Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold154
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: 1945843
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 156 characters in sequence are not A, C, G, or T
File 5 of 12
Found at i:554626 original size:22 final size:22
Alignment explanation
Indices: 554601--554652 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 22
554591 AATTTTCATA
*
554601 AAGGGGGAGAAGATAATTGTTT
1 AAGGGGGAGAAGATAATCGTTT
554623 AA-GGGG-G-AGATAATCGTTT
1 AAGGGGGAGAAGATAATCGTTT
554642 AAGGGGGAGAA
1 AAGGGGGAGAA
554653 TTTTTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 13 0.50
20 5 0.19
21 5 0.19
22 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.40, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAGATAATCGTTT
Found at i:554635 original size:19 final size:19
Alignment explanation
Indices: 554611--554664 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
554601 AAGGGGGAGA
554611 AGATAATTGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
*
554630 AGATAATCGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
*
554649 AG--AATTTTTTAAGGGG
1 AGATAATTGTTTAAGGGG
554665 AGAAAAACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 12 0.38
19 20 0.62
ACGTcount: A:0.31, C:0.02, G:0.35, T:0.31
Consensus pattern (19 bp):
AGATAATTGTTTAAGGGGG
Found at i:555227 original size:13 final size:13
Alignment explanation
Indices: 555209--555235 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
555199 ACATGCTGCT
555209 TTGTATCGATACA
1 TTGTATCGATACA
555222 TTGTATCGATACA
1 TTGTATCGATACA
555235 T
1 T
555236 GGACAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:555356 original size:20 final size:21
Alignment explanation
Indices: 555305--555361 Score: 89
Period size: 22 Copynumber: 2.7 Consensus size: 21
555295 TACACGGTAC
555305 AATGTATCGATACATGAAGAA
1 AATGTATCGATACATGAAGAA
*
555326 ATATATATCGATACATGAAG-A
1 A-ATGTATCGATACATGAAGAA
555347 AATGTATCGATACAT
1 AATGTATCGATACAT
555362 AACTTGTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 13 0.39
21 3 0.09
22 17 0.52
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (21 bp):
AATGTATCGATACATGAAGAA
Found at i:556175 original size:16 final size:17
Alignment explanation
Indices: 556131--556175 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
556121 TTTTAATAAA
* *
556131 ATATTAAAAATTATTTT
1 ATATTAATAATTATTAT
556148 ATATTAAT-ATTATTAT
1 ATATTAATAATTATTAT
556164 AT-TTAATAATTA
1 ATATTAATAATTA
556176 AATTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 13 0.52
17 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTAATAATTATTAT
Found at i:556499 original size:17 final size:15
Alignment explanation
Indices: 556468--556514 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
556458 AAAAATATTT
556468 TTTAAATATAAATAT-
1 TTTAAAT-TAAATATA
*
556483 TTAAAAATTAAATATA
1 TT-TAAATTAAATATA
*
556499 TTTATATTAAATATA
1 TTTAAATTAAATATA
556514 T
1 T
556515 ATTCATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 21 0.78
16 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATTAAATATA
Found at i:556517 original size:34 final size:34
Alignment explanation
Indices: 556451--556517 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
556441 ATATCGAATC
556451 AAAATATAAAAATATTTTTTAAATATAAATATTTA
1 AAAATATAAAAATATTTTTTAAATAT-AATATTTA
*
556486 AAAAT-TAAATATATTTATATTAAATAT-ATATT
1 AAAATATAAAAATATTT-T-TTAAATATAATATT
556518 CATATTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 15 0.52
35 6 0.21
36 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
AAAATATAAAAATATTTTTTAAATATAATATTTA
Found at i:556720 original size:14 final size:13
Alignment explanation
Indices: 556688--556713 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
556678 CTTACAAATA
556688 AAAAAAATTTATT
1 AAAAAAATTTATT
556701 AAAAAAATTTATT
1 AAAAAAATTTATT
556714 TTTAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAAATTTATT
Found at i:556739 original size:20 final size:20
Alignment explanation
Indices: 556714--556765 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
556704 AAAATTTATT
* *
556714 TTTAAAATATATTAATTTAA
1 TTTAAAATAAATTAATTAAA
*
556734 TTTAAATTAAATTAATTAAA
1 TTTAAAATAAATTAATTAAA
*
556754 TTT-TAATAAATT
1 TTTAAAATAAATT
556766 TTTTAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAAAATAAATTAATTAAA
Found at i:564197 original size:26 final size:26
Alignment explanation
Indices: 564138--564197 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
564128 ATCTTCTAAA
564138 TTCA-GTTATGAAAAATATAATATTT
1 TTCATGTTATGAAAAATATAATATTT
564163 TT-ATCTGTTATGAAAAATATAATATTT
1 TTCA--TGTTATGAAAAATATAATATTT
564190 TTCATGTT
1 TTCATGTT
564198 TATATGCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
26 4 0.13
27 23 0.74
28 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.48
Consensus pattern (26 bp):
TTCATGTTATGAAAAATATAATATTT
Found at i:565031 original size:26 final size:28
Alignment explanation
Indices: 564979--565031 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
564969 TATGATTATT
* *
564979 TGATATAAAAATAATATAAAATTTGATG
1 TGATATAAAAATAAGATAAAATATGATG
*
565007 TGATA-AAAAATAAGAT-GAATATGAT
1 TGATATAAAAATAAGATAAAATATGAT
565032 ATAAATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 10 0.45
28 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (28 bp):
TGATATAAAAATAAGATAAAATATGATG
Found at i:565144 original size:35 final size:35
Alignment explanation
Indices: 565060--565145 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 35
565050 TAAAATTTTT
*
565060 ATAATATAAATCATTAATATATATTAAATTTTACATAA
1 ATAATATAAAT-ATTAATATATATTAAA--TTACAAAA
565098 AT-ATATAAAATATTAATATA-ATTATAA-TACAAAAA
1 ATAATAT-AAATATTAATATATATTA-AATTAC-AAAA
565133 ATAATATAAATAT
1 ATAATATAAATAT
565146 AAAATAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.07
35 11 0.26
36 8 0.19
37 15 0.35
38 6 0.14
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (35 bp):
ATAATATAAATATTAATATATATTAAATTACAAAA
Found at i:565350 original size:30 final size:29
Alignment explanation
Indices: 565309--565395 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
565299 TCACAGCAAA
* *
565309 TTTGGTTTATTAAAGTAGAATAGTTATACG
1 TTTGATTTATTAAA-TAAAATAGTTATACG
* * *
565339 TTTGATTTATTAGAATATAATAATTATATG
1 TTTGATTTATTA-AATAAAATAGTTATACG
*
565369 TTTGATTCATTAAAATAAAATAGTTAT
1 TTTGATTTATT-AAATAAAATAGTTAT
565396 TATATGAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (29 bp):
TTTGATTTATTAAATAAAATAGTTATACG
Found at i:566824 original size:14 final size:15
Alignment explanation
Indices: 566804--566845 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
566794 TATTATTACT
566804 TTTAAATTTTAA-AAA
1 TTTAAA-TTTAATAAA
566819 -TTAAATTTAATAAA
1 TTTAAATTTAATAAA
566833 TTTAAAATTTAAT
1 TTT-AAATTTAAT
566846 TATTAATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 2 0.08
16 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAATTTAATAAA
Found at i:566832 original size:23 final size:23
Alignment explanation
Indices: 566806--566853 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
566796 TTATTACTTT
566806 TAAATTTTAAAAATTAAAT-TTAA
1 TAAA-TTTAAAAATTAAATATTAA
* *
566829 TAAATTTAAAATTTAATTATTAA
1 TAAATTTAAAAATTAAATATTAA
566852 TA
1 TA
566854 CCTATAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAATTTAAAAATTAAATATTAA
Found at i:569597 original size:43 final size:44
Alignment explanation
Indices: 569548--569632 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 44
569538 TGATTTAAGT
* *
569548 TATTATATAATAA-ATAAAATATTATTT-TTAAT-TTTAA-AAATA
1 TATT-TATATTAATATAAAA-ATAATTTATTAATATTTAATAAATA
569590 TATTTATATTAATATAAAAATAATTTATTAATATTTAATAAAT
1 TATTTATATTAATATAAAAATAATTTATTAATATTTAATAAAT
569633 TTAATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
41 13 0.35
42 15 0.41
43 5 0.14
44 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (44 bp):
TATTTATATTAATATAAAAATAATTTATTAATATTTAATAAATA
Found at i:569608 original size:21 final size:19
Alignment explanation
Indices: 569582--569623 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
569572 TTTTTAATTT
569582 TAAAAATATATTTATATTAATA
1 TAAAAATA-A-TT-TATTAATA
569604 TAAAAATAATTTATTAATA
1 TAAAAATAATTTATTAATA
569623 T
1 T
569624 TTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 1 0.05
22 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAATAATTTATTAATA
Found at i:569660 original size:16 final size:17
Alignment explanation
Indices: 569617--569679 Score: 76
Period size: 16 Copynumber: 3.8 Consensus size: 17
569607 AAATAATTTA
*
569617 TTAATATTTAA-TAAAT
1 TTAATTTTTAATTAAAT
569633 TTAATTTTTTAATTAAAT
1 TTAA-TTTTTAATTAAAT
*
569651 TTAA-TTTTAAATAAAT
1 TTAATTTTTAATTAAAT
*
569667 ATAATTTTTAATT
1 TTAATTTTTAATT
569680 TAAACTAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 18 0.45
17 13 0.32
18 9 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTTTAATTAAAT
Found at i:569720 original size:16 final size:17
Alignment explanation
Indices: 569691--569728 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
569681 AAACTAACTC
*
569691 AATTTAATTTATAA-AT
1 AATTTAATTAATAATAT
*
569707 AATTTGATTAATAATAT
1 AATTTAATTAATAATAT
569724 AATTT
1 AATTT
569729 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATTTAATTAATAATAT
Found at i:573585 original size:2 final size:2
Alignment explanation
Indices: 573578--573603 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
573568 TTTATAATAG
573578 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
573604 GCCAATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:573814 original size:22 final size:22
Alignment explanation
Indices: 573771--573814 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
573761 TTTTAGATAA
**
573771 TTAATCATTTAATTTAGTATTT
1 TTAATCATTTAATTTAAAATTT
573793 TTAAT-ATTTAATATTAAAATTT
1 TTAATCATTTAAT-TTAAAATTT
573815 AATCAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTAATCATTTAATTTAAAATTT
Found at i:578309 original size:31 final size:30
Alignment explanation
Indices: 578266--578328 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
578256 TATAAAATTA
* *
578266 AAAAAATTAAAAATAATTATTAATTATTTTT
1 AAAAAATAAAAAATAATTATTAA-AATTTTT
* *
578297 AAAAAATAAAAAATTATTTTTAAAATTTTT
1 AAAAAATAAAAAATAATTATTAAAATTTTT
578327 AA
1 AA
578329 TGATAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
AAAAAATAAAAAATAATTATTAAAATTTTT
Found at i:578325 original size:29 final size:29
Alignment explanation
Indices: 578248--578347 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
578238 TTATATTTAT
* * *
578248 AATTATGTTATAAAA-TTAAAAAAATTAAA
1 AATTAT-TTTTAAAATTTTAAAAAATAAAA
* * *
578277 AATAATTATTAATTATTTTTAAAAAATAAAA
1 AATTATTTTTAA--AATTTTAAAAAATAAAA
* **
578308 AATTATTTTTAAAATTTTTAATGATAAAA
1 AATTATTTTTAAAATTTTAAAAAATAAAA
578337 AATTATTTTTA
1 AATTATTTTTA
578348 GCAATCATCT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 4 0.07
29 29 0.52
30 1 0.02
31 22 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
AATTATTTTTAAAATTTTAAAAAATAAAA
Found at i:581468 original size:37 final size:38
Alignment explanation
Indices: 581418--581493 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 38
581408 AAGTTTGAAT
581418 TATTATTTAAAAA-TTAATAAAAAATTAAAAATATTATTA
1 TATTATTTAAAAATTTAAT-AAAAATTAAAAAT-TTATTA
**
581457 TATT-TTT-AAAATTTAATTTAAATTAAAAATTTATTA
1 TATTATTTAAAAATTTAATAAAAATTAAAAATTTATTA
581493 T
1 T
581494 TAAATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 7 0.21
37 15 0.44
38 8 0.24
39 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (38 bp):
TATTATTTAAAAATTTAATAAAAATTAAAAATTTATTA
Found at i:581487 original size:18 final size:18
Alignment explanation
Indices: 581464--581518 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
581454 TTATATTTTT
581464 AAAATTTAATTTAAATTA
1 AAAATTTAATTTAAATTA
*
581482 AAAATTTATTATTAAA-TA
1 AAAATTTAAT-TTAAATTA
* *
581500 ATAATTTAAGTTAAATTA
1 AAAATTTAATTTAAATTA
581518 A
1 A
581519 CTTAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.16
18 21 0.68
19 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AAAATTTAATTTAAATTA
Found at i:581506 original size:36 final size:37
Alignment explanation
Indices: 581439--581518 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 37
581429 AATTAATAAA
*** *
581439 AAATTAAAAATATTATTATATTTTTAAAATTTAATTT
1 AAATTAAAAATATTATTATATAAATAAAATTTAAGTT
581476 AAATTAAAAAT-TTATTAT-TAAATAATAATTTAAGTT
1 AAATTAAAAATATTATTATATAAATAA-AATTTAAGTT
581512 AAATTAA
1 AAATTAA
581519 CTTAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.11
36 23 0.61
37 11 0.29
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (37 bp):
AAATTAAAAATATTATTATATAAATAAAATTTAAGTT
Found at i:581854 original size:23 final size:24
Alignment explanation
Indices: 581828--581886 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
581818 TAAAACAAAA
581828 TTTATATTTATTTAATTTT-TATT
1 TTTATATTTATTTAATTTTATATT
*
581851 TTTAT-TTATAAATTAATTTTATATT
1 TTTATATT-T-ATTTAATTTTATATT
* *
581876 TTAAAATTTAT
1 TTTATATTTAT
581887 AGATAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
22 2 0.07
23 6 0.21
24 10 0.36
25 8 0.29
26 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTATATTTATTTAATTTTATATT
Found at i:582041 original size:2 final size:2
Alignment explanation
Indices: 582034--582083 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
582024 TCAAGATCTT
582034 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
582076 TA TA TA TA
1 TA TA TA TA
582084 AAAGTATAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:586579 original size:20 final size:20
Alignment explanation
Indices: 586554--586630 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
586544 GTAAAAAGAC
586554 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
586574 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
586594 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
586614 AAAATGTATCGAAACAT
1 AGAATGTATCGATACAT
586631 CTAGGTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:588578 original size:13 final size:13
Alignment explanation
Indices: 588560--588585 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
588550 TACAGCAAGT
588560 ATGTATCGATACA
1 ATGTATCGATACA
588573 ATGTATCGATACA
1 ATGTATCGATACA
588586 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:590847 original size:21 final size:21
Alignment explanation
Indices: 590814--590858 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
590804 TTGCAAGTTG
*
590814 AAATAAAGAAGTTGGCTAAAGA
1 AAATAAAGAAGTTAGCT-AAGA
*
590836 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
590856 AAA
1 AAA
590859 ATGAAAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 7 0.33
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:594775 original size:13 final size:13
Alignment explanation
Indices: 594757--594795 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
594747 ACATTTTTCT
594757 TTGTATCGATACA
1 TTGTATCGATACA
594770 TTGTATCGATACA
1 TTGTATCGATACA
594783 TTGTATCGATACA
1 TTGTATCGATACA
594796 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:597344 original size:13 final size:13
Alignment explanation
Indices: 597326--597351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
597316 TACAGCAAGT
597326 ATGTATCGATACA
1 ATGTATCGATACA
597339 ATGTATCGATACA
1 ATGTATCGATACA
597352 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:598655 original size:58 final size:58
Alignment explanation
Indices: 598585--598721 Score: 161
Period size: 58 Copynumber: 2.4 Consensus size: 58
598575 TGTATCAAAA
* * * * * *
598585 TCCCT-AGATCATGAAAAATGACTTAAATGACATTAAAATTCATGATATTACATCCAAG
1 TCCCTAAG-TCATGAAAAATGACTTAAATAACATCAAAATTCATAAAATGACATACAAG
* *
598643 TCCCTAAGTCATGAAAAATAACTTAAATAACATCAAAATTCATAAAATGACATAGAAG
1 TCCCTAAGTCATGAAAAATGACTTAAATAACATCAAAATTCATAAAATGACATACAAG
*
598701 -CCCTTAAGTCATGGAAAATGA
1 TCCC-TAAGTCATGAAAAATGA
598722 TGAAAATGAC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 3 0.04
58 62 0.93
59 2 0.03
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (58 bp):
TCCCTAAGTCATGAAAAATGACTTAAATAACATCAAAATTCATAAAATGACATACAAG
Found at i:603954 original size:20 final size:20
Alignment explanation
Indices: 603931--603976 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
603921 CAATGTGTCC
603931 ATACAAT-TCATCATGTATCG
1 ATACAATGTCAT-ATGTATCG
*
603951 ATACAATGTCCTATGTATCG
1 ATACAATGTCATATGTATCG
603971 ATACAA
1 ATACAA
603977 ACAGTGGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (20 bp):
ATACAATGTCATATGTATCG
Found at i:604049 original size:19 final size:19
Alignment explanation
Indices: 604005--604060 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
603995 CTGCCAGTTT
**
604005 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
604025 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
604044 CATGTATCGATACAATG
1 CATGTATCGATACAATG
604061 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:604063 original size:13 final size:13
Alignment explanation
Indices: 604045--604071 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
604035 TACAATGAAC
604045 ATGTATCGATACA
1 ATGTATCGATACA
604058 ATGTATCGATACA
1 ATGTATCGATACA
604071 A
1 A
604072 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:604067 original size:32 final size:33
Alignment explanation
Indices: 604026--604088 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
604016 ACAATTGTCC
*
604026 ATGTATCGATACAATG-A-ACATGTATCGATACA
1 ATGTATCGATACAAAGCATA-ATGTATCGATACA
604058 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
604089 TATCTGGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:605289 original size:21 final size:21
Alignment explanation
Indices: 605263--605312 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
605253 TAAATATATA
*
605263 GATACATTTACT-ATTTGTATT
1 GATACATTTACTCA-TTGTATC
*
605284 GATACA-TTATTCATTGTATC
1 GATACATTTACTCATTGTATC
605304 GATACATTT
1 GATACATTT
605313 GGGTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (21 bp):
GATACATTTACTCATTGTATC
Found at i:615910 original size:20 final size:20
Alignment explanation
Indices: 615885--615937 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
615875 GTTACAAGCA
615885 ATGTATCGATACAAT-TCAT
1 ATGTATCGATACAATGTCAT
*
615904 CATGTATCGATACAATGTCCT
1 -ATGTATCGATACAATGTCAT
*
615925 TTGTATCGATACA
1 ATGTATCGATACA
615938 TATAGTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATGTCAT
Found at i:616011 original size:19 final size:19
Alignment explanation
Indices: 615967--616039 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
615957 CTGCCAGTTT
**
615967 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
615987 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
616006 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
616027 -ATGTATCGATACA
1 CATGTATCGATACA
616040 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:617239 original size:21 final size:21
Alignment explanation
Indices: 617211--617264 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
617201 TAAATAAATA
617211 TATCGATACATTTACT-ATTTG
1 TATCGATACATTTACTCA-TTG
* *
617232 TATTGATACA-TTATTCATTG
1 TATCGATACATTTACTCATTG
617252 TATCGATACATTT
1 TATCGATACATTT
617265 GGGTCAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (21 bp):
TATCGATACATTTACTCATTG
Found at i:621514 original size:2 final size:2
Alignment explanation
Indices: 621507--621579 Score: 52
Period size: 2 Copynumber: 38.5 Consensus size: 2
621497 AAATTAACAT
* *
621507 TA TA TA TA T- TT TA CA TA T- TA TA TA TA T- TA TA TCA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA
621546 TA TA TA GTA TA TCA TA TA T- TA TA TA T- TA -A TA TA T
1 TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T
621580 TTCATGTCTA
Statistics
Matches: 58, Mismatches: 3, Indels: 20
0.72 0.04 0.25
Matches are distributed among these distances:
1 7 0.12
2 45 0.78
3 6 0.10
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:621537 original size:7 final size:7
Alignment explanation
Indices: 621507--621580 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
621497 AAATTAACAT
621507 TATA-TA
1 TATATTA
*
621513 TATTTTA
1 TATATTA
*
621520 CATATTA
1 TATATTA
621527 TATA-TA
1 TATATTA
*
621533 TTATATCA
1 -TATATTA
621541 TATATTA
1 TATATTA
*
621548 TATA--G
1 TATATTA
*
621553 TATATCA
1 TATATTA
621560 TATATTA
1 TATATTA
621567 TATATTAA
1 TATATT-A
621575 TATATT
1 TATATT
621581 TCATGTCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 4 0.08
6 5 0.09
7 36 0.68
8 8 0.15
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (7 bp):
TATATTA
Found at i:621545 original size:12 final size:11
Alignment explanation
Indices: 621525--621579 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 11
621515 TTTTACATAT
621525 TATATATATTA
1 TATATATATTA
621536 TATCATATATTA
1 TAT-ATATATTA
621548 TATAGTATATCATA
1 TATA-TATAT--TA
621562 TATTATATATTA
1 TA-TATATATTA
621574 -ATATAT
1 TATATAT
621580 TTCATGTCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
10 5 0.13
11 5 0.13
12 18 0.46
14 9 0.23
15 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (11 bp):
TATATATATTA
Found at i:621549 original size:19 final size:19
Alignment explanation
Indices: 621509--621573 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
621499 ATTAACATTA
*
621509 TATATATTTTA-CATAT-T
1 TATATATTATATCATATAT
621526 ATATATATTATATCATATAT
1 -TATATATTATATCATATAT
*
621546 TATATAGTATATCATATAT
1 TATATATTATATCATATAT
621565 TATATATTA
1 TATATATTA
621574 ATATATTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 10 0.24
19 31 0.74
20 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (19 bp):
TATATATTATATCATATAT
Found at i:622489 original size:19 final size:19
Alignment explanation
Indices: 622465--622527 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
622455 ATATTTTAGT
622465 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
*
622484 ATGTATCGGTAC--T----
1 ATGTATCGATACAATGAAC
*
622497 ATATATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
622516 ATGTATCGATAC
1 ATGTATCGATAC
622528 TATATATCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
13 10 0.29
15 1 0.03
17 1 0.03
19 22 0.65
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:622509 original size:32 final size:32
Alignment explanation
Indices: 622468--622560 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
622458 TTTTAGTATG
*
622468 TATCGATACAATGAACATGTATCGGTACTATA
1 TATCGATACAATGAACATGTATCGATACTATA
622500 TATCGATACAATGAACATGTATCGATACTATA
1 TATCGATACAATGAACATGTATCGATACTATA
* *
622532 TATCGATACAAAGCAATATGTATCGATAC
1 TATCGATACAATG-AACATGTATCGATAC
622561 ACCTGGGTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 43 0.75
33 14 0.25
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TATCGATACAATGAACATGTATCGATACTATA
Found at i:623288 original size:19 final size:19
Alignment explanation
Indices: 623264--623316 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
623254 TTCAAAATAT
*
623264 CTCTCCCCCTTTTTATTAA
1 CTCTCCCCCTTTTTATCAA
*
623283 CTCTCCCTCTTTTTATCAA
1 CTCTCCCCCTTTTTATCAA
623302 CTCTCCCCCTTTTTA
1 CTCTCCCCCTTTTTA
623317 CAAATTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.13, C:0.40, G:0.00, T:0.47
Consensus pattern (19 bp):
CTCTCCCCCTTTTTATCAA
Found at i:626861 original size:107 final size:108
Alignment explanation
Indices: 626437--626918 Score: 376
Period size: 109 Copynumber: 4.5 Consensus size: 108
626427 TGGAAAGACC
* ** * * *
626437 TATTTCGGGGCCAATCCCTTGGTATCCAAGTATTGCGTAATT-TGC--AAATGAATTATCTTATA
1 TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTACGTAATTATGCAAAAATGAATTATCCTATA
* * * ** **
626499 TAAAA-GCATTCGTACGCCGCTTTATGGCTCTAGATAATGACC
66 TAAAAGGCATTCGTACGCCACTTTACGACTCTAGACGATGATT
* * * *
626541 TA-TT----GCTAATCTTTTGGTGCCTAAAT-TTACGTAATTAATGCAAAAAATGAATTATCTTA
1 TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTACGTAATT-ATGC-AAAAATGAATTATCCTA
* * * *
626600 TATAAAGGGCGTTCGTATGCCACTTTACGACTCTAGACGATGATA
64 TATAAAAGGCATTCGTACGCCACTTTACGACTCTAGACGATGATT
* * * ** * * * *
626645 TATTTCGGGGTCAATTTTTTGGTGATCGAATATTACGTAAGTAATGCAAAAATGAGTTGTCCTAT
1 TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTACGTAA-TTATGCAAAAATGAATTATCCTAT
* * * *
626710 GT-AAAGGACGTTCGTACGCCATTTTACGACTCTAGAAGATGATT
65 ATAAAAGG-CATTCGTACGCCACTTTACGACTCTAGACGATGATT
* * **
626754 TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTATGTAATTATGC-AAAATAAATTGCCCTATA
1 TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTACGTAATTATGCAAAAATGAATTATCCTATA
* * * * *
626818 TAAAAGGCATTCGTACACCGCTTTATGACTTTAGACTATGATT
66 TAAAAGGCATTCGTACGCCACTTTACGACTCTAGACGATGATT
* * ** * ** *
626861 TATTTTGGAGAAAATCCCTTGGTGCCCAAATATTATATAATTAATGTAAAAATGAATT
1 TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTACGTAATT-ATGCAAAAATGAATT
626919 CTAAATAAGC
Statistics
Matches: 298, Mismatches: 63, Indels: 29
0.76 0.16 0.07
Matches are distributed among these distances:
98 9 0.03
99 15 0.05
100 3 0.01
103 23 0.08
104 32 0.11
105 2 0.01
107 79 0.27
108 17 0.06
109 105 0.35
110 12 0.04
111 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (108 bp):
TATTTCGGGGCCAATCTCTTGGTGCCCAAATATTACGTAATTATGCAAAAATGAATTATCCTATA
TAAAAGGCATTCGTACGCCACTTTACGACTCTAGACGATGATT
Found at i:627838 original size:26 final size:25
Alignment explanation
Indices: 627791--627870 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 25
627781 TGCCAACAAA
627791 TATGGGCTTTAACTTAGTTGCTAGCTAG
1 TATGGGC-TT-ACTT-GTTGCTAGCTAG
627819 TATGGGCTTACTTGTATGCTAGCTAG
1 TATGGGCTTACTTGT-TGCTAGCTAG
* *
627845 TGTGGG-TTACTTGTGTGCCAGCTAG
1 TATGGGCTTACTTGT-TGCTAGCTAG
627870 T
1 T
627871 GTTGGCTTTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
25 20 0.42
26 19 0.40
27 2 0.04
28 7 0.15
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.39
Consensus pattern (25 bp):
TATGGGCTTACTTGTTGCTAGCTAG
Found at i:627867 original size:25 final size:26
Alignment explanation
Indices: 627813--627878 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
627803 CTTAGTTGCT
* *
627813 AGCTAGTATGGGCTTACTTGTATGCT
1 AGCTAGTGTGGGCTTACTTGTATGCC
*
627839 AGCTAGTGTGGG-TTACTTGTGTGCC
1 AGCTAGTGTGGGCTTACTTGTATGCC
*
627864 AGCTAGTGTTGGCTT
1 AGCTAGTGTGGGCTT
627879 TGACTTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.63
26 13 0.37
ACGTcount: A:0.15, C:0.15, G:0.32, T:0.38
Consensus pattern (26 bp):
AGCTAGTGTGGGCTTACTTGTATGCC
Found at i:627889 original size:28 final size:28
Alignment explanation
Indices: 627752--627967 Score: 106
Period size: 28 Copynumber: 7.9 Consensus size: 28
627742 TCCCAACGAG
**
627752 GTGCCAGCTTA-TGTGGGCTTTGACTTAA
1 GTGCCAGC-TAGTGTGGGCTTTGACTTGT
* * * * * *
627780 ATGCCAACAAATATGGGCTTTAACTTAGT
1 GTGCCAGCTAGTGTGGGCTTTGACTT-GT
* *
627809 -TGCTAGCTAGTATGGGC-TT-ACTTGT
1 GTGCCAGCTAGTGTGGGCTTTGACTTGT
* *
627834 ATGCTAGCTAGTGTGGG--TT-ACTTGT
1 GTGCCAGCTAGTGTGGGCTTTGACTTGT
*
627859 GTGCCAGCTAGTGTTGGCTTTGACTTGT
1 GTGCCAGCTAGTGTGGGCTTTGACTTGT
* * * * **
627887 GTGTCA-CAAATGTAGGCTTTGACTTAC
1 GTGCCAGCTAGTGTGGGCTTTGACTTGT
* * * **
627914 GTGCCAACGAATGTGGGCTTTGACTTAC
1 GTGCCAGCTAGTGTGGGCTTTGACTTGT
* * * *
627942 GTGCCAACGAATGTGGGCTTTAACTT
1 GTGCCAGCTAGTGTGGGCTTTGACTT
627968 ACGCGCTAGT
Statistics
Matches: 156, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
25 24 0.15
26 19 0.12
27 26 0.17
28 87 0.56
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (28 bp):
GTGCCAGCTAGTGTGGGCTTTGACTTGT
Found at i:627968 original size:28 final size:28
Alignment explanation
Indices: 627895--628432 Score: 236
Period size: 28 Copynumber: 19.6 Consensus size: 28
627885 GTGTGTCACA
* *
627895 AATGTAGGCTTTGACTTACGTGCCAACG
1 AATGTGGGCTTTAACTTACGTGCCAACG
*
627923 AATGTGGGCTTTGACTTACGTGCCAACG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* * **
627951 AATGTGGGCTTTAACTTACGCGCTAGTG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* * * *
627979 AATATGGGC-TTAGAGTTACGTGCTAGCG
1 AATGTGGGCTTTA-ACTTACGTGCCAACG
* ** *
628007 AATATGGG-TTTAGA-TTGTGTGCCAATG
1 AATGTGGGCTTTA-ACTTACGTGCCAACG
* * *
628034 CATGTTGG------CTTACGTGCCAATG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* * * *
628056 AATGTAGGC-TTAGA-TTCATGTGCCATCT
1 AATGTGGGCTTTA-ACTT-ACGTGCCAACG
* ** *
628084 AATGTGGGCTTTGACTTACGTGCCGGCA
1 AATGTGGGCTTTAACTTACGTGCCAACG
* * * * **
628112 AAAGTAGGCTTTGACTTACGTGCTAGTG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* * * **
628140 AAAGTGGGCTTAAACTTATGTGCCAGTG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* *
628168 AATGTGGG-GTTAGACTTACGTGTCAACG
1 AATGTGGGCTTTA-ACTTACGTGCCAACG
* * * * *
628196 AATGTAGGCTTTGACTCATGTGCCAATG
1 AATGTGGGCTTTAACTTACGTGCCAACG
*
628224 AATGTGGGCTTCAAC-T---TGCCAACG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* ** * * *
628248 ATTGTGGGCTTCGA-TTCATGTGCCATCT
1 AATGTGGGCTTTAACTT-ACGTGCCAACG
* * *
628276 AATGTGGGCTTTGACTTACGTGCTAGCG
1 AATGTGGGCTTTAACTTACGTGCCAACG
* * * **
628304 AAAGTGGGCTTAAACTTACGTGCTAGTG
1 AATGTGGGCTTTAACTTACGTGCCAACG
*
628332 AATGTGGGC-TTAGACTTACGTGCCAATG
1 AATGTGGGCTTTA-ACTTACGTGCCAACG
* **
628360 AATGTAGGC-TTAGA-TTGTGTGCCAAC-
1 AATGTGGGCTTTA-ACTTACGTGCCAACG
* * * *
628386 ACAAGTGGGCTTTGACTCATGTGCCAACG
1 A-ATGTGGGCTTTAACTTACGTGCCAACG
*
628415 AATGTGGGCTTTGACTTA
1 AATGTGGGCTTTAACTTA
628433 TGCCAATAAG
Statistics
Matches: 394, Mismatches: 91, Indels: 50
0.74 0.17 0.09
Matches are distributed among these distances:
22 17 0.04
24 20 0.05
26 1 0.00
27 38 0.10
28 309 0.78
29 9 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (28 bp):
AATGTGGGCTTTAACTTACGTGCCAACG
Found at i:627969 original size:56 final size:56
Alignment explanation
Indices: 627895--628432 Score: 277
Period size: 56 Copynumber: 9.8 Consensus size: 56
627885 GTGTGTCACA
* *
627895 AATGTAGGCTTTGACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
1 AATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * ** * * * * *
627951 AATGTGGGCTTTAACTTACGCGCTAGTGAATATGGGCTTAGAGTTACGTGCTAGCG
1 AATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* ** * * * *
628007 AATATGGG-TTTAGA-TTGTGTGCCAATGCA--T--G--TTGGCTTACGTGCCAATG
1 AATGTGGGCTTTA-ACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * * * ** *
628056 AATGTAGGC-TTAGA-TTCATGTGCCATCTAATGTGGGCTTTGACTTACGTGCCGGCA
1 AATGTGGGCTTTA-ACTT-ACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * * * ** * ** * **
628112 AAAGTAGGCTTTGACTTACGTGCTAGTGAAAGTGGGCTTAAACTTATGTGCCAGTG
1 AATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * * * * *
628168 AATGTGGG-GTTAGACTTACGTGTCAACGAATGTAGGCTTTGACTCATGTGCCAATG
1 AATGTGGGCTTTA-ACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * * * * *
628224 AATGTGGGCTTCAAC-T---TGCCAACGATTGTGGGCTTCGA-TTCATGTGCCATCT
1 AATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTT-ACGTGCCAACG
* * * * ** * **
628276 AATGTGGGCTTTGACTTACGTGCTAGCGAAAGTGGGCTTAAACTTACGTGCTAGTG
1 AATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * * **
628332 AATGTGGGC-TTAGACTTACGTGCCAATGAATGTAGGCTTAGA-TTGTGTGCCAAC-
1 AATGTGGGCTTTA-ACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
* * * *
628386 ACAAGTGGGCTTTGACTCATGTGCCAACGAATGTGGGCTTTGACTTA
1 A-ATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTTA
628433 TGCCAATAAG
Statistics
Matches: 352, Mismatches: 107, Indels: 46
0.70 0.21 0.09
Matches are distributed among these distances:
49 25 0.07
50 8 0.02
51 2 0.01
52 40 0.11
53 2 0.01
54 2 0.01
55 56 0.16
56 209 0.59
57 8 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (56 bp):
AATGTGGGCTTTAACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACG
Found at i:628001 original size:84 final size:84
Alignment explanation
Indices: 627901--628370 Score: 335
Period size: 84 Copynumber: 5.7 Consensus size: 84
627891 CACAAATGTA
* * * *
627901 GGCTTTGACTTACGTGCCAACGAATGTGGGCTTTGACTTACGTGCCAACGAATGTGGGCTTTAAC
1 GGCTTAGACTTACGTGCCAGCGAATGTGGGCTTTGACTTACGTGCCAACGAATGTAGGCTTTGAC
*
627966 TTACGCGCTAGTGAATATG
66 TTACGTGCTAGTGAATATG
* * * ** * * *
627985 GGCTTAGAGTTACGTGCTAGCGAATATGGG-TTTAGA-TTGTGTG-C--C-AATGCATG--TTGG
1 GGCTTAGACTTACGTGCCAGCGAATGTGGGCTTT-GACTTACGTGCCAACGAATGTAGGCTTTGA
* * * *
628042 CTTACGTGCCAATGAATGTA
65 CTTACGTGCTAGTGAATATG
* * * ** * *
628062 GGCTTAGA-TTCATGTGCCATCTAATGTGGGCTTTGACTTACGTGCCGGCAAAAGTAGGCTTTGA
1 GGCTTAGACTT-ACGTGCCAGCGAATGTGGGCTTTGACTTACGTGCCAACGAATGTAGGCTTTGA
628126 CTTACGTGCTAGTGAA-AGTG
65 CTTACGTGCTAGTGAATA-TG
* * * * * *
628146 GGCTTAAACTTATGTGCCAGTGAATGTGGGGTTAGACTTACGTGTCAACGAATGTAGGCTTTGAC
1 GGCTTAGACTTACGTGCCAGCGAATGTGGGCTTTGACTTACGTGCCAACGAATGTAGGCTTTGAC
* * * * *
628211 TCATGTGCCAATGAATGTG
66 TTACGTGCTAGTGAATATG
* * * * * * *
628230 GGCTTCA-AC-T---TGCCAACGATTGTGGGCTTCGA-TTCATGTGCCATCTAATGTGGGCTTTG
1 GGCTT-AGACTTACGTGCCAGCGAATGTGGGCTTTGACTT-ACGTGCCAACGAATGTAGGCTTTG
*
628289 ACTTACGTGCTAGCGAA-AGTG
64 ACTTACGTGCTAGTGAATA-TG
* * * * *
628310 GGCTTAAACTTACGTGCTAGTGAATGTGGGCTTAGACTTACGTGCCAATGAATGTAGGCTT
1 GGCTTAGACTTACGTGCCAGCGAATGTGGGCTTTGACTTACGTGCCAACGAATGTAGGCTT
628371 AGATTGTGTG
Statistics
Matches: 290, Mismatches: 74, Indels: 44
0.71 0.18 0.11
Matches are distributed among these distances:
76 2 0.01
77 41 0.14
78 8 0.03
79 9 0.03
80 58 0.20
81 2 0.01
82 6 0.02
83 9 0.03
84 150 0.52
85 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (84 bp):
GGCTTAGACTTACGTGCCAGCGAATGTGGGCTTTGACTTACGTGCCAACGAATGTAGGCTTTGAC
TTACGTGCTAGTGAATATG
Found at i:628053 original size:22 final size:22
Alignment explanation
Indices: 628025--628067 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
628015 TTTAGATTGT
* *
628025 GTGCCAATGCATGTTGGCTTAC
1 GTGCCAATGAATGTAGGCTTAC
628047 GTGCCAATGAATGTAGGCTTA
1 GTGCCAATGAATGTAGGCTTA
628068 GATTCATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (22 bp):
GTGCCAATGAATGTAGGCTTAC
Found at i:628293 original size:108 final size:107
Alignment explanation
Indices: 628168--628452 Score: 249
Period size: 108 Copynumber: 2.6 Consensus size: 107
628158 TGTGCCAGTG
* * *
628168 AATGTGGGGTTAGACTTACGTGTCAACGAATGTAGGCTTTGACTCATGTGCCAATGAATGTGGGC
1 AATGTGGGCTTTGACTTACGTG-CAACGAATGTGGGCTTTGACT-ATGTGCCAATGAATGTGGGC
* * * *
628233 TTCA-AC-T-TGCCAACGATTGTGGGCTTCGATTCATGTGCCATC
64 TTCAGACTTATGCCAACGAATGTAGGCTTAGATT-ATGTGCCAAC
* * ** * * *
628275 TAATGTGGGCTTTGACTTACGTGCTAGCGAAAGTGGGCTTAAACTTACGTGCTAGTGAATGTGGG
1 -AATGTGGGCTTTGACTTACGTGC-AACGAATGTGGGCTTTGAC-TATGTGCCAATGAATGTGGG
* *
628340 CTT-AGACTTACGTGCCAATGAATGTAGGCTTAGATTGTGTGCCAAC
63 CTTCAGACTTA--TGCCAACGAATGTAGGCTTAGATTATGTGCCAAC
* * * *
628386 ACAAGTGGGCTTTGACTCATGTGCCAACGAATGTGGGCTTTGACT-TATGCCAAT-AAGTGTGGG
1 A-ATGTGGGCTTTGACTTACGTG-CAACGAATGTGGGCTTTGACTATGTGCCAATGAA-TGTGGG
628449 CTTC
63 CTTC
628453 CTTTTGATAA
Statistics
Matches: 139, Mismatches: 27, Indels: 20
0.75 0.15 0.11
Matches are distributed among these distances:
107 2 0.01
108 57 0.41
109 16 0.12
110 2 0.01
111 41 0.29
112 21 0.15
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (107 bp):
AATGTGGGCTTTGACTTACGTGCAACGAATGTGGGCTTTGACTATGTGCCAATGAATGTGGGCTT
CAGACTTATGCCAACGAATGTAGGCTTAGATTATGTGCCAAC
Found at i:639420 original size:21 final size:21
Alignment explanation
Indices: 639379--639422 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
639369 CTCCCCTTTA
* *
639379 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
639400 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
639421 TC
1 TC
639423 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:641454 original size:8 final size:8
Alignment explanation
Indices: 641441--641472 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
641431 CATCATTCAA
641441 CACAAAAT
1 CACAAAAT
641449 CACAAAAT
1 CACAAAAT
641457 CACAAAAT
1 CACAAAAT
641465 CACAAAAT
1 CACAAAAT
641473 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:643345 original size:15 final size:15
Alignment explanation
Indices: 643325--643355 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
643315 ATTTCGTTTG
*
643325 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
643340 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
643355 G
1 G
643356 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:645187 original size:21 final size:21
Alignment explanation
Indices: 645158--645202 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
645148 AAGTTTTCAT
*
645158 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
645178 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
645200 TTT
1 TTT
645203 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:645811 original size:8 final size:8
Alignment explanation
Indices: 645798--645829 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
645788 CATCATTCAA
645798 CACAAAAT
1 CACAAAAT
645806 CACAAAAT
1 CACAAAAT
645814 CACAAAAT
1 CACAAAAT
645822 CACAAAAT
1 CACAAAAT
645830 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:647702 original size:15 final size:15
Alignment explanation
Indices: 647682--647712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
647672 ATTTCGTTTG
*
647682 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
647697 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
647712 G
1 G
647713 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:649544 original size:21 final size:21
Alignment explanation
Indices: 649515--649559 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
649505 AAGTTTTCAT
*
649515 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
649535 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
649557 TTT
1 TTT
649560 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:650168 original size:8 final size:8
Alignment explanation
Indices: 650155--650186 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
650145 CATCATTCAA
650155 CACAAAAT
1 CACAAAAT
650163 CACAAAAT
1 CACAAAAT
650171 CACAAAAT
1 CACAAAAT
650179 CACAAAAT
1 CACAAAAT
650187 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:652059 original size:15 final size:15
Alignment explanation
Indices: 652039--652069 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
652029 ATTTCGTTTG
*
652039 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
652054 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
652069 G
1 G
652070 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:653900 original size:21 final size:21
Alignment explanation
Indices: 653871--653915 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
653861 AAGTTTTCAT
*
653871 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
653891 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
653913 TTT
1 TTT
653916 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:654522 original size:8 final size:8
Alignment explanation
Indices: 654509--654540 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
654499 CATCATTCAA
654509 CACAAAAT
1 CACAAAAT
654517 CACAAAAT
1 CACAAAAT
654525 CACAAAAT
1 CACAAAAT
654533 CACAAAAT
1 CACAAAAT
654541 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:656413 original size:15 final size:15
Alignment explanation
Indices: 656393--656423 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
656383 ATTTCGTTTG
*
656393 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
656408 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
656423 G
1 G
656424 GACATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:658254 original size:21 final size:21
Alignment explanation
Indices: 658225--658269 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
658215 AAGTTTTCAT
*
658225 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
658245 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
658267 TTT
1 TTT
658270 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:658878 original size:8 final size:8
Alignment explanation
Indices: 658865--658896 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
658855 CATCATTCAA
658865 CACAAAAT
1 CACAAAAT
658873 CACAAAAT
1 CACAAAAT
658881 CACAAAAT
1 CACAAAAT
658889 CACAAAAT
1 CACAAAAT
658897 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:660769 original size:15 final size:15
Alignment explanation
Indices: 660749--660779 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
660739 ATTTCGTTTG
*
660749 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
660764 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
660779 G
1 G
660780 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:662611 original size:21 final size:21
Alignment explanation
Indices: 662582--662626 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
662572 AAGTTTTCAT
*
662582 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
662602 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
662624 TTT
1 TTT
662627 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:665803 original size:107 final size:108
Alignment explanation
Indices: 665479--665858 Score: 365
Period size: 107 Copynumber: 3.5 Consensus size: 108
665469 TAGAGAGACC
** * * * * **
665479 TATTTCGAGGCCAATCCCTTGGTATCCAAGTATTGTGTAATT-T--ACAAATGAATTATCTTATA
1 TATTTCGAGGCCAATCCCTTGGTGCCCAAATATTATATAATTATGAAAAAATGAATTGCCTTATA
* *
665541 TAAAGGGTATTCGTACACCGCTTTACGACTCTAGATGATGATT
66 TAAAGGGTATTCGTACGCCGCTTTACGACTCTAGACGATGATT
* * * * * * * *
665584 TATTTCAAGGTCAATCTCTTGGTGACCGAATATTACATAAGTAATGCAAAAAATGAGTTGTCC-T
1 TATTTCGAGGCCAATCCCTTGGTGCCCAAATATTATATAA-TTATG-AAAAAATGAATTG-CCTT
* * * *
665648 ATGTAAAGGGTGTTCGTATGCCACTTTACGACTCTAGACGATGATT
63 ATATAAAGGGTATTCGTACGCCGCTTTACGACTCTAGACGATGATT
* *
665694 TATTTCGAGGCCAATCTCTTGGTGCCCAAATATTATGTAATTAT-AAAAAATGAATTGCCTTATA
1 TATTTCGAGGCCAATCCCTTGGTGCCCAAATATTATATAATTATGAAAAAATGAATTGCCTTATA
* * * * * *
665758 TAAAAGGCATCCGTACGTCGCTTTACGACTTTAGACGATTATT
66 TAAAGGGTATTCGTACGCCGCTTTACGACTCTAGACGATGATT
* * * ** *
665801 TATTTTGGGGCCAATCCCTTAGTGCCTGAATATTATATAATTAATGTAAAAATGAATT
1 TATTTCGAGGCCAATCCCTTGGTGCCCAAATATTATATAATT-ATGAAAAAATGAATT
665859 CTAAATAGGC
Statistics
Matches: 219, Mismatches: 47, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
105 30 0.14
106 3 0.01
107 85 0.39
108 2 0.01
109 14 0.06
110 84 0.38
111 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (108 bp):
TATTTCGAGGCCAATCCCTTGGTGCCCAAATATTATATAATTATGAAAAAATGAATTGCCTTATA
TAAAGGGTATTCGTACGCCGCTTTACGACTCTAGACGATGATT
Found at i:672991 original size:10 final size:10
Alignment explanation
Indices: 672976--673002 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
672966 AATGCTTTGA
672976 TTTCTTGATG
1 TTTCTTGATG
672986 TTTCTTGATG
1 TTTCTTGATG
672996 TTTCTTG
1 TTTCTTG
673003 TGAGTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.11, G:0.19, T:0.63
Consensus pattern (10 bp):
TTTCTTGATG
Found at i:675244 original size:54 final size:55
Alignment explanation
Indices: 675175--675314 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 55
675165 ATGAATTTTG
675175 ATCACTCAAATTAATATCGGGTTCGATAGAAAAAAAAGGG-GAACAAGTAAGAGA
1 ATCACTCAAATTAATATCGGGTTCGATAGAAAAAAAAGGGAGAACAAGTAAGAGA
**
675229 ATCACTCAAATTAATATCAAGTTCGATAG-AAAAAAAGGGAGAACAAGTAAGAGA
1 ATCACTCAAATTAATATCGGGTTCGATAGAAAAAAAAGGGAGAACAAGTAAGAGA
*
675283 ATCACTCAAATTAATATCGGGTTTGATAGAAA
1 ATCACTCAAATTAATATCGGGTTCGATAGAAA
675315 GAATAGACAA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 10 0.13
54 67 0.85
55 2 0.03
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.21
Consensus pattern (55 bp):
ATCACTCAAATTAATATCGGGTTCGATAGAAAAAAAAGGGAGAACAAGTAAGAGA
Found at i:676304 original size:21 final size:21
Alignment explanation
Indices: 676280--676355 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
676270 TTCTATAATT
676280 TGTATCGATACAAACAATAAA
1 TGTATCGATACAAACAATAAA
* * *
676301 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAACAATAAA
* ** *
676321 TATATCGATACATGC-CTAAAA
1 TGTATCGATACAAACAAT-AAA
676342 TGTATCGATACAAA
1 TGTATCGATACAAA
676356 ATCACCCTGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (21 bp):
TGTATCGATACAAACAATAAA
Found at i:677006 original size:24 final size:22
Alignment explanation
Indices: 676975--677019 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
676965 AAAAAAACAT
676975 TATTCCATAAG-TCTCCAAAACCC
1 TATTCCAT-AGCTC-CCAAAACCC
676998 TATTCCCATAGCTCCCAAAACC
1 TATT-CCATAGCTCCCAAAACC
677020 ACCACTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.33, C:0.38, G:0.04, T:0.24
Consensus pattern (22 bp):
TATTCCATAGCTCCCAAAACCC
Found at i:679198 original size:79 final size:79
Alignment explanation
Indices: 678864--679287 Score: 466
Period size: 78 Copynumber: 5.4 Consensus size: 79
678854 GATATAGAAT
* * ** * *
678864 TTTTCCTCTAGGGGATACTCCAAATCTCATTATTTCTG-AGAGGATACTCCAATCCCATTTCTAT
1 TTTTCATCTCGGGGATACTCCAACCCT-GTTATTTCTGAAG-GGATACTCCAATCCCATTTTTAT
678928 TTTTGAAATATTAAAA
64 TTTTGAAATATTAAAA
* *
678944 TTTTCATCTCGGCGATACTCCAACCCTGTTATTTCT-AAGGGATACTCCAA-CTCTATTTTTATT
1 TTTTCATCTCGGGGATACTCCAACCCTGTTATTTCTGAAGGGATACTCCAATC-CCATTTTTATT
679007 TTTGAAATATTAAAA
65 TTTGAAATATTAAAA
* * * * *
679022 TTTTCATTTCGGGGATACTCCAATCCTGTTATTT-TCG-AGGAGATATTCCAATCTC-GTTTTAT
1 TTTTCATCTCGGGGATACTCCAACCCTGTTATTTCT-GAAGG-GATACTCCAATCCCATTTTTAT
* *
679084 TTCTAAAATATTAAAA
64 TTTTGAAATATTAAAA
* * * * *
679100 TTTTCATCTCGGGGATACTCCGACCCTATTATTTTTGAAAGGATACTCCAACCCCATTTTTATTT
1 TTTTCATCTCGGGGATACTCCAACCCTGTTATTTCTGAAGGGATACTCCAATCCCATTTTTATTT
* * *
679165 TTGAAACACTAAAT
66 TTGAAATATTAAAA
* * * * * *
679179 TTTTTATCTCGAGGATACTCTAACCCTGTTATTTCAGAGGGGATACTCCAATCACATTTTTATTT
1 TTTTCATCTCGGGGATACTCCAACCCTGTTATTTCTGAAGGGATACTCCAATCCCATTTTTATTT
679244 TTGAAATATTAAAA
66 TTGAAATATTAAAA
* *
679258 TTTTCATCAT-GGGGATACTTCAACCTTGTT
1 TTTTCATC-TCGGGGATACTCCAACCCTGTT
679288 TTTATTTCCA
Statistics
Matches: 284, Mismatches: 50, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
77 2 0.01
78 131 0.46
79 127 0.45
80 24 0.08
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (79 bp):
TTTTCATCTCGGGGATACTCCAACCCTGTTATTTCTGAAGGGATACTCCAATCCCATTTTTATTT
TTGAAATATTAAAA
Found at i:679207 original size:157 final size:156
Alignment explanation
Indices: 678893--679282 Score: 489
Period size: 157 Copynumber: 2.5 Consensus size: 156
678883 CCAAATCTCA
* * *
678893 TTATTTCTGA-GAGGATACTCCAATCCCATTTCTATTTTTGAAATATTAAAATTTTCATCTCGGC
1 TTATTTCAGAGGA-GATACTCCAATCACATTT-TATTTTTGAAATATTAAAATTTTCATCTCGGG
* * * * * *
678957 GATACTCCAACCCTGTTATTTCTAAGGGATACTCCAACTCTATTTTTATTTTTGAAATATTAAAA
64 GATACTCCAACCCTATTATTTCTAAAGGATACTCCAACCCCATTTTTATTTTTGAAACACTAAAA
* * *
679022 TTTTCATTTCGGGGATACTCCAATCCTG
129 TTTTCATCTCGAGGATACTCCAACCCTG
* * * * *
679050 TTATTTTC-GAGGAGATATTCCAATCTCGTTTTATTTCTAAAATATTAAAATTTTCATCTCGGGG
1 TTA-TTTCAGAGGAGATACTCCAATCACATTTTATTTTTGAAATATTAAAATTTTCATCTCGGGG
* * *
679114 ATACTCCGACCCTATTATTTTTGAAAGGATACTCCAACCCCATTTTTATTTTTGAAACACTAAAT
65 ATACTCCAACCCTATTATTTCT-AAAGGATACTCCAACCCCATTTTTATTTTTGAAACACTAAAA
* *
679179 TTTTTATCTCGAGGATACTCTAACCCTG
129 TTTTCATCTCGAGGATACTCCAACCCTG
*
679207 TTATTTCAGAGGGGATACTCCAATCACATTTTTATTTTTGAAATATTAAAATTTTCATCAT-GGG
1 TTATTTCAGAGGAGATACTCCAATCACA-TTTTATTTTTGAAATATTAAAATTTTCATC-TCGGG
*
679271 GATACTTCAACC
64 GATACTCCAACC
679283 TTGTTTTTAT
Statistics
Matches: 199, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
156 53 0.27
157 98 0.49
158 47 0.24
159 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (156 bp):
TTATTTCAGAGGAGATACTCCAATCACATTTTATTTTTGAAATATTAAAATTTTCATCTCGGGGA
TACTCCAACCCTATTATTTCTAAAGGATACTCCAACCCCATTTTTATTTTTGAAACACTAAAATT
TTCATCTCGAGGATACTCCAACCCTG
Found at i:679275 original size:51 final size:51
Alignment explanation
Indices: 679217--679315 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
679207 TTATTTCAGA
* ***
679217 GGGGATACTCCAATCACATTTTTATTTTTGAAATATTAAAATTTTCATCAT
1 GGGGATACTCCAACCACATTTTTATTTCCAAAATATTAAAATTTTCATCAT
* ***
679268 GGGGATACTTCAACCTTGTTTTTATTTCCAAAATATTAAAATTTTCAT
1 GGGGATACTCCAACCACATTTTTATTTCCAAAATATTAAAATTTTCAT
679316 AATCGAGGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.43
Consensus pattern (51 bp):
GGGGATACTCCAACCACATTTTTATTTCCAAAATATTAAAATTTTCATCAT
Found at i:679569 original size:22 final size:22
Alignment explanation
Indices: 679539--679586 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
679529 CGTCCCTCAT
*
679539 TTTTATGT-ATTTTGTGCATTTA
1 TTTTATGTAAATTTGTGCA-TTA
* *
679561 TTTTGTGTAAATTTGTTCATTA
1 TTTTATGTAAATTTGTGCATTA
679583 TTTT
1 TTTT
679587 CTTTTTCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.19, C:0.04, G:0.12, T:0.65
Consensus pattern (22 bp):
TTTTATGTAAATTTGTGCATTA
Found at i:685557 original size:62 final size:62
Alignment explanation
Indices: 685386--686328 Score: 1141
Period size: 62 Copynumber: 15.3 Consensus size: 62
685376 CGCCTTTTTG
* * * * *
685386 TTTTTCCTTTTTAAAGCCTACATGAGTTGATGGCACCTTTTAGTCCTCAAAAAGCAAGATGCC
1 TTTTT-CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * * * * *
685449 TTTTCCTTTTTAAAGCCAATACAAG-T--TGGCACTTTTTAGTCCTCAAAGAGTAGGATGTC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * * * * ** *
685508 TGTTCCTTTTTAAAGCCCACATGGGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGCACACT
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * * * *
685570 TTTTTCTTTTTAAAGCCTACACGAGTTGATAGCACTTTTTTAGTCCTCAAAAAGTAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC-CTTTTAGTCCTCAAAGAGCAGGATGCC
* * * * * *
685633 TTTTCCTTGTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAAGATGTC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * **
685695 TTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAATAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * ***
685757 -TTTTCCTTTTAAAGCCCACAC-AGGTTGGTGGCATCTTTTAGTCCTCAAAAAAG-AGGACATC
1 TTTTTCTTTTTAAAGCCCACACGA-GTTGGTGGCACCTTTTAGTCCTC-AAAGAGCAGGATGCC
* * ** *
685818 TTTTTCTTTTTAAAGCCCATACGAGATGGTGAAACCTTTTAGTCTTCAAAGAGCAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * *
685880 TTTTT-TCTTTTAAAGCCTACATGAGTTGGTGGCAACTTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCT-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
*
685942 TTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* *
686003 TTTTTCTTTTTAAAGCCCACGCGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
686065 -TTTT-TTTTTAAAGCTCACATGAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
686125 TTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTGGTCCTCAACGAGTAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* **
686187 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACACC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
686249 TTTTTCTTTTAAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
*
686311 TTTTTCTTTTAAAAGCCC
1 TTTTTCTTTTTAAAGCCC
686329 TTCTCAAAGA
Statistics
Matches: 754, Mismatches: 112, Indels: 29
0.84 0.13 0.03
Matches are distributed among these distances:
59 47 0.06
60 52 0.07
61 117 0.16
62 481 0.64
63 57 0.08
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (62 bp):
TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
Found at i:685893 original size:185 final size:184
Alignment explanation
Indices: 685387--686328 Score: 1126
Period size: 185 Copynumber: 5.1 Consensus size: 184
685377 GCCTTTTTGT
* * * *
685387 TTTTCCTTTTTAAAGCCTACATGAGTTGATGGCACCTTTTAGTCCTCAAAAAGCAAGATGCCTTT
1 TTTTCC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTT
* * * * * * * * * *
685452 TCCTTTTTAAAGCCAATACAAG-T--TGGCACTTTTTAGTCCTCAAAGAGTAGGATGTCTGTTCC
65 TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGCCTTTTTC
* * ** *
685514 TTTTTAAAGCCCACATGGGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGCACACTT
130 -TTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGC-C
* * * * * *
685571 TTTTCTTTTTAAAGCCTACACGAGTTGATAGCACTTTTTTAGTCCTCAAAAAGTAGGATGCCTTT
1 TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCAC-CTTTTAGTCCTCAAAAAGCAGGATGCCTTT
* * * * * *
685636 TCCTTGTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGCAAGATGTCTTTTC
65 TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT-CTTCAAAGAGCAGGATGCCTTTTT
* * *
685700 CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAATAGGATGCC
129 C-TTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC
* ***
685757 TTTTCCTTTTAAAGCCCACAC-AGGTTGGTGGCATCTTTTAGTCCTCAAAAAAG-AGGACATCTT
1 TTTTCCTTTTAAAGCCCACACGA-GTTGGTGGCACCTTTTAGTCCTC-AAAAAGCAGGATGCCTT
* * **
685820 TTTCTTTTTAAAGCCCATACGAGATGGTGAAACCTTTTAGTCTTCAAAGAGCAGGATGCCTTTTT
64 TTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGCC-TTTT
* * *
685885 TCTTTTAAAGCCTACATGAGTTGGTGGCAACTTTTAGTCCTCAAAGAGCAGGATGCC
128 TCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC
*
685942 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTT
1 TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTT
* * *
686007 TCTTTTTAAAGCCCACGCGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGATGCCTTTTT-T
66 TCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGCCTTTTTCT
* * * *
686071 TTTAAAGCTCACATGAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAGGACGCC
131 TTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC
* * * ** *
686125 TTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTGGTCCTCAACGAGTAGGATGCCTTT
1 -TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTT
**
686190 TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTT-AAAGAGCAGGACACCTTTTT
65 TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGT-CTTCAAAGAGCAGGATGCCTTTTT
** *
686254 CTTTTAAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTCAAAGAGTAGGATGCC
129 CTTTT-AAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC
*
686311 TTTTTCTTTTAAAAGCCC
1 TTTTCCTTTT-AAAGCCC
686329 TTCTCAAAGA
Statistics
Matches: 656, Mismatches: 86, Indels: 30
0.85 0.11 0.04
Matches are distributed among these distances:
183 76 0.12
184 177 0.27
185 232 0.35
186 90 0.14
187 79 0.12
188 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (184 bp):
TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTT
TCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCTTCAAAGAGCAGGATGCCTTTTTCT
TTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC
Found at i:686217 original size:246 final size:246
Alignment explanation
Indices: 685386--686327 Score: 1141
Period size: 246 Copynumber: 3.8 Consensus size: 246
685376 CGCCTTTTTG
* *
685386 TTTTTCCTTTTTAAAGCCTACATGAGTTGATGGCACCTTTTAGTCCTCAAAAAGCAAGATGCCTT
1 TTTTT-CTTTTTAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTT
* * * * * * * * *
685451 TTCCTTTTTAAAGCCAATACAAG-T--TGGCACTTTTTAGTCCTCAAAGAGTAGGATGTCTGTTC
65 TTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTT
* * * ** *
685513 CTTTTTAAAGCCCACATGGGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGCACACTTTTTTCTT
130 CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGC-CTTTTCTT
* * * * *
685578 TTTAAAGCCTACACGAGTTGATAGCACTTTTTTAGTCCTCAAAAAGTAGGATGCC
194 TTTAAAGCC-ACACGAGTTGGTGGCAC-CTTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
685633 TTTTCCTTGTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAAGATGTCTTT
1 TTTTTCTTTTTAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTT
* *
685698 TCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAA-TAGGATGCC-TTTT
66 TCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAA-AAGCAGGATGCCTTTTT
* * * *
685761 CCTTTTAAAGCCCACAC-AGGTTGGTGGCATCTTTTAGTCCTCAAAAAAG-AGGACAT-CTTTTT
130 CTTTTTAAAGCCCACACGA-GTTGGTGGCACCTTTTAGTCCTC-AAAGAGTAGG--ATGCCTTTT
* * ** *
685823 CTTTTTAAAGCCCATACGAGATGGTGAAACCTTTTAGTCTTCAAAGAGCAGGATGCC
191 CTTTTTAAAG-CCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* *
685880 TTTTT-TCTTTTAAAGCCTACATGAGTTGGTGGCAACTTTTAGTCCTCAAAGAGCAGGATGCCTT
1 TTTTTCT-TTTTAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTT
*
685944 TTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTT
65 TTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTT
* * *
686008 CTTTTTAAAGCCCACGCGAGTTGGTGGCACCATTTAGTCCTCAAAGAGCAGGATGCCTTTT-TTT
130 CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTT
* * *
686072 TTAAAGCTCACATGAGTTGGTGGCACGTTTTAGTCCTCAAAGAGCAGGACGCC
195 TTAAAGC-CACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
686125 TTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTGGTCCTCAACGAGTAGGATGCCTTT
1 TTTTTCTTTTTAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTT
* * * **
686190 TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACACCTTTTTC
66 TCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTC
* * *
686255 TTTTAAAAGCCCACACAAGTTGGTGACACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTT
131 TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC-TTTTCTTT
*
686320 TAAAAGCC
195 TTAAAGCC
686328 CTTCTCAAAG
Statistics
Matches: 602, Mismatches: 73, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
244 1 0.00
245 111 0.18
246 242 0.40
247 134 0.22
248 77 0.13
249 35 0.06
250 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (246 bp):
TTTTTCTTTTTAAAGCCTACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTT
TCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTC
TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTT
TAAAGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCC
Found at i:686345 original size:38 final size:38
Alignment explanation
Indices: 686293--686366 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
686283 CCTTTTAGTC
*
686293 CTCAAAGAGTAGGATGCCTTTTTCTTTTAAAAGCCCTT
1 CTCAAAGAGCAGGATGCCTTTTTCTTTTAAAAGCCCTT
*
686331 CTCAAAGAGCAGGATGCTTTTTTCTTTTAAAAGCCC
1 CTCAAAGAGCAGGATGCCTTTTTCTTTTAAAAGCCC
686367 ACATAAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (38 bp):
CTCAAAGAGCAGGATGCCTTTTTCTTTTAAAAGCCCTT
Found at i:693229 original size:79 final size:78
Alignment explanation
Indices: 693116--693530 Score: 372
Period size: 79 Copynumber: 5.3 Consensus size: 78
693106 CACTTCTATG
* ** * *
693116 ATATCAAATTTTTCATC-TCAAGGATACTACAACCCCATTATTTCTAACGGGATACTCCAACCCC
1 ATATTAAATTTTTCATCTTGGA-GATACTCCAACCCCATTATTTCTGA-GGGATACTCCAACCCC
*
693180 ATTTTTATTTTTAAA
64 ATTTTTATTTTTGAA
** * ** *
693195 ATATTAAATTTTTTGTCTTGGATATACTTTAACCCCTTTATTTC-GAGGGGATACTCCAACCCC-
1 ATATTAAATTTTTCATCTTGGAGATACTCCAACCCCATTATTTCTGA-GGGATACTCCAACCCCA
* *
693258 GTTTTATTTATGAA
65 TTTTTATTTTTGAA
* * * * * * * *
693272 ATGTTAAAATTTTCAT-TTCGAGGATACTCCAATCTCATTGTTT-TCGAGGGGATACTCTAACCT
1 ATATTAAATTTTTCATCTTGGA-GATACTCCAACCCCATTATTTCT-GA-GGGATACTCCAACCC
** * *
693335 TGTTTTTGTTTTCGAA
63 CATTTTTATTTTTGAA
* * * * * *
693351 ATACTAAATTTTTCATCTTGGGGATACTCCAACCCTATTATTTTTGAGGGTATACTCCAACCTCG
1 ATATTAAATTTTTCATCTTGGAGATACTCCAACCCCATTATTTCTGAGGG-ATACTCCAACCCCA
693416 TTTTTATTTTTGAA
65 TTTTTATTTTTGAA
* * * *
693430 ATATTAAAATTTTCATTTTGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCA
1 ATATTAAATTTTTCATCTTGGAGATACTCCAACCCCATTATTTCTG-AGGGATACTCCAACCCCA
* *
693495 TTTTTATTTCTAAA
65 TTTTTATTTTTGAA
693509 ATATTAAATTTTTCATCATTGG
1 ATATTAAATTTTTCATC-TTGG
693531 GGGTACTTTA
Statistics
Matches: 268, Mismatches: 58, Indels: 19
0.78 0.17 0.06
Matches are distributed among these distances:
76 4 0.01
77 37 0.14
78 36 0.13
79 177 0.66
80 14 0.05
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (78 bp):
ATATTAAATTTTTCATCTTGGAGATACTCCAACCCCATTATTTCTGAGGGATACTCCAACCCCAT
TTTTATTTTTGAA
Found at i:693482 original size:158 final size:155
Alignment explanation
Indices: 693116--693537 Score: 454
Period size: 156 Copynumber: 2.7 Consensus size: 155
693106 CACTTCTATG
* * * * *
693116 ATATCAAATTTTTCATCTCAAGGATACTACAACCCCATTATTTCT-AACGGGATACTCCAACCCC
1 ATATTAAAATTTTCATTTCGAGGATACTCCAACCCCATTATTTCTGAA-GGGATACTCCAACCCC
* ** ** **
693180 ATTTTTATTTTTAAAATATTAAATTTTTTGTCTTGGATATACTTTAACCCCTTTATTTCGAGGGG
65 ATTTTT-TTTTCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCTTTATTTCGAGGGG
693245 ATACTCCAACCCCGTTTTATTTATGAA
129 ATACTCCAACCCCGTTTTATTTATGAA
* * * * * * **
693272 ATGTTAAAATTTTCATTTCGAGGATACTCCAATCTCATTGTTT-TCGAGGGGATACTCTAACCTT
1 ATATTAAAATTTTCATTTCGAGGATACTCCAACCCCATTATTTCT-GAAGGGATACTCCAACCCC
* * * *
693336 GTTTTTGTTTTCGAAATACTAAATTTTTCATCTTGGGGATACTCCAA-CCCTATTATTTTTGAGG
65 ATTTTT-TTTTCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCT-TTA-TTTCGAGG
* * *
693400 GTATACTCCAACCTCGTTTTTATTTTTGAA
127 GGATACTCCAACCCCG-TTTTATTTATGAA
* * *
693430 ATATTAAAATTTTCATTTTGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCA
1 ATATTAAAATTTTCATTTCGAGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCCA
* *
693495 TTTTTATTTCTAAAATATTAAATTTTTCATCATTGGGGGTACT
66 TTTTTTTTTC-AAAATATTAAATTTTTCATC-TTGGGGATACT
693538 TTATCCCCAC
Statistics
Matches: 214, Mismatches: 44, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
155 5 0.02
156 86 0.40
157 26 0.12
158 86 0.40
159 11 0.05
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (155 bp):
ATATTAAAATTTTCATTTCGAGGATACTCCAACCCCATTATTTCTGAAGGGATACTCCAACCCCA
TTTTTTTTTCAAAATATTAAATTTTTCATCTTGGGGATACTCCAACCCCTTTATTTCGAGGGGAT
ACTCCAACCCCGTTTTATTTATGAA
Found at i:696446 original size:167 final size:165
Alignment explanation
Indices: 696094--696592 Score: 652
Period size: 165 Copynumber: 3.0 Consensus size: 165
696084 TTTTCATGGG
* * *
696094 TTTAAATT-TTCAAATATTATTATTTATTTCATATTAAATTATTTTTCAAGAATTCTTTCATTTT
1 TTTAAATTCATCAAATATTATTATTTATTTCACATTAAATTATTTTTCAAAAATTCTTTCATTTT
* * * *
696158 CAATAGTTTTTGAA-TTTTTCTTGAAATTCTCCTATTTTCGAAATACGAAGTTTTCCACTT-CAT
66 CATTAGTTTTTGAATTTTTTCTTGAAATTCTCTTATTTTCTAAATACGAAGTTTTCTA-TTCCAT
* *
696221 AAATTTTTTTGAGAGAATTTTTCTTGGTTTTT-ATTT
130 AAATTTTTTCGAGAGGATTTTTCTT-GTTTTTAATTT
* * * *
696257 TTTAAAATTCATAAAATATTATTATTTCTTTTACATTAAATTAGTTTTCAAAAATTCTTTCATTT
1 TTT-AAATTCATCAAATATTATTATTTATTTCACATTAAATTATTTTTCAAAAATTCTTTCATTT
*
696322 TCATTAGTTTTTGAATTTTTTCCTTGAAATTCTCTTATTTTTTAAATACGAAGTTTTCTATTCCA
65 TCATTAGTTTTTGAATTTTTT-CTTGAAATTCTCTTATTTTCTAAATACGAAGTTTTCTATTCCA
696387 TAAATTTTTTC-AGAAGGATTTTTCTTGATTTTTAATTT
129 TAAATTTTTTCGAG-AGGATTTTTCTTG-TTTTTAATTT
* * * * *
696425 TTTAAATTCATCAATTATTATTTTTTATTTCACGTTAAA-TATTTTTAAAAAATTCCTTCATTTT
1 TTTAAATTCATCAAATATTATTATTTATTTCACATTAAATTATTTTTCAAAAATTCTTTCATTTT
* * * * *
696489 CATTAGTTTTTTATTTTTTTGCTTGAAATT-TCTTATTTTCTAAATGCGGAGTTTTCTACTCCAT
66 CATTAGTTTTTGAATTTTTT-CTTGAAATTCTCTTATTTTCTAAATACGAAGTTTTCTATTCCAT
* *
696553 AAATTTTTTCGAGAGGATTTTTTTTGTTTTCAATTT
130 AAATTTTTTCGAGAGGATTTTTCTTGTTTTTAATTT
696589 TTTA
1 TTTA
696593 TTGTCACAAC
Statistics
Matches: 295, Mismatches: 32, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
163 3 0.01
164 18 0.06
165 114 0.39
166 61 0.21
167 92 0.31
168 7 0.02
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (165 bp):
TTTAAATTCATCAAATATTATTATTTATTTCACATTAAATTATTTTTCAAAAATTCTTTCATTTT
CATTAGTTTTTGAATTTTTTCTTGAAATTCTCTTATTTTCTAAATACGAAGTTTTCTATTCCATA
AATTTTTTCGAGAGGATTTTTCTTGTTTTTAATTT
Found at i:700784 original size:28 final size:28
Alignment explanation
Indices: 700655--701457 Score: 942
Period size: 28 Copynumber: 27.9 Consensus size: 28
700645 AAAAAAAAAA
*
700655 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
*
700686 AGTTGCCACTGACTCTTGTGGGCTTTGAAAAG
1 -GGTGCCACTGA--CTTGTGGGCTTTG-AAAG
* * *
700718 AGTTACCACT-ATCTTATGGGCTTTGAAAAG
1 -GGTGCCACTGA-CTTGTGGGCTTTG-AAAG
*
700748 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
700776 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
700804 GATGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
700833 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
700861 AGTGTCACCGACTTGTAGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
700889 GGTGCCACTGACTTGTAGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
700917 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
700945 GATGCCACTAACTTGTGGGCTTTGGAAAAG
1 GGTGCCACTGACTTGTGGGCTTT-G-AAAG
* *
700975 AGTGCCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
701003 GGTGCCACTGACTTGTGAGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
701031 AGTGCCACTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
701059 GGTGCCACTGACTTGCGAGGGCTTTGAAAG
1 GGTGCCACTGACTT--GTGGGCTTTGAAAG
* *
701089 AGTGCCACTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
701117 GGTGCCACTGACTTGCGAGGGCTTTGAAAG
1 GGTGCCACTGACTT--GTGGGCTTTGAAAG
* *
701147 AGTGCCACTGACTTTTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
701175 GGTGCCATTGACTCGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
701204 AGTGCCACTAACTTGCGTGAGCTTTGAAAG
1 GGTGCCACTGACTT--GTGGGCTTTGAAAG
*
701234 GGTGCCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
701262 GATGCCACTGACTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
701290 GGTACCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
701318 GGTGCCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
701347 AGTGCCATTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
701375 GGTGCTACTGACTTGTGGGCTTTGAAAAT
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * * * * *
701404 AGTGTCACTAATTTGTAGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
701432 GGTGCCACTAACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
701458 GAGATGAACG
Statistics
Matches: 669, Mismatches: 87, Indels: 34
0.85 0.11 0.04
Matches are distributed among these distances:
28 411 0.61
29 103 0.15
30 109 0.16
31 10 0.01
32 34 0.05
33 1 0.00
34 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:701012 original size:114 final size:113
Alignment explanation
Indices: 700650--701454 Score: 939
Period size: 114 Copynumber: 7.0 Consensus size: 113
700640 TTCTAAAAAA
* *
700650 AAAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACTGACTCTTGTGGGCTTTGAA
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTGA--CTTGTGGGCTTTG-A
* * *
700715 AAGAGTTACCACT-ATCTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
59 AAG-GATGCCACTGA-CTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * *
700771 GAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGA-
* * *
700835 TGCCACTGACTTGTGGGCTTTG-AAAGAGTGTCACCGACTTGTAGGCTTT
64 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* *
700884 GAAAGGGTGCCACTGACTTGTAGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATG
*
700949 CCACTAACTTGTGGGCTTTGGAAAAGAGTGCCACTGACTTGTGGGCTTT
66 CCACTGACTTGTGGGCTTT-GAAAAGAGTGCCACTGACTTGTGGGCTTT
*
700998 AAAAGGGTGCCACTGACTTGTGAGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGGA
*
701061 TGCCACTGACTTGCGAGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTT
64 TGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* *
701112 GAAAA-GGTGCCACTGACTTGCGAGGGCTTTG-AAAGAGTGCCACTGACTTTTGGGCTTTGAAAG
1 -AAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
701175 GGTGCCATTGACTCGTGGGCTTTGAAAAGAGTGCCACTAACTTGCGTGAGCTTT
62 GATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTT
* * *
701229 GAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGT
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGAT
* * *
701293 ACCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTT
65 GCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* * * **
701341 GAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGGTGCTACTGACTTGTGGGCTTTGAAAATAG
1 -AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGA-
* * * * * *
701406 TGTCACTAATTTGTAGGCTTT-AAAAGGGTGCCACTAACTTGTGGGCTTT
64 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
701455 GAAGAGATGA
Statistics
Matches: 607, Mismatches: 54, Indels: 53
0.85 0.08 0.07
Matches are distributed among these distances:
112 28 0.05
113 131 0.22
114 227 0.37
115 103 0.17
116 56 0.09
117 31 0.05
118 4 0.01
119 11 0.02
120 1 0.00
121 15 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (113 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATG
CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
Found at i:702700 original size:26 final size:24
Alignment explanation
Indices: 702669--702724 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
702659 TTTTTTGTTA
*
702669 TTTTTTCTTGGTTTTTTATTTATTT
1 TTTTTTCTTGGTTTTTTAGTT-TTT
* *
702694 GTTTTTTTTTGTTTTTTTAGTTTTT
1 -TTTTTTCTTGGTTTTTTAGTTTTT
702719 TTTTTT
1 TTTTTT
702725 AGTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 3 0.11
26 18 0.67
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (24 bp):
TTTTTTCTTGGTTTTTTAGTTTTT
Found at i:702702 original size:19 final size:18
Alignment explanation
Indices: 702680--702724 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
702670 TTTTTCTTGG
* *
702680 TTTTTTATTTATTT-GTT
1 TTTTTTTTTTTTTTAGTT
702697 TTTTTTTGTTTTTTTAGTT
1 TTTTTTT-TTTTTTTAGTT
702716 TTTTTTTTT
1 TTTTTTTTT
702725 AGTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTTTTAGTT
Found at i:702717 original size:14 final size:13
Alignment explanation
Indices: 702680--702734 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
702670 TTTTTCTTGG
702680 TTTTTTA-TTTATT
1 TTTTTTAGTTT-TT
702693 TGTTTTT--TTTTGT
1 T-TTTTTAGTTTT-T
702706 TTTTTTAGTTTTT
1 TTTTTTAGTTTTT
702719 TTTTTTAGTTTTT
1 TTTTTTAGTTTTT
702732 TTT
1 TTT
702735 GGGTATGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.16
13 23 0.61
14 9 0.24
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (13 bp):
TTTTTTAGTTTTT
Found at i:702734 original size:13 final size:12
Alignment explanation
Indices: 702680--702734 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 12
702670 TTTTTCTTGG
702680 TTTTTTATTTATT
1 TTTTTTATTT-TT
702693 TGTTTTT-TTTTGT
1 T-TTTTTATTTT-T
702706 TTTTTTAGTTTTT
1 TTTTTTA-TTTTT
*
702719 TTTTTTAGTTTT
1 TTTTTTATTTTT
702731 TTTT
1 TTTT
702735 GGGTATGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
12 14 0.38
13 14 0.38
14 9 0.24
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:714836 original size:16 final size:16
Alignment explanation
Indices: 714815--714845 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
714805 ATTAATTGAC
714815 AACTTAGAGATTTGTA
1 AACTTAGAGATTTGTA
714831 AACTTAGAGATTTGT
1 AACTTAGAGATTTGT
714846 CCAGATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (16 bp):
AACTTAGAGATTTGTA
Found at i:717222 original size:13 final size:13
Alignment explanation
Indices: 717206--717231 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
717196 TAGGGCAACT
717206 TTGTATCGATACA
1 TTGTATCGATACA
717219 TTGTATCGATACA
1 TTGTATCGATACA
717232 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:718221 original size:39 final size:39
Alignment explanation
Indices: 718158--718318 Score: 115
Period size: 39 Copynumber: 3.9 Consensus size: 39
718148 AAAGATGAAG
* * * * *
718158 GTGCCTATGTGCTGGTTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* *
718197 GTGCCAATATGCTGATTCATGGCCAGCAACATTGGTCTTAAGAAT
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGC-T-----T
* * * * *
718242 AAGGTGCCAATATGTTGATTCAAGGCCAACAATATTAGGCTC
1 ---GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
* *
718284 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGG
718319 TCTTAAAGAC
Statistics
Matches: 93, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
39 59 0.63
40 1 0.01
45 1 0.01
47 1 0.01
48 31 0.33
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGGCTT
Found at i:718269 original size:48 final size:46
Alignment explanation
Indices: 718197--718606 Score: 328
Period size: 48 Copynumber: 8.9 Consensus size: 46
718187 TATTGGGCTT
* * * *
718197 GTGCCAATATGCTGATTCATGGCCAGCAACATTGGTCTTAAGAATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-AATAAG
* * * *
718245 GTGCCAATATGTTGATTCAAGGCCAACAATATTAGG-C-----T--C
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAATAAG
* * * *
718284 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-ATAAG
*
718332 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT--A-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATAAG
* * * * * * * *
718375 GTGCCAATGTGATGATTTAAGGCTAGCGACATTAGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-ATAAG
* *
718423 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-A---T-AAG
* *
718474 GTGCCAATATGCTAATTCTAGGCCAGCGATATTGGACTT--A-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATAAG
* * *
718517 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTA-TTAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG-ACTTAA-AT-AAG
718565 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
718607 GGTGCCACGG
Statistics
Matches: 291, Mismatches: 44, Indels: 55
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.01
39 29 0.10
41 1 0.00
43 69 0.24
44 2 0.01
46 1 0.00
47 7 0.02
48 140 0.48
49 2 0.01
51 38 0.13
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (46 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATAAG
Found at i:718413 original size:91 final size:87
Alignment explanation
Indices: 718110--718460 Score: 409
Period size: 87 Copynumber: 4.0 Consensus size: 87
718100 ATGTTAAAGA
* ** * * * * * *
718110 TGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGGTGCCTATGTGCTGGTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
* *
718175 CAAGGCCAGCGATATTGGGCTTG
65 CAAGGCCAACGATATTGGACTTG
* * * * *
718198 TGCCAATATGCTGATTCATGGCCAGCAACATTGGTCTT-AAGAATAAGGTGCCAATATGTTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG-ACAAGGTGCCAATATGCTGATT
* *
718262 CAAGGCCAACAATATTAGG-CTCG
65 CAAGGCCAACGATATT-GGACTTG
718285 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
718350 AAGGCCAACGATATTGGACTTAAAGG
66 AAGGCCAACGATATTGGACTT----G
* * * *
718376 TGCCAATGTGATGATTTAAGGCTAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
* *
718441 AAGGCCAGCGATATTAGACT
66 AAGGCCAACGATATTGGACT
718461 CAAGATGGTA
Statistics
Matches: 228, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.01
87 108 0.47
88 38 0.17
91 80 0.35
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAACGATATTGGACTTG
Found at i:718539 original size:142 final size:139
Alignment explanation
Indices: 718284--718607 Score: 463
Period size: 142 Copynumber: 2.3 Consensus size: 139
718274 TATTAGGCTC
* * * * *
718284 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAGACAAGGTGCCAATATGCTAATT
* *
718349 CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGATGATTTAAGGCTAGCGACATTAGTCTT
66 CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGATGATTCAAGGCTAGCGACATTAGTATT
*
718414 AAAGA-CAAG
131 -AAGATAAAG
*
718423 GTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTCAAGATGGTA-AAGGTGCCAATATGCT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAA-A--G-ACAAGGTGCCAATATGCT
* * * *
718487 AATTCTAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGG
62 AATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGATGATTCAAGGCTAGCGACATTAG
718552 TATTAAGATAAAG
127 TATTAAGATAAAG
*
718565 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAG
718608 GTGCCACGGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
139 37 0.22
140 1 0.01
141 5 0.03
142 121 0.73
143 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (139 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAGACAAGGTGCCAATATGCTAATT
CAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGATGATTCAAGGCTAGCGACATTAGTATT
AAGATAAAG
Found at i:718600 original size:91 final size:92
Alignment explanation
Indices: 718284--718613 Score: 334
Period size: 91 Copynumber: 3.6 Consensus size: 92
718274 TATTAGGCTC
* *
718284 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-ACAAGGTGCCAATATGCTGATT
* *
718349 CAAGGCCAACGATATTGGACT----TAAAG
63 CAAGGCCAGCGATATTGGATTAAGATAAAG
* * * * * *
718375 GTGCCAATGTGATGATTTAAGGCTAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT--A-ACAAGGTGCCAATATGCTGATT
* *
718440 CAAGGCCAGCGATATTAGACTCAAGATGGTAAAG
63 CAAGGCCAGCGATATTGGA-TTAAGA---TAAAG
* * * *
718474 GTGCCAATATGCTAATTCTAGGCCAGCGATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAACAAGGTGCCAATATGCTGATTCAA
* *
718537 GGCTAGCGACATTGGTATTAAGATAAAG
66 GGCCAGCGATATTGG-ATTAAGATAAAG
*
718565 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-AAGGTGCCA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAACAAGGTGCCA
718614 CGGAGTTGTG
Statistics
Matches: 206, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
91 130 0.63
94 39 0.19
95 2 0.01
99 35 0.17
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAACAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGATTAAGATAAAG
Found at i:718708 original size:27 final size:27
Alignment explanation
Indices: 718670--718729 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
718660 CTTAAAAGGG
*
718670 AAAAAGGTGCCAC-GAAGTTATGGACTT
1 AAAAGGGTGCCACAG-AGTTATGGACTT
*
718697 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
718724 AAAAGG
1 AAAAGG
718730 AAAAAGAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTATGGACTT
Found at i:718793 original size:33 final size:33
Alignment explanation
Indices: 718704--720062 Score: 859
Period size: 33 Copynumber: 42.6 Consensus size: 33
718694 CTTAAAAGGG
*
718704 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * * * *
718737 GTGCAATGGAGTCGTGGATTTAAAAGGAAAGAGA
1 -TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
718771 TGCCACGGGGTTGTGGACTTAAAA-G----TG-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
718798 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
718832 TGCCA-TGAGTTGTGGACTTAAAAGGAACAAAG-
1 TGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGA
*
718864 TGCCACGGAGTTATGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
718897 TGCCATGGAGTTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
718924 TGTCACAGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * * *
718957 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 -TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
* * *
718992 TGCCATGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
719025 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
719058 TGGCACGGAGTTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
719085 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGA
* * * * *
719119 GTGCCATGGAGTTGTGGGCTTTAAAAAGACAAAGG
1 -TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
719154 TGCCACGGAGTTATGGACTTAAAAGGAACAAAG-
1 TGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGA
719187 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
**
719220 TGCCACGGAGTCATGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
719247 TGCCACGGAGTTATGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
719280 TGCCACGAAGTTGTGGACTTAAAAGGAAAAATA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
719313 TGCCACTAGAGTTGTGGACTTAAAAGG-----G-
1 TGCCAC-GGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
719341 TGCCACGGAGTTGTGGCCTTAAAAGGAGAAAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
719374 TGCCACGGAGTTGTGGACTTTGAGAA-G-AAAAGA
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGA
* ** ** *
719407 TGCCACTGAGTCATGGACTTGGAA-GAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
**
719439 TGCCATTGAGTTGTGGACTT---A-GAAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGA
* * ** *
719469 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* ** *
719502 TGCCACTGG-GTCGTGGACTT-TGA-GATAAGAGA
1 TGCCAC-GGAGTTGTGGACTTAAAAGGA-AAAAGA
** * * *
719534 TGCCATTGAGTTGTGGACTT---TGGGACAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
719564 TGCCACCGAGTCGTGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
**
719597 TGCCATAGAGTTGTGGACTTAAAAGG-----G-
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
719624 TGCCACAGAGTTATGGACTTAAAAGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* *
719657 GTGCCACAGAGTTGTGGGCTTTTAAAA-GAAAAATG-
1 -TGCCACGGAGTTGTGGAC--TTAAAAGGAAAAA-GA
* *
719692 TGCCAC-GAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * * *
719724 TGCCACTGAGTCGTGGACTTGGAAA--AAAAGGA
1 TGCCACGGAGTTGTGGACTT-AAAAGGAAAAAGA
** *
719756 TGCCACTAAGTCGTGGACTT---A-GAAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGA
* * * ** *
719786 TGCTACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * **
719819 TGCCATTGG-GTCGTGGACTT-TGA-GAAAAGAGA
1 TGCCA-CGGAGTTGTGGACTTAAAAGGAAAA-AGA
* * * *
719851 TGCCACTGAGTTGTGGACTT---TGGGACAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
** ** ** *
719881 TGCCATTGAGTCATGGACTT-TGAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * **
719913 TGCCACTGAATTGTGGACTTTGAA-G-AAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * ** *
719944 TGCCACTGAGTCGTGGACTT-TGA-G-AAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* * *
719974 TTGCCACTGAGTCGTGGACTTTAAGAA-GAAAAAAA
1 -TGCCACGGAGTTGTGGAC-TTAA-AAGGAAAAAGA
* * ** *
720009 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAG-GAAAAAGA
* * *
720043 TGCTACTGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTT
720063 TGAGAAGAGA
Statistics
Matches: 1078, Mismatches: 156, Indels: 182
0.76 0.11 0.13
Matches are distributed among these distances:
27 131 0.12
28 18 0.02
29 11 0.01
30 88 0.08
31 64 0.06
32 151 0.14
33 371 0.34
34 183 0.17
35 47 0.04
36 14 0.01
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:718921 original size:26 final size:26
Alignment explanation
Indices: 718891--718948 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
718881 CTTAAAAGGA
**
718891 AAAAGATGCCATGGAGTTGTGGACTT
1 AAAAGATGCCACAGAGTTGTGGACTT
* *
718917 AAAAGGGTGTCACAGAGTTGTGGACTT
1 AAAA-GATGCCACAGAGTTGTGGACTT
718944 AAAAG
1 AAAAG
718949 GAAAAAGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.24
Consensus pattern (26 bp):
AAAAGATGCCACAGAGTTGTGGACTT
Found at i:719197 original size:162 final size:160
Alignment explanation
Indices: 718597--719393 Score: 967
Period size: 162 Copynumber: 5.0 Consensus size: 160
718587 CCAGCGATAT
* * *
718597 TGGACTT-AAA-GGTGCCACGGAGTTGTGGACTT-ACAGGAAAAAAGAATGCCACGGAGGTGTGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACGGAGTTGTGG
* * * *
718659 GC-TTAAAAGGGAAAAAGGTGCCACGAAGTTATGGACTTAAAAGG-----GTGCCACAGAGTTGT
65 GCTTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGTGCCACGGAGTTGT
* * *
718718 GGACTTAAAAGGAAAAAGAGTGCAATGGAGTCG
129 GGACTTAAAAGGAAAAAGA-TGCCACGGAGTTG
* * *
718751 TGGATTTAAAAGGAAAGAGATGCCACGGGGTTGTGGACTT-------AAAAGTGTGCCACGGAGT
1 TGGACTTAAAA-G---G-G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
*
718809 TGTGGGCTTTAAAAAGAAAAAGGTGCCA-TGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGA
60 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC-AAGTGCCACGGA
* *
718873 GTTATGGACTTAAAAGGAAAAAGATGCCATGGAGTTG
124 GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTG
* * *
718910 TGGACTTAAAAGGGTGTCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
*
718975 CTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTG
66 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAA-GTGCCACGGAGTTGTG
*
719040 GACTTAAAAGGAAAAAGATGGCACGGAGTTG
130 GACTTAAAAGGAAAAAGATGCCACGGAGTTG
*
719071 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAGAGTGCCATGGAGTTGTGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACGGAGTTGTGG
* *
719136 GCTTTAAAAAGACAAAGGTGCCACGGAGTTATGGACTTAAAAGGAACAAAGTGCCACGGAGTTGT
65 GCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC-AAGTGCCACGGAGTTGT
**
719201 GGACTTAAAAGGAAAAAGATGCCACGGAGTCA
129 GGACTTAAAAGGAAAAAGATGCCACGGAGTTG
* * * *
719233 TGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAACAAG-GTGCCACGAAGTTGTGGA
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
* ** *
719297 C-TTAAAAGGAAAAATATGCCACTAGAGTTGTGGACTTAAAAGG-----GTGCCACGGAGTTGTG
66 CTTTAAAAAGAAAAAGGTGCCAC-GGAGTTGTGGACTTAAAAGGAACAAGTGCCACGGAGTTGTG
* * *
719356 GCCTTAAAAGGAGAAAGTTGCCACGGAGTTG
130 GACTTAAAAGGAAAAAGATGCCACGGAGTTG
719387 TGGACTT
1 TGGACTT
719394 TGAGAAGAAA
Statistics
Matches: 567, Mismatches: 49, Indels: 54
0.85 0.07 0.08
Matches are distributed among these distances:
153 17 0.03
154 73 0.13
155 39 0.07
156 6 0.01
158 1 0.00
159 38 0.07
160 113 0.20
161 110 0.19
162 168 0.30
163 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.21
Consensus pattern (160 bp):
TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGTGCCACGGAGTTGTGG
ACTTAAAAGGAAAAAGATGCCACGGAGTTG
Found at i:719305 original size:60 final size:60
Alignment explanation
Indices: 719113--719305 Score: 217
Period size: 60 Copynumber: 3.1 Consensus size: 60
719103 TTAAAAGGAA
* * * *
719113 AAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAG-ACAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAC-AAGGTGCCACGGAGTTATGGACTT
* * *
719174 AAAAGGAACAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTCATGGACT
1 AAAAGG------GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACT
719239 T
60 T
* * *
719240 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTT
719300 AAAAGG
1 AAAAGG
719306 AAAAATATGC
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
60 54 0.48
61 5 0.04
66 35 0.31
67 18 0.16
ACGTcount: A:0.36, C:0.14, G:0.31, T:0.19
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTT
Found at i:719346 original size:28 final size:27
Alignment explanation
Indices: 719313--719366 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
719303 AGGAAAAATA
719313 TGCCACTAGAGTTGTGGACTTAAAAGGG
1 TGCCAC-AGAGTTGTGGACTTAAAAGGG
* *
719341 TGCCACGGAGTTGTGGCCTTAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGG
719367 AGAAAGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:719473 original size:62 final size:62
Alignment explanation
Indices: 719369--720062 Score: 488
Period size: 62 Copynumber: 10.9 Consensus size: 62
719359 TTAAAAGGAG
* * * * * *
719369 AAAGTTGCCACGGAGTTGTGGACTTTGAGAAGAAAAGATGCCACTGAGTCATGGACTTGGAAGA
1 AAAGATGCCACTGAGTCGTGGAC-TTAAGAA-AAGAGATGCCACTGAGTCGTGGACTTGGAAGA
* * *
719433 AAAGGATGCCATTGAGTTGTGGACTT-AGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAA
1 AAA-GATGCCACTGAGTCGTGGACTTAAGAAAAGAGATGCCACTGAGTCGTGGACTTGGAAG--A
* * * * *
719497 AAAGATGCCACTGGGTCGTGGACTTTGAGATAAGAGATGCCATTGAGTTGTGGACTTTGG--GA
1 AAAGATGCCACTGAGTCGTGGAC-TTAAGAAAAGAGATGCCACTGAGTCGTGGAC-TTGGAAGA
* * *
719559 CAAGATGCCACCGAGTCGTGGACTTAAAAGGAAAA-AGATGCCA-TAGAGTTGTGGACTT---A-
1 AAAGATGCCACTGAGTCGTGGACTT--AA-GAAAAGAGATGCCACT-GAGTCGTGGACTTGGAAG
719618 A
62 A
* * * ** * * * **
719619 AAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAA-AGAGTGCCACAGAGTTGTGGGCTTTTAAA
1 AAAGATGCCACTGAGTCGTGGACTT--AA-GAAAAGAGA-TGCCACTGAGTCGTGGAC--TTGGA
719683 AGA
60 AGA
*
719686 AAA-ATGTGCCAC-GAGTTGTGGACTTAAAAGGAACAAG-G-TGCCACTGAGTCGTGGACTTGGA
1 AAAGA--TGCCACTGAGTCGTGGACTT--AA-GAA-AAGAGATGCCACTGAGTCGTGGACTTGGA
*
719747 AAA
60 AGA
* * *
719750 AAAGGATGCCACTAAGTCGTGGACTT-AGAAAAGAGATGCTACTGAGTCGTGGACTTTGAAGAAA
1 AAA-GATGCCACTGAGTCGTGGACTTAAGAAAAGAGATGCCACTGAGTCGTGGACTTGGAAG--A
* * * *
719814 AAAGATGCCATTGGGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGG--GA
1 AAAGATGCCACTGAGTCGTGGAC-TTAAGAAAAGAGATGCCACTGAGTCGTGGAC-TTGGAAGA
* * * * * * * *
719876 CAAGATGCCATTGAGTCATGGACTTTGAGAAAAAAGATGCCACTGAATTGTGGACTTTGAAGA
1 AAAGATGCCACTGAGTCGTGGAC-TTAAGAAAAGAGATGCCACTGAGTCGTGGACTTGGAAGA
* * *
719939 AAAGATGCCACTGAGTCGTGGACTT-TGAGAAGAGATTGCCACTGAGTCGTGGACTTTAAGAAGA
1 AAAGATGCCACTGAGTCGTGGACTTAAGAAAAGAGA-TGCCACTGAGTCGTGGAC-TT-GGAAG-
720003 A
62 A
* * *
720004 AAAAATGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCTACTGAGTCGTGGACTT
1 AAAGATGCCACTGAGTCGTGGAC-TT-AAG-AAAAGAGATGCCACTGAGTCGTGGACTT
720063 TGAGAAGAGA
Statistics
Matches: 521, Mismatches: 66, Indels: 83
0.78 0.10 0.12
Matches are distributed among these distances:
60 36 0.07
61 31 0.06
62 144 0.28
63 84 0.16
64 41 0.08
65 102 0.20
66 25 0.05
67 25 0.05
68 27 0.05
69 6 0.01
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (62 bp):
AAAGATGCCACTGAGTCGTGGACTTAAGAAAAGAGATGCCACTGAGTCGTGGACTTGGAAGA
Found at i:719489 original size:95 final size:95
Alignment explanation
Indices: 719334--720070 Score: 541
Period size: 95 Copynumber: 7.7 Consensus size: 95
719324 TTGTGGACTT
* * * * * * *
719334 AAAAGGGTGCCACGGAGTTGTGGCCTTAAAAGGAGAAAGTTGCCACGGAGTTGTGGACTTTGAGA
1 AAAAGGATGCCACTGAGTTGTGGACTTAGAA--A-AAAGATGCCACTGAGTCGTGGACTTTGAGA
* *
719399 AGAAAAGATGCCACTGAGTCATGGACTTGGAAG
63 AGAAAAGATGCCACTGAGTCGTGGACTTAGAAG
* *
719432 AAAAGGATGCCATTGAGTTGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAA-
1 AAAAGGATGCCACTGAGTTGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGACTTTG-AGAAG
* *
719496 AAAAGATGCCACTGGGTCGTGGACTTTG-AG
65 AAAAGATGCCACTGAGTCGTGGACTTAGAAG
* * * ** * * *
719526 ATAAGAGATGCCATTGAGTTGTGGACTTTGGGACAAGATGCCACCGAGTCGTGGAC-TT-AAAAG
1 AAAAG-GATGCCACTGAGTTGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAA-
*
719589 GAAAAAGATGCCA-TAGAGTTGTGGACTT-----
64 G-AAAAGATGCCACT-GAGTCGTGGACTTAGAAG
* * * * * * * * *
719617 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTTAA
1 AAAAGGATGCCACTGAGTTGTGGACTT---AGAAAAAAGA-TGCCACTGAGTCGTGGACTTTGAG
* *
719682 AAGAAAA-ATGTGCCAC-GAGTTGTGGACTTAAAAGG
62 AAGAAAAGA--TGCCACTGAGTCGTGGACTTAGAA-G
* * *
719717 AACAAGG-TGCCACTGAGTCGTGGACTTGGAAAAAAAGGATGCCACTAAGTCGTGGAC-TT-AGA
1 AA-AAGGATGCCACTGAGTTGTGGACTTAG-AAAAAA-GATGCCACTGAGTCGTGGACTTTGAGA
* * *
719779 A-AAGAGATGCTACTGAGTCGTGGACTTTGAAG
63 AGAAAAGATGCCACTGAGTCGTGGACTTAGAAG
* * * * * *
719811 AAAAAAGATGCCATTGGGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTG-G-
1 -AAAAGGATGCCACTGAGTTGTGGAC-TT-AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGA
* * *
719874 -GACAAGATGCCATTGAGTCATGGACTTTGAGAA-
63 AGAAAAGATGCCACTGAGTCGTGGAC-TT-AGAAG
* *
719907 AAAA-GATGCCACTGAATTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAG
1 AAAAGGATGCCACTGAGTTGTGGACTTAGAA-AAAAGATGCCACTGAGTCGTGGACTTTGAGAAG
719971 ---AGATTGCCACTGAGTCGTGGACTTTAAGAAG
65 AAAAGA-TGCCACTGAGTCGTGGAC-TT-AGAAG
** * *
720002 AAAAAAATGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCTACTGAGTCGTGGACTTTGAG
1 AAAAGGATGCCACTGAGTTGTGGAC-TT--AG-AAAAAAGATGCCACTGAGTCGTGGACTTTGAG
720067 AAGA
62 AAGA
720071 GATATTTGAA
Statistics
Matches: 516, Mismatches: 76, Indels: 92
0.75 0.11 0.13
Matches are distributed among these distances:
90 18 0.03
91 4 0.01
92 6 0.01
93 39 0.08
94 90 0.17
95 202 0.39
96 43 0.08
97 9 0.02
98 45 0.09
99 35 0.07
100 21 0.04
101 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (95 bp):
AAAAGGATGCCACTGAGTTGTGGACTTAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGA
AAAGATGCCACTGAGTCGTGGACTTAGAAG
Found at i:719628 original size:27 final size:27
Alignment explanation
Indices: 719597--719649 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
719587 AGGAAAAAGA
* *
719597 TGCCATAGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTATGGACTTAAAAGGG
719624 TGCCACAGAGTTATGGACTTAAAAGG
1 TGCCACAGAGTTATGGACTTAAAAGG
719650 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (27 bp):
TGCCACAGAGTTATGGACTTAAAAGGG
Found at i:719661 original size:34 final size:33
Alignment explanation
Indices: 719617--719776 Score: 150
Period size: 32 Copynumber: 4.8 Consensus size: 33
719607 TTGTGGACTT
* *
719617 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
*
719650 AAAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAA-G
1 AAAAAG-GTGCCACAGAGTTGTGGAC--TTAAAAGG
*
719685 AAAAATGTGCCAC-GAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* * * **
719717 AACAAGGTGCCACTGAGTCGTGGACTTGGAA--
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
*
719748 AAAAAGGATGCCACTA-AGTCGTGGACTTA
1 AAAAAGG-TGCCAC-AGAGTTGTGGACTTA
719777 GAAAAGAGAT
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
31 12 0.11
32 30 0.28
33 29 0.27
34 24 0.22
35 6 0.06
36 6 0.06
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:719728 original size:127 final size:124
Alignment explanation
Indices: 718597--719743 Score: 662
Period size: 127 Copynumber: 9.1 Consensus size: 124
718587 CCAGCGATAT
* * *
718597 TGGACTT-AAA-GGTGCCACGGAGTTGTGGACTT-ACAGGAAAAAAGAATGCCACGGAGGTGTGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACGGAGTTGTGG
* * *
718659 GCTTAAAAGGGAAAAAGGTGCCACGAAGTTATGGACTTAAAA-G-----GGTGCCACAGAGTTG
65 ACTTAAAA--GAAAAA-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCAC-GAGTTG
* * * * * *
718717 TGGACTTAAAAGGAAAAAGAGTGCAATGGAGTCGTGGATTTAAAAGGAAAGAGA-TGCCACGGGG
1 TGGACTTAAAA-G-----G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAG
* * * *
718781 TTGTGGACTTAAAAG----TGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGAGT
59 TTGTGGACTTAAAAGAAAAAGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGAGT
718842 TG
123 TG
* *
718844 TGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGA-TGCCATGGAGT
1 TGGACTTAAAAGG------GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
* * *
718908 TGTGGACTTAAAAG----GGTGTCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGT
60 TGTGGACTTAAAAGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCAC-GAGT
718969 TG
123 TG
* * *
718971 TGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGGAG
1 TGGAC-TT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAG
*
719035 TTGTGGACTTAAAAGGAAAAAGATGGCACGGAGTTGTGGACTTAAAA-G-----GGTGCCACGGA
59 TTGTGGACTTAAAA-GAAAAAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCAC-GA
719094 GTTG
121 GTTG
* * * *
719098 TGGACTTAAAAGGAAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGACAAAG-GTGCCACGG
1 TGGACTTAAAA-G------G-GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGG
* *
719162 AGTTATGGACTTAAAAGGAACAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACG
57 AGTTGTGGACTTAAAA-GAA-AAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCAC-
**
719227 GAGTCA
119 GAGTTG
* * *
719233 TGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAACAAG-GTGCCACGAAGTTGTGGA
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGA
* *
719297 CTTAAAAGGAAAAATATGCCACTAGAGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTTG
66 CTTAAAA-GAAAAA-GTGCCAC-GGAGTTGTGGACTTAAAAGGAAAAAGGTGCCAC-GAGTTG
* * *
719354 TGGCCTTAAAAGGAGAAAGTTGCCACGGAGTTGTGGACTTTGAGAA-G-AAAAGA-TGCCACTGA
1 TGGACTTAAAA-G-G---G-TGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGA
** ** * ** *
719416 GTCATGGACTTGGAAGAAAAGGATGCCATTGAGTTGTGGACTT---A-GAAAAGAGATGCCACTG
58 GTTGTGGACTTAAAAGAAAAAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAA-AGGTGCCAC-G
*
719477 AGTCG
120 AGTTG
* * * ** * **
719482 TGGACTTTGAAGAAAAAAGATGCCACTGG-GTCGTGGACTT-TGA-G-ATAAGAGATGCCATTGA
1 TGGAC-TT-----AAAAGGGTGCCAC-GGAGTTGTGGACTTAAAAGGAAAAAGAG-TGCCACGGA
** * * * * * *
719543 GTTGTGGACTT--TGGGACAAGATGCCACCGAGTCGTGGACTTAAAAGGAAAAAGATGCCATAGA
58 GTTGTGGACTTAAAAGAAAAAG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCA-CGA
719606 GTTG
121 GTTG
* * * *
719610 TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGA
* *
719675 CTTTTAAAAGAAAAATGTGCCAC-GAGTTGTGGACTTAAAAGGAACAAGGTGCCACTGAGTCG
66 C--TTAAAAGAAAAA-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCAC-GAGTTG
719737 TGGACTT
1 TGGACTT
719744 GGAAAAAAAG
Statistics
Matches: 819, Mismatches: 117, Indels: 175
0.74 0.11 0.16
Matches are distributed among these distances:
120 7 0.01
121 43 0.05
122 29 0.04
123 3 0.00
124 16 0.02
125 68 0.08
126 137 0.17
127 183 0.22
128 166 0.20
129 104 0.13
130 9 0.01
132 1 0.00
133 2 0.00
134 28 0.03
135 23 0.03
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (124 bp):
TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGA
CTTAAAAGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAGTTG
Found at i:719835 original size:317 final size:316
Alignment explanation
Indices: 719334--719932 Score: 895
Period size: 317 Copynumber: 1.9 Consensus size: 316
719324 TTGTGGACTT
* * * *
719334 AAAAGGGTGCCACGGAGTTGTGGCCTTAAAAGGAGAAAGTTGCCACGGAGTTGTGGACTTTGAGA
1 AAAAGAGTGCCACAGAGTTGTGGCCTTAAAAGGAAAAAGTTGCCACGGAGTTGTGGACTTTGAAA
* * * *
719399 AGAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCATTGAGTTGTGGACTTAGAAA
66 AGAAAAGATGCCACTGAGTCATGGACTTGGAAAAAAAGGATGCCACTAAGTCGTGGACTTAGAAA
*
719464 AGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGGGTCGTGGACTTTGAGATA
131 AGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGGGTCGTGGACTTTGAGAAA
* * *
719529 AGAGATGCCATTGAGTTGTGGACTTTGGGACAAGATGCCACCGAGTCGTGGACTTAAAAGGAAAA
196 AGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCACCGAGTCATGGACTT-AAAGAAAAA
*
719594 AGATGCCA-TAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGA
260 AGATGCCACT-GAATTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGA
*
719651 AAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAA-GAAAAA-TGTGCCAC-GAGTTGTGGAC-TT-
1 AAAAGAGTGCCACAGAGTTGT-GGC-CTTAAAAGGAAAAAGT-TGCCACGGAGTTGTGGACTTTG
* *
719711 AAAAGGAACAAGGTGCCACTGAGTCGTGGACTTGGAAAAAAAGGATGCCACTAAGTCGTGGACTT
63 AAAA-GAA-AAGATGCCACTGAGTCATGGACTTGGAAAAAAAGGATGCCACTAAGTCGTGGACTT
* *
719776 AGAAAAGAGATGCTACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCATTGGGTCGTGGACTTTG
126 AGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGGGTCGTGGACTTTG
** **
719841 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCATTGAGTCATGGACTTTGAGA
191 AGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCACCGAGTCATGGACTTAAAGA
719906 AAAAAGATGCCACTGAATTGTGGACTT
256 AAAAAGATGCCACTGAATTGTGGACTT
719933 TGAAGAAAAG
Statistics
Matches: 254, Mismatches: 22, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
315 3 0.01
316 31 0.12
317 200 0.79
318 14 0.06
319 6 0.02
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (316 bp):
AAAAGAGTGCCACAGAGTTGTGGCCTTAAAAGGAAAAAGTTGCCACGGAGTTGTGGACTTTGAAA
AGAAAAGATGCCACTGAGTCATGGACTTGGAAAAAAAGGATGCCACTAAGTCGTGGACTTAGAAA
AGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGGGTCGTGGACTTTGAGAAA
AGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCACCGAGTCATGGACTTAAAGAAAAAA
GATGCCACTGAATTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGA
Found at i:720005 original size:317 final size:317
Alignment explanation
Indices: 719374--720062 Score: 890
Period size: 317 Copynumber: 2.2 Consensus size: 317
719364 AGGAGAAAGT
* *
719374 TGCCACGGAGTTGTGGACTTTGAGAA-GAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGG
1 TGCCACGGAGTTGTGGAC-TT-AGAAGGAAAAGATGCCACTGAGTCGTGGACTTGGAAAAAAAGG
* * *
719438 ATGCCATTGAGTTGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGAT
64 ATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGAT
* *
719503 GCCACTGGGTCGTGGACTTTGAGATAAGAGATGCCATTGAGTTGTGGACTTTGGGACAAGATGCC
129 GCCACTGGGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCC
* * * * *
719568 ACCGAGTCGTGGACTTAAAAGGAAAAAGATGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAGA
194 ACCGAGTCATGGACTTAAAAGAAAAAAGATGCCATAGAATTGTGGACTTAAAAAGATGCCACAGA
* * * **
719633 GTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTTAAAAGAAAAATG
259 GTCATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGACTTTTAAAAGAAAAAAA
* *
719692 TGCCAC-GAGTTGTGGACTTAAAAGGAACAAGGTGCCACTGAGTCGTGGACTTGGAAAAAAAGGA
1 TGCCACGGAGTTGTGGACTTAGAAGGAA-AAGATGCCACTGAGTCGTGGACTTGGAAAAAAAGGA
*
719756 TGCCACTAAGTCGTGGACTTAGAAAAGAGATGCTACTGAGTCGTGGACTTTGAAGAAAAAAGATG
65 TGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATG
*
719821 CCATTGGGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCA
130 CCACTGGGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCA
** **
719886 TTGAGTCATGGACTT-TGAGAAAAAAGATGCCACT-GAATTGTGGACTTTGAAGAAAAGATGCCA
195 CCGAGTCATGGACTTAAAAGAAAAAAGATGCCA-TAGAATTGTGGAC-TT--A-AAAAGATGCCA
* * ** * * *
719949 CTGAGTCGTGGACTT-TGA-G-AAGAGATTGCCACTGAGTCGTGGAC-TTTAAGAAGAAAAAAA
255 CAGAGTCATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGACTTTTAA-AAGAAAAAAA
* * * * *
720009 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAAGATGCTACTGAGTCGTGGACTT
1 TGCCACGGAGTTGTGGACTTAGAAG--GAAAAGATGCCACTGAGTCGTGGACTT
720063 TGAGAAGAGA
Statistics
Matches: 322, Mismatches: 38, Indels: 21
0.85 0.10 0.06
Matches are distributed among these distances:
315 3 0.01
316 34 0.11
317 216 0.67
318 22 0.07
319 24 0.07
320 23 0.07
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (317 bp):
TGCCACGGAGTTGTGGACTTAGAAGGAAAAGATGCCACTGAGTCGTGGACTTGGAAAAAAAGGAT
GCCACTAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGC
CACTGGGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGACAAGATGCCAC
CGAGTCATGGACTTAAAAGAAAAAAGATGCCATAGAATTGTGGACTTAAAAAGATGCCACAGAGT
CATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTCGTGGACTTTTAAAAGAAAAAAA
Found at i:721112 original size:13 final size:13
Alignment explanation
Indices: 721091--721115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
721081 TTTTTTCTTC
721091 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
721104 TTTTTTTTGTGT
1 TTTTTTTTGTGT
721116 CGGGAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:721377 original size:14 final size:14
Alignment explanation
Indices: 721356--721398 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 14
721346 GCTTTTGCAC
721356 TTTT-TTTTGTGTG
1 TTTTGTTTTGTGTG
721369 TTTTGTTTTGT-T-
1 TTTTGTTTTGTGTG
*
721381 TTTTGTTTTTTGTG
1 TTTTGTTTTGTGTG
721395 TTTT
1 TTTT
721399 TGTGTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 10 0.38
13 6 0.23
14 10 0.38
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (14 bp):
TTTTGTTTTGTGTG
Found at i:721377 original size:17 final size:17
Alignment explanation
Indices: 721356--721407 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
721346 GCTTTTGCAC
721356 TTTTTTTTGTGTGTTTTG
1 TTTTTTTTGTGT-TTTTG
*
721374 TTTTGTTTTTTGTTTTT-
1 TTTT-TTTTGTGTTTTTG
*
721391 TGTGTTTTTGTGTTTTT
1 T-TTTTTTTGTGTTTTT
721408 ACTTTTAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.41
18 10 0.34
19 7 0.24
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (17 bp):
TTTTTTTTGTGTTTTTG
Found at i:721398 original size:8 final size:8
Alignment explanation
Indices: 721359--721407 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
721349 TTTGCACTTT
721359 TTTTTGTG
1 TTTTTGTG
*
721367 TGTTT-TG
1 TTTTTGTG
721374 -TTTTGT-
1 TTTTTGTG
721380 TTTTTGT-
1 TTTTTGTG
721387 TTTTTGTG
1 TTTTTGTG
721395 TTTTTGTG
1 TTTTTGTG
721403 TTTTT
1 TTTTT
721408 ACTTTTAACT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 3 0.08
7 16 0.44
8 17 0.47
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (8 bp):
TTTTTGTG
Done.