Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 52 of 147
Found at i:10069942 original size:49 final size:49
Alignment explanation
Indices: 10069877--10070033 Score: 217
Period size: 49 Copynumber: 3.2 Consensus size: 49
10069867 TTCTCTCAGT
*
10069877 AGAGGCTCAACAACTTTAAAATCTCATCTTAGAAAAAGCTCATCTTAAC
1 AGAGGCTCAACAACTTTAAAATCTCATCTTAGAAAAAGCTCATCTCAAC
* * * * *
10069926 AGAGGCTCAACGACTTTAAAATTTTATCTT-GAAAAAGGCTCCTCTCAGC
1 AGAGGCTCAACAACTTTAAAATCTCATCTTAGAAAAA-GCTCATCTCAAC
* * *
10069975 AGAGACTCAACAACTTTAAAATCTCATCTTAGAAAAAGTTCATCTCAAT
1 AGAGGCTCAACAACTTTAAAATCTCATCTTAGAAAAAGCTCATCTCAAC
10070024 AGAGGCTCAA
1 AGAGGCTCAA
10070034 TGATTGTCTT
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
48 6 0.07
49 79 0.87
50 6 0.07
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.27
Consensus pattern (49 bp):
AGAGGCTCAACAACTTTAAAATCTCATCTTAGAAAAAGCTCATCTCAAC
Found at i:10073783 original size:21 final size:22
Alignment explanation
Indices: 10073757--10073807 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
10073747 GTTTAATTTT
10073757 TATTATTGTAT-TTAATAATA-A
1 TATTATT-TATCTTAATAATATA
*
10073778 TATTA-TTATCTTATTAATATA
1 TATTATTTATCTTAATAATATA
10073799 TATTATTTA
1 TATTATTTA
10073808 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 9 0.35
21 11 0.42
22 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTATTTATCTTAATAATATA
Found at i:10074049 original size:2 final size:2
Alignment explanation
Indices: 10074042--10074069 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10074032 AAATCAACAA
10074042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10074070 CTTTAAAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10077963 original size:29 final size:31
Alignment explanation
Indices: 10077934--10077993 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
10077924 GTAATTGATT
10077934 AACCATTAAATATTTATTTTCA-CTCAATTA
1 AACCATTAAATATTTATTTTCACCTCAATTA
*** *
10077964 AATTTTTAAATGTTTATTTTCACCTCAATT
1 AACCATTAAATATTTATTTTCACCTCAATT
10077994 GAATCCTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (31 bp):
AACCATTAAATATTTATTTTCACCTCAATTA
Found at i:10079217 original size:11 final size:11
Alignment explanation
Indices: 10079201--10079232 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10079191 AAATCCCATA
10079201 AGAGATTTGTT
1 AGAGATTTGTT
10079212 AGAGATTTGTT
1 AGAGATTTGTT
*
10079223 TGAGATTTGT
1 AGAGATTTGT
10079233 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:10079411 original size:52 final size:52
Alignment explanation
Indices: 10079257--10079413 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
10079247 TGGACAAGAA
* * * *
10079257 GACTTGCAAAAGAAGAATT-TCAAGA-GAAAGAGGATTCTTAATAGGTAAGTGT
1 GACTTACAAGAGAAGAATTCT-AAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
10079309 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
10079361 GACTTATAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
10079413 G
1 G
10079414 TATGGTTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 87 0.94
53 6 0.06
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:10080536 original size:13 final size:13
Alignment explanation
Indices: 10080505--10080551 Score: 76
Period size: 13 Copynumber: 3.5 Consensus size: 13
10080495 TTAGAGTTTT
10080505 GGTTTGAGTTTTAAG
1 GGTTTG-GTTTT-AG
10080520 GGTTTGGTTTTAG
1 GGTTTGGTTTTAG
10080533 GGTTTGGTTTTAG
1 GGTTTGGTTTTAG
10080546 GGTTTG
1 GGTTTG
10080552 AGAGGTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 21 0.66
14 5 0.16
15 6 0.19
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (13 bp):
GGTTTGGTTTTAG
Found at i:10080609 original size:14 final size:14
Alignment explanation
Indices: 10080507--10080696 Score: 86
Period size: 14 Copynumber: 13.1 Consensus size: 14
10080497 AGAGTTTTGG
10080507 TTTGAGTTTTAAGGG-
1 TTTGA-TTTT-AGGGT
*
10080522 TTTGGTTTTAGGG-
1 TTTGATTTTAGGGT
*
10080535 TTTGGTTTTAGGGT
1 TTTGATTTTAGGGT
* *
10080549 TTGAGAGGTTTT-GAGT
1 TT-TGA--TTTTAGGGT
**
10080565 TTTGGCTTTAGGG-
1 TTTGATTTTAGGGT
10080578 TTTGCAAGTTTTAGGGT
1 TTTG--A-TTTTAGGGT
*
10080595 TTTGATTTGAGGG-
1 TTTGATTTTAGGGT
* * *
10080608 TTTGAAGTTCATGGT
1 TTTG-ATTTTAGGGT
*
10080623 TTTAATTTTAGGGT
1 TTTGATTTTAGGGT
*
10080637 TTGGAGGTTTTAGGGT
1 TTTGA--TTTTAGGGT
10080653 TTTGATTTTAGGG-
1 TTTGATTTTAGGGT
* * *
10080666 TATGAGGTTTGGGGT
1 TTTGA-TTTTAGGGT
*
10080681 TTTGATTTTAAGGT
1 TTTGATTTTAGGGT
10080695 TT
1 TT
10080697 AAAGAAAATG
Statistics
Matches: 132, Mismatches: 28, Indels: 31
0.69 0.15 0.16
Matches are distributed among these distances:
13 32 0.24
14 53 0.40
15 14 0.11
16 25 0.19
17 8 0.06
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (14 bp):
TTTGATTTTAGGGT
Found at i:10080682 original size:58 final size:58
Alignment explanation
Indices: 10080525--10080696 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
10080515 TTAAGGGTTT
* * * **
10080525 GGTTTTAGGG-TTTGGTTTTAGGGTTTGAGAGGTTTTGAGTTTTGGCTTTAGGGTTTGCA
1 GGTTTTAGGGTTTTGATTTTAGGGTTT--GAGGTTTAGGGTTTTGATTTTAGGGTTTGCA
* * * * * * *
10080584 AGTTTTAGGGTTTTGATTTGAGGGTTTGAAGTTCATGGTTTTAATTTTAGGGTTTGGA
1 GGTTTTAGGGTTTTGATTTTAGGGTTTGAGGTTTAGGGTTTTGATTTTAGGGTTTGCA
* * *
10080642 GGTTTTAGGGTTTTGATTTTAGGGTATGAGGTTTGGGGTTTTGATTTTAAGGTTT
1 GGTTTTAGGGTTTTGATTTTAGGGTTTGAGGTTTAGGGTTTTGATTTTAGGGTTT
10080697 AAAGAAAATG
Statistics
Matches: 91, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
58 68 0.75
59 9 0.10
60 14 0.15
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (58 bp):
GGTTTTAGGGTTTTGATTTTAGGGTTTGAGGTTTAGGGTTTTGATTTTAGGGTTTGCA
Found at i:10080686 original size:28 final size:28
Alignment explanation
Indices: 10080507--10080696 Score: 159
Period size: 30 Copynumber: 6.6 Consensus size: 28
10080497 AGAGTTTTGG
*
10080507 TTTGAGTTTTAAGGGTTTG-GTTTTAGGG-
1 TTTGA-TTTT-AGGGTTTGAGGTTTAGGGT
* * *
10080535 TTTGGTTTTAGGGTTTGAGAGGTTTTGAGT
1 TTTGATTTTAGGGTTT--GAGGTTTAGGGT
** *
10080565 TTTGGCTTTAGGGTTTGCAAGTTTTAGGGT
1 TTTGATTTTAGGGTTTG--AGGTTTAGGGT
* * * *
10080595 TTTGATTTGAGGGTTTGAAGTTCATGGT
1 TTTGATTTTAGGGTTTGAGGTTTAGGGT
*
10080623 TTTAATTTTAGGGTTTGGAGGTTTTAGGGT
1 TTTGATTTTAGGGTTT-GAGG-TTTAGGGT
* *
10080653 TTTGATTTTAGGGTATGAGGTTTGGGGT
1 TTTGATTTTAGGGTTTGAGGTTTAGGGT
*
10080681 TTTGATTTTAAGGTTT
1 TTTGATTTTAGGGTTT
10080697 AAAGAAAATG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
26 7 0.05
27 4 0.03
28 48 0.37
29 13 0.10
30 57 0.44
ACGTcount: A:0.15, C:0.02, G:0.34, T:0.49
Consensus pattern (28 bp):
TTTGATTTTAGGGTTTGAGGTTTAGGGT
Found at i:10080979 original size:12 final size:12
Alignment explanation
Indices: 10080962--10081001 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
10080952 TGCTAGTTTG
10080962 TTTTATAATTAT
1 TTTTATAATTAT
10080974 TTTTATAATTAT
1 TTTTATAATTAT
*
10080986 TATTAT--TTAT
1 TTTTATAATTAT
10080996 TTTTAT
1 TTTTAT
10081002 TTAACAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATAATTAT
Found at i:10082245 original size:1 final size:1
Alignment explanation
Indices: 10082239--10082292 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
10082229 CTTGTTCTTC
* * * * * *
10082239 TTTTTTTTCTCTTTTTTTTCTTTTTTTTATTTTTTTTTATTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10082293 GTTTGTGTGT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.04, C:0.06, G:0.02, T:0.89
Consensus pattern (1 bp):
T
Found at i:10082296 original size:11 final size:11
Alignment explanation
Indices: 10082233--10082292 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
10082223 CTCTATCTTG
10082233 TTCTTCTTTTTT
1 TTCTT-TTTTTT
*
10082245 TTCTCTTTTTT
1 TTCTTTTTTTT
10082256 TTCTTTTTTTT
1 TTCTTTTTTTT
*
10082267 ATTTTTTTTTATT
1 -TTCTTTTTT-TT
*
10082280 TTGTTTTTTTT
1 TTCTTTTTTTT
10082291 TT
1 TT
10082293 GTTTGTGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 20 0.48
12 20 0.48
13 2 0.05
ACGTcount: A:0.03, C:0.08, G:0.02, T:0.87
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:10082663 original size:36 final size:37
Alignment explanation
Indices: 10082623--10082774 Score: 100
Period size: 36 Copynumber: 4.1 Consensus size: 37
10082613 AAATGACCAA
* *
10082623 GACAACACTGCGAGTC-AAAAATTAAAAAATT-ATTAG
1 GACAACACCGCAAGTCGAAAAA-TAAAAAATTGATTAG
* *
10082659 GACAACACCGCAAGTCGAAAAATAAAGAATTGATTGG
1 GACAACACCGCAAGTCGAAAAATAAAAAATTGATTAG
* * * **
10082696 GACAATCATCACAAATC-AAAAAGTAAAAAA-TGA-CCG
1 GACAA-CACCGCAAGTCGAAAAA-TAAAAAATTGATTAG
* * * *
10082732 AGACAACATCGCATGTC-AAAAGATAAAGAATTGATTGG
1 -GACAACACCGCAAGTCGAAAA-ATAAAAAATTGATTAG
10082770 GACAA
1 GACAA
10082775 TATCACAAGT
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
36 41 0.45
37 36 0.39
38 15 0.16
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (37 bp):
GACAACACCGCAAGTCGAAAAATAAAAAATTGATTAG
Found at i:10082699 original size:37 final size:37
Alignment explanation
Indices: 10082623--10082789 Score: 126
Period size: 37 Copynumber: 4.5 Consensus size: 37
10082613 AAATGACCAA
* * * * *
10082623 GACAACACTGCGAGTCAAAAATTAAAAAATT-ATTAG
1 GACAACACCGCAAGTCAAAAAGTAAAGAATTGATTGG
10082659 GACAACACCGCAAGTCGAAAAA-TAAAGAATTGATTGG
1 GACAACACCGCAAGTC-AAAAAGTAAAGAATTGATTGG
* * * * ** *
10082696 GACAATCATCACAAATCAAAAAGTAAA-AAATGACCGA
1 GACAA-CACCGCAAGTCAAAAAGTAAAGAATTGATTGG
* *
10082733 GACAACATCGCATGTC-AAAAGATAAAGAATTGATTGG
1 GACAACACCGCAAGTCAAAAAG-TAAAGAATTGATTGG
* * *
10082770 GACAATATCACAAGTCAAAA
1 GACAACACCGCAAGTCAAAA
10082790 TTATGCCTAG
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
35 5 0.05
36 34 0.33
37 49 0.48
38 15 0.15
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (37 bp):
GACAACACCGCAAGTCAAAAAGTAAAGAATTGATTGG
Found at i:10082716 original size:74 final size:73
Alignment explanation
Indices: 10082637--10082789 Score: 202
Period size: 74 Copynumber: 2.1 Consensus size: 73
10082627 ACACTGCGAG
* * *
10082637 TCAAAAATTAAAAAATTATTAG-GACAACACCGCAAGTCGAAAA-ATAAAGAATTGATTGGGACA
1 TCAAAAAGTAAAAAATGA-CAGAGACAACACCGCAAGTC-AAAAGATAAAGAATTGATTGGGACA
10082700 ATCATCACAAA
64 AT-ATCACAAA
* * *
10082711 TCAAAAAGTAAAAAATGACCGAGACAACATCGCATGTCAAAAGATAAAGAATTGATTGGGACAAT
1 TCAAAAAGTAAAAAATGACAGAGACAACACCGCAAGTCAAAAGATAAAGAATTGATTGGGACAAT
*
10082776 ATCACAAG
66 ATCACAAA
10082784 TCAAAA
1 TCAAAA
10082790 TTATGCCTAG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
73 18 0.26
74 52 0.74
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (73 bp):
TCAAAAAGTAAAAAATGACAGAGACAACACCGCAAGTCAAAAGATAAAGAATTGATTGGGACAAT
ATCACAAA
Found at i:10082814 original size:22 final size:21
Alignment explanation
Indices: 10082786--10082856 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
10082776 ATCACAAGTC
*
10082786 AAAATTATGCCTAGAGGTCTT
1 AAAATTATGCCTGGAGGTCTT
10082807 GAAAATTATGCCTGGAGGTCTT
1 -AAAATTATGCCTGGAGGTCTT
* *
10082829 AGAGATTATACCTGGAGGTCTT
1 A-AAATTATGCCTGGAGGTCTT
10082851 ACAAAT
1 A-AAAT
10082857 CTCAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 1 0.02
22 42 0.98
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (21 bp):
AAAATTATGCCTGGAGGTCTT
Found at i:10082993 original size:85 final size:81
Alignment explanation
Indices: 10082846--10083006 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 81
10082836 ATACCTGGAG
* *
10082846 GTCTTACAAATCTCAAAATTTTGAATGCTCCTCTAATCAGAGGCATAGACACTTTAAAAATTTAA
1 GTCTTACAAATCTCAAAATTTTGAATGCTCCTCCAATCAGAGGCATAGAAACTTTAAAAATTTAA
10082911 AAATCTTTTGCCTTGAA
66 AAA-CTTTTGCCTTGAA
** * *
10082928 GTCTTACAAATCTCAAAATCTTTGAATGCTCCTCACACATTTGAGGCATTGAAACTTTGAAAATT
1 GTCTTACAAATCTCAAAAT-TTTGAATGCTCCTC-CA-ATCAGAGGCATAGAAACTTTAAAAATT
10082993 TAAAAACTTTTGCC
63 TAAAAACTTTTGCC
10083007 CAAAGGTCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
82 19 0.27
83 14 0.20
84 9 0.13
85 28 0.40
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (81 bp):
GTCTTACAAATCTCAAAATTTTGAATGCTCCTCCAATCAGAGGCATAGAAACTTTAAAAATTTAA
AAACTTTTGCCTTGAA
Found at i:10083613 original size:18 final size:18
Alignment explanation
Indices: 10083568--10083616 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
10083558 CTCATCAAAT
* *
10083568 GATGCTAATGTAAATATC
1 GATGCAAATGCAAATATC
10083586 GATG-AGAATGCAAATATC
1 GATGCA-AATGCAAATATC
10083604 GATGCAAATGCAA
1 GATGCAAATGCAA
10083617 GAATGCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.24
Consensus pattern (18 bp):
GATGCAAATGCAAATATC
Found at i:10085369 original size:11 final size:11
Alignment explanation
Indices: 10085331--10085371 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
10085321 ATAAAAGGGA
*
10085331 TTTTTTAATCT
1 TTTTTTTATCT
10085342 TTTTTTGTA--T
1 TTTTTT-TATCT
10085352 TTTTTTTATCT
1 TTTTTTTATCT
10085363 TTTTTTTAT
1 TTTTTTTAT
10085372 GATGCCCCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 2 0.08
10 7 0.27
11 16 0.62
12 1 0.04
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTTTTATCT
Found at i:10091844 original size:21 final size:24
Alignment explanation
Indices: 10091808--10091856 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
10091798 TAGAGTTTTT
10091808 GTTTGAGTTTTAAGGGTTTGA-AG
1 GTTTGAGTTTTAAGGGTTTGAGAG
10091831 GTTTG-GTTTT-AGGGTTTGAGAG
1 GTTTGAGTTTTAAGGGTTTGAGAG
10091853 GTTT
1 GTTT
10091857 TTGGGTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (24 bp):
GTTTGAGTTTTAAGGGTTTGAGAG
Found at i:10091846 original size:8 final size:8
Alignment explanation
Indices: 10091835--10091895 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 8
10091825 TTGAAGGTTT
10091835 GGTTTTAG
1 GGTTTTAG
*
10091843 GGTTTGAG
1 GGTTTTAG
*
10091851 AGGTTTTTG
1 -GGTTTTAG
10091860 GGTTTT--
1 GGTTTTAG
*
10091866 GATTTTAG
1 GGTTTTAG
* *
10091874 GGTTTGAA
1 GGTTTTAG
10091882 GGTTTTAG
1 GGTTTTAG
10091890 GGTTTT
1 GGTTTT
10091896 GATTTTATGG
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
6 5 0.12
8 30 0.73
9 6 0.15
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (8 bp):
GGTTTTAG
Found at i:10091856 original size:30 final size:29
Alignment explanation
Indices: 10091830--10092050 Score: 201
Period size: 28 Copynumber: 7.6 Consensus size: 29
10091820 AGGGTTTGAA
*
10091830 GGTTTGGTTTTAGGGTTTGAGAGGTTTTTGG
1 GGTTTGATTTTAGGGTTTGAGAGG--TTTGG
*
10091861 GTTTTGATTTTAGGGTTTGA-AGGTTTTAGG
1 GGTTTGATTTTAGGGTTTGAGAGG-TTT-GG
* * *
10091891 GTTTTGATTTTATGGTTT-A-AGGCTTGG
1 GGTTTGATTTTAGGGTTTGAGAGGTTTGG
*
10091918 GGCTTTGATTTTAGGGTTT-AAAGGTTT-G
1 GG-TTTGATTTTAGGGTTTGAGAGGTTTGG
10091946 GGTTTCGATTTTAGGGTTT-AGAGGTTT-G
1 GGTTT-GATTTTAGGGTTTGAGAGGTTTGG
**
10091974 GGTTTCGATTTTAGGGTTTG-GAGGTTTTAA
1 GGTTT-GATTTTAGGGTTTGAGAGG-TTTGG
10092004 GGTTTCGATTTTAGGGTTT--GAGGTTTGG
1 GGTTT-GATTTTAGGGTTTGAGAGGTTTGG
*
10092032 GGTTTTGATTTTAAGGTTT
1 GG-TTTGATTTTAGGGTTT
10092051 AAAGAAAAAA
Statistics
Matches: 170, Mismatches: 12, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.04
28 82 0.48
29 23 0.14
30 41 0.24
31 18 0.11
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.49
Consensus pattern (29 bp):
GGTTTGATTTTAGGGTTTGAGAGGTTTGG
Found at i:10091876 original size:14 final size:14
Alignment explanation
Indices: 10091854--10092050 Score: 98
Period size: 14 Copynumber: 13.8 Consensus size: 14
10091844 GTTTGAGAGG
*
10091854 TTTTTGGGTTTTGA
1 TTTTAGGGTTTTGA
10091868 TTTTAGGG-TTTGAA
1 TTTTAGGGTTTTG-A
10091882 GGTTTTAGGGTTTTGA
1 --TTTTAGGGTTTTGA
* *
10091898 TTTTATGG-TTTAA
1 TTTTAGGGTTTTGA
** * *
10091911 GGCTTGGGGCTTTGA
1 -TTTTAGGGTTTTGA
**
10091926 TTTTAGGGTTTAAA
1 TTTTAGGGTTTTGA
* *
10091940 GGTTT-GGGTTTCGA
1 -TTTTAGGGTTTTGA
*
10091954 TTTTAGGGTTTAGA
1 TTTTAGGGTTTTGA
* *
10091968 GGTTT-GGGTTTCGA
1 -TTTTAGGGTTTTGA
*
10091982 TTTTAGGGTTTGGA
1 TTTTAGGGTTTTGA
* *
10091996 GGTTTTAAGGTTTCGA
1 --TTTTAGGGTTTTGA
10092012 TTTTAGGG-TTTGA
1 TTTTAGGGTTTTGA
* *
10092025 GGTTTGGGGTTTTGA
1 -TTTTAGGGTTTTGA
*
10092040 TTTTAAGGTTT
1 TTTTAGGGTTT
10092051 AAAGAAAAAA
Statistics
Matches: 137, Mismatches: 32, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
13 18 0.13
14 79 0.58
15 15 0.11
16 21 0.15
17 4 0.03
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.50
Consensus pattern (14 bp):
TTTTAGGGTTTTGA
Found at i:10091986 original size:114 final size:116
Alignment explanation
Indices: 10091837--10092054 Score: 332
Period size: 114 Copynumber: 1.9 Consensus size: 116
10091827 GAAGGTTTGG
* * *
10091837 TTTTAGGGTTTGAGAGGTTTTTGGGTTTTGATTTTAGGGTTTGAAGGTTTTAGGGTTTTGATTTT
1 TTTTAGGGTTTGAGAGG-TTTTGGGTTTCGATTTTAGGGTTTGAAGGTTTTAAGGTTTCGATTTT
* *
10091902 ATGGTTTAAGGCTTGGGGCTTTGATTTTAGGGTTTAAAGGTTTGGGTTTCGA
65 AGGGTTTAAGGCTTGGGGCTTTGATTTTAAGGTTTAAAGGTTTGGGTTTCGA
*
10091954 TTTTAGGGTTT-AGAGG-TTTGGGTTTCGATTTTAGGGTTTGGAGGTTTTAAGGTTTCGATTTTA
1 TTTTAGGGTTTGAGAGGTTTTGGGTTTCGATTTTAGGGTTTGAAGGTTTTAAGGTTTCGATTTTA
* * *
10092017 GGGTTTGAGGTTTGGGGTTTTGATTTTAAGGTTTAAAG
66 GGGTTTAAGGCTTGGGGCTTTGATTTTAAGGTTTAAAG
10092055 AAAAAAATGA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
114 76 0.83
116 5 0.05
117 11 0.12
ACGTcount: A:0.16, C:0.02, G:0.33, T:0.48
Consensus pattern (116 bp):
TTTTAGGGTTTGAGAGGTTTTGGGTTTCGATTTTAGGGTTTGAAGGTTTTAAGGTTTCGATTTTA
GGGTTTAAGGCTTGGGGCTTTGATTTTAAGGTTTAAAGGTTTGGGTTTCGA
Found at i:10093600 original size:1 final size:1
Alignment explanation
Indices: 10093589--10093656 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
10093579 CTTTTCTCTC
* * * * * * * * *
10093589 TTTTTTCTTTTTTTTTTTTTCTTTTTTCTTTTCTTTTTCTTTTCTTTTGTTTTTTTTTGTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10093654 TTT
1 TTT
10093657 ATATTTAATT
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.01, C:0.09, G:0.03, T:0.87
Consensus pattern (1 bp):
T
Found at i:10093602 original size:10 final size:10
Alignment explanation
Indices: 10093589--10093656 Score: 73
Period size: 11 Copynumber: 6.5 Consensus size: 10
10093579 CTTTTCTCTC
10093589 TTTTTTCTTT
1 TTTTTTCTTT
*
10093599 TTTTTTTTTT
1 TTTTTTCTTT
10093609 CTTTTTTCTTT
1 -TTTTTTCTTT
10093620 TCTTTTTCTTT
1 T-TTTTTCTTT
* *
10093631 TCTTTTGTTT
1 TTTTTTCTTT
*
10093641 TTTTTTGTATT
1 TTTTTTCT-TT
10093652 TTTTT
1 TTTTT
10093657 ATATTTAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
10 24 0.48
11 26 0.52
ACGTcount: A:0.01, C:0.09, G:0.03, T:0.87
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:10093611 original size:21 final size:22
Alignment explanation
Indices: 10093587--10093646 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
10093577 TTCTTTTCTC
10093587 TCTTTTTTCTTTTTTTTT-TTT
1 TCTTTTTTCTTTTTTTTTCTTT
10093608 TCTTTTTTCTTTTCTTTTTCTTT
1 TCTTTTTTCTTTT-TTTTTCTTT
*
10093631 TCTTTTGT-TTTTTTTT
1 TCTTTTTTCTTTTTTTT
10093647 GTATTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 17 0.47
22 9 0.25
23 10 0.28
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.87
Consensus pattern (22 bp):
TCTTTTTTCTTTTTTTTTCTTT
Found at i:10102583 original size:2 final size:2
Alignment explanation
Indices: 10102576--10102605 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10102566 AATGAGTTGT
10102576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10102606 CATACTAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10103302 original size:22 final size:23
Alignment explanation
Indices: 10103270--10103319 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
10103260 TCAAGTACAA
*
10103270 AAAAATATATATTTAAAT-ATATT
1 AAAAATATATA-TTAAATAATATC
10103293 AAAAAT-TATATTAAATAATATC
1 AAAAATATATATTAAATAATATC
10103315 AAAAA
1 AAAAA
10103320 ATTAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATATATATTAAATAATATC
Found at i:10104832 original size:26 final size:26
Alignment explanation
Indices: 10104798--10104878 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 26
10104788 TTTTATTTAA
10104798 TTTTTTTCTTTTTTTTCCGTT-TTCTT
1 TTTTTTTCTTTTTTTT-CGTTCTTCTT
* *
10104824 TTTTTTTCTCTTTTTTCTTTCTTCTT
1 TTTTTTTCTTTTTTTTCGTTCTTCTT
10104850 TTTTTCCTTCTTTCTTTTTTC-TTCTTCTT
1 TTTTT--TTC-TT-TTTTTTCGTTCTTCTT
10104879 CTTCCTTATC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
25 3 0.06
26 25 0.53
28 3 0.06
29 9 0.19
30 7 0.15
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.79
Consensus pattern (26 bp):
TTTTTTTCTTTTTTTTCGTTCTTCTT
Found at i:10104838 original size:13 final size:14
Alignment explanation
Indices: 10104822--10104875 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
10104812 TTCCGTTTTC
10104822 TTTTTTTTTC-TCT
1 TTTTTTTTTCTTCT
*
10104835 TTTTTCTTTCTTC-
1 TTTTTTTTTCTTCT
*
10104848 -TTTTTTTCCTTCT
1 TTTTTTTTTCTTCT
*
10104861 TTCTTTTTTCTTCT
1 TTTTTTTTTCTTCT
10104875 T
1 T
10104876 CTTCTTCCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
12 10 0.30
13 9 0.27
14 14 0.42
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTCTTCT
Found at i:10104848 original size:16 final size:15
Alignment explanation
Indices: 10104829--10104877 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
10104819 TTCTTTTTTT
10104829 TTCTCTTTTTTCTTTC
1 TTCTCTTTTTTC-TTC
10104845 TTCT-TTTTTTCCTTC
1 TTCTCTTTTTT-CTTC
10104860 TT-TCTTTTTTCTTC
1 TTCTCTTTTTTCTTC
10104874 TTCT
1 TTCT
10104878 TCTTCCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.23
15 18 0.60
16 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTCTTTTTTCTTC
Found at i:10104871 original size:23 final size:24
Alignment explanation
Indices: 10104818--10104872 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 24
10104808 TTTTTTCCGT
*
10104818 TTTCTT-TTTTTTTCTCTTTTTTC
1 TTTCTTCTTTTTTTCTCTTCTTTC
10104841 TTTCTTCTTTTTTTC-CTTCTTTC
1 TTTCTTCTTTTTTTCTCTTCTTTC
*
10104864 TTTTTTCTT
1 TTTCTTCTT
10104873 CTTCTTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTCTTCTTTTTTTCTCTTCTTTC
Found at i:10104880 original size:16 final size:16
Alignment explanation
Indices: 10104832--10104881 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
10104822 TTTTTTTTTC
10104832 TCTTTTTTC-T-TTCT
1 TCTTTTTTCTTCTTCT
*
10104846 TCTTTTTT-TCCTTCTT
1 TCTTTTTTCTTCTTC-T
10104862 TCTTTTTTCTTCTTCT
1 TCTTTTTTCTTCTTCT
10104878 TCTT
1 TCTT
10104882 CCTTATCCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.27
15 3 0.10
16 14 0.47
17 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TCTTTTTTCTTCTTCT
Found at i:10104882 original size:23 final size:23
Alignment explanation
Indices: 10104819--10104882 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 23
10104809 TTTTTCCGTT
10104819 TTCTTT-TTTTTTC-TCTT-TT-
1 TTCTTTCTTTTTTCTTCTTCTTC
*
10104838 TTCTTTCTTCTTT-TT-TTC--C
1 TTCTTTCTTTTTTCTTCTTCTTC
10104857 TTCTTTCTTTTTTCTTCTTCTTC
1 TTCTTTCTTTTTTCTTCTTCTTC
10104880 TTC
1 TTC
10104883 CTTATCCGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
19 20 0.57
20 8 0.23
21 3 0.09
23 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTTCTTTTTTCTTCTTCTTC
Found at i:10105963 original size:17 final size:17
Alignment explanation
Indices: 10105941--10105995 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
10105931 TTAATTTTAA
10105941 AATAAAATTTAAAATAT
1 AATAAAATTTAAAATAT
*
10105958 AATAAAA-TGAAAA-AT
1 AATAAAATTTAAAATAT
* *
10105973 AATGAAACTTTATAATAAT
1 AAT-AAAATTTAAAAT-AT
10105992 AATA
1 AATA
10105996 TTGATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 5 0.17
16 8 0.27
17 11 0.37
18 1 0.03
19 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (17 bp):
AATAAAATTTAAAATAT
Found at i:10106390 original size:12 final size:12
Alignment explanation
Indices: 10106370--10106413 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
10106360 ATTTTCTTTA
10106370 AAATAAAAAAAAT
1 AAAT-AAAAAAAT
10106383 AAATAAAAAAAT
1 AAATAAAAAAAT
*
10106395 -AATAAAACAAT
1 AAATAAAAAAAT
*
10106406 TAATAAAA
1 AAATAAAA
10106414 TTTTAATGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.34
12 15 0.52
13 4 0.14
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:10110443 original size:59 final size:57
Alignment explanation
Indices: 10110369--10110645 Score: 396
Period size: 60 Copynumber: 4.7 Consensus size: 57
10110359 TTTTTTGTAG
10110369 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTCT-AA
*
10110428 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTGGAAA-TTT-ATTTCT-AA
* * *
10110488 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTATTTCTAA
*
10110548 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
*
10110605 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
10110646 TTTTGGAATT
Statistics
Matches: 203, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
57 59 0.29
59 35 0.17
60 91 0.45
61 7 0.03
62 11 0.05
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:10111733 original size:37 final size:38
Alignment explanation
Indices: 10111643--10111734 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 38
10111633 AGATAAAAAA
* *
10111643 ATAATAATAAATATATAACTATATACATATAAATCTAATC
1 ATAATAAT-AATAAATAAATATATACATAT-AATCTAATC
10111683 -TAATAGA-AA-AAATAAATATATACATAT-AT-TAATAC
1 ATAATA-ATAATAAATAAATATATACATATAATCTAAT-C
10111718 ATAATAATAATAAATAA
1 ATAATAATAATAAATAA
10111735 TACAATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
34 4 0.09
35 4 0.09
36 7 0.16
37 22 0.49
38 2 0.04
39 5 0.11
40 1 0.02
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.33
Consensus pattern (38 bp):
ATAATAATAATAAATAAATATATACATATAATCTAATC
Found at i:10111956 original size:9 final size:9
Alignment explanation
Indices: 10111938--10112012 Score: 77
Period size: 9 Copynumber: 8.7 Consensus size: 9
10111928 CAACTCAACA
*
10111938 TTTTTCGGT
1 TTTTTTGGT
10111947 TTTTTTGGT
1 TTTTTTGGT
*
10111956 TTTTTTGTTT
1 TTTTTTG-GT
*
10111966 TTTTTTTGT
1 TTTTTTGGT
*
10111975 TTTTTT-AT
1 TTTTTTGGT
10111983 TTTTTTGGT
1 TTTTTTGGT
10111992 TTTTTT-G-
1 TTTTTTGGT
10111999 TTTTTT-GT
1 TTTTTTGGT
10112007 TTTTTT
1 TTTTTT
10112013 TTTTTTTACC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
7 7 0.12
8 14 0.25
9 29 0.51
10 7 0.12
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (9 bp):
TTTTTTGGT
Found at i:10111959 original size:1 final size:1
Alignment explanation
Indices: 10111955--10112019 Score: 67
Period size: 1 Copynumber: 65.0 Consensus size: 1
10111945 GTTTTTTTGG
* * * ** * *
10111955 TTTTTTTGTTTTTTTTTTGTTTTTTTATTTTTTTGGTTTTTTTGTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10112020 ACCAAAGCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:10111986 original size:36 final size:37
Alignment explanation
Indices: 10111946--10112017 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 37
10111936 CATTTTTCGG
10111946 TTTTTTTGGTTTTTTTGTTTTTT-TTTTGTTTTTTTA
1 TTTTTTTGGTTTTTTTGTTTTTTGTTTTGTTTTTTTA
*
10111982 TTTTTTTGGTTTTTTTGTTTTTTGTTTTTTTTTTTT
1 TTTTTTTGGTTTTTTTGTTTTTTGTTTTGTTTTTTT
10112018 TTACCAAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 23 0.68
37 11 0.32
ACGTcount: A:0.01, C:0.00, G:0.11, T:0.88
Consensus pattern (37 bp):
TTTTTTTGGTTTTTTTGTTTTTTGTTTTGTTTTTTTA
Found at i:10112154 original size:40 final size:39
Alignment explanation
Indices: 10112026--10112637 Score: 789
Period size: 40 Copynumber: 15.0 Consensus size: 39
10112016 TTTTACCAAA
10112026 GCTCCTCTAAACAGAGGCACCACGACTTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC--TTGGAAAAGTAAATT
*
10112068 GCTCCTCTAAACAGAGGTACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAC-TTGGAAAAGTAAATT
*
10112109 GCTCCTCCAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAATT
*
10112149 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAATT
*
10112189 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAC-TTGGAAAAGTAAATT
*
10112231 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAATT
*
10112271 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAC-TTGGAAAAGTAAATT
* *
10112313 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAATT
*
10112353 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAC-TTGGAAAAGTAAATT
10112395 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTGGAAAAGTAAATT
*
10112436 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAATT
* *
10112476 ACTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAATT
*
10112516 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTGGAAAAGTAAATT
*
10112557 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGAC-TTGGAAAAGTAAATT
*
10112599 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACG-ACTTGGAAAAGTAAAT
10112638 ACTCCTAGAC
Statistics
Matches: 520, Mismatches: 25, Indels: 52
0.87 0.04 0.09
Matches are distributed among these distances:
39 14 0.03
40 223 0.43
41 111 0.21
42 170 0.33
43 1 0.00
44 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTGGAAAAGTAAATT
Found at i:10112247 original size:82 final size:81
Alignment explanation
Indices: 10112026--10112637 Score: 913
Period size: 82 Copynumber: 7.5 Consensus size: 81
10112016 TTTTACCAAA
*
10112026 GCTCCTCTAAACAGAGGCACCACGACTTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGG-ACCACGAC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAA
*
10112090 CG-ACTTTGGAAAGTAAATT
62 CGAACTTTGAAAAGTAAATT
* *
10112109 GCTCCTCCAAACAGAGG-CAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10112172 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
10112189 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10112254 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
*
10112271 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGA
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10112336 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
10112353 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
*
10112418 G-ACTTTGGAAAGTAAATT
63 GAACTTTGAAAAGTAAATT
* *
10112436 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAATTACTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10112499 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
*
10112516 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
10112580 G-ACTTTGGAAAAGTAAATT
63 GAACTTT-GAAAAGTAAATT
*
10112599 GCTCCTCTAAACAGAGG-CAACGAACTTT-GAAAAGTAAAT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAAGTAAAT
10112638 ACTCCTAGAC
Statistics
Matches: 497, Mismatches: 16, Indels: 33
0.91 0.03 0.06
Matches are distributed among these distances:
79 7 0.01
80 69 0.14
81 104 0.21
82 232 0.47
83 82 0.16
84 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATT
Found at i:10113832 original size:16 final size:15
Alignment explanation
Indices: 10113807--10113877 Score: 87
Period size: 16 Copynumber: 4.9 Consensus size: 15
10113797 TCAATTTGGA
10113807 TTTCTTTTTTCATTT
1 TTTCTTTTTTCATTT
10113822 TTTCATTTTTTCATTT
1 TTTC-TTTTTTCATTT
*
10113838 TTTCATTTTTTC-TTC
1 TTTC-TTTTTTCATTT
10113853 TTTCTTTTTT--TTT
1 TTTCTTTTTTCATTT
10113866 TTT-TTTTTTCAT
1 TTTCTTTTTTCAT
10113878 CATCTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
12 6 0.12
13 5 0.10
14 7 0.14
15 10 0.20
16 23 0.45
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTTTTCATTT
Found at i:10113867 original size:7 final size:7
Alignment explanation
Indices: 10113807--10113875 Score: 79
Period size: 8 Copynumber: 9.6 Consensus size: 7
10113797 TCAATTTGGA
10113807 TTTCTTT
1 TTTCTTT
10113814 TTTCATTT
1 TTTC-TTT
10113822 TTTCATTT
1 TTTC-TTT
10113830 TTTCATTT
1 TTTC-TTT
10113838 TTTCATTT
1 TTTC-TTT
*
10113846 TTTCTTC
1 TTTCTTT
10113853 TTTCTTT
1 TTTCTTT
10113860 TTT-TTT
1 TTTCTTT
10113866 TTT-TTT
1 TTTCTTT
10113872 TTTC
1 TTTC
10113876 ATCATCTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.21
7 15 0.26
8 31 0.53
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:10117314 original size:59 final size:59
Alignment explanation
Indices: 10117126--10117404 Score: 415
Period size: 60 Copynumber: 4.7 Consensus size: 59
10117116 TTTTTTGTAG
*
10117126 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTT-GATTTTCAA
*
10117186 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAA-TTTGATTTTCAA
* *
10117246 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT-A-TTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAATTTGATTTTC-AA
* *
10117305 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATA-TTTTTTGGAAATTT-A-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTGATTTTC-AA
*
10117362 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
10117405 TGGAATTTTT
Statistics
Matches: 203, Mismatches: 12, Indels: 10
0.90 0.05 0.04
Matches are distributed among these distances:
57 53 0.26
58 10 0.05
59 35 0.17
60 91 0.45
61 14 0.07
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTGATTTTCAA
Found at i:10117620 original size:5 final size:5
Alignment explanation
Indices: 10117606--10117638 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10117596 AGCGGCTTGG
*
10117606 CGGCT TGGCT CGGCT CGGCT CGGCT CGGCT CGG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGG
10117639 AGGGGGCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.42, T:0.21
Consensus pattern (5 bp):
CGGCT
Found at i:10118498 original size:37 final size:38
Alignment explanation
Indices: 10118408--10118499 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 38
10118398 AGATAAAAAA
* *
10118408 ATAATAATAAATATATAACTATATACATATAAATCTAATC
1 ATAATAAT-AATAAATAAATATATACATAT-AATCTAATC
10118448 -TAATAGA-AA-AAATAAATATATACATAT-AT-TAATAC
1 ATAATA-ATAATAAATAAATATATACATATAATCTAAT-C
10118483 ATAATAATAATAAATAA
1 ATAATAATAATAAATAA
10118500 TACAATACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
34 4 0.09
35 4 0.09
36 7 0.16
37 22 0.49
38 2 0.04
39 5 0.11
40 1 0.02
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.33
Consensus pattern (38 bp):
ATAATAATAATAAATAAATATATACATATAATCTAATC
Found at i:10118714 original size:1 final size:1
Alignment explanation
Indices: 10118710--10118781 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
10118700 CATTTTTCGG
* * * * ** * *
10118710 TTTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTGGTTTTTTTGTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10118775 TTTTTTT
1 TTTTTTT
10118782 ACCAAAGCTC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:10118720 original size:8 final size:8
Alignment explanation
Indices: 10118709--10118781 Score: 96
Period size: 8 Copynumber: 8.9 Consensus size: 8
10118699 ACATTTTTCG
10118709 GTTTTTTT
1 GTTTTTTT
10118717 GTTTTTTTT
1 G-TTTTTTT
10118726 GTTTTTTTTT
1 G--TTTTTTT
10118736 GTTTTTTT
1 GTTTTTTT
10118744 GTTTTTTT
1 GTTTTTTT
10118752 GGTTTTTTT
1 -GTTTTTTT
10118761 G-TTTTTT
1 GTTTTTTT
10118768 GTTTTTTT
1 GTTTTTTT
10118776 -TTTTTT
1 GTTTTTT
10118782 ACCAAAGCTC
Statistics
Matches: 61, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
7 13 0.21
8 23 0.38
9 16 0.26
10 9 0.15
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
GTTTTTTT
Found at i:10118722 original size:9 final size:9
Alignment explanation
Indices: 10118710--10118781 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
10118700 CATTTTTCGG
10118710 TTTTTTTGT
1 TTTTTTTGT
10118719 TTTTTTTGT
1 TTTTTTTGT
10118728 TTTTTTT-T
1 TTTTTTTGT
10118736 GTTTTTTTG-
1 -TTTTTTTGT
*
10118745 TTTTTTTGG
1 TTTTTTTGT
10118754 TTTTTTTG-
1 TTTTTTTGT
10118762 -TTTTTTGT
1 TTTTTTTGT
10118770 TTTTTTT-T
1 TTTTTTTGT
10118778 TTTT
1 TTTT
10118782 ACCAAAGCTC
Statistics
Matches: 58, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.12
8 14 0.24
9 37 0.64
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:10118748 original size:35 final size:36
Alignment explanation
Indices: 10118709--10118779 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
10118699 ACATTTTTCG
*
10118709 GTTTTTTTGTTTTTTTTGTTTTTT-TTTGTTTTTTT
1 GTTTTTTTGGTTTTTTTGTTTTTTGTTTGTTTTTTT
*
10118744 GTTTTTTTGGTTTTTTTGTTTTTTGTTTTTTTTTTT
1 GTTTTTTTGGTTTTTTTGTTTTTTGTTTGTTTTTTT
10118780 TTACCAAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 23 0.70
36 10 0.30
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (36 bp):
GTTTTTTTGGTTTTTTTGTTTTTTGTTTGTTTTTTT
Found at i:10118852 original size:42 final size:40
Alignment explanation
Indices: 10118788--10119442 Score: 894
Period size: 42 Copynumber: 16.0 Consensus size: 40
10118778 TTTTACCAAA
10118788 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGAC-TTTGGAAAGTAAATT
*
10118830 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATC
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAGTAAATT
*
10118871 GCTCCTCTAAACAGAGG-CAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGG-AAAGTAAATT
* *
10118911 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAGTAAATT
10118951 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGG-AAAGTAAATT
* *
10118993 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAGTAAATT
10119033 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGG-AAAGTAAATT
* * *
10119075 GCTCCTCTAAATAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAGTAAATT
10119115 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGG-AAAGTAAATT
10119157 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGG-AAAGTAAATT
10119199 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGGAAAGTAAATT
* *
10119240 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAGTAAATT
* *
10119280 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAGTAAATT
*
10119320 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTG-GAAAGTAAATT
10119362 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGG-AAAGTAAATT
* *
10119404 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGGAAAGTAAAT
10119443 ACTCCTAGAC
Statistics
Matches: 568, Mismatches: 25, Indels: 42
0.89 0.04 0.07
Matches are distributed among these distances:
39 12 0.02
40 210 0.37
41 103 0.18
42 243 0.43
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGGAAAGTAAATT
Found at i:10119009 original size:82 final size:82
Alignment explanation
Indices: 10118788--10119442 Score: 1062
Period size: 82 Copynumber: 8.0 Consensus size: 82
10118778 TTTTACCAAA
* *
10118788 GCTCCTCTAAACAGAGGCACCACGACTTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGGTACCACGAC-TTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAA
* *
10118852 CG-ACTTTGGAAAGTAAATC
63 CGAACTTTGAAAAGTAAATT
*
10118871 GCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
10118933 AACTTTGAAAAGTAAATT
65 AACTTTGAAAAGTAAATT
10118951 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10119016 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
*
10119033 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10119098 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
10119115 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
10119180 G-ACTTTGGAAAAGTAAATT
64 GAACTTT-GAAAAGTAAATT
*
10119199 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10119263 ACTTTGAAAAGTAAATT
66 ACTTTGAAAAGTAAATT
*
10119280 GCTCCTCTAAACAGAGG--CAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--A
10119342 CG-ACTTTGAAAAAGTAAATT
63 CGAACTTTG-AAAAGTAAATT
10119362 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10119427 ACTTTGAAAAGTAAAT
66 ACTTTGAAAAGTAAAT
10119443 ACTCCTAGAC
Statistics
Matches: 543, Mismatches: 10, Indels: 39
0.92 0.02 0.07
Matches are distributed among these distances:
79 9 0.02
80 70 0.13
81 71 0.13
82 251 0.46
83 62 0.11
84 80 0.15
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
ACTTTGAAAAGTAAATT
Found at i:10120632 original size:8 final size:8
Alignment explanation
Indices: 10120615--10120656 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
10120605 TCAATTTGGA
10120615 TTTC-TTT
1 TTTCATTT
10120622 TTTCATTT
1 TTTCATTT
10120630 TTTCATTT
1 TTTCATTT
10120638 TTTCATTT
1 TTTCATTT
*
10120646 TCTCATTT
1 TTTCATTT
10120654 TTT
1 TTT
10120657 TTCTTTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTCATTT
Found at i:10124138 original size:117 final size:119
Alignment explanation
Indices: 10123930--10124223 Score: 390
Period size: 117 Copynumber: 2.5 Consensus size: 119
10123920 TTTTTGTATG
*
10123930 GGAAAATTGATACTTTCAA-TTTTCCCCAAAAATA-TTTTTTTTGGAAATTTTCGATTTTCATAG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTC-ATTTTCATAG
* *
10123993 AAAATTGATTCTTTCAACTTTTCCCCAAAAATA-ATTTT-AAAATTTTGATTT-TCAA
65 AAAATTGATACTTTCAACTCTTCCCCAAAAATATATTTTGAAAA-TTTG-TTTCT-AA
*
10124048 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAA-TTT-A-TTTC-TGAG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTCATTTTCAT-A-
* * *
10124109 GAAAATTGATACTTTCAACTCTTCTCCAAAAATATTTTTTGGAAATTTGTTTCTAA
64 GAAAATTGATACTTTCAACTCTTCCCCAAAAATATATTTTGAAAATTTGTTTCTAA
* *
10124165 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTCATTTT
10124224 TATTTAAAGA
Statistics
Matches: 157, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
115 1 0.01
116 5 0.03
117 84 0.54
118 31 0.20
119 21 0.13
120 15 0.10
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTCATTTTCATAGA
AAATTGATACTTTCAACTCTTCCCCAAAAATATATTTTGAAAATTTGTTTCTAA
Found at i:10124205 original size:57 final size:59
Alignment explanation
Indices: 10123930--10124205 Score: 320
Period size: 57 Copynumber: 4.7 Consensus size: 59
10123920 TTTTTGTATG
10123930 GGAAAATTGATACTTTCAA-TTTTCCCCAAAAATATTTTTTTTGGAAATTTTCGATTTTCATA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTT-GATTTTCA-A
* * *
10123992 -GAAAATTGATTCTTTCAACTTTTCCCCAAAAATA-ATTTT-AAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAA
* * *
10124048 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAA-TTT-A-TTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTGGAAATTTTGATTTTC-AA
* *
10124108 GGAAAATTGATACTTTCAACTCTTCTCCAAAAATATTTTTTGGAAA-TTTG--TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTC-AA
*
10124165 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
10124206 TTTGGAATTT
Statistics
Matches: 189, Mismatches: 16, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
56 1 0.01
57 97 0.51
58 7 0.04
59 8 0.04
60 34 0.18
61 24 0.13
62 18 0.10
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTGATTTTCAA
Found at i:10124790 original size:31 final size:31
Alignment explanation
Indices: 10124744--10124813 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
10124734 ACTGGGTAGG
** * *
10124744 TCGCCGGAAGCTTCAAGGTTGGCCGGAATTT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
* *
10124775 TCGCCGGAAAATTCAAATTTCGCCGGATTTT
1 TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
*
10124806 TTGCCGGA
1 TCGCCGGA
10124814 TTCTGAAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAAGTTCGCCGGAATTT
Found at i:10133818 original size:50 final size:49
Alignment explanation
Indices: 10133763--10134136 Score: 296
Period size: 49 Copynumber: 7.4 Consensus size: 49
10133753 GATGAAAAAA
* *
10133763 TTTTAAAGTTGTTAAGCCTTTGCTGAGA-GAAGCCCTTTTAAAGATGAGAT
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGATG-AG-CTTTTTAAAGATGAGAT
* * *
10133813 TTTTAAAGTTGTTGAGCTTCTGCTGAGATGAGTTTTTTCAAA-ATGAGATT
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTT-AAAGATGAGA-T
* *
10133863 TTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTCAAGA-GA-A-
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTAAAGATGAGAT
* * * *
10133909 TTTTAAAGTTGTTGAGCCTCTGCTGAGCCTCTGCTGAAAGAAGCTTTTCCAAA-ATGAGAA
1 TTTTAAAGTTGTTAAGCCTCTGCTGA---------G-ATG-AGCTTTT-TAAAGATGAGAT
* * *
10133969 TTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAA
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTAAAGATGAGAT
* * *
10134018 TTTTAAAGTTG-TAGAGCCTCTGCTAAGATGAGCTTTTCCAAA-ATGAGAA
1 TTTTAAAGTTGTTA-AGCCTCTGCTGAGATGAGCTTTT-TAAAGATGAGAT
* * * * *
10134067 TTTTAAAGTTGTTGAGCTTCTGCTGAAAAGAGCTTTTTCAAGATGAGATT
1 TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTAAAGATGAGA-T
* *
10134117 TGTTTAAAGCTGTTGAGCCT
1 T-TTTAAAGTTGTTAAGCCT
10134137 TTCAAGATGA
Statistics
Matches: 265, Mismatches: 33, Indels: 51
0.76 0.09 0.15
Matches are distributed among these distances:
46 24 0.09
48 7 0.03
49 103 0.39
50 72 0.27
51 18 0.07
55 1 0.00
56 2 0.01
57 8 0.03
58 4 0.02
59 1 0.00
60 25 0.09
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (49 bp):
TTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTTTTAAAGATGAGAT
Found at i:10133937 original size:11 final size:11
Alignment explanation
Indices: 10133921--10133945 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10133911 TTAAAGTTGT
10133921 TGAGCCTCTGC
1 TGAGCCTCTGC
10133932 TGAGCCTCTGC
1 TGAGCCTCTGC
10133943 TGA
1 TGA
10133946 AAGAAGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.32, G:0.28, T:0.28
Consensus pattern (11 bp):
TGAGCCTCTGC
Found at i:10133988 original size:106 final size:110
Alignment explanation
Indices: 10133846--10134041 Score: 319
Period size: 106 Copynumber: 1.8 Consensus size: 110
10133836 TGAGATGAGT
* * *
10133846 TTTTTCAAAATGAGATTTTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTC-A-A-GAGA
1 TTTTCCAAAATGAGATATTTTAAAGTTGTTAAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAGA
*
10133908 ATTTTAAAGTTGTTGAGCCTCTGCTGAGCCTCTGCTGAAAGAAGC
66 ATTTTAAAGTTGTAGAGCCTCTGCTGAGCCTCTGCTGAAAGAAGC
*
10133953 TTTTCCAAAATGAGA-ATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGA
1 TTTTCCAAAATGAGATATTTTAAAGTTGTTAAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAGA
10134017 ATTTTAAAGTTGTAGAGCCTCTGCT
66 ATTTTAAAGTTGTAGAGCCTCTGCT
10134042 AAGATGAGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
106 37 0.46
107 15 0.19
108 1 0.01
109 28 0.35
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (110 bp):
TTTTCCAAAATGAGATATTTTAAAGTTGTTAAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAGA
ATTTTAAAGTTGTAGAGCCTCTGCTGAGCCTCTGCTGAAAGAAGC
Found at i:10134102 original size:98 final size:98
Alignment explanation
Indices: 10133761--10134114 Score: 344
Period size: 98 Copynumber: 3.5 Consensus size: 98
10133751 CAGATGAAAA
* * * * *
10133761 AATTTTAAAGTTGTTAAGCCTTTGCTGAGAGAAG-CCCTTTTAAAGATGAGATTTTTAAAGTTGT
1 AATTTTAAAGTTGTTAAGCCTCTGCTGA-A-AAGAGCTTTTTCAAGATGAGAATTTTAAAGTTGT
* * * * *
10133825 TGAGCTTCTGCTGAGATG-AGTTTTTTCAAAATGAG
64 AGAGCCTCTGCTGA-AAGAAGCTTTTCCAAAATGAG
* * * *
10133860 ATTTTTTAAAGTTGTTAAGCCTCTACTGAGATGAGCTTTTTC-A-A-GAGAATTTTAAAGTTGTT
1 A-ATTTTAAAGTTGTTAAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGAGAATTTTAAAGTTG-T
10133922 GAGCCTCTGCTGAGCCTCTGCTGAAAGAAGCTTTTCCAAAATGAG
64 -A---------GAGCCTCTGCTGAAAGAAGCTTTTCCAAAATGAG
* *
10133967 AATTTTAAAGTTGTTAAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTAG
1 AATTTTAAAGTTGTTAAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTAG
10134032 AGCCTCTGCT--AAGATGAGCTTTTCCAAAATGAG
66 AGCCTCTGCTGAAAGA--AGCTTTTCCAAAATGAG
* *
10134065 AATTTTAAAGTTGTTGAGCTTCTGCTGAAAAGAGCTTTTTCAAGATGAGA
1 AATTTTAAAGTTGTTAAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGAGA
10134115 TTTGTTTAAA
Statistics
Matches: 215, Mismatches: 21, Indels: 39
0.78 0.08 0.14
Matches are distributed among these distances:
96 19 0.09
97 2 0.01
98 77 0.36
99 6 0.03
100 24 0.11
106 39 0.18
107 30 0.14
108 2 0.01
109 16 0.07
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.36
Consensus pattern (98 bp):
AATTTTAAAGTTGTTAAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTAG
AGCCTCTGCTGAAAGAAGCTTTTCCAAAATGAG
Found at i:10134164 original size:33 final size:34
Alignment explanation
Indices: 10134102--10134169 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
10134092 AAAAGAGCTT
10134102 TTTCAAGATGAGATTTGTTTAAAGCTGTTGAGCC
1 TTTCAAGATGAGATTTGTTTAAAGCTGTTGAGCC
*
10134136 TTTCAAGATGAGATTT-TTTAAAGTTGTTGAGCC
1 TTTCAAGATGAGATTTGTTTAAAGCTGTTGAGCC
10134169 T
1 T
10134170 CTGCTGAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.41
Consensus pattern (34 bp):
TTTCAAGATGAGATTTGTTTAAAGCTGTTGAGCC
Found at i:10134201 original size:46 final size:46
Alignment explanation
Indices: 10134151--10134307 Score: 224
Period size: 46 Copynumber: 3.4 Consensus size: 46
10134141 AGATGAGATT
* ** *
10134151 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAAAGCTTTTTCAAGAGAA
*
10134197 TTTTAAAGTTGTTGAGCCTCCACTGAGAAAAGCTTTTTCAAGAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAAAGCTTTTTCAAGAGAA
* * * *
10134243 TTTTAAAGTTGTTGAACCTCTACTGAGATAATCTTTTTCAAAAGAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAGAAAAGCTTTTTCAAGAGAA
*
10134289 TTTCAAAGTTGTTGAGCCT
1 TTTTAAAGTTGTTGAGCCT
10134308 TTGCTTAAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 99 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (46 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAGAAAAGCTTTTTCAAGAGAA
Found at i:10134239 original size:130 final size:131
Alignment explanation
Indices: 10134004--10134239 Score: 343
Period size: 130 Copynumber: 1.8 Consensus size: 131
10133994 AGAGGAGCTT
*
10134004 TTTCAAGATGAGAATTTTAAAGTTGTAGAGCCTCTGCTAAGATGAGCTTTTCCAAAATGAGAATT
1 TTTCAAGATGAGAATTTTAAAGTTGTAGAGCCTCTGCTAAGAGGAGCTTTT-CAAAATGAGAATT
* **
10134069 TTAAAGTTGTTGAGCTTCTGCTGAAAAGAGCTTTTTCAAGATGAGATTTGTTTAAAGCTGTTGAG
65 TTAAAGTTGTTGAGCCTCCACTGAAAAGAGCTTTTTCAAGATGAGATTTGTTTAAAGCTGTTGAG
10134134 CC
130 CC
* * * **
10134136 TTTCAAGATGAGATTTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTT-TTAA-GAGAATT
1 TTTCAAGATGAGA-ATTTTAAAGTTGTAGAGCCTCTGCTAAGAGGAGCTTTTCAAAATGAGAATT
10134199 TTAAAGTTGTTGAGCCTCCACTGAGAAA-AGCTTTTTCAAGA
65 TTAAAGTTGTTGAGCCTCCACTGA-AAAGAGCTTTTTCAAGA
10134240 GAATTTTAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
130 41 0.44
131 5 0.05
132 13 0.14
133 34 0.37
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (131 bp):
TTTCAAGATGAGAATTTTAAAGTTGTAGAGCCTCTGCTAAGAGGAGCTTTTCAAAATGAGAATTT
TAAAGTTGTTGAGCCTCCACTGAAAAGAGCTTTTTCAAGATGAGATTTGTTTAAAGCTGTTGAGC
C
Found at i:10134549 original size:28 final size:28
Alignment explanation
Indices: 10134518--10134573 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10134508 ATTATTATTT
10134518 ATTTATTTAATTTTTT-TCTTGTTTCTTC
1 ATTT-TTTAATTTTTTCTCTTGTTTCTTC
* *
10134546 ATTTTTTATTTTTTTCTCTTTTTTCTTC
1 ATTTTTTAATTTTTTCTCTTGTTTCTTC
10134574 TTCTTCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.11, C:0.12, G:0.02, T:0.75
Consensus pattern (28 bp):
ATTTTTTAATTTTTTCTCTTGTTTCTTC
Found at i:10135663 original size:17 final size:17
Alignment explanation
Indices: 10135641--10135696 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
10135631 TTAAGTTTAA
10135641 AATAAAATTTAAAATAT
1 AATAAAATTTAAAATAT
* *
10135658 AATAAAA-TGAAAAAAT
1 AATAAAATTTAAAATAT
* *
10135674 AATGAAACTTTATAATAAT
1 AAT-AAAATTTAAAAT-AT
10135693 AATA
1 AATA
10135697 TTGATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 10 0.33
17 10 0.33
18 5 0.17
19 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (17 bp):
AATAAAATTTAAAATAT
Found at i:10136721 original size:32 final size:31
Alignment explanation
Indices: 10136667--10136726 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10136657 TGACATATGT
* *
10136667 TATATTTTTTATATAAACACAAATTATAAAA
1 TATAATTTTTATATAAACACAAAATATAAAA
*
10136698 TATAATTTTTATATAAAATACAAAATATA
1 TATAATTTTTATAT-AAACACAAAATATA
10136727 TATATGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (31 bp):
TATAATTTTTATATAAACACAAAATATAAAA
Found at i:10137720 original size:16 final size:15
Alignment explanation
Indices: 10137701--10137808 Score: 62
Period size: 16 Copynumber: 7.0 Consensus size: 15
10137691 TTTTTTGTAT
10137701 TTTATGTATTGTATTA
1 TTTATGTATT-TATTA
10137717 TTTAT-TA-TTATTA
1 TTTATGTATTTATTA
*
10137730 -TTATGTATTAATATA
1 TTTATGTATTTAT-TA
* *
10137745 TGTATATATTTATTTA
1 TTTATGTATTTA-TTA
* * *
10137761 TTTATTTTCTGTTAATA
1 TTTA-TGTAT-TTATTA
*
10137778 TCCTATGTATTTTATTA
1 T-TTATGTA-TTTATTA
10137795 TTTATGTA-TTATTA
1 TTTATGTATTTATTA
10137809 CTAATATGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 10 0.14
15 4 0.06
16 24 0.34
17 15 0.21
18 6 0.09
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTATGTATTTATTA
Found at i:10138252 original size:27 final size:24
Alignment explanation
Indices: 10138209--10138263 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 24
10138199 CTGTGAGTGA
*
10138209 GAAAAAATTTTTAGAAATTTTTGG
1 GAAAAAATTTTTAGAAATTTCTGG
*
10138233 CGAAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAA-TTTT-TAGAAATTTCTGG
10138260 GAAA
1 GAAA
10138264 TTTCCAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 8 0.31
27 11 0.42
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (24 bp):
GAAAAAATTTTTAGAAATTTCTGG
Found at i:10138317 original size:31 final size:31
Alignment explanation
Indices: 10138282--10138340 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
10138272 ATCCGACGAA
*
10138282 AATTCCGGCGAA-ATTTGAATTTTCCGGCAAC
1 AATTCCGGCGAACA-TTGAAGTTTCCGGCAAC
10138313 AATTCCGGCGAACATTGAAGTTTCCGGC
1 AATTCCGGCGAACATTGAAGTTTCCGGC
10138341 GACCAGCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (31 bp):
AATTCCGGCGAACATTGAAGTTTCCGGCAAC
Found at i:10138438 original size:20 final size:19
Alignment explanation
Indices: 10138396--10138440 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
10138386 CCGGCCAACT
* * *
10138396 TCCGACGAAATTTCTAGAT
1 TCCGGCGAAATTTCCAGAA
10138415 TCCGGCGAAATTTTCCAGAA
1 TCCGGCGAAA-TTTCCAGAA
10138435 TCCGGC
1 TCCGGC
10138441 ACCGGTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (19 bp):
TCCGGCGAAATTTCCAGAA
Found at i:10138951 original size:57 final size:57
Alignment explanation
Indices: 10138871--10139323 Score: 619
Period size: 57 Copynumber: 7.7 Consensus size: 57
10138861 AATTCCAAAA
*
10138871 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
10138928 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTTA-AGAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
*
10138985 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
10139047 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 ---AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
10139107 AAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--C
* *
10139166 AAAAAATATTTTTAGGGAAAAG-TGAAAGTATCAATTTTTCCTT-GAAAATCAAAATTTCAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCCTTAG-AAAT--AAATTTC-C
* *
10139226 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTGA-AAATCGAAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT--AAATTTCC
10139283 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
10139324 CTACAAAAAA
Statistics
Matches: 361, Mismatches: 16, Indels: 37
0.87 0.04 0.09
Matches are distributed among these distances:
56 1 0.00
57 187 0.52
58 25 0.07
59 33 0.09
60 40 0.11
61 19 0.05
62 13 0.04
63 1 0.00
65 42 0.12
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:10142795 original size:17 final size:17
Alignment explanation
Indices: 10142775--10142808 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10142765 CTCAAAGATG
*
10142775 AAAAGAGAAAGAAAAGC
1 AAAAGAAAAAGAAAAGC
*
10142792 AAAAGAAAAATAAAAGC
1 AAAAGAAAAAGAAAAGC
10142809 CACACATGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.06, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAGC
Found at i:10143152 original size:11 final size:11
Alignment explanation
Indices: 10143124--10143189 Score: 75
Period size: 11 Copynumber: 6.0 Consensus size: 11
10143114 TCAACAATGG
10143124 ATGAAAAAAAGA
1 ATGAAAAAAA-A
10143136 TGATGAAAAAAAA
1 --ATGAAAAAAAA
10143149 ATG-AAAAAAA
1 ATGAAAAAAAA
10143159 ATGAAAAAAAA
1 ATGAAAAAAAA
*
10143170 A--AAGAAAAA
1 ATGAAAAAAAA
10143179 ATGAAAAAAAA
1 ATGAAAAAAAA
10143190 GAAGGAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
9 8 0.17
10 10 0.21
11 18 0.38
13 1 0.02
14 10 0.21
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (11 bp):
ATGAAAAAAAA
Found at i:10143155 original size:24 final size:22
Alignment explanation
Indices: 10143126--10143208 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 22
10143116 AACAATGGAT
*
10143126 GAAAAAAAGATGATGAAAAAAAAAT
1 GAAAAAAA-ATGA--AAAAAAAAAA
10143151 GAAAAAAAATGAAAAAAAAAAA
1 GAAAAAAAATGAAAAAAAAAAA
*
10143173 G--AAAAAATGAAAAAAAAGAA
1 GAAAAAAAATGAAAAAAAAAAA
* *
10143193 G-GAAAAAATGAGAAAA
1 GAAAAAAAATGAAAAAA
10143209 TGAAAAAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
20 19 0.35
21 13 0.24
22 10 0.19
24 4 0.07
25 8 0.15
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (22 bp):
GAAAAAAAATGAAAAAAAAAAA
Found at i:10143157 original size:8 final size:8
Alignment explanation
Indices: 10143144--10143216 Score: 52
Period size: 8 Copynumber: 9.8 Consensus size: 8
10143134 GATGATGAAA
10143144 AAAAAATG
1 AAAAAATG
10143152 AAAAAAAATG
1 --AAAAAATG
10143162 -AAAAA--
1 AAAAAATG
10143167 AAAAAA-G
1 AAAAAATG
10143174 AAAAAATG
1 AAAAAATG
10143182 -AAAAA--
1 AAAAAATG
* *
10143187 AAAGAAGG
1 AAAAAATG
10143195 AAAAAATG
1 AAAAAATG
*
10143203 AGAAAATG
1 AAAAAATG
10143211 AAAAAA
1 AAAAAA
10143217 AGAGATTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
6 9 0.17
7 16 0.31
8 19 0.37
10 8 0.15
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (8 bp):
AAAAAATG
Found at i:10143164 original size:21 final size:20
Alignment explanation
Indices: 10143138--10143208 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 20
10143128 AAAAAAGATG
10143138 ATGAAAAAAAAATGAA-AAAAA
1 ATGAAAAAAAAA--AAGAAAAA
10143159 ATGAAAAAAAAAAAGAAAAA
1 ATGAAAAAAAAAAAGAAAAA
*
10143179 ATGAAAAAAAAGAAGGAAAAA
1 ATGAAAAAAAA-AAAGAAAAA
10143200 ATGAGAAAA
1 ATGA-AAAA
10143209 TGAAAAAAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 2 0.04
20 16 0.35
21 24 0.52
22 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (20 bp):
ATGAAAAAAAAAAAGAAAAA
Found at i:10143167 original size:20 final size:20
Alignment explanation
Indices: 10143142--10143208 Score: 91
Period size: 20 Copynumber: 3.2 Consensus size: 20
10143132 AAGATGATGA
10143142 AAAAAAAATGAA-AAAAAATG
1 AAAAAAAA-GAAGAAAAAATG
*
10143162 AAAAAAAAAAAGAAAAAATG
1 AAAAAAAAGAAGAAAAAATG
10143182 AAAAAAAAGAAGGAAAAAATG
1 AAAAAAAAGAA-GAAAAAATG
10143203 AGAAAA
1 A-AAAA
10143209 TGAAAAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.05
20 26 0.62
21 10 0.24
22 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAAAAAAGAAGAAAAAATG
Found at i:10143180 original size:30 final size:29
Alignment explanation
Indices: 10143144--10143217 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
10143134 GATGATGAAA
10143144 AAAAAATGAAAAAAAATGAAAAAAAAAAAG
1 AAAAAATGAAAAAAAA-GAAAAAAAAAAAG
** *
10143174 AAAAAATGAAAAAAAAGAAGGAAAAAATG
1 AAAAAATGAAAAAAAAGAAAAAAAAAAAG
*
10143203 AGAAAATGAAAAAAA
1 AAAAAATGAAAAAAA
10143218 GAGATTCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (29 bp):
AAAAAATGAAAAAAAAGAAAAAAAAAAAG
Found at i:10144500 original size:42 final size:42
Alignment explanation
Indices: 10144426--10144795 Score: 528
Period size: 42 Copynumber: 9.0 Consensus size: 42
10144416 GTCTAGGAGT
* *
10144426 ATTTACTTTT-CAAAGTTCGT--TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
* *
10144466 ATTTACTTTTTCAAAGTCATGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
*
10144508 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGATGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
*
10144550 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
*
10144592 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
*
10144634 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
*
10144674 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
10144714 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
* *
10144755 ATTTA-TTTTCCAAAAGTCGTGGTGCCTCTGTTTAAAGGAGC
1 ATTTACTTTTCC-AAAGTCGTGGTACCTCTGTTTAGAGGAGC
10144796 TTTGGTAAAA
Statistics
Matches: 307, Mismatches: 14, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
39 7 0.02
40 83 0.27
41 39 0.13
42 178 0.58
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (42 bp):
ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
Found at i:10144822 original size:15 final size:15
Alignment explanation
Indices: 10144802--10144900 Score: 112
Period size: 15 Copynumber: 6.5 Consensus size: 15
10144792 GAGCTTTGGT
10144802 AAAAAAAAAAAAACA
1 AAAAAAAAAAAAACA
* *
10144817 AAAAAAAACAATA-A
1 AAAAAAAAAAAAACA
* *
10144831 AAAAATAAAAAAATA
1 AAAAAAAAAAAAACA
10144846 AAAAATAAAAAAAACA
1 AAAAA-AAAAAAAACA
*
10144862 AAAAAACAAAAAACA
1 AAAAAAAAAAAAACA
10144877 AAAAAACAAAAAAA-A
1 AAAAAA-AAAAAAACA
10144892 ACAAAAAAA
1 A-AAAAAAA
10144901 CCAAAAAATG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
14 11 0.15
15 36 0.51
16 24 0.34
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAAAACA
Found at i:10144908 original size:1 final size:1
Alignment explanation
Indices: 10144802--10144900 Score: 99
Period size: 1 Copynumber: 99.0 Consensus size: 1
10144792 GAGCTTTGGT
* * * * * * *
10144802 AAAAAAAAAAAAACAAAAAAAAACAATAAAAAAATAAAAAAATAAAAAATAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
10144867 ACAAAAAACAAAAAAACAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10144901 CCAAAAAATG
Statistics
Matches: 76, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.89, C:0.07, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:10145125 original size:16 final size:19
Alignment explanation
Indices: 10145104--10145152 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
10145094 TTTTATGTAT
10145104 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
10145121 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
10145139 TGTATATATTTATT
1 TGTAT-TATTTATT
10145153 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:10145196 original size:16 final size:16
Alignment explanation
Indices: 10145095--10145239 Score: 52
Period size: 16 Copynumber: 8.8 Consensus size: 16
10145085 TCTTTTGTAT
*
10145095 TTTATGTATTGTATTA
1 TTTATGTATTTTATTA
10145111 TTTAT-TA--TTATTA
1 TTTATGTATTTTATTA
*
10145124 -TTATGTA-TTAATATA
1 TTTATGTATTTTAT-TA
* *
10145139 TGTATATA-TTTATTTA
1 TTTATGTATTTTA-TTA
* *
10145155 TTTAT-TTTCTGTTAATA
1 TTTATGTAT-T-TTATTA
*
10145172 TCCTATGTATTTTATTA
1 T-TTATGTATTTTATTA
10145189 TTTATGTATTATTACTAATA
1 TTTATGTATT-TTA-T--TA
*
10145209 TGTATATATATTTTATTAA
1 T-T-TATGTATTTTATT-A
*
10145228 TTTTTGTATTTT
1 TTTATGTATTTT
10145240 TATTTATCTA
Statistics
Matches: 97, Mismatches: 15, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
12 4 0.04
13 7 0.07
14 3 0.03
15 5 0.05
16 27 0.28
17 22 0.23
18 10 0.10
19 4 0.04
20 4 0.04
21 4 0.04
22 7 0.07
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTATGTATTTTATTA
Found at i:10145271 original size:56 final size:55
Alignment explanation
Indices: 10145177--10145281 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 55
10145167 TAATATCCTA
* *
10145177 TGTATTTTATTATTTATGTATTATTACTAATATGTATATATATTTTATTAATTTT
1 TGTATTTTATTATTTATCTATTATTACTAATATATATATATATTTTATTAATTTT
* *
10145232 TGTA-TTT-TTATTTATCTAATTATATATCTGATATATATATATTTTTTATT
1 TGTATTTTATTATTTATCT-ATTAT-TA-CTAATATATATATATATTTTATT
10145282 TTTATTTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
53 9 0.21
54 8 0.19
55 6 0.14
56 20 0.47
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (55 bp):
TGTATTTTATTATTTATCTATTATTACTAATATATATATATATTTTATTAATTTT
Found at i:10146467 original size:60 final size:59
Alignment explanation
Indices: 10146262--10146540 Score: 417
Period size: 60 Copynumber: 4.7 Consensus size: 59
10146252 AAAATTCCAA
*
10146262 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTC
* * *
10146320 -CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCC-TCAGAAATAAATTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTC
*
10146377 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCAAAATTTC
1 -AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAAT--AAATTTC
10146438 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGA-AAATCGAAATTTTC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAAT--AAA-TTTC
10146499 -AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
10146541 CTACAAAAAA
Statistics
Matches: 205, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
56 1 0.00
57 52 0.25
59 43 0.21
60 98 0.48
61 11 0.05
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (59 bp):
AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAAATAAATTTC
Found at i:10148882 original size:106 final size:106
Alignment explanation
Indices: 10148694--10148907 Score: 383
Period size: 106 Copynumber: 2.0 Consensus size: 106
10148684 TGCAAACCTA
* *
10148694 TCTTTAAAACAAAAACTCGAACTTTCTTCTTTGAATCGAGCTCCTCTAAGCTTGCCTTTTCCCAT
1 TCTTTAAAACAAAAACTAGAACTTTCTTCCTTGAATCGAGCTCCTCTAAGCTTGCCTTTTCCCAT
* *
10148759 GTCTTATACCATGCTCTTTCTAAGTCTTGAACCATGCTTTT
66 GTCTTATACCATACTCTTTCTAAGTCTTGAACCATGCTCTT
10148800 TCTTTAAAACAAAAACTAGAACTTTCTTCCTTGAATCGAGCTCCTCTAAGCTTGCCTTTTCCCAT
1 TCTTTAAAACAAAAACTAGAACTTTCTTCCTTGAATCGAGCTCCTCTAAGCTTGCCTTTTCCCAT
*
10148865 GTCTTATACTATACTCTTTCTAAGTCTTGAACCATGCTCTT
66 GTCTTATACCATACTCTTTCTAAGTCTTGAACCATGCTCTT
10148906 TC
1 TC
10148908 CATGTCTTGA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (106 bp):
TCTTTAAAACAAAAACTAGAACTTTCTTCCTTGAATCGAGCTCCTCTAAGCTTGCCTTTTCCCAT
GTCTTATACCATACTCTTTCTAAGTCTTGAACCATGCTCTT
Found at i:10157088 original size:23 final size:22
Alignment explanation
Indices: 10157062--10157107 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
10157052 TAAAATTAAA
10157062 TATTATAATT-TGATTTTGTTATT
1 TATTA-AATTATGATTTTG-TATT
*
10157085 TATTAATTTATGATTTTGTATT
1 TATTAAATTATGATTTTGTATT
10157107 T
1 T
10157108 GAAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (22 bp):
TATTAAATTATGATTTTGTATT
Found at i:10163436 original size:18 final size:19
Alignment explanation
Indices: 10163413--10163449 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10163403 TAACTAATTA
10163413 TAATTAGA-TTATAAAAAT
1 TAATTAGACTTATAAAAAT
*
10163431 TAATTATACTTATAAAAAT
1 TAATTAGACTTATAAAAAT
10163450 ATTTATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
TAATTAGACTTATAAAAAT
Found at i:10164666 original size:54 final size:54
Alignment explanation
Indices: 10164577--10164686 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
10164567 TAATATTATA
* * * * *
10164577 AATAATTTTAAAATTTATTTTCAGTGGCTTTATATGATAAATACAAAC-TACTAT
1 AATAATTTTAAAATTGATTTCCAATGACTTCATATGATAAATAC-AACTTACTAT
*
10164631 AATAATTTTAAAATTGATTTCCAATGACTTCATATGGTAAATACAACTTACTAT
1 AATAATTTTAAAATTGATTTCCAATGACTTCATATGATAAATACAACTTACTAT
10164685 AA
1 AA
10164687 ATCATATGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (54 bp):
AATAATTTTAAAATTGATTTCCAATGACTTCATATGATAAATACAACTTACTAT
Found at i:10166054 original size:12 final size:13
Alignment explanation
Indices: 10166035--10166064 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10166025 TAAAATAATT
10166035 CTTTTTTTCTTCA
1 CTTTTTTTCTTCA
*
10166048 CTTTTTTTTTTCA
1 CTTTTTTTCTTCA
10166061 CTTT
1 CTTT
10166065 AAATTTATAA
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:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTTTTCTTCA
Found at i:10166936 original size:16 final size:15
Alignment explanation
Indices: 10166917--10167037 Score: 61
Period size: 16 Copynumber: 7.7 Consensus size: 15
10166907 TCTTTTGTAT
10166917 TTTATGTATTTTATTA
1 TTTAT-TATTTTATTA
10166933 TTTATTATTATTATTA
1 TTTATTATT-TTATTA
* * *
10166949 TGTATTAATATATATA
1 TTTATTATTTTAT-TA
*
10166965 TTTATTTTTTTTATTA
1 TTTA-TTATTTTATTA
* *
10166981 TTAGATTAGATTTA-TA
1 TT-TATTA-TTTTATTA
* *
10166997 TGTA-TATAGTTATATA
1 TTTATTAT-TTTAT-TA
10167013 TTTATTA--TTATTA
1 TTTATTATTTTATTA
10167026 TATTATTATTTT
1 T-TTATTATTTT
10167038 TTTTTTGTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 24
0.67 0.13 0.21
Matches are distributed among these distances:
13 3 0.04
14 15 0.19
15 8 0.10
16 39 0.50
17 13 0.17
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TTTATTATTTTATTA
Found at i:10166940 original size:3 final size:3
Alignment explanation
Indices: 10166914--10167035 Score: 51
Period size: 3 Copynumber: 39.3 Consensus size: 3
10166904 GTTTCTTTTG
*
10166914 TAT T-T TAT GTAT T-T TAT TATT TAT TAT TAT TAT TAT GTAT TAA TA-
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT
* * * *
10166959 TAT ATATT TAT TTT TTT TAT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T
10167007 TAT ATATT TAT TAT TAT TA- TAT TAT TAT T
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT T
10167036 TTTTTTTTGT
Statistics
Matches: 94, Mismatches: 9, Indels: 32
0.70 0.07 0.24
Matches are distributed among these distances:
2 11 0.12
3 55 0.59
4 25 0.27
5 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10167215 original size:32 final size:31
Alignment explanation
Indices: 10167149--10167222 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
10167139 GATATTTATT
* *
10167149 TTTTATTTTTTTATTACTTATAATTCTTTGA
1 TTTTATTTTTCTATTACTTATAATTCTTTAA
* *
10167180 TTTTATCTTTTCTATTA-TTAGTATTTTTTTAA
1 TTTTAT-TTTTCTATTACTTA-TAATTCTTTAA
10167212 TTTTGATTTTT
1 TTTT-ATTTTT
10167223 ATTGAGGCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 9 0.25
32 25 0.69
33 2 0.06
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.70
Consensus pattern (31 bp):
TTTTATTTTTCTATTACTTATAATTCTTTAA
Found at i:10167967 original size:5 final size:5
Alignment explanation
Indices: 10167954--10167988 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
10167944 TCTCTTCCTT
* *
10167954 GAGCC GAGCT GAGCC GAGCC GAGCT GAGCC GAGCC
1 GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC GAGCC
10167989 TCGATCCGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.20, C:0.34, G:0.40, T:0.06
Consensus pattern (5 bp):
GAGCC
Found at i:10167974 original size:15 final size:15
Alignment explanation
Indices: 10167954--10167988 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
10167944 TCTCTTCCTT
10167954 GAGCCGAGCTGAGCC
1 GAGCCGAGCTGAGCC
10167969 GAGCCGAGCTGAGCC
1 GAGCCGAGCTGAGCC
10167984 GAGCC
1 GAGCC
10167989 TCGATCCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.40, T:0.06
Consensus pattern (15 bp):
GAGCCGAGCTGAGCC
Found at i:10168034 original size:21 final size:21
Alignment explanation
Indices: 10168007--10168049 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
10167997 AGCACTCCAG
*
10168007 GTTTTTTTTTTTTCATTTATTT
1 GTTTTTTTATTTT-ATTTATTT
10168029 GTTTTTTTATTTTATTTATTT
1 GTTTTTTTATTTTATTTATTT
10168050 ATTAGATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (21 bp):
GTTTTTTTATTTTATTTATTT
Found at i:10168035 original size:17 final size:17
Alignment explanation
Indices: 10168013--10168045 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10168003 CCAGGTTTTT
10168013 TTTTTTTCA-TTTATTTG
1 TTTTTTT-ATTTTATTTG
10168030 TTTTTTTATTTTATTT
1 TTTTTTTATTTTATTT
10168046 ATTTATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTATTTTATTTG
Found at i:10168093 original size:5 final size:5
Alignment explanation
Indices: 10168076--10168145 Score: 54
Period size: 5 Copynumber: 13.4 Consensus size: 5
10168066 TTAATATTCT
* *
10168076 TTTTA TCTTTA TTTTA TTTTCA TTTTG TTTTT TTATTA -TTTA TTTTCA
1 TTTTA T-TTTA TTTTA TTTT-A TTTTA TTTTA TT-TTA TTTTA TTTT-A
*
10168124 CTTTCA TTTT- TTTTA TTTTA TT
1 -TTTTA TTTTA TTTTA TTTTA TT
10168146 ATTCTATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 7 0.13
5 29 0.55
6 14 0.26
7 3 0.06
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:10168123 original size:26 final size:26
Alignment explanation
Indices: 10168083--10168156 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
10168073 TCTTTTTATC
**
10168083 TTTATTTTATTTTCATTTTGTTTTTT
1 TTTATTTTATTTTCATTTTCATTTTT
*
10168109 TATTA-TTTATTTTCACTTTCATTTTT
1 T-TTATTTTATTTTCATTTTCATTTTT
10168135 TTTATTTTATTATTCTATTTTC
1 TTTATTTTATT-TTC-ATTTTC
10168157 TTTAAATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.08
26 26 0.65
27 6 0.15
28 5 0.12
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.74
Consensus pattern (26 bp):
TTTATTTTATTTTCATTTTCATTTTT
Found at i:10168298 original size:118 final size:114
Alignment explanation
Indices: 10168176--10168514 Score: 536
Period size: 118 Copynumber: 2.9 Consensus size: 114
10168166 AAATTAAAAT
10168176 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAA
1 TTTCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAA
*
10168241 AAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAA
65 AAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAA
* *
10168293 GTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTCCCA
1 -TTTCAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATT-TCA
*
10168358 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
63 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
*
10168410 TTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTCAAA
1 TTTCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAA
*
10168474 AAAATATTTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
65 AAAATA-TTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCC
10168515 CTACACAAGA
Statistics
Matches: 207, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
114 10 0.05
115 56 0.27
116 31 0.15
117 4 0.02
118 98 0.47
119 8 0.04
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (114 bp):
TTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAA
AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
Found at i:10168417 original size:57 final size:57
Alignment explanation
Indices: 10168176--10168514 Score: 525
Period size: 58 Copynumber: 5.8 Consensus size: 57
10168166 AAATTAAAAT
* *
10168176 TTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
* *
10168234 TTTCAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAA
1 TTTCAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAA
*
10168293 GTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
1 -TTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
*
10168352 TTCCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
1 TT-TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
*
10168410 TTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA
1 TTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
* *
10168467 TGTCAAAAAAATATTTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTTCAAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
10168515 CTACACAAGA
Statistics
Matches: 263, Mismatches: 11, Indels: 13
0.92 0.04 0.05
Matches are distributed among these distances:
57 72 0.27
58 99 0.38
59 39 0.15
60 46 0.17
61 7 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
TTTCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA
Found at i:10172377 original size:23 final size:23
Alignment explanation
Indices: 10172349--10172394 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10172339 GAAAAATGAG
*
10172349 AAAAGAGAAAAAAGAGAAAAAAA
1 AAAAGAAAAAAAAGAGAAAAAAA
* *
10172372 AAAAGAAAAAAAAGGGGAAAAAA
1 AAAAGAAAAAAAAGAGAAAAAAA
10172395 TGAGAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAAAAGAGAAAAAAA
Found at i:10173803 original size:41 final size:41
Alignment explanation
Indices: 10173667--10174180 Score: 605
Period size: 41 Copynumber: 12.3 Consensus size: 41
10173657 GTTGCCTTTT
*
10173667 TTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGCCTATG
1 TTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTG
*
10173707 TTTAGAGGAGCAATTTAC-TTTCCAAGTTCGT--TGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTG
**
10173746 TTTAGAGGAGCAATTTACTTCCCAAAGTCGTGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
10173787 TTTAGAGGGAGC-ATTTACTTTTCAAAGTCGTGGTGCCTCTG
1 TTTAGA-GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
* *
10173828 TTTAGAGGAGCAATTTATTTTTTTCAAAGT-TTGCGTTGCCTCTG
1 TTTAGAGGAGCAATTTA--CTTTTCAAAGTCGTG-G-TGCCTCTG
*
10173872 TTGAGAGGAGCCAATTTACTTTTCAAAGTCGGTTGGGTGCGCTCTG
1 TTTAGAGGAG-CAATTTACTTTTCAAAGTC-G-T-GGTGC-CTCTG
* * *
10173918 TTTAGAGGAGCAATTTACTTTTCCAGGTCGTGGTACCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
* *
10173959 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTGATGGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-GCCTCTG
** *
10174001 TTTTAGAGGAGCAATTTTAC-TTTCAAAGTTCCCGTTGCCTCTAG
1 -TTTAGAGGAGCAA-TTTACTTTTCAAAG-TCGTGGTGCCTCT-G
*
10174045 -TTAGAGGAGCAATTTACTTTTCAAAAAGTCTTTGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTC--AAAGTC-GTGGTGCCTCTG
*
10174088 TTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
* * *
10174129 TTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTG
1 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
10174170 TTTAGAGGAGC
1 TTTAGAGGAGC
10174181 TTTGGTCAAA
Statistics
Matches: 415, Mismatches: 34, Indels: 49
0.83 0.07 0.10
Matches are distributed among these distances:
39 41 0.10
40 28 0.07
41 151 0.36
42 39 0.09
43 51 0.12
44 61 0.15
45 27 0.07
46 16 0.04
47 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
Found at i:10173977 original size:172 final size:166
Alignment explanation
Indices: 10173667--10174180 Score: 672
Period size: 172 Copynumber: 3.1 Consensus size: 166
10173657 GTTGCCTTTT
* *
10173667 TTTAGAGGAGCAATTTA--CTTTTCAAAG-TTCGTTGCCTATGTTTAGAGGAGCAATTTAC-TTT
1 TTTAGAGGAGCAATTTATTATTTTCAAAGTTTCGTTGCCTCTG-TTAGAGGAGCAATTTACTTTT
* *
10173728 CCAAGTTCG-T--TGCCTCTGTTTAGAGGAGCAATTTACTTCCCAAAGTCGTGGTGCCTCTGTTT
65 CAAAG-TCGTTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTT
10173790 AGAGGGAGC-ATTTACTTTTCAAAGTCGTGGTGCCTCTG
129 AGA-GGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
*
10173828 TTTAGAGGAGCAATTTATTTTTTTCAAAGTTTGCGTTGCCTCTGTTGAGAGGAGCCAATTTACTT
1 TTTAGAGGAGCAATTTATTATTTTCAAAGTTT-CGTTGCCTCTGTT-AGAGGAG-CAATTTACTT
* *
10173893 TTCAAAGTCGGTTGGGTGCGCTCTGTTTAGAGGAGCAATTTACTTTTCC-AGGTCGTGGTACCTC
63 TTCAAAGTC-GTT-GGTGC-CTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTC
* *
10173957 TGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGATGGCCTCTG
124 TGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT-GCCTCTG
* *
10174001 TTTTAGAGGAGCAA-TT-TTACTTTCAAAGTTCCCGTTGCCTCTAGTTAGAGGAGCAATTTACTT
1 -TTTAGAGGAGCAATTTATTATTTTCAAAGTT-TCGTTGCCTCT-GTTAGAGGAGCAATTTACTT
*
10174064 TTCAAAAAGTCTTTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG
63 TTC--AAAGTCGTTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTG
* * *
10174129 TTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTG
126 TTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
10174170 TTTAGAGGAGC
1 TTTAGAGGAGC
10174181 TTTGGTCAAA
Statistics
Matches: 312, Mismatches: 19, Indels: 37
0.85 0.05 0.10
Matches are distributed among these distances:
161 17 0.05
163 9 0.03
164 4 0.01
165 17 0.05
166 10 0.03
167 8 0.03
168 12 0.04
169 12 0.04
170 67 0.21
171 26 0.08
172 95 0.30
173 22 0.07
174 13 0.04
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (166 bp):
TTTAGAGGAGCAATTTATTATTTTCAAAGTTTCGTTGCCTCTGTTAGAGGAGCAATTTACTTTTC
AAAGTCGTTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTG
Found at i:10174050 original size:85 final size:81
Alignment explanation
Indices: 10173639--10174180 Score: 539
Period size: 85 Copynumber: 6.5 Consensus size: 81
10173629 GTCTAGGAGT
* * *
10173639 ATTTACCTTTCC-AAGTTCGT-TGCCTTTTTTTAGAGGAGCAATTTACTTTTCAAAGTT--CGTT
1 ATTTA-CTTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTTCGCGGT
*
10173700 GCCTATGTTTAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* *
10173719 ATTTACTTTCC-AAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTCCCAAAG-TCGTGGTG
1 ATTTACTTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTT-TCAAAGTTCGCGGTG
10173781 CCTCTGTTTAGAGGGAGC-
64 CCTCTGTTTAGA-GGAGCA
* * * *
10173799 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTCAAAGTTTGCGT
1 ATTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTA---CTTTCAAAGTTCGCGG
*
10173864 TGCCTCTGTTGAGAGGAGCCA
62 TGCCTCTGTTTAGAGGAG-CA
* * * *
10173885 ATTTACTTTTCAAAGTCGGTTGGGTGCGCTCTGTTTAGAGGAGCAATTTACTTTTC-CAGGTCGT
1 ATTTACTTTCCAAAGTC-G-T--GTGC-CTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTTCGC
*
10173949 GGTACCTCTGTTTAGAGGAGCA
60 GGTGCCTCTGTTTAGAGGAGCA
* *
10173971 ATTTACTTTCCAAAGTCGTGATGGCCTCTGTTTTAGAGGAGCAATTTTACTTTCAAAGTTCCCGT
1 ATTTACTTTCCAAAGTCGTG-T-GCCTCTG-TTTAGAGGAGCAA-TTTACTTTCAAAGTTCGCGG
10174036 TGCCTCTAG-TTAGAGGAGCA
62 TGCCTCT-GTTTAGAGGAGCA
* * *
10174056 ATTTACTTTTCAAAAAGTCTTTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTG
1 ATTTAC-TTTC-CAAAGTC-GT-GTGCCTCTGTTTAGAGGAGCAATTTACTTT-CAAAGTTCGCG
10174120 GTGCCTCTGTTTAGAGGAGCA
61 GTGCCTCTGTTTAGAGGAGCA
* * *
10174141 ATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 ATTTACTTTCCAAAGTCG-TGTGCCTCTGTTTAGAGGAGC
10174181 TTTGGTCAAA
Statistics
Matches: 393, Mismatches: 38, Indels: 60
0.80 0.08 0.12
Matches are distributed among these distances:
78 3 0.01
79 43 0.11
80 33 0.08
81 8 0.02
82 45 0.11
83 13 0.03
84 33 0.08
85 87 0.22
86 58 0.15
87 35 0.09
88 7 0.02
89 6 0.02
90 22 0.06
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (81 bp):
ATTTACTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTCGCGGTGCC
TCTGTTTAGAGGAGCA
Found at i:10174347 original size:20 final size:21
Alignment explanation
Indices: 10174310--10174350 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
10174300 TGTAGACACC
10174310 CAATTGGGTCCAGGCCCAAAT
1 CAATTGGGTCCAGGCCCAAAT
*
10174331 CAATTGGG-CCTGGCCCAAAT
1 CAATTGGGTCCAGGCCCAAAT
10174351 GGGTAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (21 bp):
CAATTGGGTCCAGGCCCAAAT
Found at i:10174415 original size:9 final size:8
Alignment explanation
Indices: 10174403--10174470 Score: 52
Period size: 9 Copynumber: 8.5 Consensus size: 8
10174393 GTTTCTTTTG
10174403 TATTTTAT
1 TATTTTAT
10174411 GTATTTTAT
1 -TATTTTAT
10174420 TA-TTTAT
1 TATTTTAT
10174427 TATTTTTAT
1 TA-TTTTAT
*
10174436 TA-TGTAT
1 TATTTTAT
* *
10174443 TAATATA-
1 TATTTTAT
10174450 TATATTTAT
1 TAT-TTTAT
*
10174459 TTTTTTAT
1 TATTTTAT
10174467 TATT
1 TATT
10174471 AGATTAGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 15 0.31
8 16 0.33
9 17 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (8 bp):
TATTTTAT
Found at i:10174425 original size:16 final size:15
Alignment explanation
Indices: 10174406--10174470 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 15
10174396 TCTTTTGTAT
10174406 TTTATGTATTTTATTA
1 TTTAT-TATTTTATTA
10174422 TTTATTATTTTTATTA
1 TTTATTA-TTTTATTA
* * *
10174438 TGTATTAATATATATA
1 TTTATTATTTTAT-TA
*
10174454 TTTATTTTTTTATTA
1 TTTATTATTTTATTA
10174469 TT
1 TT
10174471 AGATTAGATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
15 10 0.25
16 30 0.75
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTATTATTTTATTA
Found at i:10174438 original size:28 final size:30
Alignment explanation
Indices: 10174407--10174469 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
10174397 CTTTTGTATT
10174407 TTATGTATT-T-TAT-TATTTATTATTTTTA
1 TTATGTATTATATATATATTTATT-TTTTTA
10174435 TTATGTATTAATATATATATTTATTTTTTTA
1 TTATGTATT-ATATATATATTTATTTTTTTA
10174466 TTAT
1 TTAT
10174470 TAGATTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 9 0.29
30 1 0.03
31 13 0.42
32 8 0.26
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (30 bp):
TTATGTATTATATATATATTTATTTTTTTA
Found at i:10174465 original size:47 final size:47
Alignment explanation
Indices: 10174414--10174506 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
10174404 ATTTTATGTA
* **
10174414 TTTTATTATT-TATTATTTTTATTATGTAT-TAATATATATATTTATTT
1 TTTTATTATTAGATTAGATTTA-TATGTATATAAT-TATATATTTATTT
*
10174461 TTTTATTATTAGATTAGATTTATATGTATATAGTTATATATTTATT
1 TTTTATTATTAGATTAGATTTATATGTATATAATTATATATTTATT
10174507 ATAATTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 29 0.73
48 11 0.28
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.63
Consensus pattern (47 bp):
TTTTATTATTAGATTAGATTTATATGTATATAATTATATATTTATTT
Found at i:10174491 original size:37 final size:39
Alignment explanation
Indices: 10174401--10174508 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 39
10174391 CTGTTTCTTT
*
10174401 TGTATTT-TATGTAT-TTTATTATTTATTATTTTTATTA
1 TGTATTTATATGTATATTTATTATTTATTATTTTGATTA
* *
10174438 TGTATTAATATATATATTTATT-TTT-TTATTATTAGATTA
1 TGTATTTATATGTATATTTATTATTTATTATT-TT-GATTA
10174477 -G-ATTTATATGTATATAGTTATATATTTATTAT
1 TGTATTTATATGTATAT--TTAT-TATTTATTAT
10174509 AATTATATTA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
37 23 0.40
38 12 0.21
39 14 0.25
40 1 0.02
41 3 0.05
42 4 0.07
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (39 bp):
TGTATTTATATGTATATTTATTATTTATTATTTTGATTA
Found at i:10174994 original size:26 final size:26
Alignment explanation
Indices: 10174964--10175018 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
10174954 CTGGGAGTGA
*
10174964 GAAAAAATTTTT-TAGAAATTTTTGG
1 GAAAAAATTTTTCTAGAAATTTCTGG
*
10174989 CG-AAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTTCTAGAAATTTCTGG
10175015 GAAA
1 GAAA
10175019 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (26 bp):
GAAAAAATTTTTCTAGAAATTTCTGG
Found at i:10174995 original size:25 final size:25
Alignment explanation
Indices: 10174966--10175018 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
10174956 GGGAGTGAGA
*
10174966 AAAAATTTTT-TAGAAATTTTTGGCG
1 AAAAATTTTTCTAGAAATTTCTGG-G
*
10174991 AAAAATTTTTCTGGAAATTTCTGGG
1 AAAAATTTTTCTAGAAATTTCTGGG
10175016 AAA
1 AAA
10175019 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (25 bp):
AAAAATTTTTCTAGAAATTTCTGGG
Found at i:10175198 original size:115 final size:115
Alignment explanation
Indices: 10175068--10175278 Score: 345
Period size: 115 Copynumber: 1.8 Consensus size: 115
10175058 TTTCGGCAAC
*
10175068 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT-TCCCAAAAAAATA-T
1 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGT--CAAAAAAATATT
*
10175131 TTTTGGGGAAAAGTTGAAAGTATAAATTTTCCTTAGAAATAAATTTCAAAAA
64 TTTTAGGGAAAAGTTGAAAGTATAAATTTTCCTTAGAAATAAATTTCAAAAA
*
10175183 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTCAAAAAAATATTTT
1 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTCAAAAAAATA-TTT
*
10175248 TTTAGGGAAAAGTTGAAAGTATCAATTTTCC
65 TTTAGGGAAAAGTTGAAAGTATAAATTTTCC
10175279 CTACACAAGA
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
114 10 0.11
115 47 0.53
116 32 0.36
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (115 bp):
AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTCAAAAAAATATTTT
TTAGGGAAAAGTTGAAAGTATAAATTTTCCTTAGAAATAAATTTCAAAAA
Found at i:10175208 original size:57 final size:57
Alignment explanation
Indices: 10175068--10175278 Score: 341
Period size: 57 Copynumber: 3.6 Consensus size: 57
10175058 TTTCGGCAAC
* *
10175068 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTCCCAAAAA
1 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT-TCAAAAA
*
10175126 AATATTTTTGGGGAAAAGTTGAAAGTATAAATTTTCCTTAGAAATAAATTTCAAAAA
1 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAA
* *
10175183 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATGTCAAAAA
1 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAA
*
10175240 AATATTTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
1 AATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
10175279 CTACACAAGA
Statistics
Matches: 144, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
57 64 0.44
58 48 0.33
59 32 0.22
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (57 bp):
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAA
Found at i:10181878 original size:11 final size:11
Alignment explanation
Indices: 10181862--10181894 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
10181852 TCTTTGTCAT
10181862 TTTTATTTTTA
1 TTTTATTTTTA
10181873 TTTTA-TTTTA
1 TTTTATTTTTA
*
10181883 TTTTATATTTA
1 TTTTATTTTTA
10181894 T
1 T
10181895 GTATATCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Done.