Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 174 of 250
Found at i:55633847 original size:19 final size:21
Alignment explanation
Indices: 55633784--55633850 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
55633774 TTTTAGAAAA
*
55633784 TTTAAAA-AATTT-GAA-TTT
1 TTTAAAATTATTTAGAATTTT
*
55633802 TTTATATATTATTTAGAATTTT
1 TTTA-AAATTATTTAGAATTTT
55633824 ATTTAAAATT-TTTA-AATTTT
1 -TTTAAAATTATTTAGAATTTT
55633844 TTTAAAA
1 TTTAAAA
55633851 AATAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 4 0.10
19 9 0.22
20 10 0.24
21 7 0.17
22 7 0.17
23 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAAAATTATTTAGAATTTT
Found at i:55633900 original size:12 final size:12
Alignment explanation
Indices: 55633885--55633913 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
55633875 AATATTTTGA
55633885 ATTTTAAAAATT
1 ATTTTAAAAATT
55633897 ATTTTAAAAATT
1 ATTTTAAAAATT
55633909 ATTTT
1 ATTTT
55633914 GATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:55636229 original size:21 final size:21
Alignment explanation
Indices: 55636203--55636242 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55636193 CACCTGCAAC
*
55636203 AAAAAGTATCAATACTTTTTG
1 AAAAAGTATCAATAATTTTTG
55636224 AAAAAGTATCAATAATTTT
1 AAAAAGTATCAATAATTTT
55636243 ATCATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (21 bp):
AAAAAGTATCAATAATTTTTG
Found at i:55638585 original size:24 final size:24
Alignment explanation
Indices: 55638535--55638596 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
55638525 AATAGATATA
** *
55638535 AAAAAATATGTACATAATAAGTGT
1 AAAAAATACATACATAATAAATGT
55638559 AAAAAATACATACATAATATAAT-T
1 AAAAAATACATACATAATA-AATGT
55638583 AAAATATATACATA
1 AAAA-A-ATACATA
55638597 AGATAACGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 22 0.69
25 3 0.09
26 7 0.22
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (24 bp):
AAAAAATACATACATAATAAATGT
Found at i:55638593 original size:22 final size:22
Alignment explanation
Indices: 55638561--55638602 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55638551 ATAAGTGTAA
*
55638561 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
55638583 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
55638603 CGTGTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:55638645 original size:25 final size:24
Alignment explanation
Indices: 55638619--55638745 Score: 97
Period size: 23 Copynumber: 5.5 Consensus size: 24
55638609 GAAAAAAAAT
*
55638619 ATATAAATAATATAGTATTAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
55638643 TATATACATAAAATAGTA-TAATA-T
1 -ATATACATAATATAGTATTAA-AGA
* * *
55638667 ATATACGTAATATAGAATT-TAGA
1 ATATACATAATATAGTATTAAAGA
* *
55638690 ATATACCTAATATA-T-TAAAAGA
1 ATATACATAATATAGTATTAAAGA
* *
55638712 ATATATATAATATAATATTAAA-A
1 ATATACATAATATAGTATTAAAGA
55638735 ATATA-ATAATA
1 ATATACATAATA
55638746 ACAAAAAAAG
Statistics
Matches: 81, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 22 0.27
23 34 0.42
24 8 0.10
25 16 0.20
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATACATAATATAGTATTAAAGA
Found at i:55639061 original size:16 final size:16
Alignment explanation
Indices: 55639023--55639061 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55639013 ATCTCAAAAA
*
55639023 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
55639039 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
55639055 AATAACT
1 AAAAACT
55639062 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:55639253 original size:30 final size:30
Alignment explanation
Indices: 55639216--55639314 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
55639206 TAGGTACAAG
*
55639216 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
55639246 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
55639276 TGGTGGTGGAGCAAGTGTGGCTAGTAGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
55639306 TGGTGGTGG
1 TGGTGGTGG
55639315 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:55640100 original size:87 final size:87
Alignment explanation
Indices: 55639949--55640154 Score: 245
Period size: 87 Copynumber: 2.4 Consensus size: 87
55639939 TCCTGAGCTT
* * *
55639949 AACTCATTTCTCGCAATATGAATTGACTCTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
1 AACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATA
* *
55640014 GCTCAGCACGTGAGCCAAGGCTC
65 CCTCAGCACGTGACCCAAGGCTC
* **
55640037 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAAC-AAA-ATTTGTAAAACAGATTTTGAAAAT
1 AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACA-TT-AAAAACAGAAATTGAAAAT
* * * *
55640100 ACCTCGGTATGTGACCCGAGGCTC
64 ACCTCAGCACGTGACCCAAGGCTC
* *
55640124 AACTCACCTCTCGTAATATGAGTTGATTTTT
1 AACTCACTTCTCGCAATATGAGTTGATTTTT
55640155 GCAAAGCATA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 5 0.05
87 72 0.71
88 24 0.24
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (87 bp):
AACTCACTTCTCGCAATATGAGTTGATTTTTAAAACTAAACATTAAAAACAGAAATTGAAAATAC
CTCAGCACGTGACCCAAGGCTC
Found at i:55640256 original size:102 final size:103
Alignment explanation
Indices: 55640092--55640289 Score: 287
Period size: 102 Copynumber: 1.9 Consensus size: 103
55640082 AAAACAGATT
*
55640092 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG
1 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCG-AATATGAGTTGATTTTTTG
*
55640156 -CAAAGCATAAATTG-AAAAAAAATAAAAATAAAAATCAA
65 ACAAA-CATAAATTGAAAAAAAAAGAAAAATAAAAATCAA
* * *
55640194 TTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTC-ACATATGAGTTGATTTTTTT
1 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGA-ATATGAGTTGA-TTTTTT
55640258 GACAAACATAAATTGAAAAAAAAAGAAAAATA
64 GACAAACATAAATTGAAAAAAAAAGAAAAATA
55640290 TCTCAGCGTG
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
100 1 0.01
101 11 0.13
102 40 0.47
103 15 0.17
104 19 0.22
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (103 bp):
TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGAATATGAGTTGATTTTTTGA
CAAACATAAATTGAAAAAAAAAGAAAAATAAAAATCAA
Found at i:55640514 original size:86 final size:85
Alignment explanation
Indices: 55640196--55640537 Score: 370
Period size: 90 Copynumber: 3.9 Consensus size: 85
55640186 AAAATCAATT
* * *
55640196 GAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCAC-ATATGAGTTGATTTTTTTGA
1 GAAAATACCTCAGCGTGTG---TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA
* *
55640260 CAAACATAAATTGAAAAA-AAAAG
63 -AAACAGAAATTGAAAAAGAAATG
* * * * * *
55640283 AAAAATATCTCAGCGTGTCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAA
1 GAAAATACCTCAGCGTGTGTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAA
* *
55640348 ACA-AAATTTGAAAAAAGAATTT
65 ACAGAAA-TTG-AAAAAGAAATG
* *
55640370 GAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGA-TTTTTTGA
1 GAAAATACCTCAGCGTGT--GT-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA
55640434 AACACAGAAATTGAAGAACAGAAATG
63 AA-ACAGAAATTGAA-AA-AGAAATG
* * *
55640460 GAAAACACCTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAA
1 GAAAATACCTCAGCGTGTGTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAA
55640524 CAGAAATTGAAAAA
66 CAGAAATTGAAAAA
55640538 ATCAACGTGT
Statistics
Matches: 217, Mismatches: 25, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
84 24 0.11
85 28 0.13
86 48 0.22
87 44 0.20
88 5 0.02
89 15 0.07
90 53 0.24
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (85 bp):
GAAAATACCTCAGCGTGTGTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAA
CAGAAATTGAAAAAGAAATG
Found at i:55640567 original size:72 final size:72
Alignment explanation
Indices: 55640444--55641304 Score: 1115
Period size: 72 Copynumber: 12.0 Consensus size: 72
55640434 AACACAGAAA
* * * *
55640444 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55640507 GCTGATTTTT
64 GTTGA-TTTT
** *
55640517 TTGAAAACAGAAATTGAAA-AAATCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG-
1 TTGAAAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
55640580 TGATTTTTT
66 TGA--TTTT
*
55640589 TTGAAAACA-AAATTGAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
55640653 TGA-TTT
66 TGATTTT
* * *
55640659 TTGAAAACA-AAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAG
1 TTGAAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
55640721 TTGATTTTT
65 TTGA-TTTT
*
55640730 TTGAAAACA-AAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCA-CTCTCGCAATATGAG
1 TTGAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
55640793 TTGATTTT
65 TTGATTTT
* *
55640801 TTTAAAACAGAAATTGAAATACCTCAACGTGTCCTGAGGCTCAACTCA-CTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
55640865 TGA-TTT
66 TGATTTT
* * *
55640871 TTGACAAACAAAAATTGAAATACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 TTGA-AAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
55640934 TTGA-TTT
65 TTGATTTT
55640941 TTGAAAAACAGAAATTGAAAATA-CTCAACGTGTCTTGAGGCTCAACTCA-C-CTCGCAATATGA
1 TTG-AAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55641003 GTTGATTTTT
64 GTTGA-TTTT
*
55641013 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55641078 GTT-AATTT
64 GTTGATTTT
* * * *
55641086 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55641151 GTTGATTTT
64 GTTGATTTT
*
55641160 TTGAAAAACAGAAATTGAAAATATCTCAACGTGTCTTGAGGCTCAACTCACCTCT-GCAATATGA
1 TTG-AAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
55641224 GTTGAGTTT
64 GTTGATTTT
* *
55641233 TTGACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGA-GCTCAACTCA-CTCTC-CAATATGA
1 TTGA-AAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
55641294 GTTGATTTT
64 GTTGATTTT
55641303 TT
1 TT
55641305 TTGGAACAAA
Statistics
Matches: 713, Mismatches: 43, Indels: 67
0.87 0.05 0.08
Matches are distributed among these distances:
69 54 0.08
70 109 0.15
71 151 0.21
72 191 0.27
73 137 0.19
74 52 0.07
75 19 0.03
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTT
Found at i:55641737 original size:74 final size:74
Alignment explanation
Indices: 55641410--55643068 Score: 821
Period size: 74 Copynumber: 21.9 Consensus size: 74
55641400 AACACAGAAA
* * * *
55641410 TTGAAGAA-AGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAAT-TAA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
55641471 GCT-AGTTTTT
65 GCTGA-TTTTT
* * * *
55641481 TTGAAAGACAAAGAATTGAAAACACCTCAACCGAGTCTTGAGCTTCAACT-ACCTCTCGCAATAT
1 TTGAAA-ACAGA-AATTGAAAATACCTCAA-CGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
*
55641545 GAGTTGGA--TTT
63 GAGCT-GATTTTT
* * *
55641556 TTGACAAGACAAGAAGATTGAAATTAACCTC--CGGGTCTTGAGGTTCAACTCA-CTAT--CAAT
1 TTGA-AA-AC-AGAA-ATTGAAAAT-ACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAAT
*
55641616 ATG-GTTGATTTTT
61 ATGAGCTGATTTTT
*
55641629 TTGAAAAACAAAAAATTG-AAATACCTCAACGTGTCCTTG-GGTTC-ACTCAACCTCTCGCAATA
1 TTG-AAAAC-AGAAATTGAAAATACCTCAACGTGT-CTTGAGGTTCAACTC-ACCTCTCGCAAT-
55641691 ATGAAGCTGATTTTT
61 ATG-AGCTGATTTTT
* * * *
55641706 TTGAAGAC-GAAATTAAAAATACCT-AACGTGTCTTGAGCTTCACCTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
*
55641769 TTGATTTTT
66 CTGATTTTT
** * * * *
55641778 TCACCAAAACAAAAATCTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCA-CTATCGCCAATA
1 T--TGAAAACAGAAAT-TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCG-CAATA
*
55641840 TGAGTTTTGATTTTT
62 TGAG--CTGATTTTT
55641855 TTGAAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
1 TTG---AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATAT
55641920 GAGCTGATTTTT
63 GAGCTGATTTTT
*
55641932 TT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT-ACCTCTCGCAATATG-
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* *
55641994 G-TTA-ATTT
65 GCTGATTTTT
* * * * *
55642002 TTGACAAA-A-AAATTGAAATTACCTC-GC-TGTCCTGAGGCTCAACTCACCTATCGCAATAT-A
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
55642062 GTTGATTTTT
65 GCTGATTTTT
* * * *
55642072 TTGAAAAAACAG-AATTGAAAATATCTCAACGTGTCTTGAGGCTCACCTCACCTCTTGCAAATAT
1 TTG--AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGC-AATAT
* *
55642136 GAGTTGA--GTT
63 GAGCTGATTTTT
* * * * * * * *
55642146 TT-ACAAACAAAAATTGAAATTA-CTCAGCGTGTCCTGAAGCTCAACTCACTTCCCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
55642209 GTTGATTTTTT
65 GCTGA-TTTTT
* * ** *
55642220 TTGGAAAGA-AAATTTGAAAA-ACCT-AATTTGAAAATACCTCG-GTGTGATCAAGGCTCA-CTC
1 TTGAAAACAGAAA-TTGAAAATACCTCAACGTG----T--CTTGAG-GT--TCAA--CTCACCTC
* *
55642280 ACCACCGAATATGAGCTGA-TTTT
54 -TC-GC-AATATGAGCTGATTTTT
** * *
55642303 TTGAAACACAGAAATTGAAGAATAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCT
1 TTGAAA-ACAGAAATTGAA-AAT--ACCT------CA--AC-GTGTCTTGAGGTTCAACTCACC-
55642368 TCTCGCAATATGAGCT-ATTTTT
52 TCTCGCAATATGAGCTGATTTTT
*
55642390 TTGAAATACA-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
55642454 GTTGA--TTT
65 GCTGATTTTT
* * * *
55642462 TTGACAAACAGAAATTAAAGAATACGTC-ACGTCGTCCCTTGAGGCTCAACCTCA-CTCTAGCAA
1 TTGA-AAACAGAAATTGAA-AATACCTCAACGT-GT--CTTGAGGTTCAA-CTCACCTCTCGCAA
*
55642525 TATGAGTTGA-TTTT
60 TATGAGCTGATTTTT
* *
55642539 TGGACAAAACAAAAATTGAAAATTGACCCTCAAGCGTG-CTTGAGGTTCAAGCTCACCTCTCGCA
1 TTG--AAAACAGAAATTGAAAA-T-A-CCTCAA-CGTGTCTTGAGGTTCAA-CTCACCTCTCGCA
55642603 ATATGA-CT-ATTTTT
59 ATATGAGCTGATTTTT
* * *
55642617 TTTAAAGACAGAAGATTGAAAGTACCGGTC-ACGTGTCCTTGAGGCTCAACTCACCTCTTCGCAA
1 TTGAAA-ACAGAA-ATTGAAAATACC--TCAACGTGT-CTTGAGGTTCAACTCACCTC-TCGCAA
* *
55642681 TATGAGTTGATTTTC
60 TATGAGCTGATTTTT
*** * * *
55642696 AACAAATCAAAAATTTG-AAATACCGTC-A-GCG-C-T--GGTT--ACTCA-CTCAATCGGCAAT
1 TTGAAAACAGAAA-TTGAAAATACC-TCAACGTGTCTTGAGGTTCAACTCACCTC--TC-GCAAT
*
55642751 ATGA-TTGATTTTT
61 ATGAGCTGATTTTT
55642764 TTGAAAAACAGAAAATTG-AAATACCTCCAAACGTGTC-TG-GG-TCAAGCTCACCGTCTCGCAA
1 TTG-AAAACAG-AAATTGAAAATACCT-C-AACGTGTCTTGAGGTTCAA-CTCACC-TCTCGCAA
55642825 TA-GAGCTGATTTTT
60 TATGAGCTGATTTTT
* *
55642839 TT-AAAGAC-G-AATTGAAAATACTCCCTAAACAGTGTCTTGAGGCTCACACTACACTCGTCTCG
1 TTGAAA-ACAGAAATTGAAAATA---CCTCAAC-GTGTCTTGAGGTTCA-ACT-CAC-C-TCTCG
*
55642901 CAATTATGAGTTGA--TTT
57 CAA-TATGAGCTGATTTTT
* * * * * * *
55642918 TTGACAAACAAAAATTGAAATTAGCCTTCAGCG-GTCCTGAGGCTCAACTCCAACCTATCAACAA
1 TTGA-AAACAGAAATTGAAAATA-CC-TCAACGTGTCTTGAGGTTCAACT-C-ACCTCTC-GCAA
* *
55642982 TTACTGAAAGTTTGAATTTT
60 -TA-TG--AG-CTGATTTTT
* * *
55643002 TTGAAAAACAGAAATTGAAACAGTA-CTGAATCGTGTCTTGCAGGCTCAACTC-CCTCTTGC-AT
1 TTG-AAAACAGAAATTGAAA-A-TACCTCAA-CGTGTCTTG-AGGTTCAACTCACCTCTCGCAAT
55643064 ATGAG
61 ATGAG
55643069 TTGACGTTTT
Statistics
Matches: 1258, Mismatches: 152, Indels: 350
0.71 0.09 0.20
Matches are distributed among these distances:
67 19 0.02
68 31 0.02
69 47 0.04
70 26 0.02
71 48 0.04
72 97 0.08
73 111 0.09
74 167 0.13
75 119 0.09
76 102 0.08
77 115 0.09
78 83 0.07
79 87 0.07
80 18 0.01
81 20 0.02
82 20 0.02
83 23 0.02
84 31 0.02
85 26 0.02
86 21 0.02
87 23 0.02
88 7 0.01
89 2 0.00
90 6 0.00
92 5 0.00
93 1 0.00
94 1 0.00
95 1 0.00
98 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
CTGATTTTT
Found at i:55642249 original size:14 final size:15
Alignment explanation
Indices: 55642230--55642258 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55642220 TTGGAAAGAA
55642230 AATTTGAAAA-ACCT
1 AATTTGAAAATACCT
55642244 AATTTGAAAATACCT
1 AATTTGAAAATACCT
55642259 CGGTGTGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
AATTTGAAAATACCT
Found at i:55642618 original size:155 final size:149
Alignment explanation
Indices: 55642349--55643072 Score: 397
Period size: 155 Copynumber: 4.7 Consensus size: 149
55642339 ACCTCAGCGT
* * * *
55642349 CTTGAGGTTCAACTCACCTTCTCGCAATATGAGCT-ATTTTTTTGAAATACAAAATTGAAAATAC
1 CTTGAGGCTCAACTCACC-TCTCGCAATATGAGTTGA-TTTTTGGAAAAACAAAATTGAAAATAC
*
55642413 CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA-ACAGAA-A
64 CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTGA-AAGACAGAAGA
55642476 TT-AAAGAATA-C-GTCACGTCGTCC
128 TTGAAAG--TACCGGTCACGT-GT-C
*
55642499 CTTGAGGCTCAACCTCA-CTCTAGCAATATGAGTTGATTTTTGGACAAAACAAAAATTGAAAATT
1 CTTGAGGCTCAA-CTCACCTCTCGCAATATGAGTTGATTTTTGGA-AAAAC-AAAATTGAAAA-T
* * *
55642563 GACCCTCAAGCGTG-CTTGAGGTTCAAGCTCACCTCTCGCAATATGACTAT-TTTTTTTAAAGAC
62 -A-CCTCAA-CGTGTCTTGAGGCTCAA-CTCACCTCTCGCAATATGACT-TGATTTTTGAAAGAC
55642626 AGAAGATTGAAAGTACCGGTCACGTGTC
122 AGAAGATTGAAAGTACCGGTCACGTGTC
*
55642654 CTTGAGGCTCAACTCACCTCTTCGCAATATGAGTTGA-TTTT-CAACAAATCAAAAATTTG-AAA
1 CTTGAGGCTCAACTCACCTC-TCGCAATATGAGTTGATTTTTGGAA-AAA-C-AAAA-TTGAAAA
* * * * *
55642716 TACCGTCAGCGCTG-GTT-A--CTC-ACTCA-ATC-GGCAATATGA-TTGATTTTTTTGAAAAAC
61 TACC-TCAACG-TGTCTTGAGGCTCAACTCACCTCTCGCAATATGACTTGA--TTTTTGAAAGAC
*
55642773 AGAAAATTGAAA-TACC--TCCAAACGTGT-
122 AGAAGATTGAAAGTACCGGT-C--ACGTGTC
* ** * *
55642800 C-TG-GG-TCAAGCTCACCGTCTCGCAATA-GAGCTGATTTTTTTAAAGAC-GAATTGAAAATAC
1 CTTGAGGCTCAA-CTCACC-TCTCGCAATATGAGTTGATTTTTGGAAAAACAAAATTGAAAATA-
* *
55642860 TCCCTAAACAGTGTCTTGAGGCTCACACTACACTCGTCTCGCAATTATGAGTTGATTTTTGACAA
63 --CCTCAAC-GTGTCTTGAGGCTCA-ACT-CAC-C-TCTCGCAA-TATGACTTGATTTTTGA-AA
* * *
55642925 -ACA-AAAATTGAAATTAGCC-TTCAGCG-GTC
119 GACAGAAGATTGAAAGTA-CCGGTCA-CGTGTC
* * *
55642954 C-TGAGGCTCAACTCCAACCTATCAACAATTACTGAAAGTTTGAATTTTTTGAAAAACAGAAATT
1 CTTGAGGCTCAACT-C-ACCTCTC-GCAA-TA-TG--AG-TTG-ATTTTTGGAAAAACA-AAATT
* * *
55643018 GAAACAGTA-CTGAATCGTGTCTTGCAGGCTCAACTC-CCTCTTGC-ATATGAGTTGA
56 GAAA-A-TACCTCAA-CGTGTCTTG-AGGCTCAACTCACCTCTCGCAATATGACTTGA
55643073 CGTTTTGACA
Statistics
Matches: 463, Mismatches: 37, Indels: 140
0.72 0.06 0.22
Matches are distributed among these distances:
140 3 0.01
141 7 0.02
143 16 0.03
144 29 0.06
145 9 0.02
146 14 0.03
147 32 0.07
148 4 0.01
149 25 0.05
150 21 0.05
151 15 0.03
152 6 0.01
153 25 0.05
154 49 0.11
155 81 0.17
156 38 0.08
157 17 0.04
158 12 0.03
159 1 0.00
160 6 0.01
161 1 0.00
162 3 0.01
163 3 0.01
164 27 0.06
165 8 0.02
166 8 0.02
167 1 0.00
168 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (149 bp):
CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAACAAAATTGAAAATACCT
CAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGACTTGATTTTTGAAAGACAGAAGATTG
AAAGTACCGGTCACGTGTC
Found at i:55644466 original size:16 final size:16
Alignment explanation
Indices: 55644424--55644465 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
55644414 CACCTTGATC
*
55644424 CTCTCTCTTTTCTTTT
1 CTCTTTCTTTTCTTTT
*
55644440 TTCTTTCTTTTCTTTT
1 CTCTTTCTTTTCTTTT
55644456 CTCTTT-TTTT
1 CTCTTTCTTTT
55644466 TAAGATGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
CTCTTTCTTTTCTTTT
Found at i:55658138 original size:18 final size:18
Alignment explanation
Indices: 55658091--55658141 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 18
55658081 AATAGGATAA
55658091 TATATTTAA-TAAGTCCT
1 TATATTTAATTAAGTCCT
*
55658108 T-TA---AATTTA-TCCT
1 TATATTTAATTAAGTCCT
55658121 TATATTTAATTAAGTCCT
1 TATATTTAATTAAGTCCT
55658139 TAT
1 TAT
55658142 GCTTACAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 11
0.67 0.05 0.28
Matches are distributed among these distances:
13 7 0.27
14 4 0.15
16 2 0.08
17 6 0.23
18 7 0.27
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (18 bp):
TATATTTAATTAAGTCCT
Found at i:55664923 original size:16 final size:17
Alignment explanation
Indices: 55664904--55664936 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55664894 GTATGAAATA
55664904 TTTA-ATGAAATTTATT
1 TTTACATGAAATTTATT
55664920 TTTACATGAAATTTATT
1 TTTACATGAAATTTATT
55664937 ATTGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTACATGAAATTTATT
Found at i:55667268 original size:55 final size:55
Alignment explanation
Indices: 55667184--55667292 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
55667174 TATTCATTGA
* * * *
55667184 ATGATAAATTATCACTTTTAATTTGAATAGTGCTTATGAATAACTAATTTGCAAG
1 ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAACTAATTTGCAAG
*
55667239 ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAATTAATTTGCAA
1 ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAACTAATTTGCAA
55667293 TCTATAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (55 bp):
ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAACTAATTTGCAAG
Found at i:55668571 original size:41 final size:41
Alignment explanation
Indices: 55668514--55668597 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
55668504 GGAAAAAATT
55668514 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
1 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
55668555 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
1 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
55668596 TA
1 TA
55668598 GATGGAGTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (41 bp):
TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
Found at i:55671925 original size:154 final size:154
Alignment explanation
Indices: 55671655--55671992 Score: 541
Period size: 154 Copynumber: 2.2 Consensus size: 154
55671645 TGGTTATGGT
* * *
55671655 CCTGCATATGTTGCGGACACACTACAACTCAAAAGAGCGTCCCGTTATTAGCTCTCATGAGCATT
1 CCTGCATATGTTGCGGACACACCACAGCTCAAAAGAGCGTCCCGTTATTAGCTCTCATGAGCATC
** ** * *
55671720 CTGATATTTTTCTCTCACGAGCTTCCTGTTATATGGTTCTTGTGAGCTTCCCATTAATAGCTCTT
66 CCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCCATTAATAGCTCTT
*
55671785 CGGAGCATCCCGATTGGTTGTAAC
131 CGGAGCATCCCAATTGGTTGTAAC
*
55671809 CCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCATC
1 CCTGCATATGTTGCGGACACACCACAGCTCAAAAGAGCGTCCCGTTATTAGCTCTCATGAGCATC
* *
55671874 CCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGTTTCCCTTTAATAGCTCTT
66 CCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCCATTAATAGCTCTT
*
55671939 CGGAGCATCCCAATTGGTTGTAAT
131 CGGAGCATCCCAATTGGTTGTAAC
*
55671963 CCTGCATGTGTTGCGGACACACCACAGCTC
1 CCTGCATATGTTGCGGACACACCACAGCTC
55671993 TTATAAGCAT
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
154 169 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (154 bp):
CCTGCATATGTTGCGGACACACCACAGCTCAAAAGAGCGTCCCGTTATTAGCTCTCATGAGCATC
CCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCCATTAATAGCTCTT
CGGAGCATCCCAATTGGTTGTAAC
Found at i:55673849 original size:43 final size:43
Alignment explanation
Indices: 55673801--55673900 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
55673791 GATTAACGAG
*
55673801 ATGTGATTATGTGTAAGACCATGTCTG-GGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATGTC-GAGGACATTGGCATCATT
*
55673844 ATGTGATTACGTGTAAGACCATGTCGAGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCGAGGACATTGGCATCATT
* *
55673887 ATTTGATTTCGTGT
1 ATGTGATTACGTGT
55673901 GAGATTATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCGAGGACATTGGCATCATT
Found at i:55674832 original size:22 final size:22
Alignment explanation
Indices: 55674799--55674852 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
55674789 AACATATTGT
55674799 TTTG-GTATGTTTATGGTTATGA
1 TTTGAGTA-GTTTATGGTTATGA
55674821 TTTGAGTAGTTTATGGTTATGA
1 TTTGAGTAGTTTATGGTTATGA
55674843 TTTGAGTAGT
1 TTTGAGTAGT
55674853 GAAATAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 28 0.90
23 3 0.10
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (22 bp):
TTTGAGTAGTTTATGGTTATGA
Found at i:55674839 original size:76 final size:77
Alignment explanation
Indices: 55674745--55674904 Score: 279
Period size: 76 Copynumber: 2.1 Consensus size: 77
55674735 GACATATTGT
* *
55674745 TTTG-GTATGTTTGTGGTTATGATTTGAGTAGTGAAATGGTTGAAAACATATTGTTTTGGTATGT
1 TTTGAGTATGTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAAACATATTGTTTTGGTATGT
55674809 TTATGGTTATGA
66 TTATGGTTATGA
*
55674821 TTTGAGTA-GTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAGACATATTGTTTTGGTATGT
1 TTTGAGTATGTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAAACATATTGTTTTGGTATGT
55674885 TTATGGTTATGA
66 TTATGGTTATGA
55674897 TTTGAGTA
1 TTTGAGTA
55674905 ATGAAATGGT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 77 0.96
77 3 0.04
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (77 bp):
TTTGAGTATGTTTATGGTTATGATTTGAGTAGTGAAATAGTTGAAAACATATTGTTTTGGTATGT
TTATGGTTATGA
Found at i:55677492 original size:20 final size:20
Alignment explanation
Indices: 55677451--55677493 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
55677441 ATCTTCTACT
**
55677451 TTTATTTTATTTTTTGTTTA
1 TTTATTTTATTTTTTGAATA
55677471 TTTA-TTTATTATTTTGAATA
1 TTTATTTTATT-TTTTGAATA
55677491 TTT
1 TTT
55677494 CTTAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTATTTTATTTTTTGAATA
Found at i:55686119 original size:21 final size:21
Alignment explanation
Indices: 55686093--55686145 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
55686083 TGCATATTCA
55686093 TTTTTATCAATATATATCCTT
1 TTTTTATCAATATATATCCTT
55686114 TTTTTATCAATATATATCCTT
1 TTTTTATCAATATATATCCTT
*
55686135 TTTCT-TCAATA
1 TTTTTATCAATA
55686146 ATTGGTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTATCAATATATATCCTT
Found at i:55686859 original size:18 final size:18
Alignment explanation
Indices: 55686838--55686883 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
55686828 AATAAAATAA
55686838 AATTTATAAATTCAAAAT
1 AATTTATAAATTCAAAAT
* *
55686856 AATTTTTAAAATTTAAAAT
1 AATTTAT-AAATTCAAAAT
55686875 -ATTTATAAA
1 AATTTATAAA
55686884 AATTTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTATAAATTCAAAAT
Found at i:55686873 original size:19 final size:19
Alignment explanation
Indices: 55686830--55686894 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
55686820 AAAAATAAAA
**
55686830 TAAAATAAAATTTATAAATT
1 TAAAATAATTTTTA-AAATT
*
55686850 CAAAATAATTTTTAAAATT
1 TAAAATAATTTTTAAAATT
*
55686869 TAAAAT-ATTTATAAAAATT
1 TAAAATAATTT-TTAAAATT
55686888 TCAAAAT
1 T-AAAAT
55686895 TTATATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 18 0.47
20 16 0.42
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATAATTTTTAAAATT
Found at i:55686884 original size:18 final size:18
Alignment explanation
Indices: 55686839--55686899 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
55686829 ATAAAATAAA
*
55686839 ATTTAT-AAATTCAAAAT
1 ATTTATAAAATTTAAAAT
*
55686856 AATTTTTAAAATTTAAAAT
1 -ATTTATAAAATTTAAAAT
*
55686875 ATTTATAAAAATTTCAAA-
1 ATTTAT-AAAATTTAAAAT
55686893 ATTTATA
1 ATTTATA
55686900 TTTTTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 16 0.43
19 20 0.54
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTATAAAATTTAAAAT
Found at i:55686893 original size:27 final size:27
Alignment explanation
Indices: 55686863--55686955 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
55686853 AATAATTTTT
*
55686863 AAAATTTAAAATATTTATAAAAATTTC
1 AAAATTTAAAATATTTATAAAAAATTC
* *
55686890 AAAATTT-ATATTTTTA-AGAAAAATTC
1 AAAATTTAAAATATTTATA-AAAAATTC
* *
55686916 TAAAATTCTAAAAAATATATAAAAAAGTT-
1 -AAAATT-TAAAATATTTATAAAAAA-TTC
55686945 AAAATTTAAAA
1 AAAATTTAAAA
55686956 AAATAATTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
25 1 0.02
26 14 0.26
27 18 0.34
28 7 0.13
29 10 0.19
30 3 0.06
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATTTAAAATATTTATAAAAAATTC
Found at i:55697050 original size:22 final size:22
Alignment explanation
Indices: 55697025--55697066 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55697015 CTCCCCTCTC
55697025 TTTCATTCATATTTTCTTTTAT
1 TTTCATTCATATTTTCTTTTAT
* *
55697047 TTTCTTTCATCTTTTCTTTT
1 TTTCATTCATATTTTCTTTT
55697067 TCCATCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCATTCATATTTTCTTTTAT
Found at i:55697063 original size:12 final size:12
Alignment explanation
Indices: 55697025--55697065 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
55697015 CTCCCCTCTC
*
55697025 TTTCATTCATAT
1 TTTCTTTCATAT
55697037 TTTCTTT--TAT
1 TTTCTTTCATAT
*
55697047 TTTCTTTCATCT
1 TTTCTTTCATAT
55697059 TTTCTTT
1 TTTCTTT
55697066 TTCCATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 10 0.40
12 15 0.60
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTCATAT
Found at i:55700421 original size:20 final size:20
Alignment explanation
Indices: 55700379--55700418 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
55700369 TTGTATGAGA
*
55700379 AAAAATTGAAAATTACATGG
1 AAAAATTGAAAATTAAATGG
*
55700399 AAAAATTGATAATTTAAATG
1 AAAAATTGA-AAATTAAATG
55700419 AAATGAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAAATTGAAAATTAAATGG
Found at i:55700541 original size:27 final size:26
Alignment explanation
Indices: 55700409--55700545 Score: 72
Period size: 26 Copynumber: 5.3 Consensus size: 26
55700399 AAAAATTGAT
*
55700409 AATTTAAATGAAATGAGAAAAAAATA
1 AATTGAAATGAAATGAGAAAAAAATA
** * * *
55700435 AATTGGTATGAAACGA-TACAAAAT-
1 AATTGAAATGAAATGAGAAAAAAATA
55700459 --TT-AAATGAAAATTGA-AAAAAAGATA
1 AATTGAAATG-AAA-TGAGAAAAAA-ATA
* * * * *
55700484 AATTTAAAAGAAATAAGGAAAAAATTT
1 AATTGAAATGAAATGA-GAAAAAAATA
*
55700511 AATTGAAATGAAATGATAAAAAAATGA
1 AATTGAAATGAAATGAGAAAAAAAT-A
55700538 AATT-AAAT
1 AATTGAAAT
55700546 TTGAAAGAAA
Statistics
Matches: 80, Mismatches: 21, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
21 3 0.04
22 5 0.06
23 6 0.08
24 2 0.03
25 6 0.08
26 25 0.31
27 23 0.29
28 10 0.12
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.25
Consensus pattern (26 bp):
AATTGAAATGAAATGAGAAAAAAATA
Found at i:55700550 original size:76 final size:75
Alignment explanation
Indices: 55700409--55700617 Score: 215
Period size: 76 Copynumber: 2.8 Consensus size: 75
55700399 AAAAATTGAT
* * ** * * *
55700409 AATTTAAATGAAAT-GAGAAAAAAATAAATTGGTATGAAACGATACAAAATTTAAATGAAAATTG
1 AATTTAAATGAAATAG-GAAAAAATTTAATTGAAATGAAATGATAAAAAAATTAAATGAAAATTG
55700473 AAAAAAAGATA
65 AAAAAAAGATA
* * * *
55700484 AATTTAAAAGAAATAAGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATGAAATTAAATTTG
1 AATTTAAATGAAAT-AGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATTAAATGAAAATTG
*
55700549 AAAGAAAGATA
65 AAAAAAAGATA
* ** * *
55700560 AATTTAAATGAAATGGGAGAAACTTTTAATTTAAAT-AAGATGAGAAAAAAATTAAATG
1 AATTTAAATGAAATAGGA-AAAAATTTAATTGAAATGAA-ATGATAAAAAAATTAAATG
55700618 GAAAGATAGA
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
75 18 0.16
76 91 0.83
77 1 0.01
ACGTcount: A:0.59, C:0.01, G:0.14, T:0.26
Consensus pattern (75 bp):
AATTTAAATGAAATAGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATTAAATGAAAATTGA
AAAAAAGATA
Found at i:55700746 original size:19 final size:20
Alignment explanation
Indices: 55700731--55700779 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
55700721 AGTATAAATG
55700731 AATTGAAAAAAAATAAATTTA
1 AATTGAAAAAAAATAAA-TTA
*
55700752 AATTGAAAAAAAAATAATTTA
1 AATTG-AAAAAAAATAAATTA
55700773 AA-TGAAA
1 AATTGAAA
55700780 TGAAATTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 10 0.38
22 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (20 bp):
AATTGAAAAAAAATAAATTA
Found at i:55700755 original size:21 final size:21
Alignment explanation
Indices: 55700731--55700779 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
55700721 AGTATAAATG
55700731 AATTG-AAAAAAAATAAATTTA
1 AATTGAAAAAAAAAT-AATTTA
55700752 AATTGAAAAAAAAATAATTTA
1 AATTGAAAAAAAAATAATTTA
55700773 AA-TGAAA
1 AATTGAAA
55700780 TGAAATTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 13 0.48
22 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (21 bp):
AATTGAAAAAAAAATAATTTA
Found at i:55700780 original size:5 final size:5
Alignment explanation
Indices: 55700772--55700816 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
55700762 AAAATAATTT
* *
55700772 AAATG AAATG AAATT AGAATG AAATA AAATG AAGATG AAATG AAA
1 AAATG AAATG AAATG A-AATG AAATG AAATG AA-ATG AAATG AAA
55700817 AAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:55700792 original size:16 final size:15
Alignment explanation
Indices: 55700772--55700816 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
55700762 AAAATAATTT
*
55700772 AAATGAAATGAAATT
1 AAATGAAATGAAATG
*
55700787 AGAATGAAATAAAATG
1 A-AATGAAATGAAATG
55700803 AAGATGAAATGAAA
1 AA-ATGAAATGAAA
55700817 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (15 bp):
AAATGAAATGAAATG
Found at i:55700812 original size:11 final size:10
Alignment explanation
Indices: 55700772--55700816 Score: 54
Period size: 11 Copynumber: 4.3 Consensus size: 10
55700762 AAAATAATTT
55700772 AAATGAAATG
1 AAATGAAATG
*
55700782 AAATTAGAATG
1 AAATGA-AATG
*
55700793 AAATAAAATG
1 AAATGAAATG
55700803 AAGATGAAATG
1 AA-ATGAAATG
55700814 AAA
1 AAA
55700817 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (10 bp):
AAATGAAATG
Found at i:55701156 original size:24 final size:23
Alignment explanation
Indices: 55701123--55701233 Score: 104
Period size: 24 Copynumber: 4.7 Consensus size: 23
55701113 GAAAAAATAT
55701123 TAATATGAAAAAAATAATATAAAA
1 TAAT-TGAAAAAAATAATATAAAA
55701147 TGAATTGAAAAAAATAATATGAAAAA
1 T-AATTGAAAAAAATAATAT--AAAA
* * *
55701173 TAATATCAAAAGAA-AATA-ATAA
1 TAAT-TGAAAAAAATAATATAAAA
55701195 T-A-TGAAAAAAATAATATGAAAA
1 TAATTGAAAAAAATAATAT-AAAA
*
55701217 AAATTGAAAAAAATAAT
1 TAATTGAAAAAAATAAT
55701234 TGAAATGAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
19 7 0.10
20 4 0.06
21 1 0.01
22 7 0.10
23 1 0.01
24 29 0.41
25 10 0.14
26 12 0.17
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.23
Consensus pattern (23 bp):
TAATTGAAAAAAATAATATAAAA
Found at i:55701159 original size:13 final size:14
Alignment explanation
Indices: 55701113--55701238 Score: 101
Period size: 14 Copynumber: 9.3 Consensus size: 14
55701103 TAATTAATTA
55701113 GAAAAAATATTAATAT
1 GAAAAAA-A-TAATAT
55701129 GAAAAAAATAATAT
1 GAAAAAAATAATAT
55701143 ----AAAATGAAT-T
1 GAAAAAAAT-AATAT
55701153 GAAAAAAATAATAT
1 GAAAAAAATAATAT
* *
55701167 GAAAAATAATATCAAAA
1 GAAAAA-AATA--ATAT
*
55701184 GAAAATAATAATAT
1 GAAAAAAATAATAT
55701198 GAAAAAAATAATAT
1 GAAAAAAATAATAT
55701212 G--AAAAA-AAT-T
1 GAAAAAAATAATAT
55701222 GAAAAAAATAAT-T
1 GAAAAAAATAATAT
55701235 GAAA
1 GAAA
55701239 TGAAATAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 27
0.74 0.05 0.22
Matches are distributed among these distances:
10 8 0.09
11 6 0.07
12 10 0.11
13 11 0.12
14 34 0.37
15 5 0.05
16 11 0.12
17 7 0.08
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (14 bp):
GAAAAAAATAATAT
Found at i:55701220 original size:31 final size:30
Alignment explanation
Indices: 55701154--55701219 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 30
55701144 AAATGAATTG
55701154 AAAAA-AATAATATGAAAAATAATATCAAA
1 AAAAATAATAATATGAAAAATAATATCAAA
*
55701183 AGAAAATAATAATATGAAAAAAATAATATGAAA
1 A-AAAATAATAATATG--AAAAATAATATCAAA
55701216 AAAA
1 AAAA
55701220 TTGAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 1 0.03
30 4 0.12
31 9 0.28
32 3 0.09
33 15 0.47
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.20
Consensus pattern (30 bp):
AAAAATAATAATATGAAAAATAATATCAAA
Found at i:55701788 original size:107 final size:111
Alignment explanation
Indices: 55701657--55701951 Score: 429
Period size: 107 Copynumber: 2.7 Consensus size: 111
55701647 TAGGATCTGT
*
55701657 ATTGACAGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTCAAAGGC
1 ATTGACAGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
55701722 CAGCACCAAAAAAA-TT-AA-TTTTTTT-AATTACTGGTGCCGGCC
66 CAGCACCAAAAAAATTTGAATTTTTTTTAAATTACTGGTGCCGGCC
* * *
55701764 ATTG-CTAGGCCAGCACCAAATTTTTTTTTTGAAAACTCGTATTCTGGTGCCAGCCATTAAAAGG
1 ATTGAC-AGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGG
* *
55701828 TCAGCACCAAAAAAATTTGAATTTTTTTTAAATTATTGGTGCCGGCC
65 CCAGCACCAAAAAAATTTGAATTTTTTTTAAATTACTGGTGCCGGCC
* * * * *
55701875 ATTGACAGGCCAGCACCCAAAATTTTTTTTTAAAAAACTCATATTCTTGTGCCGGCCTTTGACAG
1 ATTGACAGGCCAGCA-CC-AAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAG
55701940 GCCAGCACCAAA
64 GCCAGCACCAAA
55701952 TTACTGGTGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
106 1 0.01
107 72 0.44
108 2 0.01
109 2 0.01
110 7 0.04
111 29 0.18
112 3 0.02
113 49 0.30
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (111 bp):
ATTGACAGGCCAGCACCAAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
CAGCACCAAAAAAATTTGAATTTTTTTTAAATTACTGGTGCCGGCC
Found at i:55707740 original size:50 final size:50
Alignment explanation
Indices: 55707665--55707760 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
55707655 GATATGAGAG
* *
55707665 TTATTACCAAATTTAGGCAACTAATAGTGATTTAACCTTCCAACTTAGAA
1 TTATTACCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
* *
55707715 TTATTGCCAAATTT-GGACACCTAATAGTAATTTAACCTTCAAACTT
1 TTATTACCAAATTTAGG-CAACTAATAGTAATTTAACCTTCAAACTT
55707761 TAAAGTGAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (50 bp):
TTATTACCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
Found at i:55709142 original size:136 final size:135
Alignment explanation
Indices: 55708667--55709354 Score: 497
Period size: 128 Copynumber: 5.2 Consensus size: 135
55708657 GATGTTTTCT
* * * ** * * * *
55708667 TTAAAAGATCAATGCTTACTCATA-TTTGCTAATACT--GCGTTTTTGCAATGTAAACACCAGAT
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATA-TAAGCGTCCTTGCAGTGTAAAAACCAAAC
* * * ** * *
55708729 CACCATGTATTAATCTC-A-ATATTTGTTTGGATTCTATGTTAATGTTTCGTCACTTATGTCTAA
65 CACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAA
55708792 GATTCA
130 GATTCA
** ** * * *
55708798 TTAAAAGATCAATGTCCATTCATGTATTGCTAATATAAGTGT-CTGTGCAGTATAAAAACCAATC
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCT-TGCAGTGTAAAAACCAAAC
* * * * *
55708862 AACCAT-C-TCAA-C-C----TATTTGTTTGGATTTTATGTTGGT-TTTTTTGTCACTTATGTCT
65 CACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTAT-T-AATTATGTCT
**
55708918 GTGATTCA
128 AAGATTCA
* *
55708926 TTACAAGATCAATGTTTATTCATACATTGCTAATGTAAGCGTCCTTGCAGTGTAAAAACCAAACC
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAAACC
* *
55708991 ACCTTGCATTAATCTCAATATATTTGTTTTGATTTTATGTTGATGTTTTATTAATTATGTCTAAG
66 ACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAAG
55709056 ATTCA
131 ATTCA
* * * * * * * *
55709061 CTAAAAGATCAATTTTTGTTCATATATTTCTAGTATAAGTGT-CTGTGCAGTGTAAAAAACCAAG
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCT-TGCAGTGT-AAAAACCAAA
* * * * * * *
55709125 CCATCATGTATTTATCTCAATATGTTTGTTTGGATTTTTATGTTGATAGTTTTGTCAGTTATGTC
64 CCACCATGCATTAATCTCAATATATTTGTTTGGA-TTTTATGTTGAT-GTTTTATTAATTATGTC
*
55709190 TAACATTCA
127 TAAGATTCA
* * * * * * * **
55709199 TTAAAAGAGATCAATGCTCATTCATA-TTTGCTAATAT-TGCGT-TTTCGTAATGTAAAAACCCG
1 TT-AAA-AGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTT-GCAGTGTAAAAACCAA
* * * *
55709261 ACCACCATGTAATAATCTC---A-ATGTGTTTGGATTTTATGTTGATGTTTT-TCTCATTTATGT
63 ACCACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTAT-T-AATTATGT
*
55709321 CTAACATTCA
126 CTAAGATTCA
* *
55709331 TTCAAAGATCAATGTTCATTCATA
1 TTAAAAGATCAATGTTTATTCATA
55709355 TGTGTTTTGT
Statistics
Matches: 444, Mismatches: 88, Indels: 51
0.76 0.15 0.09
Matches are distributed among these distances:
126 4 0.01
127 21 0.05
128 72 0.16
129 4 0.01
130 23 0.05
131 31 0.07
132 42 0.09
133 30 0.07
134 3 0.01
135 56 0.13
136 60 0.14
137 40 0.09
138 32 0.07
139 11 0.02
140 15 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (135 bp):
TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAAACC
ACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAAG
ATTCA
Found at i:55728101 original size:27 final size:26
Alignment explanation
Indices: 55728064--55728147 Score: 114
Period size: 27 Copynumber: 3.2 Consensus size: 26
55728054 AGCATGGCTG
*
55728064 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
55728090 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
55728117 CCAGAACAGATATTTGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
55728144 CCAG
1 CCAG
55728148 TATACTCTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:55737918 original size:16 final size:17
Alignment explanation
Indices: 55737893--55737943 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
55737883 TTTCTTTTCC
*
55737893 TTTTGCTTCTCTATTT-
1 TTTTGTTTCTCTATTTA
55737909 TTTTGTTTCTCT-TTTA
1 TTTTGTTTCTCTATTTA
55737925 CTTTTCGTTCTCTCTATTT
1 -TTTT-GTT-TCTCTATTT
55737944 GTTGCGTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 3 0.10
16 11 0.38
17 4 0.14
18 3 0.10
19 5 0.17
20 3 0.10
ACGTcount: A:0.06, C:0.20, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTGTTTCTCTATTTA
Found at i:55737922 original size:33 final size:35
Alignment explanation
Indices: 55737873--55737943 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 35
55737863 AGTTATCCGT
* *
55737873 TTTTTTTCTTTTTCTTTTCCTTTT-GCT-TCTCTA
1 TTTTTTTCTTTCTCTTTTACTTTTCGCTCTCTCTA
* *
55737906 TTTTTTTGTTTCTCTTTTACTTTTCGTTCTCTCTA
1 TTTTTTTCTTTCTCTTTTACTTTTCGCTCTCTCTA
55737941 TTT
1 TTT
55737944 GTTGCGTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 21 0.66
34 2 0.06
35 9 0.28
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.72
Consensus pattern (35 bp):
TTTTTTTCTTTCTCTTTTACTTTTCGCTCTCTCTA
Found at i:55741201 original size:17 final size:19
Alignment explanation
Indices: 55741195--55741229 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
55741185 ATAAAATAGA
55741195 ACAATAAATCAAAGATTAG
1 ACAATAAATCAAAGATTAG
55741214 ACAATAAA--AAAGATTA
1 ACAATAAATCAAAGATTA
55741230 TAAAGAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (19 bp):
ACAATAAATCAAAGATTAG
Found at i:55744152 original size:44 final size:44
Alignment explanation
Indices: 55744089--55744175 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
55744079 GTAGGTCAAA
* *
55744089 TAATATTAAAGTAACCTACACTAATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAAC
*
55744133 TAATATTAAAATAATCTACACTAATCAGAGCTTAAGTGGGAAA
1 TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAA
55744176 TTAAAAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAAC
Found at i:55747413 original size:132 final size:133
Alignment explanation
Indices: 55747142--55747491 Score: 383
Period size: 132 Copynumber: 2.7 Consensus size: 133
55747132 GTAAAACCGA
* * * * *
55747142 AACCCAGCAC-AGTAGGGCACGATTTCTCGAATTTCTAAACAGT-GAGCATTGCCTT-ATTTT-T
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCCAAACA-TCGAGCATTGCCTTCGTTTTAA
* * * * *
55747203 AGAATTTTTA-AGAAACATGAGTGAAATTCTAAAGGGGATATTCGATTATTTTAAACCAACAGGA
64 AGAGTTTTTAGA-AAACATGAATGAAATTCCAAAGGGGACATTCGATTATTTTAAACAAACAGGA
55747267 AATCGC
128 AATCGC
* *
55747273 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAGTATTACCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTGCCTTCGTTTTAAAG
* *
55747338 AGTTTTTAGAAAACATGAATGAAATTCCAAA-GGGACATTCGATTATTTTGAGCAAAC-GAGAAA
66 AGTTTTTAGAAAACATGAATGAAATTCCAAAGGGGACATTCGATTATTTTAAACAAACAG-GAAA
*
55747401 TTGC
130 TCGC
* * * * * * * * *
55747405 AACCCAGCACGTTAGGACACGATTCCGCGAATTGCCAAATACCGAACATCGCCTTCGTTTCAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTGCCTTCGTTTTAAAG
55747470 -GATTTTTAGAAAACATGAATGA
66 AG-TTTTTAGAAAACATGAATGA
55747492 TTATAAAACT
Statistics
Matches: 186, Mismatches: 26, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
130 1 0.01
131 48 0.26
132 108 0.58
133 28 0.15
134 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (133 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAGCATTGCCTTCGTTTTAAAG
AGTTTTTAGAAAACATGAATGAAATTCCAAAGGGGACATTCGATTATTTTAAACAAACAGGAAAT
CGC
Found at i:55750182 original size:66 final size:66
Alignment explanation
Indices: 55750076--55750209 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
55750066 TTGAAAGTCC
*
55750076 GTAAGAACTGTATGAAATATCTGAAATTTTTGATATATGAATTGTTTATGAGATAACGTTATAAT
1 GTAAGAACTGTATGAAATATCTGAAATTTTTGATATATGAATTGTTTATGAGACAACGTTATAAT
55750141 A
66 A
*
55750142 GTAAGAACTGTATGAAATATCTGAAATTTTTGATATATGAATTGTTTATGAGACAACTTTATAAT
1 GTAAGAACTGTATGAAATATCTGAAATTTTTGATATATGAATTGTTTATGAGACAACGTTATAAT
55750207 A
66 A
55750208 GT
1 GT
55750210 GATATTCGGG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (66 bp):
GTAAGAACTGTATGAAATATCTGAAATTTTTGATATATGAATTGTTTATGAGACAACGTTATAAT
A
Found at i:55757134 original size:15 final size:15
Alignment explanation
Indices: 55757111--55757140 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55757101 TCTCATCACC
*
55757111 AAAACTAAACAAAAG
1 AAAAATAAACAAAAG
55757126 AAAAATAAACAAAAG
1 AAAAATAAACAAAAG
55757141 CTTTGTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAATAAACAAAAG
Found at i:55761001 original size:25 final size:25
Alignment explanation
Indices: 55760973--55761021 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
55760963 TCAAGCCTAT
*
55760973 TTTGATTTGGATCGTAGAGAGCAAC
1 TTTGATTTGGATCATAGAGAGCAAC
55760998 TTTGATTTGGATCATAGAGAGCAA
1 TTTGATTTGGATCATAGAGAGCAA
55761022 TCTAACCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (25 bp):
TTTGATTTGGATCATAGAGAGCAAC
Found at i:55762033 original size:25 final size:24
Alignment explanation
Indices: 55761999--55762379 Score: 124
Period size: 25 Copynumber: 15.6 Consensus size: 24
55761989 AAATGAATTA
*
55761999 AAATAATATAAAAATATTTAAAAGT
1 AAATAATATAAAAAGATTTAAAA-T
* * *
55762024 AAATAGTATAACAAGGTTTAAAAT
1 AAATAATATAAAAAGATTTAAAAT
* ** * *
55762048 AAATGATGAATAAAACCA-ATAAAGT
1 AAATAAT--ATAAAAAGATTTAAAAT
* *
55762073 --ACAACATAAAAAG-TTTAAAAT
1 AAATAATATAAAAAGATTTAAAAT
*
55762094 AAATAATATATAAAAAGGTTTAAAAT
1 AAAT-A-ATATAAAAAGATTTAAAAT
* * *
55762120 AAATAATATATGAAACGATTCAGAAT
1 AAATAATATA--AAAAGATTTAAAAT
* * *
55762146 AAACAATATATAAA-TTTTAAAAT
1 AAATAATATAAAAAGATTTAAAAT
* ** *
55762169 -AA-AGTATAAATCGATTTGAAAT
1 AAATAATATAAAAAGATTTAAAAT
* *
55762191 AAATAGTTTATAAAGAA-ATTTAAAGT
1 AAATA--ATATAAA-AAGATTTAAAAT
* *
55762217 TAATAATATATAAAATAATTTAAAAT
1 AAATAATATA-AAAA-GATTTAAAAT
** *
55762243 -AATAATGCAAAACA-AATTAAAAT
1 AAATAATATAAAA-AGATTTAAAAT
* *
55762266 AAATAATGTGTTAAAACA-ATTTAAAAC
1 AAATAA--T-ATAAAA-AGATTTAAAAT
* *
55762293 AAATACTATATGAAAA-ACTTAAAAT
1 AAATA--ATATAAAAAGATTTAAAAT
* *
55762318 AAATAATAATAAAACTG-TTCAAAAT
1 AAATAAT-ATAAAA-AGATTTAAAAT
* * *
55762343 AAATACTAT-GAAAGATTTATAAT
1 AAATAATATAAAAAGATTTAAAAT
*
55762366 AAATAAAATAAAAA
1 AAATAATATAAAAA
55762380 AGAATACAAT
Statistics
Matches: 257, Mismatches: 68, Indels: 63
0.66 0.18 0.16
Matches are distributed among these distances:
21 17 0.07
22 10 0.04
23 36 0.14
24 39 0.15
25 69 0.27
26 66 0.26
27 19 0.07
29 1 0.00
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (24 bp):
AAATAATATAAAAAGATTTAAAAT
Found at i:55762128 original size:26 final size:26
Alignment explanation
Indices: 55762078--55762159 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
55762068 AAAGTACAAC
55762078 ATAAAAA-GTTTAAAATAAATAATAT
1 ATAAAAAGGTTTAAAATAAATAATAT
55762103 ATAAAAAGGTTTAAAATAAATAATAT
1 ATAAAAAGGTTTAAAATAAATAATAT
* * * * * *
55762129 ATGAAACGATTCAGAATAAACAATAT
1 ATAAAAAGGTTTAAAATAAATAATAT
55762155 ATAAA
1 ATAAA
55762160 TTTTAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 7 0.14
26 42 0.86
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (26 bp):
ATAAAAAGGTTTAAAATAAATAATAT
Found at i:55762269 original size:27 final size:26
Alignment explanation
Indices: 55762239--55762332 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 26
55762229 AAATAATTTA
55762239 AAATAATAATGCAAAACAAATTAAAAT
1 AAATAATAATG-AAAACAAATTAAAAT
* * *
55762266 AAATAAT-GTGTTAAAACAATTTAAAAC
1 AAATAATAATG--AAAACAAATTAAAAT
* *
55762293 AAATACTATATG-AAA-AACTTAAAAT
1 AAATAATA-ATGAAAACAAATTAAAAT
55762318 AAATAATAAT-AAAAC
1 AAATAATAATGAAAAC
55762333 TGTTCAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
24 5 0.09
25 15 0.28
26 5 0.09
27 26 0.49
29 2 0.04
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (26 bp):
AAATAATAATGAAAACAAATTAAAAT
Found at i:55762331 original size:50 final size:48
Alignment explanation
Indices: 55762259--55762378 Score: 116
Period size: 48 Copynumber: 2.4 Consensus size: 48
55762249 GCAAAACAAA
** *
55762259 TTAAAATAAATAATGTGTTAAAACAATTTAAAACAAATACTATATGAAAAAC
1 TTAAAATAAATAA--TAATAAAACAATTCAAAACAAATAC--TATGAAAAAC
** * * *
55762311 TTAAAATAAATAATAATAAAACTGTTCAAAATAAATACTATGAAAGAT
1 TTAAAATAAATAATAATAAAACAATTCAAAACAAATACTATGAAAAAC
*
55762359 TTATAATAAATAA-AATAAAA
1 TTAAAATAAATAATAATAAAA
55762379 AAGAATACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
47 7 0.12
48 20 0.34
50 19 0.32
52 13 0.22
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (48 bp):
TTAAAATAAATAATAATAAAACAATTCAAAACAAATACTATGAAAAAC
Found at i:55762655 original size:11 final size:11
Alignment explanation
Indices: 55762641--55762680 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
55762631 TGTTTTCTCC
55762641 CTATTTTACTA
1 CTATTTTACTA
55762652 CTATTTTACTA
1 CTATTTTACTA
* *
55762663 TTATGTTACTA
1 CTATTTTACTA
*
55762674 CTGTTTT
1 CTATTTT
55762681 GCTGTTATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:55762740 original size:17 final size:17
Alignment explanation
Indices: 55762706--55762770 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
55762696 ATATTGTATA
55762706 AATTTTATT-TTATTTTT
1 AATTTTATTATTA-TTTT
55762723 AATTTTATTATTATTTT
1 AATTTTATTATTATTTT
**
55762740 AA--ACA-TATT-TTTT
1 AATTTTATTATTATTTT
55762753 AATTTTATTATTATTTT
1 AATTTTATTATTATTTT
55762770 A
1 A
55762771 GAATCATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 6 0.15
14 4 0.10
15 2 0.05
16 4 0.10
17 20 0.51
18 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
AATTTTATTATTATTTT
Found at i:55762927 original size:12 final size:12
Alignment explanation
Indices: 55762906--55762939 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
55762896 TATATATTTT
*
55762906 AAAATTATATAA
1 AAAATAATATAA
55762918 AAAATAATATAA
1 AAAATAATATAA
55762930 AAAATAATAT
1 AAAATAATAT
55762940 GGGCGGGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:55764610 original size:44 final size:44
Alignment explanation
Indices: 55764551--55764947 Score: 226
Period size: 44 Copynumber: 8.7 Consensus size: 44
55764541 AGCTTCACTA
55764551 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
* * * * *
55764595 TGCTCCACTGTAACTTTAGTGAGATAAGGTTTGTGATTTGTAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT-A-----A-CTTCAACC
* * * * ** **
55764646 TACTCCACTGCAACTTTAGGGAGATAA-GATTCACTATTTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTT--GTAACTTCAACC
** * *
55764691 TGCTCCACTATAACTTCAGGGAGAAAAGACTTGTAACTTCGAA-C
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTC-AACC
* * * **
55764735 TGCCCCACTGCAACTTTAGGGGGATAAGG-TTCGTGGCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTT-GTAACTTCAACC
* * *
55764779 TGCTCCACTACAATTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGT-A-----A-CTTCAA-CC
* * ** * * **
55764831 -ACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCT-TGTAACTTCAACC
* * * * *
55764875 TGCTCCATTGCAACTTCAAGGAGATGAGACTTGTAAATTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
* *
55764919 TACTCCACTGCAACTTCAGGAAGATAAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGG
55764948 TTAGGGGCTT
Statistics
Matches: 263, Mismatches: 66, Indels: 48
0.70 0.18 0.13
Matches are distributed among these distances:
43 4 0.02
44 123 0.47
45 61 0.23
46 2 0.01
50 4 0.02
51 64 0.24
52 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
Found at i:55764874 original size:184 final size:183
Alignment explanation
Indices: 55764555--55764990 Score: 570
Period size: 184 Copynumber: 2.4 Consensus size: 183
55764545 TCACTATGCT
** * *
55764555 CCACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTGCTCCACTGTAACTTTAGTGAGAT
1 CCACTGCAACTTCAGGGAGATAAGG-TTGTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
* * * *
55764620 AAGGTTTGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCACTATTT
65 AAGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCACTATCT
* * * *
55764685 TCAGTCTGCTCCACTATAACTTCAGGGAGAAAAGACTTGTAACTTCGAA-CTGCC
130 TCAGTCTGCTCCACTACAACTTCAAGGAGAAAAGACTTGTAAATTC-AACCTACC
* * *
55764739 CCACTGCAACTTTAGGGGGATAAGGTTCGTGGCTTCAACCTGCTCCACTACAA-TTTCAGGGAGA
1 CCACTGCAACTTCAGGGAGATAAGGTT-GTGGCTTCAACCTGCTCCACTGCAACTTT-AGGGAGA
*
55764803 TAAGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATC
64 TAAGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCACTATC
* * ** *
55764868 TTCAGTCTGCTCCATTGCAACTTCAAGGAGATGAGACTTGTAAATTCAACCTACT
129 TTCAGTCTGCTCCACTACAACTTCAAGGAGAAAAGACTTGTAAATTCAACCTACC
* * * * * *
55764923 CCACTGCAACTTCAGGAAGATAAGGTTAGGGGCTTCGATCTGCTCTACTGCAACTTTAAGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGGTT-GTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGAT
55764988 AAG
65 AAG
55764991 ATTCGCCATG
Statistics
Matches: 217, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
183 7 0.03
184 207 0.95
185 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (183 bp):
CCACTGCAACTTCAGGGAGATAAGGTTGTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATA
AGGTTTGTGATTTGTAGCTTCAATCCACTCCACTGCAACTTCAGAGAGATAAGATTCACTATCTT
CAGTCTGCTCCACTACAACTTCAAGGAGAAAAGACTTGTAAATTCAACCTACC
Found at i:55765384 original size:44 final size:44
Alignment explanation
Indices: 55765250--55765794 Score: 257
Period size: 44 Copynumber: 12.4 Consensus size: 44
55765240 TCCCTAGAAC
* *** *
55765250 TTCAAGGAGATAAGAATTATGGCTTCGAGCCGTTCCAATACCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * ** ** *
55765294 TTC-AGG-GAGAAGAGA-TGTAGCTTCAATCTACTCCGCTGGAAC
1 TTCAAGGAGATAAGA-ATTGTGGCTTCGAGCTACTCCAATGCCAT
* * *
55765336 TTCAAAGAGATAAGAATTGTGGCTTCGAGCCACTCCAATCCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * ** * *
55765380 TTCAAGGAGA-AGAGATTTGTAGCTTCAATCTACTCCGCTAG-AAC
1 TTCAAGGAGATA-AGAATTGTGGCTTCGAGCTACTCCAAT-GCCAT
* *
55765424 TTCAAGGAGATACGAATTGTGGCTTCGAGCTGCTCCAATGCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * ** ** *
55765468 TTC-AGG-GAGAAGAGATCTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGATAAGA-AT-TGTGGCTTCGAGCTACTCCAATGCCAT
* ** * *
55765512 TTCAAGGAGATATGAATTGTGGCTTCGAGCCGCTCCTATTCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * * *** ** *
55765556 TTCAAGAAGA-AGAGATTTGTAGTTTCGATCTACTCTGCTGGAAC
1 TTCAAGGAGATA-AGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * *
55765600 TTCAAGGAGATATGAATTGTGGCTTCGAGCTGCTCCAATTCCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * * *** **
55765644 TTCAAGGAGAAAAGATTTGTAGTTTCGATCTACTCTGCTGGAACT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCA-T
* ** *
55765689 TT-AAGGAGATACGAATTGTGGCTTCGAGCCGCTCCAATGTCAT
1 TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
* * * * * * *
55765732 TTCAGGGAGA-AGAGATTTGTAGCTTCGATCTACTCCATTAG-AAC
1 TTCAAGGAGATA-AGAATTGTGGCTTCGAGCTACTCCAAT-GCCAT
55765776 TTCAAGGAGATAAGAATTG
1 TTCAAGGAGATAAGAATTG
55765795 ATGATTTCAA
Statistics
Matches: 346, Mismatches: 136, Indels: 38
0.67 0.26 0.07
Matches are distributed among these distances:
42 28 0.08
43 19 0.05
44 282 0.82
45 12 0.03
46 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TTCAAGGAGATAAGAATTGTGGCTTCGAGCTACTCCAATGCCAT
Found at i:55765441 original size:88 final size:88
Alignment explanation
Indices: 55765212--55765794 Score: 830
Period size: 88 Copynumber: 6.7 Consensus size: 88
55765202 GTAATTTTAG
* * *
55765212 GGAGAAGAGATTTGTAGTTTCGATCTACTCC-CTAGAACTTCAAGGAGATAAGAATTATGGCTTC
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
* * *
55765276 GAGCCGTTCCAATACCATTTCAG
66 GAGCCGCTCCAATGCCATTTCAA
* *
55765299 GGAGAAGAGA--TGTAGCTTCAATCTACTCCGCTGGAACTTCAAAGAGATAAGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
* *
55765362 GAGCCACTCCAATCCCATTTCAA
66 GAGCCGCTCCAATGCCATTTCAA
* * *
55765385 GGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTAGAACTTCAAGGAGATACGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
* *
55765450 GAGCTGCTCCAATGCCATTTCAG
66 GAGCCGCTCCAATGCCATTTCAA
* *
55765473 GGAGAAGAGATCTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATATGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
* *
55765538 GAGCCGCTCCTATTCCATTTCAA
66 GAGCCGCTCCAATGCCATTTCAA
* * * *
55765561 GAAGAAGAGATTTGTAGTTTCGATCTACTCTGCTGGAACTTCAAGGAGATATGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
* *
55765626 GAGCTGCTCCAATTCCATTTCAA
66 GAGCCGCTCCAATGCCATTTCAA
* * * * *
55765649 GGAGAAAAGATTTGTAGTTTCGATCTACTCTGCTGGAACTTTAAGGAGATACGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
* *
55765714 GAGCCGCTCCAATGTCATTTCAG
66 GAGCCGCTCCAATGCCATTTCAA
** *
55765737 GGAGAAGAGATTTGTAGCTTCGATCTACTCCATTAGAACTTCAAGGAGATAAGAATTG
1 GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
55765795 ATGATTTCAA
Statistics
Matches: 447, Mismatches: 46, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
85 17 0.04
86 59 0.13
87 10 0.02
88 361 0.81
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
GGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGTGGCTTC
GAGCCGCTCCAATGCCATTTCAA
Found at i:55765975 original size:130 final size:130
Alignment explanation
Indices: 55765800--55766609 Score: 1161
Period size: 130 Copynumber: 6.2 Consensus size: 130
55765790 AATTGATGAT
* * * * *
55765800 TTCAACCTGCTCCACTACTGCTTAGGGAGATAGGATGGTGACTTAAATCTGCTCCACTACTCCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * **
55765865 AGGGAGACAAGATTTGTTATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTACAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
*
55765930 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATTTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* ** *
55765995 AGGGAGATAAGATTCGTTGTCTACGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
55766060 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATTTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * ** *
55766125 AGGGAGATAAGATTTGTTGTCTACGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
55766190 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * *
55766255 AGGGAGATAATATTCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* * * *
55766320 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATTGTGGCTTAAATATGCTCCACTATTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * *
55766385 AGGGTGACAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
55766450 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATTGTGGCTTAAATCTGCTCCACTACTGCAT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * ** ** **
55766515 AGGGAAACAATATTCGTCGTCTTCGATCTATTGTACTACTACTTAGGGAGATAAGATCTACAATC
66 AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
55766580 TTCAGCCTACTCCACTACTGCTTAGGGAGA
1 TTCAGCCTACTCCACTACTGCTTAGGGAGA
55766610 CAAGATTCGT
Statistics
Matches: 627, Mismatches: 53, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 627 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (130 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
AGGGAGACAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
Found at i:55766626 original size:44 final size:44
Alignment explanation
Indices: 55765806--55766626 Score: 524
Period size: 44 Copynumber: 18.9 Consensus size: 44
55765796 TGATTTCAAC
* * * * *
55765806 CTGCTCCACTACTGCTTAGGGAGATAGGA-TGGTGA-CTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
* * * * *
55765848 CTGCTCCACTACTCCTTAGGGAGACAAGATTTGTTATCTT-TGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAG-T
* * *
55765892 CTGTTCCACTACTGCTTAGGGAGACAAGA-TC-TACAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGT-C-ATCTTCAGT
* * * ** * *
55765936 CTACTCCACTACTGCTTAGGGAGATAGGA-TAGT-GGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
* ** *
55765978 TTGCTCCACTACTGCTTAGGGAGATAAGATTCGTTGTCTAC-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAG-T
* * *
55766022 CTGCTCCACTACTACTTAGGGAGATAAGA-TCTGTAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTC-GTCATCTTCAGT
** * * ** * *
55766066 CTATTCCACTACTGCTTAGGGAGATAGGA-TAGT-GGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
* * ** *
55766108 TTGCTCCACTACTGCTTAGGGAGATAAGATTTGTTGTCTAC-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAG-T
* * *
55766152 CTGCTCCACTACTACTTAGGGAGATAAGA-TCTGTAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTC-GTCATCTTCAGT
** * * ** * *
55766196 CTATTCCACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
*
55766238 CTGCTCCACTACTGCTTAGGGAGATAATATTCGTCATCTTC-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAG-T
* *
55766282 CTGCTCCACTACTGCTTAGGGAGATAAGATAT-GTAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGAT-TCGTCATCTTCAGT
** * ** * *
55766326 CTATTCCACTACTGCTTAGGGAGATAGGATT-GT-GGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
* * * * * *
55766368 ATGCTCCACTATTGCTTAGGGTGACAAAATTCGCCATCTTC-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAG-T
* * *
55766412 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTC-GTCATCTTCAGT
* * ** * *
55766456 CTACTCCACTACTGCTTAGGGAGATAGGATT-GT-GGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
* * * * *
55766498 CTGCTCCACTACTGCATAGGGAAACAATATTCGTCGTCTTC-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAG-T
** ** * *
55766542 CTATTGTACTACTACTTAGGGAGATAAGA-TC-TACAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGT-C-ATCTTCAGT
* * *
55766586 CTACTCCACTACTGCTTAGGGAGACAAGATTCGTCGTCTTC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTC
55766627 GATCTGTTCC
Statistics
Matches: 594, Mismatches: 149, Indels: 70
0.73 0.18 0.09
Matches are distributed among these distances:
42 171 0.29
43 34 0.06
44 376 0.63
45 12 0.02
46 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATTCGTCATCTTCAGT
Found at i:55772304 original size:47 final size:52
Alignment explanation
Indices: 55772200--55772326 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 52
55772190 AATTAAAGTA
* *
55772200 ATATAAAAATATTTAAAAGTAAATAATATAACAAGGTTTAAAATAAATGATG
1 ATATAAAAACATTTAAAAGTAAATAATATAACAAGGTTTAAAATAAATAATG
*
55772252 A-ATAAAACCATTTAAAA-TACAA-AATA-AA-AA-GTTTAAAATAAATAAT-
1 ATATAAAAACATTTAAAAGTA-AATAATATAACAAGGTTTAAAATAAATAATG
**
55772298 ATATAAAAAGGTTTAAAA-TAAATAATATA
1 ATATAAAAACATTTAAAAGTAAATAATATA
55772327 TGAAACGGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
46 3 0.05
47 34 0.52
48 3 0.05
49 2 0.03
50 6 0.09
51 16 0.25
52 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (52 bp):
ATATAAAAACATTTAAAAGTAAATAATATAACAAGGTTTAAAATAAATAATG
Found at i:55772482 original size:27 final size:25
Alignment explanation
Indices: 55772193--55772545 Score: 146
Period size: 26 Copynumber: 14.2 Consensus size: 25
55772183 ACAGATGAAT
55772193 TAAAGTAA-TATAAAA-ATATTTAAAA
1 TAAA-TAATTATAAAACA-ATTTAAAA
55772218 GTAAATAA-TAT--AACAAGGTTTAAAA
1 -TAAATAATTATAAAACAA--TTTAAAA
* * *
55772243 TAAATGATGAATAAAACCATTTAAAA
1 TAAATAAT-TATAAAACAATTTAAAA
* *
55772269 TACA-AA--ATAAAA-AGTTTAAAA
1 TAAATAATTATAAAACAATTTAAAA
*
55772290 TAAATAATATATAAAA-AGGTTTAAAA
1 TAAATAAT-TATAAAACA-ATTTAAAA
* ** *
55772316 TAAATAATATATGAAACGGTTTAGAA
1 TAAATAAT-TATAAAACAATTTAAAA
* * * * *
55772342 CAAAAAAATATATAA-ATTTTAAAA
1 TAAATAATTATAAAACAATTTAAAA
* * *
55772366 T--A-AAGTATAAATCAATTTGAAA
1 TAAATAATTATAAAACAATTTAAAA
* *
55772388 TAAATAGTTTATAAAACAATTTAAAG
1 TAAATA-ATTATAAAACAATTTAAAA
* *
55772414 TGAATAATATATAAAATAATTTAAAA
1 TAAATAAT-TATAAAACAATTTAAAA
** * *
55772440 T-AATAA-TGCAATACAAATTAAAA
1 TAAATAATTATAAAACAATTTAAAA
55772463 TAAATAATGTGATAAAACAATTTAAAA
1 TAAATAAT-T-ATAAAACAATTTAAAA
* * * **
55772490 CAAATACTATATGAAA-AGCTTAAAA
1 TAAATAAT-TATAAAACAATTTAAAA
* ** *
55772515 TAAATAATAATAAAACTGTTCAAAA
1 TAAATAATTATAAAACAATTTAAAA
55772540 TAAATA
1 TAAATA
55772546 CTATGAAAGA
Statistics
Matches: 247, Mismatches: 56, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
21 17 0.07
22 17 0.07
23 16 0.06
24 24 0.10
25 58 0.23
26 92 0.37
27 19 0.08
28 4 0.02
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (25 bp):
TAAATAATTATAAAACAATTTAAAA
Found at i:55772519 original size:25 final size:24
Alignment explanation
Indices: 55772457--55772549 Score: 64
Period size: 25 Copynumber: 3.7 Consensus size: 24
55772447 GCAATACAAA
* * *
55772457 TTAAAATAAATAATGTGATAAAACAAT
1 TTAAAATAAATACTAT-ATAAAAC--G
*
55772484 TTAAAACAAATACTATATGAAAA-G
1 TTAAAATAAATACTATAT-AAAACG
*
55772508 CTTAAAATAAATAATA-ATAAAACTG
1 -TTAAAATAAATACTATATAAAAC-G
55772533 TTCAAAATAAATACTAT
1 TT-AAAATAAATACTAT
55772550 GAAAGATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
23 4 0.08
24 4 0.08
25 26 0.49
26 2 0.04
27 17 0.32
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (24 bp):
TTAAAATAAATACTATATAAAACG
Found at i:55774783 original size:35 final size:35
Alignment explanation
Indices: 55774744--55774812 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
55774734 GACAATGTTT
*
55774744 GTTATGACCATTTAAAGAATTCAAACA-TATTTTTA
1 GTTATGACCATCTAAAGAATTCAAA-AGTATTTTTA
55774779 GTTATGACCATCTAAAGAATTCAAAAGTATTTTT
1 GTTATGACCATCTAAAGAATTCAAAAGTATTTTT
55774813 CTTTACAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (35 bp):
GTTATGACCATCTAAAGAATTCAAAAGTATTTTTA
Found at i:55776369 original size:27 final size:28
Alignment explanation
Indices: 55776331--55776391 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
55776321 TTCTGTATTT
*
55776331 TTTTTATATTT-GAATTTAGTATCTCTA
1 TTTTTATATTTGGAATTTAATATCTCTA
* *
55776358 TTTTTATTTTTGGGAATTTAATTTCTCTA
1 TTTTTATATTT-GGAATTTAATATCTCTA
55776387 TTTTT
1 TTTTT
55776392 TAAGTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.34
29 19 0.66
ACGTcount: A:0.21, C:0.07, G:0.08, T:0.64
Consensus pattern (28 bp):
TTTTTATATTTGGAATTTAATATCTCTA
Found at i:55777465 original size:17 final size:19
Alignment explanation
Indices: 55777427--55777467 Score: 59
Period size: 17 Copynumber: 2.2 Consensus size: 19
55777417 ATGAATAAAA
55777427 TAATATTTAGTCTCTAAATT
1 TAATATTTAGTCTC-AAATT
55777447 TAATATTT-GTCTC-AATT
1 TAATATTTAGTCTCAAATT
55777464 TAAT
1 TAAT
55777468 CTATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATATTTAGTCTCAAATT
Found at i:55778103 original size:28 final size:28
Alignment explanation
Indices: 55778063--55778153 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
55778053 GTCATTATCA
55778063 ACCCCATAAGTTATAAAACTCTTCTTAT
1 ACCCCATAAGTTATAAAACTCTTCTTAT
55778091 ACCCCATAAGTTATAAAACTCTT-TCTAT
1 ACCCCATAAGTTATAAAACTCTTCT-TAT
* * *
55778119 ACCCCATAAGTTATAAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCTTAT
*
55778147 ATCCCAT
1 ACCCCAT
55778154 TAATATGGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 1 0.02
28 56 0.98
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCTTAT
Found at i:55781477 original size:6 final size:6
Alignment explanation
Indices: 55781466--55781495 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
55781456 CATATATGAA
*
55781466 AAATAT AAATAT AAATAC AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT
55781496 CACATAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATAT
Found at i:55783753 original size:25 final size:25
Alignment explanation
Indices: 55783704--55783753 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
55783694 TCATGTGTCT
*
55783704 CATTTTCATGTTTCAATTCACTATCC
1 CATTTTCA-GTTTCAATTCAATATCC
55783730 CATTTTCA-TTTCACATTCAATATC
1 CATTTTCAGTTTCA-ATTCAATATC
55783754 ATCCAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
26 8 0.36
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (25 bp):
CATTTTCAGTTTCAATTCAATATCC
Found at i:55784868 original size:21 final size:22
Alignment explanation
Indices: 55784834--55784878 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
55784824 TGGCCGTGAG
55784834 TTCTTCTTCCTTTCTTTCCCTTT
1 TTCTTCTTCCTTTCTTT-CCTTT
55784857 TTCTT-TT-CTTTCTTTCCTTT
1 TTCTTCTTCCTTTCTTTCCTTT
55784877 TT
1 TT
55784879 AATTTCGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 2 0.09
23 5 0.23
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TTCTTCTTCCTTTCTTTCCTTT
Found at i:55784884 original size:20 final size:21
Alignment explanation
Indices: 55784843--55784884 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
55784833 GTTCTTCTTC
**
55784843 CTTTCTTTCCCTTTTTCTTTT
1 CTTTCTTTCCCTTTTTAATTT
55784864 CTTTCTTT-CCTTTTTAATTT
1 CTTTCTTTCCCTTTTTAATTT
55784884 C
1 C
55784885 GTTGCCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCCCTTTTTAATTT
Found at i:55784900 original size:2 final size:2
Alignment explanation
Indices: 55784893--55784919 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55784883 TCGTTGCCTT
55784893 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
55784920 TTTATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:55788806 original size:12 final size:13
Alignment explanation
Indices: 55788786--55788827 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
55788776 TTAACATTGC
55788786 TTTTGAAAAA-TG
1 TTTTGAAAAAGTG
*
55788798 TTTTTAAAAAGTG
1 TTTTGAAAAAGTG
* *
55788811 TTGTGGAAAAGTG
1 TTTTGAAAAAGTG
55788824 TTTT
1 TTTT
55788828 TGAGAAATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (13 bp):
TTTTGAAAAAGTG
Found at i:55791386 original size:13 final size:13
Alignment explanation
Indices: 55791353--55791380 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55791343 TAACAAAAAG
55791353 ATAATTTATTTTA
1 ATAATTTATTTTA
55791366 ATAATTTATTTTA
1 ATAATTTATTTTA
55791379 AT
1 AT
55791381 TTTTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATAATTTATTTTA
Found at i:55802005 original size:13 final size:13
Alignment explanation
Indices: 55801989--55802013 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55801979 ACCAAAATAC
55801989 AAAAAAAAAAAGG
1 AAAAAAAAAAAGG
55802002 AAAAAAAAAAAG
1 AAAAAAAAAAAG
55802014 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGG
Found at i:55806859 original size:20 final size:19
Alignment explanation
Indices: 55806821--55806867 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
55806811 TTTTAATTTA
55806821 TTTGGTTTTATTTATTGTT
1 TTTGGTTTTATTTATTGTT
55806840 TTTGGTTTCTATTT-TCTGTT
1 TTTGGTTT-TATTTAT-TGTT
55806860 TTT-GTTTT
1 TTTGGTTTT
55806868 TGTATGGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 12 0.46
ACGTcount: A:0.06, C:0.04, G:0.15, T:0.74
Consensus pattern (19 bp):
TTTGGTTTTATTTATTGTT
Found at i:55807723 original size:14 final size:14
Alignment explanation
Indices: 55807704--55807730 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55807694 AAAAATTAAT
55807704 AAAAATTAGAAAAA
1 AAAAATTAGAAAAA
55807718 AAAAATTAGAAAA
1 AAAAATTAGAAAA
55807731 CTATAAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAATTAGAAAAA
Found at i:55807874 original size:18 final size:18
Alignment explanation
Indices: 55807768--55807865 Score: 56
Period size: 18 Copynumber: 5.3 Consensus size: 18
55807758 AGTATCTAGC
*
55807768 ATTATAAAATACTATTAATAT
1 ATTATAAAA-A-TATTAA-AA
*
55807789 ATTATAAAAATATGAAAA
1 ATTATAAAAATATTAAAA
* * *
55807807 ATCATTGAAATTATTAACAA
1 ATTA-TAAAAATATTAA-AA
** *
55807827 A--ATAGGAACATTAAAA
1 ATTATAAAAATATTAAAA
*
55807843 ATTATAAAAATATTAAAT
1 ATTATAAAAATATTAAAA
55807861 ATTAT
1 ATTAT
55807866 TAATATATTG
Statistics
Matches: 58, Mismatches: 15, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
16 3 0.05
17 7 0.12
18 21 0.36
19 14 0.24
20 4 0.07
21 9 0.16
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (18 bp):
ATTATAAAAATATTAAAA
Found at i:55810847 original size:19 final size:19
Alignment explanation
Indices: 55810823--55810878 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
55810813 ATTGGTGTAA
55810823 ATTT-AAACTTTTTCTATTT
1 ATTTAAAACTTTTT-TATTT
**
55810842 ATTTAAAACCATTTTATTT
1 ATTTAAAACTTTTTTATTT
* *
55810861 ATTTCAAACTTTTGTATT
1 ATTTAAAACTTTTTTATT
55810879 GAGTTATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 23 0.77
20 7 0.23
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTAAAACTTTTTTATTT
Found at i:55811148 original size:14 final size:15
Alignment explanation
Indices: 55811123--55811151 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55811113 ATATATATAT
55811123 ATATTATATTTTAAA
1 ATATTATATTTTAAA
55811138 ATATT-TATTTTAAA
1 ATATTATATTTTAAA
55811152 TTGTTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTTTAAA
Found at i:55814662 original size:15 final size:14
Alignment explanation
Indices: 55814642--55814705 Score: 56
Period size: 15 Copynumber: 4.3 Consensus size: 14
55814632 AAGCCCGCCC
55814642 AAAAAAAAACCTAA
1 AAAAAAAAACCTAA
***
55814656 TAAAAAAAAAGAAGAA
1 -AAAAAAAAA-CCTAA
55814672 AAAAGAAAAACCTAA
1 AAAA-AAAAACCTAA
*
55814687 CAAAAAAAAAACTAA
1 -AAAAAAAAACCTAA
55814702 AAAA
1 AAAA
55814706 CCCTTGCCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.10
15 24 0.62
16 11 0.28
ACGTcount: A:0.80, C:0.09, G:0.05, T:0.06
Consensus pattern (14 bp):
AAAAAAAAACCTAA
Found at i:55814663 original size:16 final size:15
Alignment explanation
Indices: 55814642--55814705 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 15
55814632 AAGCCCGCCC
55814642 AAAAAAAAACCTAATA
1 AAAAAAAAACCTAA-A
**
55814658 AAAAAAAAGA-AGAAA
1 AAAAAAAA-ACCTAAA
*
55814673 AAAGAAAAACCTAACA
1 AAAAAAAAACCTAA-A
55814689 AAAAAAAAA-CTAAA
1 AAAAAAAAACCTAAA
55814703 AAA
1 AAA
55814706 CCCTTGCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 19 0.49
17 1 0.03
ACGTcount: A:0.80, C:0.09, G:0.05, T:0.06
Consensus pattern (15 bp):
AAAAAAAAACCTAAA
Found at i:55815150 original size:22 final size:23
Alignment explanation
Indices: 55815118--55815181 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 23
55815108 ACCGGATTTC
*
55815118 CTTTTCCCCCTCCCTTCTCTCTT
1 CTTTTCTCCCTCCCTTCTCTCTT
55815141 CTTTCTCCCTCCCTCCCTTCTCTCTT
1 CTTT-T--CTCCCTCCCTTCTCTCTT
*
55815167 C-TTTCTCCCTTCCTT
1 CTTTTCTCCCTCCCTT
55815182 TTTTTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
22 10 0.28
23 4 0.11
24 2 0.06
25 2 0.06
26 18 0.50
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (23 bp):
CTTTTCTCCCTCCCTTCTCTCTT
Found at i:55815158 original size:26 final size:26
Alignment explanation
Indices: 55815125--55815176 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55815115 TTCCTTTTCC
55815125 CCCTCCCTTCTCTCTTCTTTCTCCCT
1 CCCTCCCTTCTCTCTTCTTTCTCCCT
55815151 CCCTCCCTTCTCTCTTCTTTCTCCCT
1 CCCTCCCTTCTCTCTTCTTTCTCCCT
55815177 TCCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (26 bp):
CCCTCCCTTCTCTCTTCTTTCTCCCT
Found at i:55815744 original size:16 final size:17
Alignment explanation
Indices: 55815713--55815745 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
55815703 TTGTATATAT
55815713 TATATTTATATTATGTA
1 TATATTTATATTATGTA
*
55815730 TATATTT-TTTTATGTA
1 TATATTTATATTATGTA
55815746 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:55818306 original size:24 final size:24
Alignment explanation
Indices: 55818263--55818312 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55818253 TTCCTTTCTT
*
55818263 TTGCATTCATTCCATACATTTGCA
1 TTGCATTCATTCCATACATTGGCA
*
55818287 TTGCATTGCATTGCAT-CATTGGCA
1 TTGCATT-CATTCCATACATTGGCA
55818311 TT
1 TT
55818313 AAACTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (24 bp):
TTGCATTCATTCCATACATTGGCA
Found at i:55825431 original size:18 final size:18
Alignment explanation
Indices: 55825396--55825429 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55825386 GTACAAGAGC
55825396 CTCAACGCAAGGACAAAG
1 CTCAACGCAAGGACAAAG
*
55825414 CTCAAC-CAAGGGCAAA
1 CTCAACGCAAGGACAAA
55825430 AGAGTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (18 bp):
CTCAACGCAAGGACAAAG
Found at i:55825832 original size:68 final size:68
Alignment explanation
Indices: 55825748--55826017 Score: 232
Period size: 61 Copynumber: 4.0 Consensus size: 68
55825738 GTTTTATTTC
* *
55825748 AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTTT
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTT
**
55825813 TTG
66 TAA
* ** * * *
55825816 TATGTTCAACTCATATTGCGAGATGTGAGCTGAGCCTCAGGACGCGCTGA-G----GT-AA-TTT
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTT
55825874 TAA
66 TAA
* *
55825877 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAATTT
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTGTCAA--T
55825941 CTGTTGTCAA
63 -T-TT-T-AA
* * * * * * *
55825951 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGATATTTTCAATT
1 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTGTCAATT
55826016 TT
64 TT
55826018 CGTTTTTCAA
Statistics
Matches: 161, Mismatches: 24, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
61 46 0.29
62 3 0.02
63 2 0.01
66 1 0.01
67 3 0.02
68 42 0.26
71 1 0.01
72 4 0.02
73 2 0.01
74 40 0.25
75 3 0.02
76 14 0.09
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (68 bp):
AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTTT
TAA
Found at i:55826176 original size:165 final size:159
Alignment explanation
Indices: 55825875--55826455 Score: 637
Period size: 165 Copynumber: 3.7 Consensus size: 159
55825865 AGGTAATTTT
*
55825875 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *** * * * *
55825940 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGA
66 TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGG
55826005 TATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTC
129 TATTTTCAA-TTTC-TTTTTCAATTT-TG-CTTTC
* *
55826040 AAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACATGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
55826105 TCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
66 TCTGTTGTC--AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
55826170 TATTTTCAA------TTT---TTGT-CTTTC
129 TATTTTCAATTTCTTTTTCAATTTTGCTTTC
*
55826191 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * *
55826256 TCTGTTTTC--AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
**
55826319 TTTTCAATTTCTGTTTTCAA--------AA
131 TTTTCAATTTCT-TTTTCAATTTTGCTTTC
** * *
55826341 AAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCA
* * **
55826405 ATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 ATTTCTGT-TGT-CAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
55826456 TTCAGATCAC
Statistics
Matches: 365, Mismatches: 32, Indels: 47
0.82 0.07 0.11
Matches are distributed among these distances:
147 57 0.16
149 2 0.01
150 38 0.10
151 75 0.21
152 25 0.07
153 4 0.01
154 5 0.01
156 31 0.08
157 3 0.01
165 88 0.24
167 37 0.10
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (159 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
TTTTCAATTTCTTTTTCAATTTTGCTTTC
Found at i:55826346 original size:151 final size:147
Alignment explanation
Indices: 55826021--55826455 Score: 584
Period size: 151 Copynumber: 2.9 Consensus size: 147
55826011 CAATTTTCGT
* * *
55826021 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
*
55826086 TGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGA
66 TGCTGAGGTAATTTCAATTTCTGTTTTC----AAAAATCAACTCATATTGCGAGAAATGAGTTGA
*
55826151 GCCTCAAGACATGCTGAGGTA
127 GCCTCAAGACACGCTGAGGTA
*
55826172 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
* * *
55826237 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCT
66 TGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
*
55826302 CAAGACACGTTGAGGTA
131 CAAGACACGCTGAGGTA
**
55826319 TTTTCAATTTCTGT-TTTCAAAAAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTCGG
1 TTTTCAATTTCTGTCTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* * * **
55826383 TTCACATGCTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTG
62 --GACATGCTGAGGTAATTTCAATTTCTGT-TTT---CAAAAATCAACTCATATTGCGAGAAATG
55826448 AGTTGAGC
121 AGTTGAGC
55826456 TTCAGATCAC
Statistics
Matches: 253, Mismatches: 21, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
146 4 0.02
147 63 0.25
150 40 0.16
151 87 0.34
152 25 0.10
153 3 0.01
156 31 0.12
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (147 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
TGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
CAAGACACGCTGAGGTA
Found at i:55826375 original size:78 final size:76
Alignment explanation
Indices: 55826021--55826460 Score: 549
Period size: 75 Copynumber: 5.8 Consensus size: 76
55826011 CAATTTTCGT
* *
55826021 TTTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAGGA
1 TTTTCAATTTCTG-TTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
55826084 CATGCTGAGGTA
65 CATGCTGAGGTA
* * ** *
55826096 ATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
55826161 ATGCTGAGGTA
66 ATGCTGAGGTA
* *
55826172 TTTTCAATTTTTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
55826235 CACGCTGAGGTA
65 CATGCTGAGGTA
* * * ** *
55826247 ATTTCAATTTCTGTTTTC----AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
55826308 ACGTTGAGGTA
66 ATGCTGAGGTA
**
55826319 TTTTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTC-GG
1 TTTTCAATTTCTGTTTTC--AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
55826383 TTCACATGCTGAGGTA
64 ---ACATGCTGAGGTA
*
55826399 TTTTCAATTTCTGTCTTT-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TTTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
55826461 ATCACACACT
Statistics
Matches: 316, Mismatches: 35, Indels: 24
0.84 0.09 0.06
Matches are distributed among these distances:
72 64 0.20
74 7 0.02
75 75 0.24
76 64 0.20
77 4 0.01
78 73 0.23
79 1 0.00
80 25 0.08
81 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ATGCTGAGGTA
Found at i:55826466 original size:78 final size:75
Alignment explanation
Indices: 55826021--55826480 Score: 495
Period size: 78 Copynumber: 6.1 Consensus size: 75
55826011 CAATTTTCGT
* * * *
55826021 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCAG-GAC
1 TTTTCAATTTCTG-TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACAC
55826085 ATGCTGAGGTA
65 ATGCTGAGGTA
* * ** *
55826096 ATTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AGA
1 TTTTCAATTTCTGTT-T-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
55826160 CATGCTGAGGTA
64 CATGCTGAGGTA
* * *
55826172 TTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTGT-TTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACA
55826237 C--GCTGAGGTA
64 CATGCTGAGGTA
* * * * **
55826247 ATTTCAATTTCTGTTTT--CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACAC
*
55826310 --GTTGAGGTA
65 ATGCTGAGGTA
** *
55826319 TTTTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTGTATTGCGAGAGGTGAGTTGAGCCTCGGT
1 TTTTCAATTTCTGTTTT----AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-
*
55826384 TCACATGCTGAGGTA
61 ACACATGCTGAGGTA
*
55826399 TTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTCAATTTCTGT-TTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-C
** *
55826464 ACACACTGTGGTA
63 ACATGCTGAGGTA
55826477 TTTT
1 TTTT
55826481 TTTCAATTTA
Statistics
Matches: 326, Mismatches: 42, Indels: 31
0.82 0.11 0.08
Matches are distributed among these distances:
72 63 0.19
74 4 0.01
75 72 0.22
76 65 0.20
77 5 0.02
78 92 0.28
80 22 0.07
81 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
TGCTGAGGTA
Found at i:55827751 original size:17 final size:18
Alignment explanation
Indices: 55827715--55827762 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
55827705 TTTTCCCCCT
55827715 TCCCTTCTCTCTTCTTTC
1 TCCCTTCTCTCTTCTTTC
* *
55827733 TCCCTTC-CTTTTTTTTC
1 TCCCTTCTCTCTTCTTTC
*
55827750 T-CTTTCTCTCTTC
1 TCCCTTCTCTCTTC
55827763 AAAATGATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 4 0.17
17 13 0.54
18 7 0.29
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (18 bp):
TCCCTTCTCTCTTCTTTC
Found at i:55828297 original size:15 final size:17
Alignment explanation
Indices: 55828269--55828300 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
55828259 TTGTATATAT
55828269 TATATTTATATTATGTA
1 TATATTTATATTATGTA
55828286 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
55828301 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:55828405 original size:19 final size:19
Alignment explanation
Indices: 55828318--55828405 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
55828308 TAATATTTTC
*
55828318 TTTTATTGTAGATATTATTA
1 TTTTA-TGTACATATTATTA
55828338 TTATTAT-TACATACTT-TTA
1 TT-TTATGTACATA-TTATTA
* *
55828357 TTATATGCACATATATATATGTA
1 TTTTATGTAC--ATAT-TAT-TA
55828380 TTTTTATGTACATATTATTA
1 -TTTTATGTACATATTATTA
55828400 TTTTAT
1 TTTTAT
55828406 ATTATTATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
18 3 0.06
19 18 0.33
20 8 0.15
21 10 0.19
22 5 0.09
23 2 0.04
24 8 0.15
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTATGTACATATTATTA
Found at i:55830373 original size:31 final size:31
Alignment explanation
Indices: 55830328--55830411 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
55830318 GATTTAATTT
* * *
55830328 AATTTTATACATGAACTTTGTTTTCATGTGC
1 AATTTGATACATGAACTTTGATTTAATGTGC
*
55830359 AATTTGATATATGAACTTTGATTTAATGT-C
1 AATTTGATACATGAACTTTGATTTAATGTGC
*
55830389 -ATTAT-ATACATGAAACTTGGATT
1 AATT-TGATACATG-AACTTTGATT
55830412 GCGGTTCATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.20
30 11 0.24
31 25 0.56
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (31 bp):
AATTTGATACATGAACTTTGATTTAATGTGC
Found at i:55830637 original size:29 final size:30
Alignment explanation
Indices: 55830605--55830667 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
55830595 AATTTAATGG
*
55830605 ATAAAATAACACA-AAATTAAAGTTCATGT
1 ATAAAATAACACATAAATCAAAGTTCATGT
* * *
55830634 ATAACATTACACATTAGATCAAAGTTCATGT
1 ATAAAATAACACA-TAAATCAAAGTTCATGT
55830665 ATA
1 ATA
55830668 GTTTTAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
31 17 0.61
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (30 bp):
ATAAAATAACACATAAATCAAAGTTCATGT
Found at i:55831163 original size:22 final size:22
Alignment explanation
Indices: 55831109--55831164 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
55831099 TGCTACTGTT
* *
55831109 TTACTATTGTTTGTTATTTTTTTG
1 TTACTA-T-TTTGTTATTATATTG
* *
55831133 CTACCATTTTGTTATTATATTG
1 TTACTATTTTGTTATTATATTG
55831155 TTACTATTTT
1 TTACTATTTT
55831165 TGTTGTTACT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 21 0.81
23 1 0.04
24 4 0.15
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (22 bp):
TTACTATTTTGTTATTATATTG
Found at i:55832686 original size:207 final size:207
Alignment explanation
Indices: 55832428--55832840 Score: 754
Period size: 207 Copynumber: 2.0 Consensus size: 207
55832418 CCGAGATCCG
* *
55832428 ACCCAAGACCCCCAAGATCTGTGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
1 ACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
*
55832493 CTTTTTGGATGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
66 CTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
* *
55832558 CTTTCATTTTGGTCCCTATGGAATGGCGCGTTTAAGGAGTTCGGGATAATTTCATATTTAGTCCT
131 CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTCCC
55832623 TATTTCTTTTCC
196 TATTTCTTTTCC
* *
55832635 ACCCAAGACCCCCAAGCTCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCG
1 ACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
*
55832700 CTTTTTGGACGTTTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
66 CTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
55832765 CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTCCC
131 CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTCCC
55832830 TATTTCTTTTC
196 TATTTCTTTTC
55832841 GCGCGCTTCA
Statistics
Matches: 198, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 198 1.00
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (207 bp):
ACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTTCA
CTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTTTT
CTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTCCC
TATTTCTTTTCC
Found at i:55832886 original size:12 final size:12
Alignment explanation
Indices: 55832869--55832895 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55832859 CCTTATTCTG
55832869 TTTTATTAATTA
1 TTTTATTAATTA
55832881 TTTTATTAATTA
1 TTTTATTAATTA
55832893 TTT
1 TTT
55832896 ACAATTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATTAATTA
Found at i:55834051 original size:18 final size:18
Alignment explanation
Indices: 55834028--55834064 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
55834018 ACTCAATATA
55834028 AGCCCTTTATAAATATCT
1 AGCCCTTTATAAATATCT
55834046 AGCCCTTTATAAATATCT
1 AGCCCTTTATAAATATCT
55834064 A
1 A
55834065 ACATTCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (18 bp):
AGCCCTTTATAAATATCT
Found at i:55835950 original size:5 final size:5
Alignment explanation
Indices: 55835940--55835965 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55835930 ATAGGCCCAT
55835940 AACAG AACAG AACAG AACAG AACAG A
1 AACAG AACAG AACAG AACAG AACAG A
55835966 TATTACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.19, T:0.00
Consensus pattern (5 bp):
AACAG
Found at i:55836142 original size:27 final size:27
Alignment explanation
Indices: 55836112--55836252 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 27
55836102 ATGACGAAGT
*
55836112 CACCAGATACAGATATTATGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
* *
55836139 CACCATA-ACAGATATATGTGGAAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
55836166 CACTAGAT-TAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
55836193 CACCA-AGACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
55836220 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
55836247 CACCAG
1 CACCAG
55836253 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
26 11 0.12
27 77 0.83
28 5 0.05
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:55836196 original size:54 final size:54
Alignment explanation
Indices: 55836112--55836251 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
55836102 ATGACGAAGT
* *
55836112 CACCAGATACAGAT-ATTATGGCAGAGCCACCATA-ACAGATATATGTGGAAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCA-AGACAGATATATGTGGAAGAGC
* * *
55836166 CACTAGATTAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGAAGAGC
55836220 CACCAGATCAGATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
55836252 GGACGCTTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAAGACAGATATATGTGGAAGAGC
Found at i:55837900 original size:26 final size:26
Alignment explanation
Indices: 55837869--55837975 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
55837859 TGAAATGCCC
55837869 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
55837895 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
55837921 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
55837947 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
55837972 ATCA
1 ATCA
55837976 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.13
26 66 0.87
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:55843180 original size:27 final size:26
Alignment explanation
Indices: 55843132--55843262 Score: 147
Period size: 27 Copynumber: 4.9 Consensus size: 26
55843122 GCGAGGTTGC
* *
55843132 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
*
55843158 ACAGATATTGTGGCAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
55843185 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* * *
55843212 TAGATAATTGTGGTATAGCCACCAGAT
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
*
55843239 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
55843263 AGACGCTTCC
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
26 7 0.08
27 82 0.89
28 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:55844915 original size:26 final size:26
Alignment explanation
Indices: 55844884--55844991 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
55844874 TGAAATGCCC
*
55844884 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
55844910 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
55844936 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
55844962 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55844988 ATCA
1 ATCA
55844992 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55848305 original size:22 final size:22
Alignment explanation
Indices: 55848276--55848343 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
55848266 TGTACAAACG
55848276 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
55848298 TACAGAGAGCAC-ATATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
* *
55848320 AACAAAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
55848343 A
1 A
55848344 TAATAGAACG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.18
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:55849192 original size:26 final size:26
Alignment explanation
Indices: 55849155--55849238 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
55849145 TAATACAAAT
* * *
55849155 TGATAATAGGTTAGGTAAATGTTCCT
1 TGATAATGGGTTAGGTAAATGTTTCA
55849181 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
55849207 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
55849233 TGATAA
1 TGATAA
55849239 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:55851216 original size:137 final size:137
Alignment explanation
Indices: 55850963--55851224 Score: 413
Period size: 137 Copynumber: 1.9 Consensus size: 137
55850953 GAGTAGTCTC
55850963 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
* * * *
55851028 TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCT-GGCCCAGTAC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGCTCACTATAACCTGAAAAGGGCT-TAGGCCCAGTAC
55851092 CACTGTTA
130 CACTGTTA
*
55851100 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
* *
55851165 TGTTATCTGAATAAGGGGCTAAGGCCCAG-TACCACTATTACCTG-AATGGGCTTAGGCCCA
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGCT--CACTATAACCTGAAAAGGGCTTAGGCCCA
55851225 ATAGGCTTGA
Statistics
Matches: 115, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
136 2 0.02
137 106 0.92
138 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGCTCACTATAACCTGAAAAGGGCTTAGGCCCAGTACC
ACTGTTA
Found at i:55859977 original size:29 final size:30
Alignment explanation
Indices: 55859944--55860022 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
55859934 ATTATTTAAT
*
55859944 TAATAAATATCT-TTTAACTT-AATAATAAG
1 TAATAAATATCTATTT-ACTTAAATAAAAAG
55859973 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
55860003 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
55860023 AATTGTATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 16 0.36
30 14 0.32
31 10 0.23
32 4 0.09
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:55862929 original size:24 final size:22
Alignment explanation
Indices: 55862902--55862945 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
55862892 AAAAACTAAA
55862902 AAAATAAATGATATAAAAAAGATT
1 AAAATAAAT-A-ATAAAAAAGATT
*
55862926 AAAATAAGTAATAAAAAAGA
1 AAAATAAATAATAAAAAAGA
55862946 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAATAATAAAAAAGATT
Done.