Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 181 of 222
Found at i:58001198 original size:44 final size:44
Alignment explanation
Indices: 58001146--58002092 Score: 867
Period size: 44 Copynumber: 21.5 Consensus size: 44
58001136 CTGTCAGTGC
* * * * *
58001146 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * * *
58001190 ATGAAGACAAGATCTGCTTTCTTCGATCTATTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * *
58001235 GGGAAGATAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * *
58001278 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * * *
58001322 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCATCATTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * *
58001367 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * *
58001411 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * *
58001455 ATGAAGACAAGATCTAC-ATCTTTGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * * *
58001498 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCTAATAA
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * * *
58001542 ATGAAGACGAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * * *
58001587 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACTAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * *
58001631 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * *
58001675 ATGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * * * *
58001718 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAGTAA
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * *
58001762 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* * * *
58001807 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACTAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * *
58001851 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * *
58001895 ATGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * * * * * *
58001938 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAGTAA
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
* * * *
58001982 ATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACCAATAT
* *
58002027 GGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACCAATAT
* * *
58002070 AAGAAGACATGACCTGCTATCTT
1 AGGAAGACAAGATCTGCTATCTT
58002093 TACTGATCTG
Statistics
Matches: 712, Mismatches: 166, Indels: 50
0.77 0.18 0.05
Matches are distributed among these distances:
42 5 0.01
43 142 0.20
44 411 0.58
45 154 0.22
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCAATAT
Found at i:58001512 original size:220 final size:220
Alignment explanation
Indices: 58001147--58002092 Score: 1518
Period size: 220 Copynumber: 4.3 Consensus size: 220
58001137 TGTCAGTGCA
* * * * * * * * * *
58001147 GGAAGACAGGACCTGCTATTTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTC
1 GGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATC
* * * * *** * *
58001211 TTCGATCTATTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAAT
65 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAAT
* ** *
58001276 ATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
129 ATAGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTT
* *
58001341 TCTTCGATCTACTTCGCCATCATTATG
194 TCTTCGATCTACTTCGCCACCAGTATG
58001368 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
*
58001433 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTACATCTTTGATCCACTTCCTACCAATAT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATAT
* * *
58001498 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCTAATAAATGAAGACGAGATCTGCTTTC
131 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
58001563 TTCGATCTACTTCGCCACCAGTATG
196 TTCGATCTACTTCGCCACCAGTATG
*
58001588 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACTAATATAGGAAGACAGGATCTGCTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
58001653 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATAT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATAT
*
58001718 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAGTAAATGAAGACAAGATCTGCTTTC
131 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
58001783 TTCGATCTACTTCGCCACCAGTATG
196 TTCGATCTACTTCGCCACCAGTATG
*
58001808 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACTAATATAGGAAGACAGGATCTGCTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
58001873 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATAT
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATAT
*
58001938 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAGTAAATGAAGACAAGATCTGCTTTC
131 AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* *
58002003 TTCGATCTACTCCGCCACCAATATG
196 TTCGATCTACTTCGCCACCAGTATG
* * *
58002028 GGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAAGAAGACATGACCTGCTATCT
1 GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
58002092 T
66 T
58002093 TACTGATCTG
Statistics
Matches: 685, Mismatches: 39, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
219 29 0.04
220 606 0.88
221 50 0.07
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (220 bp):
GGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATAT
AGGAAGATAGGACCTGCTATCTTCAATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCCACCAGTATG
Found at i:58003311 original size:6 final size:6
Alignment explanation
Indices: 58003295--58003327 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
58003285 GGCCTCTCCA
58003295 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
58003328 ATCACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:58008586 original size:21 final size:22
Alignment explanation
Indices: 58008560--58008611 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
58008550 AAAGGGTATC
*
58008560 TACAAATTAAAT-CTCTAAGAT
1 TACAAATCAAATGCTCTAAGAT
* *
58008581 TACAAATCATATGTTCTAAGAT
1 TACAAATCAAATGCTCTAAGAT
*
58008603 TACATATCA
1 TACAAATCA
58008612 TATCTAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (22 bp):
TACAAATCAAATGCTCTAAGAT
Found at i:58008601 original size:22 final size:22
Alignment explanation
Indices: 58008573--58008614 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
58008563 AAATTAAATC
58008573 TCTAAGATTACAAATCATATGT
1 TCTAAGATTACAAATCATATGT
*
58008595 TCTAAGATTACATATCATAT
1 TCTAAGATTACAAATCATAT
58008615 CTAAGATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATGT
Found at i:58008619 original size:19 final size:19
Alignment explanation
Indices: 58008573--58008648 Score: 98
Period size: 19 Copynumber: 3.8 Consensus size: 19
58008563 AAATTAAATC
*
58008573 TCTAAGATTACAAATCATA
1 TCTAAGATTACATATCATA
58008592 TGTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
58008614 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
58008633 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
58008649 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
19 34 0.65
22 18 0.35
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:58008631 original size:41 final size:38
Alignment explanation
Indices: 58008573--58008648 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 38
58008563 AAATTAAATC
58008573 TCTAAGATTACAAATCATATGTTCTAAGATTACATATCATA
1 TCTAAGATTACAAATCATA---TCTAAGATTACATATCATA
* * *
58008614 TCTAAGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACAAATCATATCTAAGATTACATATC
58008649 CTCAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 15 0.47
41 17 0.53
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACAAATCATATCTAAGATTACATATCATA
Found at i:58009780 original size:5 final size:6
Alignment explanation
Indices: 58009733--58009777 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
58009723 AACGGTTCAA
58009733 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
58009778 TAAGATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:58009785 original size:5 final size:5
Alignment explanation
Indices: 58009734--58009787 Score: 54
Period size: 6 Copynumber: 9.8 Consensus size: 5
58009724 ACGGTTCAAA
*
58009734 AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAT AAAAT AAGAT
1 AAAAT -AAAAT -AAAAT -AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT
58009784 AAAA
1 AAAA
58009788 ACGCAGATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 17 0.37
6 29 0.63
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:58010584 original size:49 final size:49
Alignment explanation
Indices: 58010551--58010679 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 49
58010541 ATTTAGCTTT
* * *
58010551 AATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTACCCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAAATAAGATCTGTACCCAGTCTTC
* * * *
58010600 AATTTGCTCCACTGCAACTTCAGGGAGATACA-ATTTGTAGCCGGTCTTC
1 AATTTGCTCCACTGCAACTTCAGGGAAATA-AGATCTGTACCCAGTCTTC
*
58010649 AATTTGCTCCACTGCAACTTCAGGGAGATAA
1 AATTTGCTCCACTGCAACTTCAGGGAAATAA
58010680 AACTTATGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
48 1 0.01
49 74 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (49 bp):
AATTTGCTCCACTGCAACTTCAGGGAAATAAGATCTGTACCCAGTCTTC
Found at i:58011647 original size:42 final size:43
Alignment explanation
Indices: 58011581--58011662 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
58011571 GGTATGACAA
*
58011581 GATCACCACATGCCCCAATCTGAT-CAAAATTTGAGCTGCTTT
1 GATCACCACATGCCCCAATCTGATCCAAAATTTGAACTGCTTT
** * *
58011623 GATCACCTTATGCCCCATTTTGATCCAAAATTTGAACTGC
1 GATCACCACATGCCCCAATCTGATCCAAAATTTGAACTGC
58011663 CCATTCCTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 20 0.59
43 14 0.41
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (43 bp):
GATCACCACATGCCCCAATCTGATCCAAAATTTGAACTGCTTT
Found at i:58022451 original size:17 final size:17
Alignment explanation
Indices: 58022410--58022451 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
58022400 AGCAACCATC
58022410 AAAAAAATAAATAAATA
1 AAAAAAATAAATAAATA
* *
58022427 AATAAAATACATAAA-A
1 AAAAAAATAAATAAATA
58022443 AAAACAAAT
1 AAAA-AAAT
58022452 CAAGTATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAAAAATAAATAAATA
Found at i:58022771 original size:27 final size:28
Alignment explanation
Indices: 58022741--58022858 Score: 73
Period size: 28 Copynumber: 4.1 Consensus size: 28
58022731 TTATAAAATA
58022741 AAAATATA-AGTATGTATATATATTTAT
1 AAAATATACAGTATGTATATATATTTAT
* *
58022768 AAAA-ATA-TGTACGTGTATGTATATTTAT
1 AAAATATACAGTA--TGTATATATATTTAT
* * * *
58022796 AAAAGGGATACATGTAAGTATGTATATATAT
1 AAAA--TATACA-GTATGTATATATATTTAT
* * *
58022827 AAAATTTATAG-ACGTATATATATATTAT
1 AAAATATACAGTATGTATATATAT-TTAT
58022855 AAAA
1 AAAA
58022859 ATGTATGATG
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
26 6 0.08
27 14 0.19
28 26 0.36
29 3 0.04
31 20 0.28
33 3 0.04
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.39
Consensus pattern (28 bp):
AAAATATACAGTATGTATATATATTTAT
Found at i:58026656 original size:12 final size:12
Alignment explanation
Indices: 58026639--58026666 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58026629 ACGTCTGCTG
58026639 AATTTTCCACAA
1 AATTTTCCACAA
58026651 AATTTTCCACAA
1 AATTTTCCACAA
58026663 AATT
1 AATT
58026667 ACCAGTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (12 bp):
AATTTTCCACAA
Found at i:58031682 original size:63 final size:58
Alignment explanation
Indices: 58031568--58031691 Score: 140
Period size: 63 Copynumber: 2.1 Consensus size: 58
58031558 TGGTAGATCA
* * * *
58031568 TGTAACTCACTATTTTGGAATTAACACGAGTCAAAGACACAAACTTGTGTCCAGGTCG
1 TGTAACTCACTATTTTGGAATTAACACGAGCCAAAGACACAAACGTCTGTCCAAGTCG
* **
58031626 TGTAACTCACTGTTTTGGAATTAGAGTCACACGAGCCAAAGACACAGGCGTCTGTCCAAGTCG
1 TGTAACTCACTATTTTGGAATT--A---ACACGAGCCAAAGACACAAACGTCTGTCCAAGTCG
58031689 TGT
1 TGT
58031692 GAGAGAATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
58 21 0.39
60 1 0.02
63 32 0.59
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (58 bp):
TGTAACTCACTATTTTGGAATTAACACGAGCCAAAGACACAAACGTCTGTCCAAGTCG
Found at i:58032425 original size:22 final size:22
Alignment explanation
Indices: 58032397--58032442 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
58032387 GGTAGGAATT
58032397 TGCATCTGTATCTGACATGTTC
1 TGCATCTGTATCTGACATGTTC
**
58032419 TGCATCTGTATCTGATTTGTTC
1 TGCATCTGTATCTGACATGTTC
58032441 TG
1 TG
58032443 TATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (22 bp):
TGCATCTGTATCTGACATGTTC
Found at i:58034059 original size:58 final size:59
Alignment explanation
Indices: 58033994--58034125 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 59
58033984 ATCATTTTAA
* *
58033994 TATTAAATTAATATAATACTTAT-C-AAGATAAATAGTAGA-TTAATTTTAATATTAAATT
1 TATTAAATTAATATAATACTTATCCAAAGATAAATAGTAAATTTAA-TTTAATATTAAA-C
* *
58034052 TATTAAATTAATATAATATTTATCCATAAGATAAATATTAAATTTAATTTAATATTAAAC
1 TATTAAATTAATATAATACTTATCCA-AAGATAAATAGTAAATTTAATTTAATATTAAAC
*
58034112 TATTAAAATAATAT
1 TATTAAATTAATAT
58034126 TTTTTTGGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
58 22 0.34
59 1 0.02
60 13 0.20
61 25 0.38
62 4 0.06
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATATAATACTTATCCAAAGATAAATAGTAAATTTAATTTAATATTAAAC
Found at i:58037450 original size:24 final size:24
Alignment explanation
Indices: 58037418--58037464 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
58037408 GAAAGTCAAA
58037418 AAAAAAATTCTAGAAAATTTTAAG
1 AAAAAAATTCTAGAAAATTTTAAG
*
58037442 AAAAAAATTCTAGAAATTTTTAA
1 AAAAAAATTCTAGAAAATTTTAA
58037465 TTTTTTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAAAATTCTAGAAAATTTTAAG
Found at i:58041201 original size:295 final size:295
Alignment explanation
Indices: 58040671--58041237 Score: 992
Period size: 295 Copynumber: 1.9 Consensus size: 295
58040661 TGAGATTTTG
* * *
58040671 TCTTTTTAGGTCAGTAAATGAATCTGGCCGTTTAATTTGTAAAATTAATTATTTGCTAAACTTCT
1 TCTTTTTAGGTCAGTAAATAAATCTGGCCATTTAATTTGTAAAATGAATTATTTGCTAAACTTCT
*
58040736 GATTTGCATTGCTTTGTATAAGGATATTAGACAATGATAATTAATTTCAAGCACTTTATTCATCC
66 GATTTGCATTGCTTTGTATAAGGATATTAGACAATGATAATTAATTTCAAACACTTTATTCATCC
*
58040801 AGCTTTTTATTCTCTCCCTTAATGTTAGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGT
131 AACTTTTTATTCTCTCCCTTAATGTTAGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGT
* *
58040866 GCAGTAAATAAATCTCCAGCTAATGGTTCAACATACTTAATTATAAAAGGAGATTCATAACCAAC
196 GCAGTAAATAAATATCCAGCTAATGGTTCAACATACTTAATTATAAAAGGAGATGCATAACCAAC
58040931 ATATATTCCCAAGCTGGTATGTGAGATTTTGTAAT
261 ATATATTCCCAAGCTGGTATGTGAGATTTTGTAAT
* * *
58040966 TCTTTTTAGGTCAGTAAATAAATCTGGCCATTTGATTTGTAAAATGAATTATTTGTTGAACTTCT
1 TCTTTTTAGGTCAGTAAATAAATCTGGCCATTTAATTTGTAAAATGAATTATTTGCTAAACTTCT
58041031 GATTTGCATTGCTTTGTATAAGGATATTAGACAATGATAATTAATTTCAAACACTTTATTCATCC
66 GATTTGCATTGCTTTGTATAAGGATATTAGACAATGATAATTAATTTCAAACACTTTATTCATCC
* *
58041096 AACTTTTTATTCTCTACCC-TGATGTTGGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCG
131 AACTTTTTATTCTCT-CCCTTAATGTTAGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCG
* *
58041160 TGCAGTAAATAAATATCCAGTTAATGGTTCAACATACTTAATTATAGAAGGAGATGCATAACCAA
195 TGCAGTAAATAAATATCCAGCTAATGGTTCAACATACTTAATTATAAAAGGAGATGCATAACCAA
58041225 CATATATTCCCAA
260 CATATATTCCCAA
58041238 CCTCCTTTGA
Statistics
Matches: 257, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
295 254 0.99
296 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (295 bp):
TCTTTTTAGGTCAGTAAATAAATCTGGCCATTTAATTTGTAAAATGAATTATTTGCTAAACTTCT
GATTTGCATTGCTTTGTATAAGGATATTAGACAATGATAATTAATTTCAAACACTTTATTCATCC
AACTTTTTATTCTCTCCCTTAATGTTAGGAATGTTGTTTCATCAAAGTGACAATCAACAAATCGT
GCAGTAAATAAATATCCAGCTAATGGTTCAACATACTTAATTATAAAAGGAGATGCATAACCAAC
ATATATTCCCAAGCTGGTATGTGAGATTTTGTAAT
Found at i:58044383 original size:26 final size:25
Alignment explanation
Indices: 58044303--58044388 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 25
58044293 GTTTATTCGA
*
58044303 TTTTTTA-TTTTTTAAAAGTTTCCAT
1 TTTTTTATTTTTTTAATA-TTTCCAT
* **
58044328 TTTTTTATTTTTTTCATCATTTGAAAAT
1 TTTTTTATTTTTTTAAT-ATTT--CCAT
58044356 TTTTTTATTTTATTTAATATTTCCAT
1 TTTTTTATTTT-TTTAATATTTCCAT
58044382 TTTTTTA
1 TTTTTTA
58044389 GGATTTTGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
25 7 0.14
26 19 0.39
27 1 0.02
28 17 0.35
29 5 0.10
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTATTTTTTTAATATTTCCAT
Found at i:58051419 original size:16 final size:16
Alignment explanation
Indices: 58051395--58051431 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
58051385 TCAGGACAGT
*
58051395 AGTTTAAATTCTGAAA
1 AGTTAAAATTCTGAAA
58051411 AGTTAAAATTCTGAAA
1 AGTTAAAATTCTGAAA
58051427 AGTTA
1 AGTTA
58051432 CGCATTAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (16 bp):
AGTTAAAATTCTGAAA
Found at i:58057440 original size:21 final size:21
Alignment explanation
Indices: 58057416--58057471 Score: 85
Period size: 22 Copynumber: 2.6 Consensus size: 21
58057406 TTTTTTGTGC
*
58057416 TTTTTTGCTTTTTGCTCTTTT
1 TTTTTTGCTTTTTACTCTTTT
*
58057437 TTTTTGCGCTTTTTACTCTTTT
1 TTTTT-TGCTTTTTACTCTTTT
58057459 TTTTTTGCTTTTT
1 TTTTTTGCTTTTT
58057472 TTTGTGCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.02, C:0.14, G:0.09, T:0.75
Consensus pattern (21 bp):
TTTTTTGCTTTTTACTCTTTT
Found at i:58057461 original size:33 final size:33
Alignment explanation
Indices: 58057424--58057532 Score: 104
Period size: 33 Copynumber: 3.5 Consensus size: 33
58057414 GCTTTTTTGC
58057424 TTTTTGCT-CTTTTTTTTTGCGCTTTTTACTCTT
1 TTTTTGCTGC-TTTTTTTTGCGCTTTTTACTCTT
** *
58057457 TTTTTTTTGCTTTTTTTTGTGCTTTTTACTCTT
1 TTTTTGCTGCTTTTTTTTGCGCTTTTTACTCTT
* * * *
58057490 TTTTT-TTGCGTTTTTTT--GCTTTTT-TTGTT
1 TTTTTGCTGCTTTTTTTTGCGCTTTTTACTCTT
58057519 TTTTTGCTG-TTTTT
1 TTTTTGCTGCTTTTT
58057533 GCTATTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
29 12 0.18
30 9 0.14
32 11 0.17
33 33 0.50
34 1 0.02
ACGTcount: A:0.02, C:0.12, G:0.11, T:0.75
Consensus pattern (33 bp):
TTTTTGCTGCTTTTTTTTGCGCTTTTTACTCTT
Found at i:58057470 original size:10 final size:10
Alignment explanation
Indices: 58057457--58057550 Score: 72
Period size: 10 Copynumber: 9.4 Consensus size: 10
58057447 TTTTACTCTT
58057457 TTTTTTTTGC
1 TTTTTTTTGC
58057467 TTTTTTTTGTGC
1 -TTTTTTT-TGC
**
58057479 TTTTTACT-C
1 TTTTTTTTGC
58057488 TTTTTTTTTGC
1 -TTTTTTTTGC
*
58057499 GTTTTTTTGC
1 TTTTTTTTGC
58057509 -TTTTTTTG-
1 TTTTTTTTGC
58057517 -TTTTTTTGC
1 TTTTTTTTGC
*
58057526 -TGTTTTTGC
1 TTTTTTTTGC
58057535 TATTTTTTTTGC
1 --TTTTTTTTGC
58057547 TTTT
1 TTTT
58057551 ATTTAAAGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.12
9 17 0.25
10 20 0.29
11 13 0.19
12 11 0.16
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.77
Consensus pattern (10 bp):
TTTTTTTTGC
Found at i:58057482 original size:21 final size:21
Alignment explanation
Indices: 58057458--58057515 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
58057448 TTTACTCTTT
58057458 TTTTTTTGCTTTTTTTTGTGC-
1 TTTTTTTGCTTTTTTTT-TGCG
*
58057479 TTTTTACT-CTTTTTTTTTGCG
1 TTTTT-TTGCTTTTTTTTTGCG
58057500 TTTTTTTGCTTTTTTT
1 TTTTTTTGCTTTTTTT
58057516 GTTTTTTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 27 0.84
22 1 0.03
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTTTTTGCTTTTTTTTTGCG
Found at i:58057494 original size:32 final size:33
Alignment explanation
Indices: 58057434--58057508 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
58057424 TTTTTGCTCT
58057434 TTTTTTTTGCGCTTTTTACTCTTTTTTTTTTGC
1 TTTTTTTTGCGCTTTTTACTCTTTTTTTTTTGC
*
58057467 TTTTTTTTGTGCTTTTTACTC-TTTTTTTTTGC
1 TTTTTTTTGCGCTTTTTACTCTTTTTTTTTTGC
*
58057499 GTTTTTTTGC
1 TTTTTTTTGC
58057509 TTTTTTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 19 0.49
33 20 0.51
ACGTcount: A:0.03, C:0.13, G:0.11, T:0.73
Consensus pattern (33 bp):
TTTTTTTTGCGCTTTTTACTCTTTTTTTTTTGC
Found at i:58057503 original size:12 final size:11
Alignment explanation
Indices: 58057456--58057550 Score: 70
Period size: 11 Copynumber: 8.4 Consensus size: 11
58057446 TTTTTACTCT
58057456 TTTTTTTTTGC
1 TTTTTTTTTGC
58057467 TTTTTTTTGTGC
1 TTTTTTTT-TGC
**
58057479 -TTTTTACT-C
1 TTTTTTTTTGC
58057488 TTTTTTTTTGC
1 TTTTTTTTTGC
*
58057499 -GTTTTTTTGC
1 TTTTTTTTTGC
**
58057509 TTTTTTTGTTTT
1 TTTTTTT-TTGC
58057521 TTTGCTGTTTTTGC
1 TTT--T-TTTTTGC
58057535 TATTTTTTTTGC
1 T-TTTTTTTTGC
58057547 TTTT
1 TTTT
58057551 ATTTAAAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
9 1 0.02
10 16 0.25
11 22 0.34
12 16 0.25
13 1 0.02
14 4 0.06
15 5 0.08
ACGTcount: A:0.02, C:0.09, G:0.12, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTGC
Found at i:58057514 original size:55 final size:55
Alignment explanation
Indices: 58057416--58057520 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
58057406 TTTTTTGTGC
*
58057416 TTTTTTGCTTTTTGCTCTTTTTTTTTGCGCTTTTTACTCTTTTTT-TTTTGCTTT
1 TTTTTTGCTTTTTACTCTTTTTTTTTGCGCTTTTTACTCTTTTTTGTTTTGCTTT
* *
58057470 TTTTTGTGCTTTTTACTCTTTTTTTTTGCGTTTTTTTGCT-TTTTTTGTTTT
1 TTTTT-TGCTTTTTACTCTTTTTTTTTGCG-CTTTTTACTCTTTTTTGTTTT
58057521 TTTGCTGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
54 5 0.11
55 29 0.64
56 11 0.24
ACGTcount: A:0.02, C:0.12, G:0.10, T:0.75
Consensus pattern (55 bp):
TTTTTTGCTTTTTACTCTTTTTTTTTGCGCTTTTTACTCTTTTTTGTTTTGCTTT
Found at i:58057519 original size:17 final size:17
Alignment explanation
Indices: 58057499--58057533 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
58057489 TTTTTTTTGC
*
58057499 GTTTTTTTGCTTTTTTT
1 GTTTTTTTGCTGTTTTT
58057516 GTTTTTTTGCTGTTTTT
1 GTTTTTTTGCTGTTTTT
58057533 G
1 G
58057534 CTATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.06, G:0.17, T:0.77
Consensus pattern (17 bp):
GTTTTTTTGCTGTTTTT
Found at i:58057550 original size:9 final size:9
Alignment explanation
Indices: 58057490--58057542 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
58057480 TTTTACTCTT
58057490 TTTTTTTGC
1 TTTTTTTGC
58057499 GTTTTTTTGC
1 -TTTTTTTGC
58057509 TTTTTTTG-
1 TTTTTTTGC
58057517 TTTTTTTGC
1 TTTTTTTGC
*
58057526 TGTTTTTGC
1 TTTTTTTGC
58057535 TATTTTTT
1 T-TTTTTT
58057543 TTGCTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 8 0.21
9 17 0.44
10 14 0.36
ACGTcount: A:0.02, C:0.08, G:0.13, T:0.77
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:58065051 original size:16 final size:16
Alignment explanation
Indices: 58065030--58065060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58065020 TTCACTATTA
*
58065030 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
58065046 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
58065061 GTATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:58066171 original size:34 final size:34
Alignment explanation
Indices: 58066133--58066215 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
58066123 GAATTTTCTT
*
58066133 GAAAAATTATTTTGGAAAATCTAAATGATTTTAA
1 GAAAAATTATTTTGGAAAATCTAAATGAATTTAA
* *
58066167 GAAAAATTAATTTGGAAAATCTAAGTGAATTTAA
1 GAAAAATTATTTTGGAAAATCTAAATGAATTTAA
*
58066201 GAAAATTTAATTTTG
1 GAAAAATT-ATTTTG
58066216 ATGAAGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 38 0.88
35 5 0.12
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.37
Consensus pattern (34 bp):
GAAAAATTATTTTGGAAAATCTAAATGAATTTAA
Found at i:58066687 original size:12 final size:12
Alignment explanation
Indices: 58066653--58066758 Score: 50
Period size: 12 Copynumber: 9.2 Consensus size: 12
58066643 ATTCCAAAAA
*
58066653 TAATA-TTATTT
1 TAATATTTAATT
58066664 TAATAGTTTAATAT
1 TAATA-TTTAAT-T
58066678 TAA-ATTTAATT
1 TAATATTTAATT
58066689 TAATATTT-ATCT
1 TAATATTTAAT-T
*
58066701 TAATA-GT-ATT
1 TAATATTTAATT
58066711 T--TA-TTAATT
1 TAATATTTAATT
* *
58066720 TAATATTAAAGT
1 TAATATTTAATT
* *
58066732 GATTATCTTAATAT
1 TAATAT-TTAAT-T
58066746 TAA-ATTTAATT
1 TAATATTTAATT
58066757 TA
1 TA
58066759 TTGTTTATCT
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 2 0.03
11 19 0.26
12 29 0.40
13 10 0.14
14 6 0.08
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:58066706 original size:37 final size:36
Alignment explanation
Indices: 58066653--58066744 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 36
58066643 ATTCCAAAAA
*
58066653 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
58066689 TAATATTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
58066726 TAAAGTGATTATCTTAATA
1 T-AA-T-ATTATCTTAATA
58066745 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
36 13 0.27
37 18 0.38
38 4 0.08
39 12 0.25
40 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:58066728 original size:11 final size:11
Alignment explanation
Indices: 58066653--58066728 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
58066643 ATTCCAAAAA
*
58066653 TAATATTATTT
1 TAATATTAATT
58066664 TAATAGTTTAATAT
1 TAATA--TTAAT-T
58066678 TAA-ATTTAATT
1 TAATA-TTAATT
*
58066689 TAATATTTATCT
1 TAATATTAAT-T
*
58066701 TAATAGT-ATT
1 TAATATTAATT
58066711 T--TATTAATT
1 TAATATTAATT
58066720 TAATATTAA
1 TAATATTAA
58066729 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:58066748 original size:68 final size:66
Alignment explanation
Indices: 58066670--58066867 Score: 192
Period size: 68 Copynumber: 3.0 Consensus size: 66
58066660 ATTTTAATAG
*
58066670 TTTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTGAT
1 TTTAATATTAAATTTAATTTAATATTTATCTT-ATAGTATTATATTAATTTAATATTAAAGTGAT
58066735 TA
65 TA
* * * * * * *
58066737 TCTTAATATTAAATTTAATTTATTGTTTATCTTGTAG-ATAAACATT-CTGTT-AT-TTTAA-T-
1 T-TTAATATTAAATTTAATTTAATATTTATCTTATAGTAT-TATATTAAT-TTAATATTAAAGTG
*
58066796 AATA
63 ATTA
* * *
58066800 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATATAATATTAAAGTGA
1 TTTAATATTAAATTTAATTTAATATTTATCTT-AT-AGTATTATATTAATTTAATATTAAAGTGA
58066865 TTA
64 TTA
58066868 AGTTTGATCA
Statistics
Matches: 100, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
62 28 0.28
63 5 0.05
64 7 0.07
65 9 0.09
66 9 0.09
67 10 0.10
68 32 0.32
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.52
Consensus pattern (66 bp):
TTTAATATTAAATTTAATTTAATATTTATCTTATAGTATTATATTAATTTAATATTAAAGTGATT
A
Found at i:58075762 original size:32 final size:30
Alignment explanation
Indices: 58075716--58075879 Score: 159
Period size: 30 Copynumber: 5.3 Consensus size: 30
58075706 TATGTTGTCA
* *
58075716 AATTGATTTGTATATAGATATATATATTGCCG
1 AATTGATTTGTATAT-G-GATATACATTGCCG
* * * * **
58075748 AATTAATTTATATATAGATATATAAATAACCG
1 AATTGATTTGTATAT-G-GATATACATTGCCG
**
58075780 AATTGATTTGTATATGGATATACATTGCTA
1 AATTGATTTGTATATGGATATACATTGCCG
*
58075810 AATT-ATTTTGTATATGGATATACATTGCTG
1 AATTGA-TTTGTATATGGATATACATTGCCG
*
58075840 AATTGATTTGTATATGGATATATATTGCCG
1 AATTGATTTGTATATGGATATACATTGCCG
*
58075870 AATTTATTTG
1 AATTGATTTG
58075880 AGCATTGGAT
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
29 1 0.01
30 70 0.62
31 2 0.02
32 40 0.35
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (30 bp):
AATTGATTTGTATATGGATATACATTGCCG
Found at i:58077109 original size:31 final size:31
Alignment explanation
Indices: 58077071--58077133 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
58077061 TGACATATTT
*
58077071 ATATATTGCGATAGTGTGATGAATTCTTGAC
1 ATATATTGCGATAGTGTGATGAATTATTGAC
58077102 ATATATTGCGATAGTGTGATGAATTATTGAC
1 ATATATTGCGATAGTGTGATGAATTATTGAC
58077133 A
1 A
58077134 ATTCAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (31 bp):
ATATATTGCGATAGTGTGATGAATTATTGAC
Found at i:58080989 original size:3 final size:3
Alignment explanation
Indices: 58080981--58081010 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
58080971 AGGAAAGGAA
58080981 AAG AAG AAG AAG AAG AAG AAG -AG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
58081011 GGGCGGTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:58081473 original size:16 final size:16
Alignment explanation
Indices: 58081444--58081497 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
58081434 TTTGGTTCGC
* *
58081444 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
58081460 TGTAATGTAATAGAGG
1 TGTAATGGAATAGAGG
58081476 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
58081492 TGTAAT
1 TGTAAT
58081498 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:58081581 original size:39 final size:43
Alignment explanation
Indices: 58081476--58081585 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
58081466 GTAATAGAGG
58081476 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTT--A
* * ***
58081521 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTATTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTA
58081561 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
58081586 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTA
Found at i:58081748 original size:16 final size:16
Alignment explanation
Indices: 58081711--58081752 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
58081701 TTAATCATAT
*
58081711 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
58081727 TT-AAATATATTATAA
1 TTAAAATATATTATAA
58081742 TTAAAATATAT
1 TTAAAATATAT
58081753 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:58081759 original size:14 final size:15
Alignment explanation
Indices: 58081720--58081761 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
58081710 TTTAAACATA
*
58081720 ATTATTATTAAATAT
1 ATTATAATTAAATAT
58081735 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
58081749 A-TATAATTTAATA
1 ATTATAATTAAATA
58081762 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:58081833 original size:107 final size:108
Alignment explanation
Indices: 58081709--58081919 Score: 397
Period size: 107 Copynumber: 2.0 Consensus size: 108
58081699 ATTTAATCAT
58081709 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
58081774 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
58081817 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
58081881 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
58081920 TAATACTATA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 97 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:58081857 original size:16 final size:16
Alignment explanation
Indices: 58081814--58081859 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
58081804 CATAATATAG
*
58081814 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
58081830 ATTATT-AAATATATT
1 ATAATTAAAATATATT
58081845 ATAATTAAAATATAT
1 ATAATTAAAATATAT
58081860 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:58081866 original size:14 final size:15
Alignment explanation
Indices: 58081814--58081868 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
58081804 CATAATATAG
58081814 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
58081830 ATTATTAAATATATT
1 ATAATTAAATATATT
58081845 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
58081858 ATAATTTAATA
1 ATAATTAAATA
58081869 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:58081917 original size:37 final size:35
Alignment explanation
Indices: 58081748--58081917 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
58081738 ATAATTAAAA
*
58081748 TATATAATTTAATAAAATTCTTAATAATTAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
* *
58081785 TATATGAATTTACTCAAATCATAAT-A-TAGATAATTT
1 TATAT-AATTTAATAAAATCATAATAATTA-AT-ATTT
* * * * *
58081821 AACATAATTATTATTAAATAT-ATTATAATTAA-A--A
1 TATATAA-T-TTAATAAA-ATCATAATAATTAATATTT
* *
58081855 TATATAATTTAATAAAATTCTTAATAATCAATATTCT
1 TATATAATTTAATAAAA-TCATAATAATTAATATT-T
*
58081892 TATATGAATTTACTAAAATCATAATA
1 TATAT-AATTTAATAAAATCATAATA
58081918 TATAATACTA
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.01
32 8 0.08
33 9 0.09
34 6 0.06
35 4 0.04
36 9 0.09
37 36 0.36
38 25 0.25
39 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (35 bp):
TATATAATTTAATAAAATCATAATAATTAATATTT
Found at i:58081970 original size:107 final size:107
Alignment explanation
Indices: 58081712--58081975 Score: 353
Period size: 107 Copynumber: 2.5 Consensus size: 107
58081702 TAATCATATT
* * *
58081712 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * *
58081777 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
58081820 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
58081885 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
58081928 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
58081976 ATATGATTTA
Statistics
Matches: 144, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
102 5 0.03
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 99 0.69
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:58089974 original size:30 final size:30
Alignment explanation
Indices: 58089928--58090051 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
58089918 TTTTATTATG
*
58089928 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
58089959 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
58089989 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
58090019 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
58090049 CCA
1 CCA
58090052 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:58089983 original size:15 final size:15
Alignment explanation
Indices: 58089938--58090045 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
58089928 CCAATATCTC
58089938 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
58089953 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
58089968 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
58089983 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
58089998 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
58090013 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
58090028 GATACCCATATCTTT
1 GATACCCATATCTTT
58090043 GAT
1 GAT
58090046 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:58094665 original size:30 final size:30
Alignment explanation
Indices: 58094619--58094742 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
58094609 TTTTATTATG
*
58094619 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
58094650 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
58094680 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
58094710 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
58094740 CCA
1 CCA
58094743 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:58094674 original size:15 final size:15
Alignment explanation
Indices: 58094629--58094736 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
58094619 CCAATATCTC
58094629 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
58094644 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
58094659 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
58094674 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
58094689 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
58094704 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
58094719 GATACCCATATCTTT
1 GATACCCATATCTTT
58094734 GAT
1 GAT
58094737 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:58115228 original size:19 final size:19
Alignment explanation
Indices: 58115204--58115247 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
58115194 CGCTCTTTTT
* *
58115204 TGCATT-CATTTCATGCATC
1 TGCATTACATGTCAT-CATA
58115223 TGCATTACATGTCATCATA
1 TGCATTACATGTCATCATA
58115242 TGCATT
1 TGCATT
58115248 TAAAGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (19 bp):
TGCATTACATGTCATCATA
Found at i:58122539 original size:12 final size:12
Alignment explanation
Indices: 58122519--58122548 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
58122509 TTGATTCCTA
*
58122519 AAATAAATAAAT
1 AAATGAATAAAT
58122531 AAATGAATAAAT
1 AAATGAATAAAT
58122543 AAATGA
1 AAATGA
58122549 TGATGATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (12 bp):
AAATGAATAAAT
Found at i:58123963 original size:44 final size:45
Alignment explanation
Indices: 58123910--58124120 Score: 115
Period size: 44 Copynumber: 4.6 Consensus size: 45
58123900 TGAAACTAAT
*
58123910 AATCCTATCTCCCTGAAATTACAGTGGAACGGATTAAAATAAAG-
1 AATCTTATCTCCCTGAAATTACAGTGGAACGGATTAAAATAAAGA
* * * * * * *
58123954 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAAATTACAGT-G-G-A-A-CGGATTAAAAT-AA---AGA
* * * * ** *
58124008 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGT
1 AATCTTATCTCCCTGAAATTACAGTGGAACGGATT-AAAATAAAGA
* * *
58124052 AATCTTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAA-A
1 AATCTTATCTCCCTGAAATTACAGTGGAACGGATTAAAATAAAGA
* * *
58124096 GATCTTATCTCTCTGAAGTTACAGT
1 AATCTTATCTCCCTGAAATTACAGT
58124121 AGAGTAGATC
Statistics
Matches: 123, Mismatches: 31, Indels: 26
0.68 0.17 0.14
Matches are distributed among these distances:
43 3 0.02
44 76 0.62
45 2 0.02
46 1 0.01
47 1 0.01
48 1 0.01
49 10 0.08
50 4 0.03
51 1 0.01
52 1 0.01
53 3 0.02
54 20 0.16
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAATTACAGTGGAACGGATTAAAATAAAGA
Found at i:58124044 original size:142 final size:139
Alignment explanation
Indices: 58123850--58124196 Score: 489
Period size: 142 Copynumber: 2.5 Consensus size: 139
58123840 CAACAGTGGA
* * * *
58123850 GCAGATCGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAAATTGAAACTAATAATCC
1 GCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCC
* *
58123915 TATCTCCCTGAAATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
66 TATCTCCCTGAAATTACAGTGGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTA
58123980 GAGTAGATC
131 GAGTAGATC
*
58123989 GCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 G---CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAA
* * *
58124054 TCTTATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACA
63 TCCTATCTCCCTGAAATTACAGTGGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACA
58124119 GTAGAGTAGATC
128 GTAGAGTAGATC
**
58124131 GC--ATT--AG---G---TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTACGAATCC
1 GCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCC
58124186 TATCTCCCTGA
66 TATCTCCCTGA
58124197 CGTTGCGGTG
Statistics
Matches: 192, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
129 55 0.29
132 1 0.01
135 2 0.01
137 3 0.02
139 2 0.01
142 129 0.67
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (139 bp):
GCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAATAATCC
TATCTCCCTGAAATTACAGTGGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATC
Found at i:58124191 original size:44 final size:43
Alignment explanation
Indices: 58123993--58124196 Score: 184
Period size: 44 Copynumber: 4.7 Consensus size: 43
58123983 TAGATCGCAT
*
58123993 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAG-AATCTTATCTCCCTGAGATTACAGCGGAG
*
58124037 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAG-AATCTTATCTCCCTGAGATTACAGCGGAG
** * * **
58124081 C-GAATT-AAAATAAAAGATCTTATCTCTCTGA-AGTTACAGTAGAG
1 CAG-ATTGAAGCT-AGA-ATCTTATCTCCCTGAGA-TTACAGCGGAG
* * * * *
58124125 TAGATCGCA-TTAG-GTCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAATCTTATCTCCCTGAGATTACAGCGGAG
*
58124166 CAGATTGAAGCTACGAATCCTATCTCCCTGA
1 CAGATTGAAGCTA-GAATCTTATCTCCCTGA
58124197 CGTTGCGGTG
Statistics
Matches: 127, Mismatches: 23, Indels: 20
0.75 0.14 0.12
Matches are distributed among these distances:
41 28 0.22
42 3 0.02
43 8 0.06
44 86 0.68
45 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
CAGATTGAAGCTAGAATCTTATCTCCCTGAGATTACAGCGGAG
Found at i:58126260 original size:27 final size:26
Alignment explanation
Indices: 58126212--58126262 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
58126202 TAGAATTAAT
*
58126212 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTATTAATCATTTGCTTTGTATA
58126238 TTGTTAATTAATCATATTG-TTTGTA
1 TTGTT-ATTAATCAT-TTGCTTTGTA
58126263 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 14 0.64
28 3 0.14
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.57
Consensus pattern (26 bp):
TTGTTATTAATCATTTGCTTTGTATA
Found at i:58131781 original size:8 final size:8
Alignment explanation
Indices: 58131768--58131831 Score: 62
Period size: 8 Copynumber: 8.1 Consensus size: 8
58131758 TGGTAAGAAA
58131768 ATATTATT
1 ATATTATT
58131776 ATATTATT
1 ATATTATT
58131784 -TATT-TT
1 ATATTATT
*
58131790 A-ATTAAT
1 ATATTATT
58131797 ATAATTATT
1 AT-ATTATT
* *
58131806 ATGTTGTT
1 ATATTATT
58131814 AATATTATT
1 -ATATTATT
58131823 ATATTATT
1 ATATTATT
58131831 A
1 A
58131832 GATTTTTATG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
6 5 0.11
7 6 0.13
8 21 0.47
9 13 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (8 bp):
ATATTATT
Found at i:58141547 original size:18 final size:18
Alignment explanation
Indices: 58141524--58141559 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
58141514 GAAACTCTAC
58141524 ATCCTT-TAGGGATTTTAA
1 ATCCTTCTA-GGATTTTAA
58141542 ATCCTTCTAGGATTTTAA
1 ATCCTTCTAGGATTTTAA
58141560 TATAAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (18 bp):
ATCCTTCTAGGATTTTAA
Found at i:58144337 original size:6 final size:6
Alignment explanation
Indices: 58144326--58144354 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
58144316 AGTTAAGGGT
58144326 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
58144355 TTGTGAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:58144433 original size:7 final size:7
Alignment explanation
Indices: 58144421--58144445 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58144411 ACTATTTGCC
58144421 AAGCTTT
1 AAGCTTT
58144428 AAGCTTT
1 AAGCTTT
58144435 AAGCTTT
1 AAGCTTT
58144442 AAGC
1 AAGC
58144446 ATGGGTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (7 bp):
AAGCTTT
Found at i:58145308 original size:26 final size:25
Alignment explanation
Indices: 58145279--58145332 Score: 58
Period size: 28 Copynumber: 2.1 Consensus size: 25
58145269 AAAATGATTT
58145279 ATTT-ATTTTATAAAT-TTAGTAAATAA
1 ATTTCATTTTA-AAATATTAG--AATAA
58145305 ATTTTCATTTTAAAATATTAGAATAA
1 A-TTTCATTTTAAAATATTAGAATAA
58145331 AT
1 AT
58145333 GTAGTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
25 1 0.04
26 7 0.28
27 7 0.28
28 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
ATTTCATTTTAAAATATTAGAATAA
Found at i:58150134 original size:12 final size:12
Alignment explanation
Indices: 58150117--58150143 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58150107 GGTAAATAAA
58150117 ATATACATATAT
1 ATATACATATAT
58150129 ATATACATATAT
1 ATATACATATAT
58150141 ATA
1 ATA
58150144 ACTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:58151920 original size:45 final size:46
Alignment explanation
Indices: 58151880--58151994 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 46
58151870 GCTGTCGATG
58151880 CAGGAAGGCAAGATCTGCTATCTTTAG-TCTGCTCCACTGTCAGTA
1 CAGGAAGGCAAGATCTGCTATCTTTAGATCTGCTCCACTGTCAGTA
* * * *
58151925 CAGAAAGGCAAGAT-TGGCT-TC-TTCGATCTGCTTCACCGTCAGTA
1 CAGGAAGGCAAGATCT-GCTATCTTTAGATCTGCTCCACTGTCAGTA
*
58151969 CAGGAAGGAAAGATCTGCTATCTTTA
1 CAGGAAGGCAAGATCTGCTATCTTTA
58151995 ACCAACTCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
43 3 0.05
44 34 0.59
45 19 0.33
46 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (46 bp):
CAGGAAGGCAAGATCTGCTATCTTTAGATCTGCTCCACTGTCAGTA
Found at i:58152069 original size:87 final size:87
Alignment explanation
Indices: 58151877--58152731 Score: 1178
Period size: 87 Copynumber: 9.8 Consensus size: 87
58151867 CCCGCTGTCG
** * * * *
58151877 ATGCAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCACTGTCAGTACAGA--AAGGCAA-GAT
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTG-CA--ACCGATGGAGGCAAGGTT
* * * *
58151939 TGGCTTCTTCGATCTGCTTCACCGTCA
63 TTG-TT-TTCGATCTGCTTCGCTGTTA
* * * *
58151966 GTACAGGAAGGAAAGATCTGCTATCTTTAACCAACTCCACTGCAACCGATGGAGGCAAGGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
*
58152031 TTTTCGATCTGCTTCGCTATTA
66 TTTTCGATCTGCTTCGCTGTTA
*
58152053 ATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
*
58152118 TTTTCGATCTGCTTCGCTATTA
66 TTTTCGATCTGCTTCGCTGTTA
*
58152140 ATACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
*
58152205 TTTTCGATCTGCTTCGCTATTA
66 TTTTCGATCTGCTTCGCTGTTA
* * *
58152227 ATACAGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGGTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTT-
* *
58152291 TGTTTTCGACCTGCTTCGCTGTCA
64 TGTTTTCGATCTGCTTCGCTGTTA
* ** * * * * *
58152315 ATGCAGGGAGGCAAGATCTATTATCTTCAACCAGCTCCACTACAAACGAGGGAGGCAAGGCTTGT
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGG-TTTT
* * * *
58152380 GTCTTCAATCTACTTCGCTGTCA
65 GTTTTCGATCTGCTTCGCTGTTA
* * * * *
58152403 ATGCAGGAATGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
58152468 TTTTCGATCTGCTTCGCTGTTA
66 TTTTCGATCTGCTTCGCTGTTA
* * *
58152490 ATGCAGGAAGGCAAGATCTGCTATCTTTGACCAACTCCACTGCAACCGATGGAGGAAAGGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
58152555 TTTTCGATCTGCTTCGCTGTTA
66 TTTTCGATCTGCTTCGCTGTTA
* *
58152577 ATGCTGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAATGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
58152642 TTTTCGATCTGCTTCGCTGTTA
66 TTTTCGATCTGCTTCGCTGTTA
* *
58152664 ATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACTGATGGAGGCAAGGTTTTG
1 ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
58152729 TTT
66 TTT
58152732 CTTTGATTTG
Statistics
Matches: 692, Mismatches: 67, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
86 5 0.01
87 489 0.71
88 156 0.23
89 42 0.06
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
ATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG
TTTTCGATCTGCTTCGCTGTTA
Found at i:58152154 original size:43 final size:43
Alignment explanation
Indices: 58152018--58152154 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 43
58152008 CAACCGATGG
*
58152018 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAATGCAGGA
1 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAATACAGGA
* * * * * * * ** *
58152061 AGGCAA-GATCTGCTATCTTTGACCAGCTCCACT-GCAA-CCGATGG-
1 AGGCAAGGTTTTG-T-T-TTCGATCTGCTTCGCTATTAATAC-A-GGA
58152105 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAATACAGGA
1 AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAATACAGGA
58152148 AGGCAAG
1 AGGCAAG
58152155 ATCTGCTATC
Statistics
Matches: 65, Mismatches: 20, Indels: 18
0.63 0.19 0.17
Matches are distributed among these distances:
42 17 0.26
43 19 0.29
44 12 0.18
45 17 0.26
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
AGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAATACAGGA
Found at i:58153353 original size:106 final size:108
Alignment explanation
Indices: 58153166--58153359 Score: 286
Period size: 106 Copynumber: 1.8 Consensus size: 108
58153156 GAAAAATGCT
58153166 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
58153231 CAATCAAGACAACAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATCAAGACAACAAATTTTGCTGAGATACGAGATGTATAAGA
* * * **
58153274 TGAAAAAGATTATC-ACA-GGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAA
* * *
58153336 TTAATCAAGATAGCAAATTTTGCT
65 TCAATCAAGACAACAAATTTTGCT
58153360 AGAATACAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 57 0.74
107 6 0.08
108 14 0.18
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGACAACAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:58153423 original size:45 final size:43
Alignment explanation
Indices: 58153325--58153425 Score: 103
Period size: 45 Copynumber: 2.3 Consensus size: 43
58153315 GCAAAGCTCT
* * * *
58153325 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATAAA
* **
58153368 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATATAA
1 AAAT--GAATAAATTAATCAAGATAGCAAATTTTG-CAAAAATA-AA
58153415 AAATGAATAAA
1 AAATGAATAAA
58153426 ATGGAAATAG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.09
45 32 0.68
46 6 0.13
47 5 0.11
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATAAA
Found at i:58153711 original size:13 final size:12
Alignment explanation
Indices: 58153693--58153737 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
58153683 TTGGCCTCTC
58153693 CTTTTTCTCTTTT
1 CTTTTTCT-TTTT
58153706 CTTTTTCGTTTTT
1 CTTTTTC-TTTTT
*
58153719 CTTTTCCTTTTTT
1 CTTTTTC-TTTTT
58153732 CTTTTT
1 CTTTTT
58153738 GTTTCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 27 0.96
14 1 0.04
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:58153717 original size:20 final size:20
Alignment explanation
Indices: 58153694--58153752 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
58153684 TGGCCTCTCC
58153694 TTTTTCTCTTTTCTTTTTCG
1 TTTTTCTCTTTTCTTTTTCG
* *
58153714 TTTTTCT-TTTCCTTTTTTCT
1 TTTTTCTCTTTTC-TTTTTCG
*
58153734 TTTTGTTTCTTTT-TTTTTC
1 TTTT-TCTCTTTTCTTTTTC
58153753 AAGTGAAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.12
20 23 0.72
21 2 0.06
22 3 0.09
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTTCTCTTTTCTTTTTCG
Found at i:58153723 original size:18 final size:17
Alignment explanation
Indices: 58153695--58153751 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 17
58153685 GGCCTCTCCT
58153695 TTTTCTCTTTTCTTTTTC
1 TTTT-TCTTTTCTTTTTC
58153713 GTTTTTCTTTTCCTTTTTTC
1 -TTTTTCTTTT-C-TTTTTC
*
58153733 TTTTT-GTTTCTTTTT-
1 TTTTTCTTTTCTTTTTC
58153748 TTTT
1 TTTT
58153752 CAAGTGAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
15 4 0.11
16 5 0.14
17 1 0.03
18 9 0.26
19 10 0.29
20 6 0.17
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.81
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTC
Found at i:58153723 original size:26 final size:26
Alignment explanation
Indices: 58153693--58153750 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
58153683 TTGGCCTCTC
58153693 CTTTTTCTCTTTTCTTTTTCGTTT-TT
1 CTTTTTCTCTTTTCTTTTT-GTTTCTT
* *
58153719 CTTTTCCTTTTTTCTTTTTGTTTCTT
1 CTTTTTCTCTTTTCTTTTTGTTTCTT
*
58153745 TTTTTT
1 CTTTTT
58153751 TCAAGTGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.79
Consensus pattern (26 bp):
CTTTTTCTCTTTTCTTTTTGTTTCTT
Found at i:58154203 original size:6 final size:6
Alignment explanation
Indices: 58154194--58154245 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
58154184 AGGTTTTTTC
*
58154194 TTTTAT TTTTGT TTTTGT TTTTGT TGTTT-T TATTT-T TTTTGT TTTT-T
1 TTTTGT TTTTGT TTTTGT TTTTGT T-TTTGT T-TTTGT TTTTGT TTTTGT
58154241 TTTTG
1 TTTTG
58154246 CCTCCACTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 8 0.20
6 30 0.73
7 3 0.07
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:58154222 original size:15 final size:14
Alignment explanation
Indices: 58154202--58154245 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
58154192 TCTTTTATTT
58154202 TTGTTTTTGTTTTTG
1 TTGTTTTT-TTTTTG
*
58154217 TTGTTTTTATTTTTT
1 TTGTTTTT-TTTTTG
58154232 TTGTTTTTTTTTTG
1 TTGTTTTTTTTTTG
58154246 CCTCCACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (14 bp):
TTGTTTTTTTTTTG
Found at i:58157762 original size:12 final size:12
Alignment explanation
Indices: 58157745--58157771 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58157735 GGTAAATAAA
58157745 ATATACATATAT
1 ATATACATATAT
58157757 ATATACATATAT
1 ATATACATATAT
58157769 ATA
1 ATA
58157772 ACTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATACATATAT
Found at i:58159368 original size:17 final size:16
Alignment explanation
Indices: 58159343--58159376 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
58159333 GACAAAAATA
58159343 TCTTCTTCTTTTCTTTT
1 TCTTCTTCTTTT-TTTT
*
58159360 TCTTTTTCTTTTTTTT
1 TCTTCTTCTTTTTTTT
58159376 T
1 T
58159377 GCGGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TCTTCTTCTTTTTTTT
Found at i:58166931 original size:35 final size:32
Alignment explanation
Indices: 58166860--58166937 Score: 93
Period size: 35 Copynumber: 2.3 Consensus size: 32
58166850 ACTCATATAT
* * *
58166860 GACTACATCTTGTCGTCCTAAAAAAAGCCTAT
1 GACTACATCTTGTCGCCCTAAAAAAAACCTAC
58166892 GACTACATCTTGTCGCCCTTAAAGAAAAAACCTAC
1 GACTACATCTTGTCGCCC-T-AA-AAAAAACCTAC
*
58166927 GACTATATCTT
1 GACTACATCTT
58166938 TATTGGCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 17 0.44
33 1 0.03
34 2 0.05
35 19 0.49
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (32 bp):
GACTACATCTTGTCGCCCTAAAAAAAACCTAC
Found at i:58173829 original size:12 final size:12
Alignment explanation
Indices: 58173812--58173836 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58173802 TGGCCTTGAC
58173812 GAGGTTGAGATT
1 GAGGTTGAGATT
58173824 GAGGTTGAGATT
1 GAGGTTGAGATT
58173836 G
1 G
58173837 GTCCTCATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (12 bp):
GAGGTTGAGATT
Found at i:58179005 original size:55 final size:55
Alignment explanation
Indices: 58178921--58179033 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
58178911 GCGGAGATTC
*
58178921 GTAGGAGGAATGGACGTCCATCACCGGTGGCCCAAACCGTATAAGGTCACTATTA
1 GTAGGAAGAATGGACGTCCATCACCGGTGGCCCAAACCGTATAAGGTCACTATTA
*
58178976 GTAGGAAGAATGGACGTCCATCACCGGTGGCCCAAACGGTATAAGGTCACTATTA
1 GTAGGAAGAATGGACGTCCATCACCGGTGGCCCAAACCGTATAAGGTCACTATTA
58179031 GTA
1 GTA
58179034 AATTATCAGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.20
Consensus pattern (55 bp):
GTAGGAAGAATGGACGTCCATCACCGGTGGCCCAAACCGTATAAGGTCACTATTA
Found at i:58188557 original size:40 final size:40
Alignment explanation
Indices: 58188513--58188639 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
58188503 AACACACCAG
*
58188513 TTTGACACTTAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCTAGTGCCTCATCGGATAATTCGAAGTAATAA
* * * **
58188553 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCTAGTGCCTCATCGGATAATTCGAAGTAATAA
* ** *
58188591 -TTGGCACCTAGTGCCTCATCAAATTAATTCGAAGTAGTAA
1 TTTGACACCTAGTGCCTCATCGGA-TAATTCGAAGTAATAA
*
58188631 ATTGACACC
1 TTTGACACC
58188640 CAATGTCTCA
Statistics
Matches: 67, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
37 17 0.25
38 11 0.16
39 1 0.01
40 31 0.46
41 7 0.10
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCTAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:58194683 original size:12 final size:12
Alignment explanation
Indices: 58194666--58194692 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58194656 ACGTCATATT
58194666 CCAAAAAATTCC
1 CCAAAAAATTCC
58194678 CCAAAAAATTCC
1 CCAAAAAATTCC
58194690 CCA
1 CCA
58194693 TCTGCGTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (12 bp):
CCAAAAAATTCC
Found at i:58197929 original size:19 final size:19
Alignment explanation
Indices: 58197894--58197948 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
58197884 CTTTACTTTA
* *
58197894 TATT-ATAATAATATAATT
1 TATTAATAATCATTTAATT
58197912 TATTAATAATCATTTAATT
1 TATTAATAATCATTTAATT
* * *
58197931 AATAAAT-ATCTTTTAATT
1 TATTAATAATCATTTAATT
58197949 ATAACACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATAATCATTTAATT
Found at i:58198037 original size:15 final size:15
Alignment explanation
Indices: 58198014--58198054 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
58198004 ATTTGGCACC
58198014 ATTTA-ATTTATTTA
1 ATTTATATTTATTTA
*
58198028 ATTTATATTTAATTA
1 ATTTATATTTATTTA
*
58198043 ATTAATATTTAT
1 ATTTATATTTAT
58198055 AAATATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATATTTATTTA
Found at i:58206596 original size:22 final size:22
Alignment explanation
Indices: 58206571--58206620 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
58206561 TAAGCATAAT
58206571 AATGTTGTCCGAATGATGGTTA
1 AATGTTGTCCGAATGATGGTTA
* * *
58206593 AATGCTGTCCGAATGTTGTTTA
1 AATGTTGTCCGAATGATGGTTA
58206615 AATGTT
1 AATGTT
58206621 TTCTATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (22 bp):
AATGTTGTCCGAATGATGGTTA
Found at i:58206657 original size:25 final size:25
Alignment explanation
Indices: 58206629--58206701 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 25
58206619 TTTTCTATTT
58206629 TTTTAGCATACTAATGCTGTCCGAA
1 TTTTAGCATACTAATGCTGTCCGAA
* *
58206654 TTTT-GCTTA--AATGCTGTCC-ATT
1 TTTTAGCATACTAATGCTGTCCGA-A
*
58206676 TTTTAGCATACTAATGATGTCCGAA
1 TTTTAGCATACTAATGCTGTCCGAA
58206701 T
1 T
58206702 GTTGGTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 1 0.03
22 14 0.37
23 4 0.11
24 4 0.11
25 14 0.37
26 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (25 bp):
TTTTAGCATACTAATGCTGTCCGAA
Found at i:58206664 original size:70 final size:69
Alignment explanation
Indices: 58206525--58206672 Score: 179
Period size: 70 Copynumber: 2.1 Consensus size: 69
58206515 TGATGACAAG
* * * *
58206525 ATGCTATCCTAATGTTGGTTAAATGATGTCCATTTTTAAGCATAATAATGTTGTCCGAATGATGG
1 ATGCTGTCCGAATGTTGGTTAAATGATGTCCATTTTTAAGCATAATAATGCTGTCCGAATGATGC
58206590 TTAA
66 TTAA
* * * * * * **
58206594 ATGCTGTCCGAATGTTGTTTAAATGTTTTCTATTTTTTTAGCATACTAATGCTGTCCGAATTTTG
1 ATGCTGTCCGAATGTTGGTTAAATGATGTCCA-TTTTTAAGCATAATAATGCTGTCCGAATGATG
58206659 CTTAA
65 CTTAA
58206664 ATGCTGTCC
1 ATGCTGTCC
58206673 ATTTTTTAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
69 26 0.39
70 40 0.61
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (69 bp):
ATGCTGTCCGAATGTTGGTTAAATGATGTCCATTTTTAAGCATAATAATGCTGTCCGAATGATGC
TTAA
Found at i:58206697 original size:47 final size:48
Alignment explanation
Indices: 58206593--58206718 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 48
58206583 ATGATGGTTA
* * *
58206593 AATGCTGTCCGAATGTTGTTTAAATGTTTTCTATTTTTTTAGCATACT
1 AATGCTGTCCGAATGTTGCTTAAATGTTGTCCATTTTTTTAGCATACT
* *
58206641 AATGCTGTCCGAATTTTGCTTAAATGCTGTCCA-TTTTTTAGCATACT
1 AATGCTGTCCGAATGTTGCTTAAATGTTGTCCATTTTTTTAGCATACT
* *
58206688 AATGATGTCCGAATGTTGGTT-AATGTTGTCC
1 AATGCTGTCCGAATGTTGCTTAAATGTTGTCC
58206719 GAATGTTGTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 9 0.13
47 32 0.46
48 28 0.41
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.44
Consensus pattern (48 bp):
AATGCTGTCCGAATGTTGCTTAAATGTTGTCCATTTTTTTAGCATACT
Found at i:58206717 original size:21 final size:21
Alignment explanation
Indices: 58206687--58206740 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
58206677 TTTAGCATAC
58206687 TAATGATGTCCGAATGTTGGT
1 TAATGATGTCCGAATGTTGGT
* *
58206708 TAATGTTGTCCGAATGTTGTT
1 TAATGATGTCCGAATGTTGGT
*
58206729 TAAATGCTGTCC
1 T-AATGATGTCC
58206741 ATTTTTTAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (21 bp):
TAATGATGTCCGAATGTTGGT
Found at i:58206805 original size:69 final size:69
Alignment explanation
Indices: 58206641--58206866 Score: 364
Period size: 69 Copynumber: 3.3 Consensus size: 69
58206631 TTAGCATACT
* * *
58206641 AATGCTGTCCGAATTTTGCTTAAATGCTGTCCATTTTTTAGCATACTAATGATGTCCGAATGTTG
1 AATGCTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACTAATGCTGTCCGAATGTTG
58206706 GTT-
66 GTTA
* * *
58206709 AATGTTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACTAATGCTGCCCAAATGTTG
1 AATGCTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACTAATGCTGTCCGAATGTTG
58206774 GTTA
66 GTTA
* *
58206778 AATGCTATTCGAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACTAATGCTGTCCGAATGTTG
1 AATGCTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACTAATGCTGTCCGAATGTTG
58206843 GTTA
66 GTTA
*
58206847 AATGCTGTCCAAATGTTGTT
1 AATGCTGTCCGAATGTTGTT
58206867 ACTGTTGTCC
Statistics
Matches: 143, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
68 62 0.43
69 81 0.57
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (69 bp):
AATGCTGTCCGAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACTAATGCTGTCCGAATGTTG
GTTA
Found at i:58210196 original size:19 final size:18
Alignment explanation
Indices: 58210127--58210196 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
58210117 CATTCTAGAA
* *
58210127 TTATAAAAAACAGAAAATT
1 TTATAAAAATCATAAAA-T
*
58210146 TTATAAAAATTATTAGAAAT
1 TTATAAAAATCA-TA-AAAT
*
58210166 TAATTAAAAAATCATAAAACT
1 TTA-T-AAAAATCATAAAA-T
58210187 TTATAAAAAT
1 TTATAAAAAT
58210197 AGAATTTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 16 0.40
20 8 0.20
21 9 0.22
22 7 0.17
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (18 bp):
TTATAAAAATCATAAAAT
Found at i:58214004 original size:17 final size:18
Alignment explanation
Indices: 58213984--58214017 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58213974 AATTTATAAT
58213984 AATTA-TTATAAATTTTG
1 AATTATTTATAAATTTTG
*
58214001 AATTATTTTTAAATTTT
1 AATTATTTATAAATTTT
58214018 TTATTCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
AATTATTTATAAATTTTG
Found at i:58214850 original size:12 final size:14
Alignment explanation
Indices: 58214820--58214851 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
58214810 CAAACAAACA
58214820 AAAAATTAGAATGT
1 AAAAATTAGAATGT
58214834 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
58214846 AAAAAT
1 AAAAAT
58214852 AAAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:58222385 original size:30 final size:30
Alignment explanation
Indices: 58222349--58222411 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
58222339 ACTTATTTTA
58222349 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* * *
58222379 TTGTTAATTTTGTTATTATTTTATAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
58222409 TTG
1 TTG
58222412 CTTGTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:58222529 original size:18 final size:18
Alignment explanation
Indices: 58222494--58222532 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58222484 AAAATATTTA
*
58222494 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
58222512 TTTTGATGTATTAT-ATAT
1 TTTTGATGT-TTATAATAT
58222530 TTT
1 TTT
58222533 AAAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:58222804 original size:3 final size:3
Alignment explanation
Indices: 58222792--58222837 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
58222782 ATAACGTGTT
58222792 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
58222838 GCAAAGAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:58223420 original size:9 final size:10
Alignment explanation
Indices: 58223394--58223447 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
58223384 AATTATAAAA
58223394 AATAAAAATT
1 AATAAAAATT
*
58223404 ATTAAAAATT
1 AATAAAAATT
*
58223414 AATAAAAAAT
1 AATAAAAATT
* *
58223424 CATAAAACTT
1 AATAAAAATT
*
58223434 TATAAAAATAT
1 AATAAAAAT-T
58223445 AAT
1 AAT
58223448 TTATTATTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
10 31 0.91
11 3 0.09
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAAAAATT
Found at i:58225630 original size:13 final size:13
Alignment explanation
Indices: 58225614--58225643 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
58225604 AGTGCTGCAA
58225614 AAAAATGCTTATG
1 AAAAATGCTTATG
*
58225627 AAAAATGCTTTTG
1 AAAAATGCTTATG
58225640 AAAA
1 AAAA
58225644 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:58229827 original size:56 final size:56
Alignment explanation
Indices: 58229766--58229880 Score: 203
Period size: 56 Copynumber: 2.1 Consensus size: 56
58229756 AAATTCAATC
* *
58229766 ACCACCATATTTTGCATGTCAACAAGGACAAGTATTCCCTTAACTGGACGAGCATA
1 ACCACCATATTTTGCATATCAACAAGGACAAGTATTCCCTCAACTGGACGAGCATA
*
58229822 ACCACCATATTTTGCATATCAACAAGGACATGTATTCCCTCAACTGGACGAGCATA
1 ACCACCATATTTTGCATATCAACAAGGACAAGTATTCCCTCAACTGGACGAGCATA
58229878 ACC
1 ACC
58229881 TATATTAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (56 bp):
ACCACCATATTTTGCATATCAACAAGGACAAGTATTCCCTCAACTGGACGAGCATA
Found at i:58231840 original size:27 final size:28
Alignment explanation
Indices: 58231806--58231864 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
58231796 CTTAGAATTA
*
58231806 TTATTGTAATA-TAAC-TAT-ACTACTTT
1 TTATTGTAAAACTAACGTATGA-TACTTT
58231832 TTATATGTAAAACTAACGTATGATACTTT
1 TTAT-TGTAAAACTAACGTATGATACTTT
58231861 TTAT
1 TTAT
58231865 GTTTGGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 4 0.14
29 13 0.46
30 1 0.04
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (28 bp):
TTATTGTAAAACTAACGTATGATACTTT
Found at i:58233864 original size:21 final size:21
Alignment explanation
Indices: 58233840--58233892 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
58233830 CATTATTTCT
*
58233840 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
58233861 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
58233882 AATCTCACCGC
1 AATCTCACCGC
58233893 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:58234703 original size:26 final size:25
Alignment explanation
Indices: 58234674--58234851 Score: 77
Period size: 26 Copynumber: 7.2 Consensus size: 25
58234664 AATTATTTAT
58234674 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
58234700 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
*
58234725 TTATA-T--ATTATGATTTTAGTAA-A
1 TTATATTAAATTAT-A-TTTAATAATA
* *
58234748 TTCATA-TAAGAATAT-TTTAATATTA
1 TT-ATATTAA-ATTATATTTAATAATA
** ** * * *
58234773 AGA-ATTTTATTA-AATT-ATATTT
1 TTATATTAAATTATATTTAATAATA
*
58234795 TTTTATTAAATTATATTTAATAATTA
1 TTATATTAAATTATATTTAATAA-TA
* * *
58234821 TTATTTTAAATTATATTTTATACTA
1 TTATATTAAATTATATTTAATAATA
58234846 TTATAT
1 TTATAT
58234852 ATTATAATTT
Statistics
Matches: 108, Mismatches: 31, Indels: 27
0.65 0.19 0.16
Matches are distributed among these distances:
22 10 0.09
23 17 0.16
24 21 0.19
25 16 0.15
26 40 0.37
27 4 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:58234798 original size:18 final size:18
Alignment explanation
Indices: 58234777--58234812 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58234767 ATATTAAGAA
58234777 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
58234795 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
58234813 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:58234819 original size:13 final size:13
Alignment explanation
Indices: 58234803--58234860 Score: 64
Period size: 13 Copynumber: 4.3 Consensus size: 13
58234793 TTTTTTATTA
*
58234803 AATTATATTTAAT
1 AATTATATTTTAT
58234816 AATTATTATTTTA-
1 AATTA-TATTTTAT
58234829 AATTATATTTTAT
1 AATTATATTTTAT
*
58234842 ACTATTATATATTAT
1 A--ATTATATTTTAT
58234857 AATT
1 AATT
58234861 TTAGTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 7 0.18
13 14 0.36
14 6 0.15
15 12 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTTTAT
Found at i:58234820 original size:18 final size:18
Alignment explanation
Indices: 58234781--58234820 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
58234771 TAAGAATTTT
** *
58234781 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
58234799 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
58234817 ATTA
1 ATTA
58234821 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:58234952 original size:120 final size:120
Alignment explanation
Indices: 58234578--58235190 Score: 976
Period size: 120 Copynumber: 5.1 Consensus size: 120
58234568 CCACAAAATC
*
58234578 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
58234643 TTAATATTAAGAATTTTATTAAATTATTTA-TTTATATTAAATTATATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTA-ATTAAAATATATTTAATAAT
*
58234698 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-
* * *
58234763 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
65 TTTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
* * *
58234819 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
*
58234884 TTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
* * *
58234939 AATTATTTCAAATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* * * *
58235004 TGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
* * * *
58235059 AATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
58235124 TGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
*
58235179 AATTATGTTAAA
1 AATTATTTTAAA
58235191 ATATGATTAA
Statistics
Matches: 466, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
120 354 0.76
121 109 0.23
122 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
Found at i:58235002 original size:241 final size:240
Alignment explanation
Indices: 58234578--58235184 Score: 973
Period size: 241 Copynumber: 2.5 Consensus size: 240
58234568 CCACAAAATC
*
58234578 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* * *
58234643 TTAATATTAAGAATTTTATTAAATTATTTA-TTTATATTAAATTATATTTAATAATAATTATTTT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTA-ATTAAAATATATTTAATAATAATTATTTC
* * * *
58234707 AGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATT
130 AAATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATA-TTGAATATT
* * * *
58234772 AAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
194 AAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
* * *
58234819 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
*
58234884 TTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
*
58234949 AATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTGATTATTAA
131 AATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAA
*
58235014 GAATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAAT
196 GAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
* * * *
58235059 AATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTTATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
58235124 TGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
58235185 GTTAAAATAT
Statistics
Matches: 337, Mismatches: 28, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
240 165 0.49
241 168 0.50
242 4 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (240 bp):
AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
AATTATATTTTATAGTATCATATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAA
GAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
Found at i:58235164 original size:18 final size:17
Alignment explanation
Indices: 58235136--58235170 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58235126 ATTATTAAGA
*
58235136 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58235153 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58235171 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58235424 original size:16 final size:16
Alignment explanation
Indices: 58235403--58235433 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58235393 TTGATTTGCT
58235403 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
58235419 ATTACGCCTCTATTC
1 ATTACGCCTCTATTC
58235434 TAATACAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:58236049 original size:21 final size:21
Alignment explanation
Indices: 58236028--58236068 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
58236018 AATTTTCAAA
58236028 TTTTCAAAATATTTATAAAAAT
1 TTTTCAAAAT-TTTATAAAAAT
58236050 TTTTCAAAATTTTATAAAA
1 TTTTCAAAATTTTATAAAA
58236069 TTATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTCAAAATTTTATAAAAAT
Found at i:58236050 original size:29 final size:28
Alignment explanation
Indices: 58236018--58236135 Score: 73
Period size: 29 Copynumber: 4.1 Consensus size: 28
58236008 ATAATAAGAT
58236018 AATTTTC-AAATTTTCA-AAATATTTATAAA
1 AATTTTCAAAATTTT-ATAAA-A-TTATAAA
58236047 AATTTTTCAAAATTTTATAAAATTATAAA
1 AA-TTTTCAAAATTTTATAAAATTATAAA
* ** *
58236076 AA-TATCAAAA-ACTAAAAATATTATACAA
1 AATTTTCAAAATTTTATAAA-ATTATA-AA
* * * * *
58236104 AATTCTGAAAATTATATAAAAATGTAAA
1 AATTTTCAAAATTTTATAAAATTATAAA
58236132 AATT
1 AATT
58236136 AAAAATATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
26 5 0.07
27 13 0.18
28 10 0.14
29 21 0.30
30 12 0.17
31 10 0.14
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (28 bp):
AATTTTCAAAATTTTATAAAATTATAAA
Found at i:58236271 original size:47 final size:47
Alignment explanation
Indices: 58236202--58236293 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
58236192 AGTTTACGAT
58236202 ACTAAAATATCTTTTCCTTTGAAA-AAGTTTTAAAATATATACGGTAA
1 ACTAAAATATCTTTTCCTTTGAAATAA-TTTTAAAATATATACGGTAA
*
58236249 ACTAAAATATCTTTTCCTTTGAAATAATTTTACAATATATACGGT
1 ACTAAAATATCTTTTCCTTTGAAATAATTTTAAAATATATACGGT
58236294 GTCAAATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
47 41 0.95
48 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (47 bp):
ACTAAAATATCTTTTCCTTTGAAATAATTTTAAAATATATACGGTAA
Found at i:58258123 original size:146 final size:145
Alignment explanation
Indices: 58257924--58258422 Score: 634
Period size: 146 Copynumber: 3.5 Consensus size: 145
58257914 CTATTGCCCA
*
58257924 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
58257989 TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATC
66 TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-CTATCTTTGATC
58258054 TACTTCACGCCAACCG
130 TACTTCACGCCAACCG
* * *
58258070 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
* * * **
58258135 TTGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGATAAGATCTGTAATCTTCAATC
66 TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTCT-ATCTTTGATC
**** *
58258185 TA-TTCCACTGTTGCCCA
130 TACTT-CAC-GCCAACCG
* *
58258202 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGAGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
*
58258267 TTGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
66 TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-CTATCTTTGATC
58258332 TACTTCACGCCAACCG
130 TACTTCACGCCAACCG
* * * **
58258348 GGGAGGTAGAATTACTGGCTTCATTATACTCCACTGCAACTTCAGGGAGGTAAAATCCGTCATCT
1 GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
*
58258413 TCGATCTGCT
66 TTGATCTGCT
58258423 CCACTACTGC
Statistics
Matches: 294, Mismatches: 39, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
130 3 0.01
131 23 0.08
132 74 0.25
133 2 0.01
134 3 0.01
136 1 0.00
137 1 0.00
138 5 0.02
139 2 0.01
140 5 0.02
141 1 0.00
142 1 0.00
144 3 0.01
145 2 0.01
146 142 0.48
147 23 0.08
148 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (145 bp):
GGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
TTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTCTATCTTTGATCT
ACTTCACGCCAACCG
Found at i:58258252 original size:132 final size:132
Alignment explanation
Indices: 58258070--58258818 Score: 889
Period size: 132 Copynumber: 5.6 Consensus size: 132
58258060 ACGCCAACCG
* * * **
58258070 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCT
* *
58258135 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
58258200 CA
131 CA
* * **
58258202 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGAGAGGTAAAATCCACCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCT
* * **
58258267 TTGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT-ATCTTTGAT
66 TTGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGACAAGATCTG-TAATCTTCAAT
*** *
58258331 CTACTT-CAC-GCCAACCG
115 CTA-TTCCACTGCTGCCCA
* * * * *
58258348 GGGAGGTAGAATTACTGGCTTCATTATACTCCACTGCAACTTCAGGGAGGTAAAATCCGTCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCT
* * * * *
58258413 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCACT-ATCGC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGCT-GC
*
58258477 CTA
130 CCA
*
58258480 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATCT
1 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCT
*
58258545 TTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
58258610 CA
131 CA
*
58258612 GGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGTCATC
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATC
** * * *
58258676 TTTGATCTGCTCCACTACTATTTAGGGAGACAATATATGAAATCTTCAATCTATTCCACTGCTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
58258741 CCA
130 CCA
* * * * *
58258744 GGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCGTA
1 GGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATC
58258808 TTTGATCTGCT
65 TTTGATCTGCT
58258819 TCGCTGTCTA
Statistics
Matches: 535, Mismatches: 59, Indels: 46
0.84 0.09 0.07
Matches are distributed among these distances:
130 2 0.00
131 24 0.04
132 384 0.72
133 3 0.01
134 3 0.01
136 1 0.00
137 1 0.00
138 5 0.01
139 2 0.00
140 5 0.01
141 1 0.00
142 1 0.00
144 3 0.01
145 2 0.00
146 71 0.13
147 24 0.04
148 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
CA
Found at i:58258298 original size:278 final size:277
Alignment explanation
Indices: 58257791--58258800 Score: 1406
Period size: 278 Copynumber: 3.7 Consensus size: 277
58257781 CTATTGCTCT
* * *
58257791 GGGAGATATAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAATCCACCATC
1 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGT-AAAATCCACCATC
* *
58257856 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTGC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTATTGC
58257921 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCA
130 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCA
58257986 TCTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTG
195 TCTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-CTATCTTTG
58258051 ATCTACTTCACGCCAACCG
259 ATCTACTTCACGCCAACCG
*
58258070 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAATCCACCATCT
1 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * *
58258135 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTATTGCC
*
58258200 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGAGAGGTAAAATCCACCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
*
58258265 CTTTGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGA
196 CTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-CTATCTTTGA
58258330 TCTACTTCACGCCAACCG
260 TCTACTTCACGCCAACCG
* * * **
58258348 GGGAGGTAGAATTACTGGCTTCATTATACTCCACTGCAACTTCAGGGAGGTAAAATCCGTCATCT
1 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
* * * *
58258413 TCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCACTATCGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTATTGCC
* * ***
58258478 TAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCAT
131 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
* * * **
58258543 CTTTGATCTGC--TC--C-A-CTAC-T-G----C-TTA-GGG-AGGCAAGATCTGTAATCTTCAA
196 CTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTCT-ATCTTTGA
*** *
58258593 TCTA-TTCCACTGCTGCCCA
260 TCTACTT-CAC-GCCAACCG
* * * **
58258612 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGTCATCT
1 GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
** * * **
58258677 TTGATCTGCTCCACTACTATTTAGGGAGACAATATATGAAATCTTCAATCTATTCCACTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTATTGCC
* * *
58258742 CAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
131 CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATC
58258801 TGTCGTATTT
Statistics
Matches: 673, Mismatches: 54, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
262 3 0.00
263 24 0.04
264 175 0.26
265 2 0.00
266 1 0.00
270 1 0.00
271 1 0.00
272 4 0.01
273 1 0.00
274 1 0.00
276 2 0.00
278 411 0.61
279 47 0.07
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (277 bp):
GGGAGGTAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTATTGCC
CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
CTTTGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTCTATCTTTGAT
CTACTTCACGCCAACCG
Found at i:58258602 original size:44 final size:44
Alignment explanation
Indices: 58258391--58258608 Score: 126
Period size: 44 Copynumber: 5.0 Consensus size: 44
58258381 CTGCAACTTC
* * * * * *
58258391 AGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTACTGCTT
* * * *
58258435 AGGGAGGCAAGATCTGAAATCTCCAATCTATTCCACTA-TCGCCT
1 AGGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTACT-GCTT
* * * *
58258479 AGGGA-G-ATAGA-AT-TACTGGCTTCAATGTACTCCACTGTAAC--CTC
1 AGGGAGGCA-AGATCTGTAAT--CTTCAATCTACTCCAC--T-ACTGCTT
* * * ** *
58258523 AGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTACTGCTT
* *
58258567 AGGGAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
1 AGGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTACTGC
58258609 CCAGGGAAGT
Statistics
Matches: 125, Mismatches: 35, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.03
43 19 0.15
44 79 0.63
45 16 0.13
46 3 0.02
47 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
AGGGAGGCAAGATCTGTAATCTTCAATCTACTCCACTACTGCTT
Found at i:58262794 original size:10 final size:10
Alignment explanation
Indices: 58262781--58262814 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
58262771 GATTAAAATG
*
58262781 TATACACATT
1 TATATACATT
58262791 TATATACATT
1 TATATACATT
*
58262801 TACATACATT
1 TATATACATT
58262811 TATA
1 TATA
58262815 AAGAATTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (10 bp):
TATATACATT
Found at i:58263053 original size:29 final size:30
Alignment explanation
Indices: 58263001--58263058 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
58262991 ACATCTACTA
* * *
58263001 ACCAAAATTAAAAATTACAGTATTTTTTTT
1 ACCAAAATTAAAAACTACAATATTATTTTT
*
58263031 ACCAAATTTAAAAACTA-AATATTATTTT
1 ACCAAAATTAAAAACTACAATATTATTTT
58263059 ATCCTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (30 bp):
ACCAAAATTAAAAACTACAATATTATTTTT
Found at i:58271063 original size:17 final size:16
Alignment explanation
Indices: 58271041--58271074 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58271031 GAGGATGGCG
58271041 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
58271058 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
58271074 T
1 T
58271075 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:58274676 original size:42 final size:43
Alignment explanation
Indices: 58274581--58274678 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 43
58274571 CTAGCCCAAC
*
58274581 CATGGTCTTACACAAAATCACATATCGATGCCAATGTCCCAGA
1 CATGGTCTTACACAAAATCACATATCGATGCCAATATCCCAGA
** * * *
58274624 CATGGTCTTACATGAATTCTCATATCGATGTC-ATATCCCAGA
1 CATGGTCTTACACAAAATCACATATCGATGCCAATATCCCAGA
*
58274666 TATGGTCTTACAC
1 CATGGTCTTACAC
58274679 GTAATCTCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 20 0.43
43 27 0.57
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (43 bp):
CATGGTCTTACACAAAATCACATATCGATGCCAATATCCCAGA
Done.