAAAA
ATAAACTCCTCAAAACTGAGGCAACGAAACTTTTAAAATGAACTCCCC
Found at i:37602531 original size:1 final size:1
Alignment explanation
Indices: 37602527--37602574 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
37602517 AATTTTTCTC
* * * * *
37602527 TTTTTTTTTTTTTGTTCTTTTCTTTTTTTCTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
37602575 ACGCAAAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.08, G:0.02, T:0.90
Consensus pattern (1 bp):
T
Found at i:37602545 original size:17 final size:17
Alignment explanation
Indices: 37602519--37602574 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
37602509 AACTTGAAAA
*
37602519 TTTTTCTCTTTT-TTTT
1 TTTTTTTCTTTTCTTTT
37602535 TTTTTGTTCTTTTCTTTT
1 TTTTT-TTCTTTTCTTTT
37602553 TTTCTTTT-TTTTCTTTT
1 TTT-TTTTCTTTTCTTTT
37602570 TTTTT
1 TTTTT
37602575 ACGCAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 7 0.19
17 18 0.50
18 9 0.25
19 2 0.06
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTTTTCTTTT
Found at i:37602553 original size:22 final size:22
Alignment explanation
Indices: 37602525--37602574 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
37602515 AAAATTTTTC
37602525 TCTTTTTTT-TTTTTTGTTCTTT
1 TCTTTTTTTCTTTTTT-TTCTTT
37602547 TCTTTTTTTCTTTTTTTTCTTT
1 TCTTTTTTTCTTTTTTTTCTTT
37602569 T-TTTTT
1 TCTTTTT
37602575 ACGCAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.19
22 16 0.59
23 6 0.22
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (22 bp):
TCTTTTTTTCTTTTTTTTCTTT
Found at i:37614464 original size:13 final size:13
Alignment explanation
Indices: 37614431--37614469 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
37614421 CAATTAAATG
*
37614431 TATTTATTTATTT
1 TATTTATATATTT
*
37614444 T-GTTATATATTT
1 TATTTATATATTT
37614456 TATTTATATATTT
1 TATTTATATATTT
37614469 T
1 T
37614470 TTTTGATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TATTTATATATTT
Found at i:37616064 original size:9 final size:9
Alignment explanation
Indices: 37616050--37616080 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37616040 CGTACTTACT
37616050 TTTTTTTAA
1 TTTTTTTAA
37616059 TTTTTTTAA
1 TTTTTTTAA
*
37616068 TTTTTTAAA
1 TTTTTTTAA
37616077 TTTT
1 TTTT
37616081 ATATTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:37622005 original size:39 final size:39
Alignment explanation
Indices: 37621957--37622059 Score: 152
Period size: 39 Copynumber: 2.6 Consensus size: 39
37621947 ATCTGAAGCT
37621957 AAGGCTGCACACTCTTCTAAGCCACAGTCATCTAAAGAC
1 AAGGCTGCACACTCTTCTAAGCCACAGTCATCTAAAGAC
* * * * *
37621996 AAGGTTGCACACTCTTCTGAGCCATAGTCATTTGAAGAC
1 AAGGCTGCACACTCTTCTAAGCCACAGTCATCTAAAGAC
*
37622035 AAGGCTACACACTCTTCTAAGCCAC
1 AAGGCTGCACACTCTTCTAAGCCAC
37622060 CTTGTGAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (39 bp):
AAGGCTGCACACTCTTCTAAGCCACAGTCATCTAAAGAC
Found at i:37634983 original size:2 final size:2
Alignment explanation
Indices: 37634976--37635007 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37634966 TGGTGTTAAA
37634976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37635008 TTACTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37637981 original size:28 final size:29
Alignment explanation
Indices: 37637950--37638005 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
37637940 AAAACAAAAA
37637950 CAAAAAAAAAAAAAGAAAGAAA-GGAAAG
1 CAAAAAAAAAAAAAGAAAGAAATGGAAAG
* ** *
37637978 CAAAGAAAAGGAAAGAGAGAAATGGAAA
1 CAAAAAAAAAAAAAGAAAGAAATGGAAA
37638006 CCCTTTTTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.02
Consensus pattern (29 bp):
CAAAAAAAAAAAAAGAAAGAAATGGAAAG
Found at i:37637982 original size:14 final size:13
Alignment explanation
Indices: 37637961--37638005 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
37637951 AAAAAAAAAA
37637961 AAAGAAAGAAAGG
1 AAAGAAAGAAAGG
37637974 AAAGCAAAGAAAAGG
1 AAAG-AAAG-AAAGG
*
37637989 AAAGAGAGAAATGG
1 AAAGAAAGAAA-GG
37638003 AAA
1 AAA
37638006 CCCTTTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 7 0.25
14 12 0.43
15 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAAGG
Found at i:37644660 original size:27 final size:29
Alignment explanation
Indices: 37644630--37644683 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
37644620 TTAAAAGAAA
*
37644630 TTTAAAT-AAATTTTTAT-TTTTTATTAC
1 TTTAAATCAAATTTTAATATTTTTATTAC
*
37644657 TTTAAATCAAGTTTTAATATTTTTATT
1 TTTAAATCAAATTTTAATATTTTTATT
37644684 TTGGATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 8 0.35
29 8 0.35
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTAAATCAAATTTTAATATTTTTATTAC
Found at i:37645441 original size:6 final size:6
Alignment explanation
Indices: 37645430--37645482 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
37645420 AGTAGGATAT
* *
37645430 ATATAC ATATAC ATATAC ATATAC ACATAT ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
37645478 ATATA
1 ATATA
37645483 AAAATTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:37645462 original size:30 final size:30
Alignment explanation
Indices: 37645426--37645482 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
37645416 TGTGAGTAGG
37645426 ATATATATACATATACATATACATATACAC
1 ATATATATACATATACATATACATATACAC
37645456 ATATATATACATATACATATACATATA
1 ATATATATACATATACATATACATATA
37645483 AAAATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (30 bp):
ATATATATACATATACATATACATATACAC
Found at i:37645730 original size:33 final size:33
Alignment explanation
Indices: 37645693--37645755 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
37645683 CATGTCATAA
*
37645693 TCAATTATAATATATTAACATATTACATCATCC
1 TCAATTATAATATATTAACATATCACATCATCC
*
37645726 TCAATTATGATATATTAACATATCACATCA
1 TCAATTATAATATATTAACATATCACATCA
37645756 GCATCATGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (33 bp):
TCAATTATAATATATTAACATATCACATCATCC
Found at i:37648455 original size:21 final size:23
Alignment explanation
Indices: 37648425--37648466 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
37648415 GTAGATGTGC
37648425 AAAAACTAAAGCAAGA-AAAAGT
1 AAAAACTAAAGCAAGACAAAAGT
*
37648447 AAAAA-TAAAGTAAGACAAAA
1 AAAAACTAAAGCAAGACAAAA
37648467 TTGTTAGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.07, G:0.12, T:0.10
Consensus pattern (23 bp):
AAAAACTAAAGCAAGACAAAAGT
Found at i:37653467 original size:31 final size:31
Alignment explanation
Indices: 37653432--37653493 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
37653422 TGTAGGAGAA
37653432 AAGCAAATTTCTGTTTTTAAATAAAAAAATC
1 AAGCAAATTTCTGTTTTTAAATAAAAAAATC
37653463 AAGCAAATTTCTGTTTTTAAATAAAAAAATC
1 AAGCAAATTTCTGTTTTTAAATAAAAAAATC
37653494 TCAATTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (31 bp):
AAGCAAATTTCTGTTTTTAAATAAAAAAATC
Found at i:37655277 original size:23 final size:23
Alignment explanation
Indices: 37655251--37655294 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37655241 ATCTAAAATC
37655251 TAAAAACCACAATCGTTACCTAT
1 TAAAAACCACAATCGTTACCTAT
* * *
37655274 TAAAAGCTATAATCGTTACCT
1 TAAAAACCACAATCGTTACCT
37655295 CTTATAGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
TAAAAACCACAATCGTTACCTAT
Found at i:37656949 original size:6 final size:6
Alignment explanation
Indices: 37656938--37656963 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37656928 TCCTCTCTCA
37656938 TCTCTT TCTCTT TCTCTT TCTCTT TC
1 TCTCTT TCTCTT TCTCTT TCTCTT TC
37656964 ATAGGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (6 bp):
TCTCTT
Found at i:37657004 original size:11 final size:12
Alignment explanation
Indices: 37656990--37657043 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
37656980 CTTCTCTCTC
37656990 CTCTCTCTTT-T
1 CTCTCTCTTTCT
**
37657001 CTCTCAGGTTTCT
1 CTCTC-TCTTTCT
*
37657014 CTCTCCTCTCTCT
1 CTCT-CTCTTTCT
37657027 CTCTCTCTTTCT
1 CTCTCTCTTTCT
37657039 CTCTC
1 CTCTC
37657044 CAGAAAGGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
11 5 0.15
12 15 0.44
13 13 0.38
14 1 0.03
ACGTcount: A:0.02, C:0.43, G:0.04, T:0.52
Consensus pattern (12 bp):
CTCTCTCTTTCT
Found at i:37657016 original size:2 final size:2
Alignment explanation
Indices: 37657011--37657043 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
37657001 CTCTCAGGTT
*
37657011 TC TC TC TC -C TC TC TC TC TC TC TC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
37657044 CAGAAAGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37657038 original size:36 final size:35
Alignment explanation
Indices: 37656974--37657043 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 35
37656964 ATAGGTTTTT
*
37656974 TTTCTTCTTCTCTCTCCTCTCTCTTTTCTCTCAGG
1 TTTCTTCTCCTCTCTCCTCTCTCTTTTCTCTCAGG
37657009 TTTCTCTCTCCTCTCTCTCTCTCTCTTTCTCTCTC
1 TTTCT-TCTCCTCTCTC-CTCTCTCTTT-TCTCTC
37657044 CAGAAAGGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 5 0.16
36 10 0.32
37 10 0.32
38 6 0.19
ACGTcount: A:0.01, C:0.41, G:0.03, T:0.54
Consensus pattern (35 bp):
TTTCTTCTCCTCTCTCCTCTCTCTTTTCTCTCAGG
Found at i:37661703 original size:1 final size:1
Alignment explanation
Indices: 37661697--37661747 Score: 66
Period size: 1 Copynumber: 51.0 Consensus size: 1
37661687 TATGTTGAGC
* * **
37661697 TTTTTTTTTTGTTGTTTTTTTTTGGTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
37661748 NGGGTTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (1 bp):
T
Found at i:37661714 original size:14 final size:13
Alignment explanation
Indices: 37661697--37661745 Score: 73
Period size: 12 Copynumber: 3.8 Consensus size: 13
37661687 TATGTTGAGC
37661697 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
*
37661710 GTTTTTTTTTGGTT
1 -TTTTTTTTTTGTT
37661724 TTTTTTTTTT-TT
1 TTTTTTTTTTGTT
37661736 TTTTTTTTTT
1 TTTTTTTTTT
37661746 TTNGGGTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 12 0.36
13 9 0.27
14 12 0.36
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:37661746 original size:14 final size:14
Alignment explanation
Indices: 37661697--37661747 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
37661687 TATGTTGAGC
*
37661697 TTTTTTTTTTGTTG
1 TTTTTTTTTTGTTT
*
37661711 TTTTTTTTTGGTTT
1 TTTTTTTTTTGTTT
37661725 TTTTTTTTTT-TTT
1 TTTTTTTTTTGTTT
37661738 TTTTTTTTTT
1 TTTTTTTTTT
37661748 NGGGTTGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (14 bp):
TTTTTTTTTTGTTT
Done.