Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 154 of 196
Found at i:45378833 original size:15 final size:14
Alignment explanation
Indices: 45378810--45378852 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
45378800 AAAAACAAAC
45378810 AAAAA-CAGAAAAA
1 AAAAAGCAGAAAAA
45378823 AAAATAGCAG-AAAA
1 AAAA-AGCAGAAAAA
45378837 AAAAAG-AGAAAAA
1 AAAAAGCAGAAAAA
45378850 AAA
1 AAA
45378853 CAAAGCAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.07
13 13 0.48
14 9 0.33
15 3 0.11
ACGTcount: A:0.81, C:0.05, G:0.12, T:0.02
Consensus pattern (14 bp):
AAAAAGCAGAAAAA
Found at i:45379573 original size:18 final size:17
Alignment explanation
Indices: 45379539--45379902 Score: 154
Period size: 17 Copynumber: 20.3 Consensus size: 17
45379529 AAAAAGAAGA
45379539 AAAAATTCTCGTG-TTTC
1 AAAAATT-TCGTGTTTTC
45379556 AAAGAATTTCGTGTTTTC
1 AAA-AATTTCGTGTTTTC
45379574 AAAAAATTCTCGTGTTTT-
1 -AAAAATT-TCGTGTTTTC
45379592 AAAAATTTTCGTGTTTTC
1 AAAAA-TTTCGTGTTTTC
45379610 AAAAATTTTCGTG-TTTC
1 AAAAA-TTTCGTGTTTTC
*
45379627 AAAAATCCTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
** *
45379645 AAAAATCCCG-GTGCTTC
1 AAAAATTTCGTGT-TTTC
* *
45379662 AAAAAAATTTTGTGTTCTC
1 --AAAAATTTCGTGTTTTC
**
45379681 AAAAA-TTC-TGATGATC
1 AAAAATTTCGTG-TTTTC
*
45379697 AAAATTTTTTTTCGTGTTTTC
1 AAAA----ATTTCGTGTTTTC
*
45379718 TAAAAAAATTCCGTG-TTTC
1 ---AAAAATTTCGTGTTTTC
45379737 AAAAATTTTCGTGTTTTTC
1 AAAAA-TTTCGTG-TTTTC
* *
45379756 AACAATTCTCGT-ATTTC
1 AAAAATT-TCGTGTTTTC
* *
45379773 AAAAATTT-TTGCGTTTC
1 AAAAATTTCGTG-TTTTC
** **
45379790 AAAAAAAAATATTGTTTTC
1 --AAAAATTTCGTGTTTTC
* *
45379809 AAAAATTGTCGTGTTCTA
1 AAAAATT-TCGTGTTTTC
*
45379827 AAAAATATTCGTGTTTTT
1 AAAAAT-TTCGTGTTTTC
* *
45379845 AAGAATTTTCGTG-TCTC
1 AA-AAATTTCGTGTTTTC
* * * *
45379862 TAAAACTCTAGTGTTTTAA
1 -AAAAATTTCGTGTTTT-C
45379881 AAAAATTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
45379898 AAAAA
1 AAAAA
45379903 AAAAATTTGT
Statistics
Matches: 265, Mismatches: 45, Indels: 74
0.69 0.12 0.19
Matches are distributed among these distances:
15 3 0.01
16 18 0.07
17 86 0.32
18 84 0.32
19 51 0.19
20 11 0.04
21 6 0.02
22 2 0.01
24 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:45379578 original size:36 final size:35
Alignment explanation
Indices: 45379538--45379903 Score: 202
Period size: 36 Copynumber: 10.2 Consensus size: 35
45379528 AAAAAAGAAG
45379538 AAAAAATTCTCGTGTTTCAAAGAATTTCGTGTTTTC
1 AAAAAATTCTCGTGTTTCAAA-AATTTCGTGTTTTC
*
45379574 AAAAAATTCTCGTGTTTTAAAAATTTTCGTGTTTTC
1 AAAAAATTCTCGTGTTTCAAAAA-TTTCGTGTTTTC
* *
45379610 -AAAAATTTTCGTGTTTCAAAAATCCTCGTGTTTTC
1 AAAAAATTCTCGTGTTTCAAAAAT-TTCGTGTTTTC
* * * *
45379645 -AAAAA-TCCCGGTGCTTCAAAAAAATTTTGTGTTCTC
1 AAAAAATTCTC-GTGTTTC--AAAAATTTCGTGTTTTC
* *
45379681 -AAAAATTCT-GATG-ATCAAAATTTTTTTTCGTGTTTTC
1 AAAAAATTCTCG-TGTTTCAAAA----ATTTCGTGTTTTC
45379718 TAAAAAAATTC-CGTGTTTCAAAAATTTTCGTGTTTTTC
1 --AAAAAATTCTCGTGTTTCAAAAA-TTTCGTG-TTTTC
* * * *
45379756 -AACAATTCTCGTATTTCAAAAATTT-TTGCGTTTC
1 AAAAAATTCTCGTGTTTCAAAAATTTCGTG-TTTTC
* * * *
45379790 AAAAAAAAATATTGT-TTTCAAAAATTGTCGTGTTCT-
1 --AAAAAATTCTCGTGTTTCAAAAATT-TCGTGTTTTC
* * *
45379826 AAAAAATAT-TCGTGTTTTTAAGAATTTTCGTG-TCTC
1 AAAAAAT-TCTCGTG-TTTCAA-AAATTTCGTGTTTTC
* * * *
45379862 -TAAAACTCTAGTGTTTTAAAAAAATTTCGTGTTTTC
1 AAAAAATTCTCGTG-TTT-CAAAAATTTCGTGTTTTC
45379898 AAAAAA
1 AAAAAA
45379904 AAAATTTGTT
Statistics
Matches: 257, Mismatches: 40, Indels: 65
0.71 0.11 0.18
Matches are distributed among these distances:
33 4 0.02
34 19 0.07
35 81 0.32
36 85 0.33
37 44 0.17
38 7 0.03
39 2 0.01
40 15 0.06
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (35 bp):
AAAAAATTCTCGTGTTTCAAAAATTTCGTGTTTTC
Found at i:45379903 original size:18 final size:18
Alignment explanation
Indices: 45379538--45379903 Score: 170
Period size: 18 Copynumber: 20.3 Consensus size: 18
45379528 AAAAAAGAAG
45379538 AAAAAATTCTCGTG-TTTC
1 AAAAAATT-TCGTGTTTTC
*
45379556 AAAGAATTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
45379574 AAAAAATTCTCGTGTTTT-
1 AAAAAATT-TCGTGTTTTC
*
45379592 AAAAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
*
45379610 AAAAATTTTCGTG-TTTC
1 AAAAAATTTCGTGTTTTC
*
45379627 -AAAAATCCTCGTGTTTTC
1 AAAAAAT-TTCGTGTTTTC
** *
45379645 -AAAAATCCCG-GTGCTTC
1 AAAAAATTTCGTGT-TTTC
* *
45379662 AAAAAAATTTTGTGTTCTC
1 -AAAAAATTTCGTGTTTTC
**
45379681 -AAAAA-TTC-TGATGATC
1 AAAAAATTTCGTG-TTTTC
**
45379697 AAAATTTTTTTTCGTGTTTTC
1 AAAA---AATTTCGTGTTTTC
*
45379718 TAAAAAAATTCCGTG-TTTC
1 --AAAAAATTTCGTGTTTTC
*
45379737 AAAAATTTTCGTGTTTTTC
1 AAAAAATTTCGTG-TTTTC
* *
45379756 -AACAATTCTCGT-ATTTC
1 AAAAAATT-TCGTGTTTTC
* * *
45379773 AAAAATTTTTGCG-TTTC
1 AAAAAATTTCGTGTTTTC
** **
45379790 AAAAAAAAATATTGTTTTC
1 -AAAAAATTTCGTGTTTTC
*
45379809 -AAAAATTGTCGTGTTCT-
1 AAAAAATT-TCGTGTTTTC
*
45379826 AAAAAATATTCGTGTTTTT
1 AAAAAAT-TTCGTGTTTTC
* * *
45379845 AAGAATTTTCGTG-TCTC
1 AAAAAATTTCGTGTTTTC
* * * * *
45379862 TAAAACTCTAGTGTTTTA
1 AAAAAATTTCGTGTTTTC
45379880 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTGTTTTC
45379898 AAAAAA
1 AAAAAA
45379904 AAAATTTGTT
Statistics
Matches: 259, Mismatches: 59, Indels: 60
0.69 0.16 0.16
Matches are distributed among these distances:
15 2 0.01
16 12 0.05
17 73 0.28
18 112 0.43
19 40 0.15
20 8 0.03
21 6 0.02
22 2 0.01
23 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (18 bp):
AAAAAATTTCGTGTTTTC
Found at i:45380568 original size:25 final size:25
Alignment explanation
Indices: 45380517--45380596 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
45380507 CCTCTCTCAT
* * * **
45380517 GCCATATAACAGGAAGCTCATGTGA
1 GCCATGTAACGGGAAGCTTATAAGA
* **
45380542 GCCATGTATCGGGAAGCTTATTCGA
1 GCCATGTAACGGGAAGCTTATAAGA
** *
45380567 GCTGTTTAACGGGAAGCTTATAAGA
1 GCCATGTAACGGGAAGCTTATAAGA
45380592 GCCAT
1 GCCAT
45380597 AATCAGAAAG
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (25 bp):
GCCATGTAACGGGAAGCTTATAAGA
Found at i:45380715 original size:23 final size:22
Alignment explanation
Indices: 45380670--45380717 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
45380660 AGATAGCTAT
45380670 ATATCGGGAAGTTCAAGCAAGCC
1 ATATCGGGAAGTTCAAG-AAGCC
45380693 ATATCGGGAAGCTTCGAAG-AGCC
1 ATATCGGGAAG-TTC-AAGAAGCC
45380716 AT
1 AT
45380718 TAATCAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 17 0.74
24 3 0.13
25 3 0.13
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (22 bp):
ATATCGGGAAGTTCAAGAAGCC
Found at i:45380729 original size:25 final size:24
Alignment explanation
Indices: 45380636--45380753 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 24
45380626 GGTAGCTCCG
45380636 AAGAGCCATTAATCAGGAAGCTTC
1 AAGAGCCATTAATCAGGAAGCTTC
* * *
45380660 AGATAGCTA-TATATCGGGAAG-TTC
1 A-AGAGCCATTA-ATCAGGAAGCTTC
*
45380684 AAGCAAGCCA-T-ATCGGGAAGCTTC
1 AAG--AGCCATTAATCAGGAAGCTTC
*
45380708 GAAGAGCCATTAATCAGGAAGCTCAC
1 -AAGAGCCATTAATCAGGAAGCT-TC
*
45380734 AAAGAGCCTTTAATCAGGAA
1 -AAGAGCCATTAATCAGGAA
45380754 AATCACGAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
23 15 0.20
24 11 0.14
25 31 0.41
26 19 0.25
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (24 bp):
AAGAGCCATTAATCAGGAAGCTTC
Found at i:45380741 original size:26 final size:26
Alignment explanation
Indices: 45380709--45380769 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
45380699 GGAAGCTTCG
**
45380709 AAGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCAGGAAAATCACA
* *
45380735 AAGAGCCTTTAATCAGGAAAATCACG
1 AAGAGCCATTAATCAGGAAAATCACA
45380761 AAGAGCCAT
1 AAGAGCCAT
45380770 ATATCGAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAAATCACA
Found at i:45391526 original size:23 final size:23
Alignment explanation
Indices: 45391491--45391599 Score: 148
Period size: 23 Copynumber: 4.7 Consensus size: 23
45391481 ACACTAATAT
* *
45391491 TAGCCGAAGCTACCACTGATATG
1 TAGCTGAAGCTACCACTGAAATG
45391514 TAGCTGTAA-CTACCACTGAAATG
1 TAGCTG-AAGCTACCACTGAAATG
*
45391537 TAGCTGAAGCTACCACTGATATG
1 TAGCTGAAGCTACCACTGAAATG
* * *
45391560 TAGCCGTAGCTACCATTGAAATG
1 TAGCTGAAGCTACCACTGAAATG
45391583 TAGCTGAAGCTACCACT
1 TAGCTGAAGCTACCACT
45391600 AATCAATAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.03
23 70 0.95
24 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
TAGCTGAAGCTACCACTGAAATG
Found at i:45391563 original size:46 final size:46
Alignment explanation
Indices: 45391491--45391599 Score: 182
Period size: 46 Copynumber: 2.4 Consensus size: 46
45391481 ACACTAATAT
* *
45391491 TAGCCGAAGCTACCACTGATATGTAGCTGTAACTACCACTGAAATG
1 TAGCTGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
* *
45391537 TAGCTGAAGCTACCACTGATATGTAGCCGTAGCTACCATTGAAATG
1 TAGCTGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
45391583 TAGCTGAAGCTACCACT
1 TAGCTGAAGCTACCACT
45391600 AATCAATAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
TAGCTGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
Found at i:45395428 original size:36 final size:35
Alignment explanation
Indices: 45395359--45395429 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 35
45395349 ATTTAATCCA
*
45395359 TTTTTTTAAAAACTTTTATTTTATTTAATTATTAT
1 TTTTTTTAAAAACTTTTATTATATTTAATTATTAT
*
45395394 TTTTTTTAAAAGCATTATTATTATATTATATATTAT
1 TTTTTTTAAAAAC-TT-TTATTATATT-TA-ATTAT
45395430 CATTATTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 12 0.40
36 2 0.07
37 9 0.30
38 2 0.07
39 5 0.17
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (35 bp):
TTTTTTTAAAAACTTTTATTATATTTAATTATTAT
Found at i:45395442 original size:12 final size:12
Alignment explanation
Indices: 45395406--45395447 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
45395396 TTTTTAAAAG
45395406 CATTATTATTAT
1 CATTATTATTAT
45395418 -ATTATATATTAT
1 CATTAT-TATTAT
*
45395430 CATTATTACTAT
1 CATTATTATTAT
45395442 CATTAT
1 CATTAT
45395448 CTTTGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:45395779 original size:16 final size:17
Alignment explanation
Indices: 45395747--45395781 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
45395737 CCACTCTCAT
45395747 ATTTTATAATGCATATAC
1 ATTTTATAA-GCATATAC
45395765 ATTTTATAA-CATATAC
1 ATTTTATAAGCATATAC
45395781 A
1 A
45395782 CCTTCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTTTATAAGCATATAC
Found at i:45397639 original size:9 final size:9
Alignment explanation
Indices: 45397627--45397668 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
45397617 TAAAAGTTAC
45397627 AAAAAAT-A
1 AAAAAATAA
45397635 AAAAAAT-A
1 AAAAAATAA
* *
45397643 TAAATATAA
1 AAAAAATAA
45397652 AAAAAATAA
1 AAAAAATAA
45397661 AAAAAATA
1 AAAAAATA
45397669 TTAATTACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATAA
Found at i:45397640 original size:8 final size:8
Alignment explanation
Indices: 45397627--45397665 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
45397617 TAAAAGTTAC
45397627 AAAAAATA
1 AAAAAATA
45397635 AAAAAATA
1 AAAAAATA
* *
45397643 TAAATATAA
1 AAAAAAT-A
45397652 AAAAAATA
1 AAAAAATA
45397660 AAAAAA
1 AAAAAA
45397666 ATATTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAAATA
Found at i:45399150 original size:58 final size:58
Alignment explanation
Indices: 45399081--45399190 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
45399071 AAAGATGAAT
* * *
45399081 TTGATGCGATCTCCTGTATTCTTCAGTCTACTCCATTGTAAACTCAAGGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAAACTCAAGGAGATAAGAC
* * *
45399139 TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCACTGTAACCTCAGGGAGA
1 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAAACTCAAGGAGA
45399191 CAATGCTGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (58 bp):
TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAAACTCAAGGAGATAAGAC
Found at i:45399200 original size:30 final size:29
Alignment explanation
Indices: 45399166--45399227 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
45399156 ATTCTTCAGT
45399166 CTGCTCCACTG-TAACCTCAGGGAGACAATG
1 CTGCTCCACTGCT--CCTCAGGGAGACAATG
*
45399196 CTGCTCCACTGCTGCTCAGGGAGACAATG
1 CTGCTCCACTGCTCCTCAGGGAGACAATG
45399225 CTG
1 CTG
45399228 GGGACTTCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 18 0.60
30 11 0.37
31 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.21
Consensus pattern (29 bp):
CTGCTCCACTGCTCCTCAGGGAGACAATG
Found at i:45399709 original size:45 final size:45
Alignment explanation
Indices: 45399615--45399776 Score: 159
Period size: 45 Copynumber: 3.6 Consensus size: 45
45399605 TTCTAATCCA
* * * * * * *
45399615 CTCTACTACAACTTTAGGGAGATAGGATTTGTT-TATTTAGTCAG
1 CTCTACTGCAACTTTAGGGAGATAAGACTCGTTCTCTTGAGTCTG
* *
45399659 CTCTACTGCAATTTTAGGGGGATAAGACTTAC-TTCT-TTGAGTCTG
1 CTCTACTGCAACTTTAGGGAGATAAGAC-T-CGTTCTCTTGAGTCTG
* * * *
45399704 CTCTACTGCAACTTCAGGGAAATAAGACTCGTTTTCTTGGGTCTG
1 CTCTACTGCAACTTTAGGGAGATAAGACTCGTTCTCTTGAGTCTG
*
45399749 CTCCACTGCAACTTTAGGGAGATAAGAC
1 CTCTACTGCAACTTTAGGGAGATAAGAC
45399777 CCGATGTGAT
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 27 0.28
45 67 0.70
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (45 bp):
CTCTACTGCAACTTTAGGGAGATAAGACTCGTTCTCTTGAGTCTG
Found at i:45399901 original size:44 final size:44
Alignment explanation
Indices: 45399848--45400109 Score: 235
Period size: 44 Copynumber: 6.2 Consensus size: 44
45399838 ACTGCAACTT
* ** * * *
45399848 CAGGTAGATAAGATTTGCCATCATTAACCTATTCCACTGCTGTC
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGAC
* *
45399892 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGAC
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGAC
** * * *
45399936 CAGGGAGAT-AG---GGC--TCTTTAATCTATTCCGCTGCTGCC
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGAC
* *
45399974 CAGGGAGAT-AGAATTCTCAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAAG-ATTCACAATCTTTAACCTATTCCACTGCTGAC
* *
45400018 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGAC
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGAC
* ** *
45400062 TAGGGAGAT-AG---GGC--TCTTTAATCTATTCCACTGCTGAC
1 CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGAC
45400100 CAGGGAGATA
1 CAGGGAGATA
45400110 GGGCTGGGGT
Statistics
Matches: 178, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
38 61 0.34
40 2 0.01
42 1 0.01
43 2 0.01
44 111 0.62
45 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CAGGGAGATAAGATTCACAATCTTTAACCTATTCCACTGCTGAC
Found at i:45399978 original size:82 final size:82
Alignment explanation
Indices: 45399871--45400029 Score: 255
Period size: 82 Copynumber: 1.9 Consensus size: 82
45399861 TTTGCCATCA
* * *
45399871 TTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGAC
1 TTAACCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGAC
45399936 CAGGGAGATAGGGCTCT
66 CAGGGAGATAGGGCTCT
* * * *
45399953 TTAATCTATTCCGCTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGAC
1 TTAACCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGAC
45400018 CAGGGAGATAGG
66 CAGGGAGATAGG
45400030 ATTCACAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (82 bp):
TTAACCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTACTGAC
CAGGGAGATAGGGCTCT
Found at i:45400005 original size:126 final size:126
Alignment explanation
Indices: 45399873--45400110 Score: 422
Period size: 126 Copynumber: 1.9 Consensus size: 126
45399863 TGCCATCATT
*
45399873 AACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCA
* *
45399938 GGGAGATAGGGCTCTTTAATCTATTCCGCTGCTGCCCAGGGAGATAGAATTCTCAATCTTC
66 GGGAGATAGGGCTCTTTAATCTATTCCACTGCTGACCAGGGAGATAGAATTCTCAATCTTC
** *
45399999 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGTTGACTA
1 AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCA
45400064 GGGAGATAGGGCTCTTTAATCTATTCCACTGCTGACCAGGGAGATAG
66 GGGAGATAGGGCTCTTTAATCTATTCCACTGCTGACCAGGGAGATAG
45400111 GGCTGGGGTC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 106 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (126 bp):
AACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGACCA
GGGAGATAGGGCTCTTTAATCTATTCCACTGCTGACCAGGGAGATAGAATTCTCAATCTTC
Found at i:45400281 original size:88 final size:88
Alignment explanation
Indices: 45400127--45400613 Score: 746
Period size: 88 Copynumber: 5.5 Consensus size: 88
45400117 GGTCATCGAT
* *
45400127 CTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTC-ATTCTGCTTCACTGTCGGTGCAGG
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGA-TCTGCTTCGCTGTCGGTGCAGG
45400191 AAGGCAAGATCTGCTATTTTTAAC
65 AAGGCAAGATCTGCTATTTTTAAC
* * * * *
45400215 CTGCTCCGTTGCAACCCAGGGAGGTAAGGCTGGTGTCTTTGATTTGCTTCGCTGTCGGTGCGGGA
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
45400280 AGGCAAGATCTGCTATTTTTAAC
66 AGGCAAGATCTGCTATTTTTAAC
* * * * *
45400303 CTGCTCCACTACAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAAG-
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
*
45400367 AGGCAAGATCTGCTATTTTTAGC
66 AGGCAAGATCTGCTATTTTTAAC
** *
45400390 CTGCTCCGCTGCAACCCAGGGAGATAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAGGA
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
45400455 AGGCAAGATCTGCTATTTTTAAC
66 AGGCAAGATCTGCTATTTTTAAC
* *
45400478 CTACTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
*
45400543 AGGCAAGATCTGCTATTTTTAGC
66 AGGCAAGATCTGCTATTTTTAAC
* *
45400566 CTGTTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGT-TCTCGATCTGCT
1 CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCT-TCGATCTGCT
45400614 ATTTTTAGCC
Statistics
Matches: 363, Mismatches: 33, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
87 81 0.22
88 281 0.77
89 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (88 bp):
CTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
AGGCAAGATCTGCTATTTTTAAC
Found at i:45400440 original size:175 final size:176
Alignment explanation
Indices: 45400138--45400613 Score: 751
Period size: 175 Copynumber: 2.7 Consensus size: 176
45400128 TGCTTCGCTG
*
45400138 CAACCCAGGGAGGCAAGGCTGGTGTCTTC-ATTCTGCTTCACTGTCGGTGCAGGAAGGCAAGATC
1 CAACCCAGGGAGGCAAGGCTGGTGTCTTCGA-TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC
* * * *
45400202 TGCTATTTTTAACCTGCTCCGTTGCAACCCAGGGAGGTAAGGCTGGTGTCTTTGATTTGCTTCGC
65 TGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGC
* *
45400267 TGTCGGTGCGGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTA
130 TGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTA
* * *
45400314 CAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGTAAG-AGGCAAGATCT
1 CAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
*
45400378 GCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGATAAGGCTGGTGTCTTCGATCTGCTTCGCT
66 GCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCT
* * *
45400443 GTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTG
131 GTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTA
*
45400489 CAACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
1 CAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
* * *
45400554 GCTATTTTTAGCCTGTTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGT-TCTCGATCTGCT
66 GCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCT-TCGATCTGCT
45400614 ATTTTTAGCC
Statistics
Matches: 275, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
175 162 0.59
176 112 0.41
177 1 0.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (176 bp):
CAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
GCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTCGCT
GTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTA
Found at i:45400600 original size:263 final size:263
Alignment explanation
Indices: 45400127--45400613 Score: 798
Period size: 263 Copynumber: 1.9 Consensus size: 263
45400117 GGTCATCGAT
* *
45400127 CTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCATTCTGCTTCACTGTCGGTGCAGGA
1 CTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTCATTCTGCTTCACTGTCGGTGCAGGA
* * *
45400192 AGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCCAGGGAGGTAAGGCTGGTGTCTTTGA
66 AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGA
* * *
45400257 TTTGCTTCGCTGTCGGTGCGGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACTCAG
131 TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAG
45400322 GGAGGCAAGGCTGGTG-TCTTCGATCTGCTTCGCTGTCGGTGTAAGAGGCAAGATCTGCTATTTT
196 GGAGGCAAGGCTGGTGTTC-TCGATCTGCTTCGCTGTCGGTGTAAGAGGCAAGATCTGCTATTTT
45400386 TAGC
260 TAGC
* * *
45400390 CTGCTCCGCTGCAACCCAGGGAGATAAGGCTGGTGTCTTCGA-TCTGCTTCGCTGTCGGTGTAGG
1 CTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTC-ATTCTGCTTCACTGTCGGTGCAGG
45400454 AAGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCG
65 AAGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCG
* * * * *
45400519 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGTTTCGCTGCAACCCA
130 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCA
45400584 GGGAGGCAAGGCTGGTGTTCTCGATCTGCT
195 GGGAGGCAAGGCTGGTGTTCTCGATCTGCT
45400614 ATTTTTAGCC
Statistics
Matches: 206, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
263 203 0.99
264 3 0.01
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (263 bp):
CTGCTCCGCTGCAACCCAGGGAGACAAGGCTGGTGTCTTCATTCTGCTTCACTGTCGGTGCAGGA
AGGCAAGATCTGCTATTTTTAACCTACTCCGCTGCAACCCAGGGAGGTAAGGCTGGTGTCTTCGA
TCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAG
GGAGGCAAGGCTGGTGTTCTCGATCTGCTTCGCTGTCGGTGTAAGAGGCAAGATCTGCTATTTTT
AGC
Found at i:45400637 original size:57 final size:57
Alignment explanation
Indices: 45400549--45400670 Score: 183
Period size: 57 Copynumber: 2.1 Consensus size: 57
45400539 AGGAAGGCAA
* * *
45400549 GATCTGCTATTTTTAGCCTGTTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGT-TCTC
1 GATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCT-TC
* *
45400606 GATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGTAAGGTTGGTGTCTTC
1 GATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTC
45400663 GATCTGCT
1 GATCTGCT
45400671 TCACTGTCGG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 58 0.98
58 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (57 bp):
GATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAAGGAGGCAAGGCTGGTGTCTTC
Found at i:45408730 original size:17 final size:17
Alignment explanation
Indices: 45408704--45408739 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45408694 GTGTGTTTTG
*
45408704 TTTTGGCTGCATGACAT
1 TTTTGACTGCATGACAT
*
45408721 TTTTGACTGCATGGCAT
1 TTTTGACTGCATGACAT
45408738 TT
1 TT
45408740 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTTGACTGCATGACAT
Found at i:45409206 original size:19 final size:19
Alignment explanation
Indices: 45409182--45409228 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
45409172 AACGTCTCTT
*
45409182 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
45409201 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
45409220 TATGCATTA
1 TTTGCATTA
45409229 AACACCGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:45412084 original size:7 final size:7
Alignment explanation
Indices: 45412059--45412100 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
45412049 AGTGATGTGA
45412059 AAAAATG
1 AAAAATG
45412066 AAAAGATG
1 AAAA-ATG
45412074 -AAAATG
1 AAAAATG
45412080 AAAAATG
1 AAAAATG
45412087 AAAAA-G
1 AAAAATG
45412093 TAAAAATG
1 -AAAAATG
45412101 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:45412098 original size:21 final size:21
Alignment explanation
Indices: 45412059--45412100 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45412049 AGTGATGTGA
*
45412059 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
45412080 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
45412101 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:45413425 original size:44 final size:44
Alignment explanation
Indices: 45413376--45414186 Score: 845
Period size: 44 Copynumber: 18.4 Consensus size: 44
45413366 GCTAAAAAGC
* *
45413376 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
*** * **
45413420 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCGAAGAT
*** *
45413465 AATTGATCTTGTCTTCATGTATTGACAT-AGAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGA-AGTAGATCGA-AGAT
*
45413509 A-CAGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA-AGAT
* * *
45413552 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
** * *
45413596 AGTGGATCTTGTCTTTATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA-AGAT
* *
45413640 AGCAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
** * * *
45413684 AATAGATATTGTCTTCATGTATTGACATGAAGTAGGTC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA-AGAT
* * ** *
45413728 AGAAGATCTTATCTTCATGTATTAACATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
*** *
45413772 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA-AGAT
* * *
45413816 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* * * *
45413860 AGCATATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* * * *
45413904 AGTAGATCTTGTCTTCCTGTACTGGCAATGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGC-ATGAAGTAGATCGAAGAT
* * * ** *
45413949 AACAGATCTTATCTTCCCATACTGGTGGC--GAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGAT
* * *
45413994 AGCAGATCTTGTCTTCATGTTTTAGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
* *
45414038 AGCAGATCTTGTCTTCATGCATTGGAATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
*
45414082 AGCAGATCTTGTCTTCCCATACTGA-TGGC--GAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTT--CAT-GT-ATTGGCATGAAGTAGATCGAAGAT
* * *
45414127 AGTAGATCTTGTCTTCATGTATTGGCGTGAAATAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
45414171 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
45414187 CCATACTGGT
Statistics
Matches: 655, Mismatches: 87, Indels: 50
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.00
42 9 0.01
43 50 0.08
44 459 0.70
45 122 0.19
46 3 0.00
47 5 0.01
48 6 0.01
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
Found at i:45415170 original size:20 final size:20
Alignment explanation
Indices: 45415137--45415178 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45415127 AGATTGTTGG
* *
45415137 TTTTGTTTTTTTTTTATGGT
1 TTTTGATTTATTTTTATGGT
*
45415157 TTTTGATTTATTTTTATTGT
1 TTTTGATTTATTTTTATGGT
45415177 TT
1 TT
45415179 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.79
Consensus pattern (20 bp):
TTTTGATTTATTTTTATGGT
Found at i:45415560 original size:12 final size:12
Alignment explanation
Indices: 45415543--45415568 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45415533 ATTAAACCCA
45415543 TTTTGTTTCAAT
1 TTTTGTTTCAAT
45415555 TTTTGTTTCAAT
1 TTTTGTTTCAAT
45415567 TT
1 TT
45415569 GGCCCATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTGTTTCAAT
Found at i:45423169 original size:102 final size:102
Alignment explanation
Indices: 45423029--45423333 Score: 406
Period size: 106 Copynumber: 3.0 Consensus size: 102
45423019 TTTATGAATG
45423029 TAAATTTTTAAAAATTATTTT-TTAGT-ATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTT
1 TAAATTTTTAAAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTT
* * * *
45423092 AGTGTTTTATTGTGATTTTTTAAGAATG-CA-TTTTTT
66 AGTG-TTTATTTTTATTTTTTATGAATGTAAGTTTTTT
* * *
45423128 TAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAATT
1 TAAATT-TTTAAAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTT
*
45423193 TAGTGTTTATTTTTAATTTTTATGAATGTAAGTTTTTT
65 TAGTGTTTATTTTTATTTTTTATGAATGTAAGTTTTTT
** *
45423231 T-GGTTTTTAAAAAAAAAATTATTTTGTTAGTAGTTTATGATTAGGTTATAAATTGTTTGTGTTT
1 TAAATTTTT-----AAAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTT
45423295 AGTTTAGTGTTTATTTTTATTTTTTATGAATGTAA-TTTT
61 AGTTTAGTGTTTATTTTTATTTTTTATGAATGTAAGTTTT
45423334 ATTTGTTTTT
Statistics
Matches: 181, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
99 6 0.03
100 13 0.07
101 27 0.15
102 43 0.24
103 7 0.04
105 4 0.02
106 81 0.45
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.57
Consensus pattern (102 bp):
TAAATTTTTAAAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTT
AGTGTTTATTTTTATTTTTTATGAATGTAAGTTTTTT
Found at i:45423635 original size:21 final size:22
Alignment explanation
Indices: 45423584--45423636 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
45423574 TTGTTGTAAT
* *
45423584 TATATTATTATTGTACTATATT
1 TATAATATTATTGTACTATATG
** *
45423606 TATCGTATTATT-TACTGTATG
1 TATAATATTATTGTACTATATG
45423627 TATAATATTA
1 TATAATATTA
45423637 ATGGGTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
TATAATATTATTGTACTATATG
Found at i:45425905 original size:48 final size:47
Alignment explanation
Indices: 45425807--45425910 Score: 145
Period size: 48 Copynumber: 2.2 Consensus size: 47
45425797 GTATTTATTT
* * * *
45425807 AATTGAGATTCATTGCAACATTAAAAATAGAACAAACTTTGTAATTTA
1 AATT-AGATTAATTGCAACATTAAAAAGAGAACAAAATTTGTAATATA
*
45425855 AATTAGATTAATTGCAACATTAAAACGAGGAACAAAATTTGTAATATA
1 AATTAGATTAATTGCAACATTAAAAAGA-GAACAAAATTTGTAATATA
45425903 AATTAGAT
1 AATTAGAT
45425911 ACATTGGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 21 0.42
48 29 0.58
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.32
Consensus pattern (47 bp):
AATTAGATTAATTGCAACATTAAAAAGAGAACAAAATTTGTAATATA
Found at i:45430944 original size:21 final size:21
Alignment explanation
Indices: 45430920--45430984 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
45430910 AACAGAAACC
45430920 CATAAAGGTTGAACGGAAGCT
1 CATAAAGGTTGAACGGAAGCT
* * *
45430941 CAT-AAGAGCTGAACGAAAGCC
1 CATAAAG-GTTGAACGGAAGCT
* * *
45430962 CATAAGGGTTAAACTGAAGCT
1 CATAAAGGTTGAACGGAAGCT
45430983 CA
1 CA
45430985 AAATAACTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
20 3 0.09
21 28 0.85
22 2 0.06
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
CATAAAGGTTGAACGGAAGCT
Found at i:45430964 original size:42 final size:42
Alignment explanation
Indices: 45430899--45431028 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 42
45430889 CAGAGAAACA
* *
45430899 CATAAGTGCTAAACAGAAACCCATAAAGGTTGAACGGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAAGGTTAAACGGAAGCT
* * *
45430941 CATAAGAGCTGAAC-GAAAGCCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACAGAAA-CCCATAAAGGTTAAACGGAAGCT
* * * * * * *
45430983 CAAAATAACTAAACAGAAACCCATTAGGGTTAAACGAAAACT
1 CATAAGAGCTAAACAGAAACCCATAAAGGTTAAACGGAAGCT
45431025 CATA
1 CATA
45431029 TGAGTTAACT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
41 4 0.06
42 64 0.89
43 4 0.06
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.17
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAAGGTTAAACGGAAGCT
Found at i:45432428 original size:11 final size:11
Alignment explanation
Indices: 45432392--45432427 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
45432382 GCTGTTACAC
45432392 AAAATTAATTA
1 AAAATTAATTA
45432403 AAAATTAATTA
1 AAAATTAATTA
*
45432414 AAAACTAA-TA
1 AAAATTAATTA
45432424 AAAA
1 AAAA
45432428 AATTACATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:45432488 original size:17 final size:18
Alignment explanation
Indices: 45432462--45432500 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
45432452 CACAATAAAC
45432462 ATTAAACTAAACA-AAAA
1 ATTAAACTAAACACAAAA
* *
45432479 ATTAACCTAATCACAAAA
1 ATTAAACTAAACACAAAA
45432497 ATTA
1 ATTA
45432501 CAAACAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (18 bp):
ATTAAACTAAACACAAAA
Found at i:45432494 original size:19 final size:20
Alignment explanation
Indices: 45432449--45432497 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
45432439 TAACCTAACA
45432449 AATCACAATAAACATTAAACT
1 AATCACAA-AAACATTAAACT
*
45432470 AA--ACAAAAA-ATTAACCT
1 AATCACAAAAACATTAAACT
45432487 AATCACAAAAA
1 AATCACAAAAA
45432498 TTACAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (20 bp):
AATCACAAAAACATTAAACT
Found at i:45432582 original size:113 final size:114
Alignment explanation
Indices: 45432390--45432594 Score: 315
Period size: 113 Copynumber: 1.8 Consensus size: 114
45432380 AGGCTGTTAC
* *
45432390 ACAAAATTAATTAAAAATTAATTAAAAACTAATAAAAAAATTACATTCATAACCTAACAAATCAC
1 ACAAAATTAATTAAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
45432455 AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
66 AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
* * * * *
45432504 ACAAAA-TAAGTTTAAAATAAATTAAAAATTAAT-AAAAATTTATATTTATAACCGAACAAATCA
1 ACAAAATTAA-TTAAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCA
*
45432567 CAATAAACATTAAACTAAACAAATAATT
65 CAATAAACATTAAACTAAACAAAAAATT
45432595 TATAATAGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
113 56 0.68
114 26 0.32
ACGTcount: A:0.60, C:0.13, G:0.01, T:0.26
Consensus pattern (114 bp):
ACAAAATTAATTAAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
Found at i:45432623 original size:105 final size:108
Alignment explanation
Indices: 45432390--45432647 Score: 299
Period size: 113 Copynumber: 2.3 Consensus size: 108
45432380 AGGCTGTTAC
* * *
45432390 ACAAAATTAATTAAAAATTAATTAAAAACTAATAAAAAAATTACATTCATAACCTAACAAATCAC
1 ACAAAA-TAATTTAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
45432455 AATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
65 AATAAACATTAAACTAAACAAAAAATT-A--TAAT--CAAAAATTACAA
* * * *
45432504 ACAAAATAAGTTTAAAATAAATTAAAAATTAAT-AAAAATTTATATTTATAACCGAACAAATCAC
1 ACAAAATAA-TTTAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCAC
* * * *
45432568 AATAAACATTAAACTAAACAAATAATT-T-AT-AATAGTTACTA
65 AATAAACATTAAACTAAACAAAAAATTATAATCAAAAATTACAA
*
45432609 ACAAAATAACTTTAAAATAAATTAAAAACAACATAAAAA
1 ACAAAATAA-TTTAAAATAAATTAAAAACTA-ATAAAAA
45432648 CAACAATAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
105 36 0.28
106 2 0.02
107 4 0.03
108 2 0.02
109 1 0.01
113 56 0.44
114 26 0.20
ACGTcount: A:0.61, C:0.12, G:0.01, T:0.26
Consensus pattern (108 bp):
ACAAAATAATTTAAAATAAATTAAAAACTAATAAAAAAATTACATTCATAACCGAACAAATCACA
ATAAACATTAAACTAAACAAAAAATTATAATCAAAAATTACAA
Found at i:45434629 original size:17 final size:17
Alignment explanation
Indices: 45434607--45434639 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
45434597 ATATTTAATA
45434607 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
45434624 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
45434640 TAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:45439359 original size:54 final size:53
Alignment explanation
Indices: 45439262--45439595 Score: 348
Period size: 54 Copynumber: 6.2 Consensus size: 53
45439252 GGTGATAACA
* *
45439262 GTCATTTGACCCTATGGTTGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGG-GGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
* * * *
45439316 GTTATTTTACCCTATGGGGATATTTCGATCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGG-TATTTCGATCATTCTACCCTATGGGGGTATTTCG
* * * * * *
45439370 GTCATTCTACCATACAGAGGTATTTC-AGTCACTCTACCATATGGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCGA-TCATTCTACCCTATGGGGGTATTTCG
* * * * *
45439424 GTCATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTAT-GGGCTAATTCA
1 GTCATTTTACCCTA-TGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
* *
45439477 GTAATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
* * * * * * * *
45439531 ATCATTTTACCCTATAAGGGTATTTTGGTTATTCTACTCTATGTGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
45439585 GTCATTTTACC
1 GTCATTTTACC
45439596 TATTTTGGGG
Statistics
Matches: 231, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.01
53 45 0.19
54 180 0.78
55 4 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCG
Found at i:45439604 original size:27 final size:27
Alignment explanation
Indices: 45439260--45439595 Score: 283
Period size: 27 Copynumber: 12.5 Consensus size: 27
45439250 AAGGTGATAA
* *
45439260 CAGTCATTTGACCCTATG-GTTGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
* *
45439287 C-GATCATTCTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* *
45439314 CGGTTATTTTACCCTATG-GGGATATTT
1 CAGTCATTTTACCCTATGAGGG-TATTT
* *
45439341 C-GATCATTTTACCTTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* * *
45439368 CAGTCATTCTACCATA-CAGAGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
* * * *
45439395 CAGTCACTCTACCATATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
45439422 CGGTCATTTTACCCTATTG-GGGTATTT
1 CAGTCATTTTACCCTA-TGAGGGTATTT
* * *
45439449 CAATCATTTTACCCTATG-GGCTAATT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
45439475 CAGTAATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
45439502 CGGTCATTCTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
45439529 C-GATCATTTTACCCTATAAGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
** * * * *
45439556 TGGTTATTCTACTCTATGTGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
45439583 CAGTCATTTTACC
1 CAGTCATTTTACC
45439596 TATTTTGGGG
Statistics
Matches: 252, Mismatches: 44, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
26 31 0.12
27 211 0.84
28 10 0.04
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:45443116 original size:19 final size:19
Alignment explanation
Indices: 45443092--45443148 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
45443082 TACCCAATGC
45443092 ATAAAAGACATTCGTTCAA
1 ATAAAAGACATTCGTTCAA
*
45443111 AT-AAA-ACA-T-GTGC--
1 ATAAAAGACATTCGTTCAA
45443124 ATAAAAGACATTCGTTCAA
1 ATAAAAGACATTCGTTCAA
45443143 ATAAAA
1 ATAAAA
45443149 CATGTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
13 2 0.07
14 3 0.10
15 6 0.20
16 2 0.07
17 6 0.20
18 3 0.10
19 8 0.27
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.25
Consensus pattern (19 bp):
ATAAAAGACATTCGTTCAA
Found at i:45443130 original size:32 final size:32
Alignment explanation
Indices: 45443089--45443153 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
45443079 TTGTACCCAA
45443089 TGCATAAAAGACATTCGTTCAAATAAAACATG
1 TGCATAAAAGACATTCGTTCAAATAAAACATG
45443121 TGCATAAAAGACATTCGTTCAAATAAAACATG
1 TGCATAAAAGACATTCGTTCAAATAAAACATG
45443153 T
1 T
45443154 TTATAGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (32 bp):
TGCATAAAAGACATTCGTTCAAATAAAACATG
Found at i:45443555 original size:72 final size:72
Alignment explanation
Indices: 45443457--45443595 Score: 233
Period size: 72 Copynumber: 1.9 Consensus size: 72
45443447 TTTATATATC
* *
45443457 TATATATATAAGGTGGCTTGGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
1 TATATATATAAGATGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
45443522 AACCCAT
66 AACCCAT
* * *
45443529 TATATATATAATATGGCTTAGCCACTAATTCAGAGCAGATCACTTCCTCTTTCACAAATATCCTA
1 TATATATATAAGATGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
45443594 AA
66 AA
45443596 TTCATGCAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (72 bp):
TATATATATAAGATGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
AACCCAT
Found at i:45444139 original size:104 final size:104
Alignment explanation
Indices: 45443882--45444163 Score: 268
Period size: 104 Copynumber: 2.7 Consensus size: 104
45443872 CCATGTCATT
* * * * *
45443882 TGCTCGTGT-AGTTTTAAATCATAAACAGTAAGTTACACAACCTAGACACACGCCCGTGTCCTTG
1 TGCTCGTGTGAG-TCTAAATCGTAAACAGTGAGTTACACGACCTAGACACACGCCCGTGTCCTTA
* **
45443946 CTCGTGTGGCTCACACGGCCTGACCCTTGCCCGTGCCATC
65 CTCGTGTGACTCACACGGCCTGACCCAGGCCCGTGCCATC
* * * * *
45443986 TGCTCTTGTGAGTCTAAATCGCAAACAGAGAGTTACACGACATGGACACACGCCCGTGTCCTTAC
1 TGCTCGTGTGAGTCTAAATCGTAAACAGTGAGTTACACGACCTAGACACACGCCCGTGTCCTTAC
* * *
45444051 TCATGTGACTCACACGGCCTGGGCTCAGGCCCGTGTCC-T-
66 TCGTGTGACTCACACGGCCT-GACCCAGGCCCGTG-CCATC
* * * * * * *
45444090 TGGC-CGTGTG-GTCCTAATTTGTAAATAGTGAGTTACACGACCTAAACACATGCCCATGCCCTT
1 T-GCTCGTGTGAGT-CTAAATCGTAAACAGTGAGTTACACGACCTAGACACACGCCCGTGTCC-T
45444153 TACTCGTGTGA
63 TACTCGTGTGA
45444164 ACCTTGCACT
Statistics
Matches: 143, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
103 2 0.01
104 113 0.79
105 26 0.18
106 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (104 bp):
TGCTCGTGTGAGTCTAAATCGTAAACAGTGAGTTACACGACCTAGACACACGCCCGTGTCCTTAC
TCGTGTGACTCACACGGCCTGACCCAGGCCCGTGCCATC
Found at i:45444201 original size:13 final size:13
Alignment explanation
Indices: 45444183--45444218 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
45444173 TAACATGGCC
45444183 ACACACGGCCTGG
1 ACACACGGCCTGG
45444196 ACACACGGCCTGG
1 ACACACGGCCTGG
45444209 ACACACGGCC
1 ACACACGGCC
45444219 AACCATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.25, C:0.42, G:0.28, T:0.06
Consensus pattern (13 bp):
ACACACGGCCTGG
Found at i:45444799 original size:12 final size:12
Alignment explanation
Indices: 45444784--45444821 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
45444774 ACAAAGAAAA
45444784 AATAAGAATAAG
1 AATAAGAATAAG
45444796 AATAAGAATAAG
1 AATAAGAATAAG
45444808 AATAAGAATAAG
1 AATAAGAATAAG
45444820 AA
1 AA
45444822 AGGAAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AATAAGAATAAG
Found at i:45444807 original size:18 final size:18
Alignment explanation
Indices: 45444784--45444821 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45444774 ACAAAGAAAA
45444784 AATAAGAATAAGAATAAG
1 AATAAGAATAAGAATAAG
45444802 AATAAGAATAAGAATAAG
1 AATAAGAATAAGAATAAG
45444820 AA
1 AA
45444822 AGGAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AATAAGAATAAGAATAAG
Found at i:45452513 original size:14 final size:12
Alignment explanation
Indices: 45452447--45452539 Score: 65
Period size: 12 Copynumber: 7.8 Consensus size: 12
45452437 TAAAATAAAT
45452447 GAAAGAAAAAGA
1 GAAAGAAAAAGA
*
45452459 -ATAG-AAAA-A
1 GAAAGAAAAAGA
45452468 G-AAGAACAAAGTA
1 GAAAGAA-AAAG-A
*
45452481 GAACA-AAATAGA
1 GAA-AGAAAAAGA
45452493 G-AAGAAAACGAGA
1 GAAAGAAAA--AGA
45452506 GAAAGAAAAAGA
1 GAAAGAAAAAGA
45452518 GAAAGAAAAATGA
1 GAAAGAAAAA-GA
45452531 GAAA-AAAAA
1 GAAAGAAAAA
45452540 TTAGGGTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
9 3 0.05
10 6 0.09
11 10 0.15
12 20 0.31
13 15 0.23
14 10 0.15
15 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.22, T:0.04
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:45461014 original size:22 final size:25
Alignment explanation
Indices: 45460988--45461041 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
45460978 TTAAAAATTC
45460988 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
45461010 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
45461035 AATTTAA
1 AATTTAA
45461042 TCAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:45466089 original size:18 final size:18
Alignment explanation
Indices: 45466058--45466092 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45466048 ACCACACATT
*
45466058 ATTGTGGACGAACCACTC
1 ATTGTGGACAAACCACTC
*
45466076 ATTGTGGATAAACCACT
1 ATTGTGGACAAACCACT
45466093 AGTGATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (18 bp):
ATTGTGGACAAACCACTC
Found at i:45466456 original size:34 final size:34
Alignment explanation
Indices: 45466395--45466459 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
45466385 CATTACGGTA
* *
45466395 GCAATCATTATGCTTATAATAGTTTGATTCAGTG
1 GCAATCATTATGCCTATAACAGTTTGATTCAGTG
*
45466429 GCAATTATTATGCCTATAACA-TATTGATTCA
1 GCAATCATTATGCCTATAACAGT-TTGATTCA
45466460 ATAGCAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (34 bp):
GCAATCATTATGCCTATAACAGTTTGATTCAGTG
Found at i:45473571 original size:19 final size:19
Alignment explanation
Indices: 45473547--45473584 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
45473537 CTCCATGACA
45473547 TTTTTAAGCAGGTTCTATT
1 TTTTTAAGCAGGTTCTATT
*
45473566 TTTTTAAGTAGGTTCTATT
1 TTTTTAAGCAGGTTCTATT
45473585 GTTGGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (19 bp):
TTTTTAAGCAGGTTCTATT
Found at i:45476080 original size:17 final size:18
Alignment explanation
Indices: 45476049--45476082 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45476039 GAATTTTGTG
*
45476049 TTTATGTTTTGAGGGTTC
1 TTTATGTTTTCAGGGTTC
45476067 TTTAT-TTTTCAGGGTT
1 TTTATGTTTTCAGGGTT
45476083 TAGTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.06, G:0.24, T:0.59
Consensus pattern (18 bp):
TTTATGTTTTCAGGGTTC
Found at i:45486528 original size:21 final size:21
Alignment explanation
Indices: 45486510--45486547 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
45486500 TTTTTAAACC
45486510 TTTTGTTA-ATT-TAAATAAA
1 TTTTGTTATATTATAAATAAA
45486529 TTTTGTTATATTATAAATA
1 TTTTGTTATATTATAAATA
45486548 TTTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTTGTTATATTATAAATAAA
Found at i:45486550 original size:19 final size:19
Alignment explanation
Indices: 45486510--45486561 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
45486500 TTTTTAAACC
45486510 TTTTGTTA-ATTTAAATAAA
1 TTTTGTTATATTTAAAT-AA
45486529 TTTTGTTATATTATAAAT-A
1 TTTTGTTATATT-TAAATAA
45486548 TTTT-TT-TATTTAAA
1 TTTTGTTATATTTAAA
45486562 AACATCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 2 0.06
19 13 0.42
20 3 0.10
21 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTGTTATATTTAAATAA
Found at i:45486654 original size:21 final size:21
Alignment explanation
Indices: 45486630--45486674 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
45486620 TATATAAAAA
45486630 AAATTTTGA-ATTATAGA-ATTT
1 AAATTTT-ATATTATA-ATATTT
45486651 AAATTTTATATTATAATATTT
1 AAATTTTATATTATAATATTT
45486672 AAA
1 AAA
45486675 AAATGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
AAATTTTATATTATAATATTT
Found at i:45496248 original size:47 final size:47
Alignment explanation
Indices: 45496197--45496707 Score: 817
Period size: 47 Copynumber: 10.7 Consensus size: 47
45496187 TTAGGATTCT
* * *
45496197 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
45496244 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45496291 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
45496340 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45496387 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45496434 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45496483 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
45496532 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
45496579 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
45496626 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
45496673 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45496708 TCCCGAAGGG
Statistics
Matches: 438, Mismatches: 21, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 295 0.67
49 142 0.32
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:45496328 original size:96 final size:96
Alignment explanation
Indices: 45496218--45496707 Score: 812
Period size: 96 Copynumber: 5.1 Consensus size: 96
45496208 GTGAACATGC
*
45496218 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
45496283 AATGGCCGATGTGATGAATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
*
45496314 ATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
45496379 AATAGCCGATGTGATGAATGTGAAAGTG--T
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
45496408 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
45496473 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTAT
45496506 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
45496571 AATGGCCGATGTGATGAATATGAAAGTG--T
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
45496600 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* * * *
45496665 AGTGGCCAACGTGATGGATGTGAAAGTGTAT
66 AATGGCCGATGTGATGAATGTGAAAGTGTAT
45496696 A-A-ATGTGATAAG
1 ATATATGTGATAAG
45496708 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 15, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
94 141 0.38
95 1 0.00
96 184 0.49
98 47 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:45496373 original size:143 final size:143
Alignment explanation
Indices: 45496197--45496707 Score: 839
Period size: 143 Copynumber: 3.6 Consensus size: 143
45496187 TTAGGATTCT
* * *
45496197 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
45496261 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
45496326 AGGCCTAATGGCCG
130 AGGCCTAATGGCCG
* *
45496340 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
45496405 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
45496470 GGCCTAATGGCCG
131 GGCCTAATGGCCG
45496483 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
45496548 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTG--TATATATGTGAT
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
*
45496611 AAGGCCTAATAGCCG
129 AAGGCCTAATGGCCG
* * * * * * *
45496626 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
45496691 TGTATAAATGTGATAAG
66 TGTATATATGTGATAAG
45496708 TCCCGAAGGG
Statistics
Matches: 348, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 54 0.16
142 1 0.00
143 201 0.58
145 92 0.26
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCG
Found at i:45500222 original size:2 final size:2
Alignment explanation
Indices: 45500215--45500244 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45500205 CTCCTAAGTC
45500215 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
45500245 AAAAAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45502806 original size:43 final size:43
Alignment explanation
Indices: 45502757--45502870 Score: 192
Period size: 43 Copynumber: 2.7 Consensus size: 43
45502747 AATCACCACA
* * *
45502757 AAAGATCATGTTCTTTAGCGGCATTTGTAGTAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
45502800 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
*
45502843 AAAGATAATGTTCTTTAGCGGCGTTTGT
1 AAAGATCATGTTCTTTAGCGGCGTTTGT
45502871 GGGACCACTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
AAAGATCATGTTCTTTAGCGGCGTTTGTAGTAAAAGCACAGCT
Found at i:45504871 original size:29 final size:31
Alignment explanation
Indices: 45504832--45504900 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
45504822 CCACAATTAG
45504832 AGTTTCATGTATATAATTGC-ATTAAATCAA
1 AGTTTCATGTATATAATTGCAATTAAATCAA
45504862 AGTTT-ATGTATATAATTGCAGATTAAATCAA
1 AGTTTCATGTATATAATTGCA-ATTAAATCAA
45504893 AG-TTCATG
1 AGTTTCATG
45504901 CATAATTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 14 0.39
30 7 0.19
31 15 0.42
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (31 bp):
AGTTTCATGTATATAATTGCAATTAAATCAA
Found at i:45504905 original size:29 final size:28
Alignment explanation
Indices: 45504835--45504907 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
45504825 CAATTAGAGT
*
45504835 TTCATGTATATAATTGCATTAAATCAAAG
1 TTCATG-ACATAATTGCATTAAATCAAAG
* *
45504864 TTTATGTATATAATTGCAGATTAAATCAAAG
1 TTCATG-ACATAATTGC--ATTAAATCAAAG
45504895 TTCATG-CATAATT
1 TTCATGACATAATT
45504908 TGTTAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 22 0.56
31 17 0.44
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (28 bp):
TTCATGACATAATTGCATTAAATCAAAG
Found at i:45507878 original size:11 final size:11
Alignment explanation
Indices: 45507810--45507878 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
45507800 ATGATAAAAA
*
45507810 ATAAAAATTA-
1 ATAAAAGTTAT
45507820 ATAAAAGTTAT
1 ATAAAAGTTAT
* *
45507831 AGAAAAATTAT
1 ATAAAAGTTAT
* *
45507842 AT-ATA-TTTT
1 ATAAAAGTTAT
45507851 AT-AAAGTTAT
1 ATAAAAGTTAT
45507861 AATAAAAGTTAT
1 -ATAAAAGTTAT
45507873 ATAAAA
1 ATAAAA
45507879 ATTAGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 7 0.15
10 14 0.30
11 18 0.38
12 8 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (11 bp):
ATAAAAGTTAT
Found at i:45507959 original size:29 final size:29
Alignment explanation
Indices: 45507899--45507985 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
45507889 TTCAATAATT
* * *
45507899 TTTTATATTTTTTT-CTATATTTATACATA
1 TTTTATATTTTTTTACAATTTTTATA-AAA
45507928 TTTTATATTTTTTTACAATTTTTATAAAA
1 TTTTATATTTTTTTACAATTTTTATAAAA
* *
45507957 TTTTACTGTTTTTTATAAAATTTTTATAA
1 TTTTA-TATTTTTT-TACAATTTTTATAA
45507986 TTTTTTTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 21 0.42
30 16 0.32
31 13 0.26
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTATATTTTTTTACAATTTTTATAAAA
Found at i:45507960 original size:19 final size:19
Alignment explanation
Indices: 45507938--45508030 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 19
45507928 TTTTATATTT
45507938 TTTTACAATTTTTATAAAA
1 TTTTACAATTTTTATAAAA
**
45507957 TTTTACTGTTTTTTATAAAA
1 TTTTAC-AATTTTTATAAAA
* * **
45507977 TTTTTATAATTTTTTTCTAA
1 -TTTTACAATTTTTATAAAA
*
45507997 TTTTA-AATTTTTATTTAAA
1 TTTTACAATTTTTA-TAAAA
*
45508016 TTTAACAATTTTTAT
1 TTTTACAATTTTTAT
45508031 TGATTTTTAT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
18 7 0.12
19 19 0.33
20 27 0.47
21 5 0.09
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTACAATTTTTATAAAA
Found at i:45507987 original size:29 final size:28
Alignment explanation
Indices: 45507899--45507990 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 28
45507889 TTCAATAATT
** *
45507899 TTTTATATTTTTTT-CTATATTTATACATA
1 TTTTATATTTTTTTAAAATTTTTATA-A-A
*
45507928 TTTTATATTTTTTTACAATTTTTATAAAA
1 TTTTATATTTTTTTAAAATTTTTAT-AAA
* *
45507957 TTTTACTGTTTTTTATAAAATTTTTATAAT
1 TTTTA-TATTTTTT-TAAAATTTTTATAAA
45507987 TTTT
1 TTTT
45507991 TTCTAATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
29 20 0.37
30 22 0.41
31 12 0.22
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTATATTTTTTTAAAATTTTTATAAA
Found at i:45507990 original size:10 final size:10
Alignment explanation
Indices: 45507893--45507991 Score: 53
Period size: 10 Copynumber: 10.0 Consensus size: 10
45507883 GTAAAATTCA
45507893 ATAATTTTTT
1 ATAATTTTTT
*
45507903 ATATTTTTTT
1 ATAATTTTTT
* *
45507913 CT-A-TATTT
1 ATAATTTTTT
*
45507921 ATACATATTTT
1 ATA-ATTTTTT
*
45507932 ATATTTTTTT
1 ATAATTTTTT
*
45507942 ACAA-TTTTT
1 ATAATTTTTT
**
45507951 ATAAAATTTT
1 ATAATTTTTT
*
45507961 ACT-GTTTTTT
1 A-TAATTTTTT
*
45507971 ATAAAATTTTT
1 AT-AATTTTTT
45507982 ATAATTTTTT
1 ATAATTTTTT
45507992 TCTAATTTTA
Statistics
Matches: 63, Mismatches: 19, Indels: 14
0.66 0.20 0.15
Matches are distributed among these distances:
8 5 0.08
9 9 0.14
10 35 0.56
11 14 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:45508019 original size:18 final size:20
Alignment explanation
Indices: 45507979--45508031 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
45507969 TTATAAAATT
* *
45507979 TTTATAATTTTT-TTCTAAT
1 TTTACAATTTTTATTCTAAA
45507998 TTTA-AATTTTTATT-TAAA
1 TTTACAATTTTTATTCTAAA
45508016 TTTAACAATTTTTATT
1 TTT-ACAATTTTTATT
45508032 GATTTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 13 0.43
19 7 0.23
20 10 0.33
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTACAATTTTTATTCTAAA
Found at i:45512209 original size:30 final size:30
Alignment explanation
Indices: 45512175--45512233 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
45512165 ACAAATCCTA
*
45512175 TCTCAATTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAAATCTCTCAAAC
45512205 TCTCAATTTCCTTCCAAAAATCTCTCAAA
1 TCTCAATTTCCTTCCAAAAATCTCTCAAA
45512234 TCCATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (30 bp):
TCTCAATTTCCTTCCAAAAATCTCTCAAAC
Found at i:45512302 original size:31 final size:31
Alignment explanation
Indices: 45512267--45512331 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
45512257 CTCAATTTCA
45512267 TTTTTTAAAAATAATTTTAATTTTTTTATAT
1 TTTTTTAAAAATAATTTTAATTTTTTTATAT
45512298 TTTTTTAAAAATAATTTTAATTTTTTTATAT
1 TTTTTTAAAAATAATTTTAATTTTTTTATAT
45512329 TTT
1 TTT
45512332 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAAATAATTTTAATTTTTTTATAT
Found at i:45513560 original size:25 final size:25
Alignment explanation
Indices: 45513532--45513606 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
45513522 ATTTATACCT
45513532 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
*
45513557 GAATATATA--T-ATACAT--ATTC
1 GAATACATAGCTAATACATACATTC
45513577 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
45513602 GAATA
1 GAATA
45513607 TATATATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 12 0.28
22 7 0.16
23 7 0.16
25 17 0.40
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
GAATACATAGCTAATACATACATTC
Found at i:45513572 original size:18 final size:18
Alignment explanation
Indices: 45513549--45513617 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
45513539 TAGCTAATAC
45513549 ATACATTCGAATATATAT
1 ATACATTCGAATATATAT
45513567 ATACATATTCGAATACATAGCTAAT
1 ATAC--ATTCGAAT--ATA--T-AT
45513592 ACATACATTCGAATATATAT
1 --ATACATTCGAATATATAT
45513612 ATACAT
1 ATACAT
45513618 ATTCATCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
18 10 0.24
20 10 0.24
21 1 0.02
22 3 0.07
23 3 0.07
24 1 0.02
25 10 0.24
27 4 0.10
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (18 bp):
ATACATTCGAATATATAT
Found at i:45513578 original size:20 final size:20
Alignment explanation
Indices: 45513553--45513621 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
45513543 TAATACATAC
45513553 ATTCGAATATATATATACAT
1 ATTCGAATATATATATACAT
*
45513573 ATTCGAATACATAGCTAATACAT
1 ATTCGAATATATA--T-ATACAT
45513596 ACATTCGAATATATATATACAT
1 --ATTCGAATATATATATACAT
45513618 ATTC
1 ATTC
45513622 ATCATATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 16 0.38
22 7 0.17
23 7 0.17
25 12 0.29
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTCGAATATATATATACAT
Found at i:45513585 original size:45 final size:45
Alignment explanation
Indices: 45513532--45513621 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
45513522 ATTTATACCT
45513532 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
45513577 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
45513622 ATCATATACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (45 bp):
GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
Found at i:45514034 original size:41 final size:41
Alignment explanation
Indices: 45513973--45514076 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
45513963 ACCAGCTTTT
* * * *
45513973 AGCCTGCTAGACCTATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
* * *
45514014 AGCCTGCTAGATGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
*
45514055 AGCCTACTAGACGTAAAGTCTG
1 AGCCTGCTAGACGTAAAGTCTG
45514077 TATTACATTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAATATATCACCGGCATCA
Found at i:45517577 original size:29 final size:30
Alignment explanation
Indices: 45517514--45517782 Score: 355
Period size: 30 Copynumber: 8.7 Consensus size: 30
45517504 TAATTAAAAT
*
45517514 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
45517544 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
45517573 TCTAATTTAATT-AAAACCCTAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAA
*
45517608 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
45517638 CTTAATTTAATTAAAAACCCT-AACCATAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
45517667 CCTAATTTAATTAAAACCCCTAAACCCTAACCCTGA
1 CCTAATTTAATTAAAAACCCTAAACCCT-A-----A
45517703 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
45517733 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
45517763 CCTAATTTAATTAAAAACCC
1 CCTAATTTAATTAAAAACCC
45517783 CCAAACTTGT
Statistics
Matches: 214, Mismatches: 10, Indels: 30
0.84 0.04 0.12
Matches are distributed among these distances:
28 8 0.04
29 44 0.21
30 104 0.49
31 1 0.00
34 1 0.00
35 20 0.09
36 36 0.17
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (30 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:45517578 original size:24 final size:23
Alignment explanation
Indices: 45517535--45517579 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
45517525 TAAAAACCCT
*
45517535 AAACACTAACCTAATTTAATTAA
1 AAACACTAACCTAATCTAATTAA
*
45517558 AAACCCTAACCCTAATCTAATT
1 AAACACTAA-CCTAATCTAATT
45517580 TAATTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
AAACACTAACCTAATCTAATTAA
Found at i:45517630 original size:23 final size:24
Alignment explanation
Indices: 45517600--45517689 Score: 65
Period size: 29 Copynumber: 3.3 Consensus size: 24
45517590 CCTAAACCCT
45517600 AACCCTAACC-TAATTTAATTAAA
1 AACCCTAACCTTAATTTAATTAAA
45517623 AACCCTAAACCTTAACTTAATTTAATTAAA
1 AACCCT-AA-C----CTTAATTTAATTAAA
45517653 AACCCTAACCATAACCTAATTTAATTAAA
1 AACCCTAACC-T----TAATTTAATTAAA
*
45517682 ACCCCTAA
1 AACCCTAA
45517690 ACCCTAACCC
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
23 6 0.11
24 3 0.06
25 2 0.04
28 1 0.02
29 23 0.43
30 19 0.35
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (24 bp):
AACCCTAACCTTAATTTAATTAAA
Found at i:45517696 original size:66 final size:65
Alignment explanation
Indices: 45517593--45517774 Score: 252
Period size: 59 Copynumber: 2.9 Consensus size: 65
45517583 TTAAAACCCT
*
45517593 AAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAA-CCT----TAACTTAATTTAATTAA
1 AAACCCTAAACCATAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAACTTAATTTAATTAA
* * *
45517652 AAACCCT-AACCATAACCTAATTTAATTAAAACCCCTAAACCCTAACCCTGACCTAATTTAATTA
1 AAACCCTAAACCATAACCTAATTTAATTAAAAACCCTAAACCCTAA-CCTAACTTAATTTAATTA
45517716 A
65 A
* *
45517717 AAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATT
1 AAACCCTAAACCATAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAACTTAATT
45517775 AAAAACCCCC
Statistics
Matches: 107, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
59 37 0.35
60 3 0.03
65 31 0.29
66 36 0.34
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.28
Consensus pattern (65 bp):
AAACCCTAAACCATAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAACTTAATTTAATTAA
Found at i:45517726 original size:95 final size:94
Alignment explanation
Indices: 45517514--45517788 Score: 453
Period size: 94 Copynumber: 2.9 Consensus size: 94
45517504 TAATTAAAAT
*
45517514 CCTAATTTAATTAAAAACCCTAAACACTAACCTAATTTAATTAAAAACCCTAACCCTAATCTAAT
1 CCTAATTTAATTAAAAACCCTAAAC-CTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
45517579 TTAATTAAAA-CCCTAAACCCTAACCCTAA
65 TTAATTAAAACCCCTAAACCCTAACCCTAA
* *
45517608 CCTAATTTAATTAAAAACCCTAAACCTTAACTTAATTTAATTAAAAACCCTAACCATAACCTAAT
1 CCTAATTTAATTAAAAACCCTAAACC-TAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAT
*
45517673 TTAATTAAAACCCCTAAACCCTAACCCTGA
65 TTAATTAAAACCCCTAAACCCTAACCCTAA
45517703 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACCTAA
1 CCTAATTTAATTAAAAACCCTAAA-CCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAA
*
45517768 TTTAATTAAAAACCCCCAAAC
64 TTTAATT-AAAACCCCTAAAC
45517789 TTGTACGATC
Statistics
Matches: 169, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
93 1 0.01
94 70 0.41
95 65 0.38
96 21 0.12
97 12 0.07
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (94 bp):
CCTAATTTAATTAAAAACCCTAAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATT
TAATTAAAACCCCTAAACCCTAACCCTAA
Found at i:45519043 original size:123 final size:123
Alignment explanation
Indices: 45518823--45519099 Score: 493
Period size: 123 Copynumber: 2.2 Consensus size: 123
45518813 ACGAGGGTGT
*
45518823 GATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCGAA
1 GATTTTATACTATTTACTCAGAAACGTC-AAAAAAATTATTTCTTACATGACCAACTGTAGCGAA
*
45518888 ATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCTTGGTAGAAGC
65 ATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
* *
45518947 GATTTTATACTATTTACTCAGAAATGTCAAAAAAATTATTTCTTACATGACCAACTGTAGTGAAA
1 GATTTTATACTATTTACTCAGAAACGTCAAAAAAATTATTTCTTACATGACCAACTGTAGCGAAA
45519012 TCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
66 TCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
45519070 GATTTTATACTATTTGAC-CAGAAACGTCAA
1 GATTTTATACTATTT-ACTCAGAAACGTCAA
45519100 CTCGAAATAA
Statistics
Matches: 147, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
123 119 0.81
124 28 0.19
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (123 bp):
GATTTTATACTATTTACTCAGAAACGTCAAAAAAATTATTTCTTACATGACCAACTGTAGCGAAA
TCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGC
Found at i:45530036 original size:13 final size:13
Alignment explanation
Indices: 45530018--45530044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45530008 CCAGATGATA
45530018 ATAAGGAGTATAT
1 ATAAGGAGTATAT
45530031 ATAAGGAGTATAT
1 ATAAGGAGTATAT
45530044 A
1 A
45530045 GTTAATGTTA
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:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
ATAAGGAGTATAT
Found at i:45531476 original size:22 final size:21
Alignment explanation
Indices: 45531447--45531488 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
45531437 TTATTTTATA
**
45531447 ATTTTTAATTTTTTTAAAAAT
1 ATTTTTAATCATTTTAAAAAT
45531468 ATTTATTAATCATTTTAAAAA
1 ATTT-TTAATCATTTTAAAAA
45531489 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAATCATTTTAAAAAT
Found at i:45536070 original size:30 final size:30
Alignment explanation
Indices: 45536033--45536188 Score: 267
Period size: 30 Copynumber: 5.2 Consensus size: 30
45536023 ATTCATTTAA
45536033 TAAAATACACTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
*
45536063 TAGAATACACTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
*
45536093 GAAAATACACTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
*
45536123 TAAAATACACTACATGTATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
45536153 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
45536183 TAAAAT
1 TAAAAT
45536189 TTTAAATACA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 118 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.53
Consensus pattern (30 bp):
TAAAATACACTACATATATTTTTTTATTTT
Found at i:45536305 original size:58 final size:59
Alignment explanation
Indices: 45536212--45536379 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 59
45536202 AAATCCCATC
* * *
45536212 TTCCATCATTCCCCTCTTCCACCGTATCCTTCTCCCATTTCCCATTCCCATGCAATACCC-A
1 TTCCATCATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCATTCCCAT-C--TACCCTA
* * * *
45536273 TTCC-T-ATTTCCC-ATTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATCTCCCCTT
1 TTCCATCATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCATTCCCATCTACCCTA
* *
45536329 TTCCATCGATTCCCCTCTTCCACCGTTCCCTCCTCCCA-TTCCCATTCCCAT
1 TTCCATC-ATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCATTCCCAT
45536380 TTCCCATTAT
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
55 4 0.04
56 4 0.04
57 2 0.02
58 32 0.35
59 25 0.27
60 21 0.23
61 4 0.04
ACGTcount: A:0.14, C:0.49, G:0.04, T:0.34
Consensus pattern (59 bp):
TTCCATCATTCCCCTATTCCACCGTACCCTCCTCCCATTTCCCATTCCCATCTACCCTA
Found at i:45536370 original size:21 final size:21
Alignment explanation
Indices: 45536281--45536370 Score: 50
Period size: 21 Copynumber: 4.4 Consensus size: 21
45536271 CATTCCTATT
*
45536281 TCCCATTCCACCGTGCCCTCC
1 TCCCATTCCACCGTTCCCTCC
* *
45536302 TCCCATTTC-CCATTCCCAT-C
1 TCCCATTCCACCGTTCCC-TCC
* *
45536322 TCCCCTTTTCCATCGATT-CC-CC
1 T-CCC-ATTCCACCG-TTCCCTCC
45536344 T--C-TTCCACCGTTCCCTCC
1 TCCCATTCCACCGTTCCCTCC
45536362 TCCCATTCC
1 TCCCATTCC
45536371 CATTCCCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 3 0.06
19 1 0.02
20 9 0.18
21 16 0.32
22 5 0.10
23 3 0.06
24 2 0.04
ACGTcount: A:0.10, C:0.53, G:0.04, T:0.32
Consensus pattern (21 bp):
TCCCATTCCACCGTTCCCTCC
Found at i:45537745 original size:23 final size:23
Alignment explanation
Indices: 45537719--45537767 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
45537709 ATTATAAAAA
45537719 TAAT-ATATATTAAAT-CATTAATC
1 TAATAATA-ATTAAATACATT-ATC
45537742 TAATAATAATTAAATACATTATC
1 TAATAATAATTAAATACATTATC
45537765 TAA
1 TAA
45537768 AACCTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAATAATTAAATACATTATC
Found at i:45544796 original size:26 final size:26
Alignment explanation
Indices: 45544729--45544787 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
45544719 ATATCAAAAT
*
45544729 TTATAGAGACCAATTTAAAATCTAGA
1 TTATAGAGACCAGTTTAAAATCTAGA
*
45544755 TTATAGAGACCAGTTTAATATCTAGA
1 TTATAGAGACCAGTTTAAAATCTAGA
45544781 TTATAGA
1 TTATAGA
45544788 TTATAGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (26 bp):
TTATAGAGACCAGTTTAAAATCTAGA
Found at i:45546906 original size:27 final size:27
Alignment explanation
Indices: 45546868--45546966 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
45546858 AAATCTTTCT
45546868 AACTATGGACAAGAAACCGATTCACAA
1 AACTATGGACAAGAAACCGATTCACAA
* * *
45546895 AACTATGGACAAGAAACCAATAACATAAA
1 AACTATGGACAAGAAACCGAT-TCA-CAA
*
45546924 GGAACTA---ACCCAGAAACCGATTCACAA
1 --AACTATGGA-CAAGAAACCGATTCACAA
45546951 AACTATGGACAAGAAA
1 AACTATGGACAAGAAA
45546967 ATATACCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 5 0.09
27 28 0.50
28 6 0.11
29 12 0.21
31 5 0.09
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.13
Consensus pattern (27 bp):
AACTATGGACAAGAAACCGATTCACAA
Found at i:45547399 original size:14 final size:14
Alignment explanation
Indices: 45547377--45547407 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45547367 CACTGGAAAA
*
45547377 TCCGTAAAATATTT
1 TCCGGAAAATATTT
45547391 TCCGGAAAATATTT
1 TCCGGAAAATATTT
45547405 TCC
1 TCC
45547408 ACCAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (14 bp):
TCCGGAAAATATTT
Found at i:45551025 original size:19 final size:20
Alignment explanation
Indices: 45551003--45551047 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45550993 ATTTATATAC
*
45551003 ATATCAAACACA-ATTTCGA
1 ATATCAAACACATATTTCAA
* *
45551022 ATATTAATCACATATTTCAA
1 ATATCAAACACATATTTCAA
45551042 ATATCA
1 ATATCA
45551048 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATCAAACACATATTTCAA
Found at i:45559114 original size:13 final size:12
Alignment explanation
Indices: 45559091--45559119 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
45559081 TACTGATCTA
45559091 TTTTTCCTTTTT
1 TTTTTCCTTTTT
45559103 TTTTTCCTTTTT
1 TTTTTCCTTTTT
45559115 TTTTT
1 TTTTT
45559120 GGATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTCCTTTTT
Found at i:45559994 original size:21 final size:20
Alignment explanation
Indices: 45559933--45559996 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
45559923 TGATTTTAAA
*
45559933 AAAATAATATACTATTATTTT
1 AAAATTATATAC-ATTATTTT
*
45559954 TAAATTATTACTAACA-TATTTT
1 AAAATTA-TA-T-ACATTATTTT
45559976 AAAATTATCATACATTATTTT
1 AAAATTAT-ATACATTATTTT
45559997 TTAAAATCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 15 0.43
23 2 0.06
24 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATTATATACATTATTTT
Found at i:45559997 original size:22 final size:21
Alignment explanation
Indices: 45559933--45560003 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
45559923 TGATTTTAAA
*
45559933 AAAATAATATACTATTATTTTT
1 AAAATTATATAC-ATTATTTTT
45559955 -AAATTATTACTAACA-TA-TTTT
1 AAAATTA-TA-T-ACATTATTTTT
45559976 AAAATTATCATACATTATTTTTT
1 AAAATTAT-ATACATTA-TTTTT
45559999 AAAAT
1 AAAAT
45560004 CCATTATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 15
0.71 0.02 0.27
Matches are distributed among these distances:
20 3 0.08
21 13 0.32
22 11 0.28
23 11 0.28
24 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAATTATATACATTATTTTT
Found at i:45566205 original size:13 final size:13
Alignment explanation
Indices: 45566187--45566212 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45566177 ACCTTTTCGA
45566187 ATCTCAAAATACG
1 ATCTCAAAATACG
45566200 ATCTCAAAATACG
1 ATCTCAAAATACG
45566213 TAGTTTTACT
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
ATCTCAAAATACG
Found at i:45566687 original size:3 final size:3
Alignment explanation
Indices: 45566679--45566879 Score: 144
Period size: 3 Copynumber: 68.0 Consensus size: 3
45566669 ACATAGAAAT
*
45566679 ATA ATA ATA ATA ATA ATA AT- ATAA ATA ATA TTA ATA ATA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
45566722 ATA ATA GTA ATA ACA TTA ATA ATA ATT CTA ATA ATG ATG TTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
45566770 ATA A-A ATA ACA ATA A-A ACTA ATG ATA ATA ATG CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
45566814 GTA AGA ATA ATA ATA ATA ATA ATA TTA ATA ATA AT- ATCA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * *
45566859 CTA ATA CTA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
45566880 GTGTAATATT
Statistics
Matches: 152, Mismatches: 38, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
2 12 0.08
3 135 0.89
4 5 0.03
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:45574211 original size:21 final size:21
Alignment explanation
Indices: 45574185--45574237 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45574175 GACTTGAAGA
* *
45574185 TTGGTTACTTGTGGGTCAACT
1 TTGGTTACTTATGGATCAACT
*
45574206 TTGGTTACTTATGGATCAAGT
1 TTGGTTACTTATGGATCAACT
45574227 TTGGTTACTTA
1 TTGGTTACTTA
45574238 CTAATCAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (21 bp):
TTGGTTACTTATGGATCAACT
Found at i:45574244 original size:21 final size:21
Alignment explanation
Indices: 45574185--45574247 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
45574175 GACTTGAAGA
* ** *
45574185 TTGGTTACTTGTGGGTCAACT
1 TTGGTTACTTATGAATCAAGT
*
45574206 TTGGTTACTTATGGATCAAGT
1 TTGGTTACTTATGAATCAAGT
45574227 TTGGTTACTTACT-AATCAAGT
1 TTGGTTACTTA-TGAATCAAGT
45574248 AAAGTCACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (21 bp):
TTGGTTACTTATGAATCAAGT
Found at i:45591613 original size:38 final size:38
Alignment explanation
Indices: 45591571--45591646 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
45591561 AAGCTTTACC
45591571 TTTGCATTCTGTGTTAGAATAATAATAATAATTGACAT
1 TTTGCATTCTGTGTTAGAATAATAATAATAATTGACAT
45591609 TTTGCATTCTGTGTTAGAATAATAATAATAATTGACAT
1 TTTGCATTCTGTGTTAGAATAATAATAATAATTGACAT
45591647 AAAACTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (38 bp):
TTTGCATTCTGTGTTAGAATAATAATAATAATTGACAT
Found at i:45599487 original size:21 final size:21
Alignment explanation
Indices: 45599461--45599501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45599451 TGGGTGGATT
45599461 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
45599482 AGCTCTTATGAGCTTTTGTT
1 AGCTCTTACGAGCTTCTGTT
45599502 GGCGTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:45606082 original size:2 final size:2
Alignment explanation
Indices: 45606075--45606103 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45606065 GTATCATTGT
45606075 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45606104 TGATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:45610556 original size:4 final size:4
Alignment explanation
Indices: 45610547--45610580 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
45610537 CAGTACAAAC
45610547 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
45610581 TTGCAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:45615982 original size:88 final size:86
Alignment explanation
Indices: 45615864--45616041 Score: 230
Period size: 88 Copynumber: 2.0 Consensus size: 86
45615854 TTAAGTCTTT
* * * * *
45615864 TTTTTTTGCACTCAGTTGGGTACTTGAACTTTCAAAATGCATAAAAAAGGCCCTCAAACCTTTTC
1 TTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAA-C-TTTA
**
45615929 ACCAAAAGCAATTAAGCCCCTAC
64 AAAAAAAGCAATTAAGCCCCTAC
* * *
45615952 TTTTTTTACACTCAATTGGGTATTTAAACTTTCAAAATGCATCAAAAAGACCCTCTAACTTTAAA
1 TTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTAAA
* *
45616017 AAAAAGTAATTAAGCCCCTTC
66 AAAAAGCAATTAAGCCCCTAC
45616038 TTTT
1 TTTT
45616042 ATTAAAAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 26 0.33
87 1 0.01
88 51 0.65
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (86 bp):
TTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTAAA
AAAAAGCAATTAAGCCCCTAC
Found at i:45616072 original size:11 final size:10
Alignment explanation
Indices: 45616044--45616095 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 10
45616034 CTTCTTTTAT
45616044 TAAAAAT-TA
1 TAAAAATATA
*
45616053 AAAAAATATA
1 TAAAAATATA
45616063 T-AAAATATA
1 TAAAAATATA
*
45616072 TAGAAATATA
1 TAAAAATATA
*
45616082 AAAAAAT-TA
1 TAAAAATATA
45616091 TAAAA
1 TAAAA
45616096 TTTTATAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 21 0.60
10 14 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
TAAAAATATA
Found at i:45616339 original size:30 final size:30
Alignment explanation
Indices: 45616303--45616394 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
45616293 GGTTGTTAAT
45616303 TTTTTTATGATTTTTTATAAAATTTTACAA
1 TTTTTTATGATTTTTTATAAAATTTTACAA
* * ** *
45616333 TTTTTTATGATTTTATAAAAAAAATT-CTA
1 TTTTTTATGATTTTTTATAAAATTTTACAA
* *
45616362 TTTTTTAT-A-TTTTTATTAAAATTTAATAA
1 TTTTTTATGATTTTTTA-TAAAATTTTACAA
45616391 TTTT
1 TTTT
45616395 CTAAAATTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
27 5 0.10
28 6 0.12
29 15 0.31
30 22 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTTATGATTTTTTATAAAATTTTACAA
Found at i:45616346 original size:29 final size:29
Alignment explanation
Indices: 45616303--45616394 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
45616293 GGTTGTTAAT
45616303 TTTTTTATGATTTTTTATAAAATTTTACAA
1 TTTTTTATGA-TTTTTATAAAATTTTACAA
* ** *
45616333 TTTTTTATGATTTTATAAAAAAAATT-CTA
1 TTTTTTATGATTTT-TATAAAATTTTACAA
* *
45616362 TTTTTTAT-ATTTTTATTAAAATTTAATAA
1 TTTTTTATGATTTTTA-TAAAATTTTACAA
45616391 TTTT
1 TTTT
45616395 CTAAAATTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
27 2 0.04
28 10 0.20
29 19 0.39
30 18 0.37
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTTATGATTTTTATAAAATTTTACAA
Found at i:45616419 original size:17 final size:17
Alignment explanation
Indices: 45616369--45616419 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
45616359 CTATTTTTTA
45616369 TATT-TTTATTAAAATT
1 TATTATTTATTAAAATT
*
45616385 TAATAATTT-TCTAAAATT
1 T-ATTATTTAT-TAAAATT
*
45616403 TATTATTTATTATAATT
1 TATTATTTATTAAAATT
45616420 CTTTTCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.04
17 15 0.54
18 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTATTAAAATT
Found at i:45616601 original size:88 final size:88
Alignment explanation
Indices: 45616443--45616654 Score: 250
Period size: 88 Copynumber: 2.4 Consensus size: 88
45616433 TAATAAGAGT
* * *
45616443 AGGGCTTAATTAC-TTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAGAGTTCAAGTA
1 AGGGCTTAATT-CTTTTTTTGAAAAAATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTA
45616507 CCCAATTGAGTG-AAAAAA-AAGTA
65 CCCAATTGAGTGCAAAAAAGAAG-A
* * ** * *
45616530 AGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATGTTTTTTGAAAGTTCACGTG
1 AGGGCTTAATT-CTTTTTTTGAAAAAATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTA
* *
45616595 CTCAATTGAGTGCAAAAAAGAAGG
65 CCCAATTGAGTGCAAAAAAGAAGA
*
45616619 AGGGACTTAATTATTTTTCTTGAAAAAATTTGAGGG
1 AGGG-CTTAATTCTTTTT-TTGAAAAAATTTGAGGG
45616655 TTTTTTACAC
Statistics
Matches: 106, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
87 12 0.11
88 54 0.51
89 15 0.14
90 25 0.24
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (88 bp):
AGGGCTTAATTCTTTTTTTGAAAAAATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTAC
CCAATTGAGTGCAAAAAAGAAGA
Found at i:45619606 original size:2 final size:2
Alignment explanation
Indices: 45619599--45619640 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
45619589 GTGATACCCT
45619599 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
45619641 GTTAAATATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:45621332 original size:60 final size:60
Alignment explanation
Indices: 45621150--45621332 Score: 185
Period size: 60 Copynumber: 3.1 Consensus size: 60
45621140 CTTTAGGATT
* * * * *
45621150 TTCAAGGACC-AAATTGGACCAAAAAAAAATTCAAGTCCCAATGTGGGAACATTTGCCAAA
1 TTCAAGG-CCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
* * * ** *
45621210 TTCAAGGTCTAACTT-GA-CCAAAAAAAGTTC-AGACCCCTATGTGGGAACAATTATTAAG
1 TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAG-CCCCAATGTGGGAACAATTACCAAA
** * *
45621268 TTCAAGGCCTAACTTGGACCCAAAAAATTTTCAAGCCCCAATGTGAGAAAAATTACCAAA
1 TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
45621328 TTCAA
1 TTCAA
45621333 ACCTCAAAAT
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
57 2 0.02
58 43 0.44
59 5 0.05
60 46 0.47
61 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (60 bp):
TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
Found at i:45630418 original size:18 final size:19
Alignment explanation
Indices: 45630372--45630424 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
45630362 AGTCTCAACC
*
45630372 AAAAT-TTTTTAAAATAATT
1 AAAATATTTTTAAAAT-ATA
45630391 AAAATAATTTTTAAAAT-TA
1 AAAAT-ATTTTTAAAATATA
*
45630410 AAAATATTTATAAAA
1 AAAATATTTTTAAAA
45630425 ATTCCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
21 10 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATTTTTAAAATATA
Found at i:45637904 original size:14 final size:15
Alignment explanation
Indices: 45637878--45637907 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45637868 TCAAAATATT
45637878 AAATAATTATGTTTA
1 AAATAATTATGTTTA
45637893 AAATAATT-TGTTTA
1 AAATAATTATGTTTA
45637907 A
1 A
45637908 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AAATAATTATGTTTA
Found at i:45639280 original size:14 final size:14
Alignment explanation
Indices: 45639261--45639290 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45639251 CAATCACCGC
45639261 GCCAGTTTGGTTGG
1 GCCAGTTTGGTTGG
45639275 GCCAGTTTGGTTGG
1 GCCAGTTTGGTTGG
45639289 GC
1 GC
45639291 TAAATGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.43, T:0.33
Consensus pattern (14 bp):
GCCAGTTTGGTTGG
Found at i:45644394 original size:14 final size:14
Alignment explanation
Indices: 45644375--45644404 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45644365 CAATCACCGC
45644375 GCCAGTTTGGTTGG
1 GCCAGTTTGGTTGG
45644389 GCCAGTTTGGTTGG
1 GCCAGTTTGGTTGG
45644403 GC
1 GC
45644405 TAAATGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.43, T:0.33
Consensus pattern (14 bp):
GCCAGTTTGGTTGG
Done.