Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 17 of 153
Found at i:5880387 original size:85 final size:88
Alignment explanation
Indices: 5880236--5880404 Score: 231
Period size: 85 Copynumber: 2.0 Consensus size: 88
5880226 CTAAAAATCT
* * *
5880236 TTTTAGAAAAAGCAATTAAGCCCCTTCTTTTTTATTTCACTTAATTGAGTATTTAAACTTTCAAA
1 TTTTAAAAAAAGCAATTAAGCCCCTTCTTTTTTATGTCACTCAATTGAGTATTTAAACTTTCAAA
*
5880301 ATACATCAAAAG-ACCATTAAAC
66 ATACATAAAAAGTACCATTAAAC
* *
5880323 TTTTAAAAAAAGCAATTAAGCTCCTAT-TTTTTT-TGT-ACTCAATTGAGTATTTGAACTGTT-A
1 TTTTAAAAAAAGCAATTAAGCCCCT-TCTTTTTTATGTCACTCAATTGAGTATTTAAACT-TTCA
5880384 AAATACATAAAAAGTACCATT
64 AAATACATAAAAAGTACCATT
5880405 TGACCATTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
85 33 0.45
86 10 0.14
87 29 0.40
88 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (88 bp):
TTTTAAAAAAAGCAATTAAGCCCCTTCTTTTTTATGTCACTCAATTGAGTATTTAAACTTTCAAA
ATACATAAAAAGTACCATTAAAC
Found at i:5880569 original size:27 final size:26
Alignment explanation
Indices: 5880503--5880571 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
5880493 CATGCGATAA
* *
5880503 AAAAATTATAAAAAATAAAAATTATT
1 AAAAATTAAAAAAAATAAAAAATATT
**
5880529 AAATTTTAATAAAAAATAAAAAATATT
1 AAAAATTAA-AAAAAATAAAAAATATT
5880556 AAAAATTAGAAAAAAA
1 AAAAATTA-AAAAAAA
5880572 ATTATAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
26 6 0.17
27 28 0.80
28 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (26 bp):
AAAAATTAAAAAAAATAAAAAATATT
Found at i:5880773 original size:10 final size:10
Alignment explanation
Indices: 5880758--5880813 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
5880748 ATACGATAAC
5880758 TTTTATATTT
1 TTTTATATTT
**
5880768 TTTTATA-AC
1 TTTTATATTT
5880777 TTTTATATTT
1 TTTTATATTT
*
5880787 CTTTATATTT
1 TTTTATATTT
5880797 TTTTATAATTT
1 TTTTAT-ATTT
*
5880808 TCTTAT
1 TTTTAT
5880814 GACATTATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.19
10 21 0.57
11 9 0.24
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTT
Found at i:5880799 original size:19 final size:19
Alignment explanation
Indices: 5880753--5880793 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
5880743 TTTTGATACG
*
5880753 ATAACTTTTATATTTTTTT
1 ATAACTTTTATATTTCTTT
5880772 ATAACTTTTATATTTCTTT
1 ATAACTTTTATATTTCTTT
5880791 ATA
1 ATA
5880794 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
ATAACTTTTATATTTCTTT
Found at i:5880821 original size:29 final size:29
Alignment explanation
Indices: 5880760--5880822 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
5880750 ACGATAACTT
** *
5880760 TTATATTTTTTTATAACTTTTATATTTCT
1 TTATATTTTTTTATAACTTTTATATGACA
*
5880789 TTATATTTTTTTATAA-TTTTCTTATGACA
1 TTATATTTTTTTATAACTTTT-ATATGACA
5880818 TTATA
1 TTATA
5880823 AAATTTTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (29 bp):
TTATATTTTTTTATAACTTTTATATGACA
Found at i:5880886 original size:19 final size:19
Alignment explanation
Indices: 5880847--5880888 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
5880837 TTTCTATATA
* **
5880847 TTTTATAAATTTTTACGAT
1 TTTTATAAAATTTTAAAAT
5880866 TTTTATAAAATTTTAAAAT
1 TTTTATAAAATTTTAAAAT
5880885 TTTT
1 TTTT
5880889 TTACGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTAAAAT
Found at i:5880888 original size:9 final size:10
Alignment explanation
Indices: 5880847--5880909 Score: 58
Period size: 10 Copynumber: 6.4 Consensus size: 10
5880837 TTTCTATATA
5880847 TTTTATAAAT
1 TTTTATAAAT
**
5880857 TTTTA-CGAT
1 TTTTATAAAT
*
5880866 TTTTATAAAA
1 TTTTATAAAT
5880876 TTTTA-AAAT
1 TTTTATAAAT
* *
5880885 TTTTTTACGAT
1 TTTTATA-AAT
5880896 TTTTATAAAT
1 TTTTATAAAT
5880906 TTTT
1 TTTT
5880910 GTTTCTAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
9 14 0.35
10 18 0.45
11 8 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:5880961 original size:30 final size:28
Alignment explanation
Indices: 5880927--5880982 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 28
5880917 ATTTATAATA
5880927 AAATTTAAGTAATTTTATATATTTTTATTT
1 AAATTTAA-TAATTTT-TATATTTTTATTT
5880957 AAATTTAATAATTTTTATATTTTTAT
1 AAATTTAATAATTTTTATATTTTTAT
5880983 AGATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 11 0.42
29 7 0.27
30 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
AAATTTAATAATTTTTATATTTTTATTT
Found at i:5887602 original size:23 final size:24
Alignment explanation
Indices: 5887558--5887621 Score: 85
Period size: 23 Copynumber: 2.6 Consensus size: 24
5887548 TAATGTTAGC
5887558 AAAATAAAAAATACAAATTTAAAAACT
1 AAAA-AAAAAA-A-AAATTTAAAAACT
5887585 AAAAAAAAAAAAAA-TTAAAAACT
1 AAAAAAAAAAAAAATTTAAAAACT
*
5887608 AAAAAAAAATAAAA
1 AAAAAAAAAAAAAA
5887622 GGTCAGTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 22 0.61
24 3 0.08
25 1 0.03
26 6 0.17
27 4 0.11
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAAAAAAAAAAAATTTAAAAACT
Found at i:5887605 original size:17 final size:17
Alignment explanation
Indices: 5887578--5887621 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
5887568 ATACAAATTT
*
5887578 AAAAACTAAAAA-AAAA
1 AAAAAATAAAAACAAAA
* *
5887594 AAAAATTAAAAACTAAA
1 AAAAAATAAAAACAAAA
5887611 AAAAAATAAAA
1 AAAAAATAAAA
5887622 GGTCAGTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATAAAAACAAAA
Found at i:5887906 original size:15 final size:15
Alignment explanation
Indices: 5887886--5887918 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
5887876 TTAGGGTTAG
5887886 AGAAAAAGAAGAAGA
1 AGAAAAAGAAGAAGA
*
5887901 AGAAAAAGAAGGAGA
1 AGAAAAAGAAGAAGA
5887916 AGA
1 AGA
5887919 GGAAAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAGA
Found at i:5888319 original size:36 final size:36
Alignment explanation
Indices: 5888279--5888350 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
5888269 GTAATATTAT
*
5888279 TGCTGGTATATTGTTGCTTATGTTGTTATACATGGC
1 TGCTGGTATATTATTGCTTATGTTGTTATACATGGC
5888315 TGCTGGTATATTATTGCTTATGTTGTTATACATGGC
1 TGCTGGTATATTATTGCTTATGTTGTTATACATGGC
5888351 ATGGCTAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (36 bp):
TGCTGGTATATTATTGCTTATGTTGTTATACATGGC
Found at i:5891033 original size:50 final size:50
Alignment explanation
Indices: 5890962--5891146 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
5890952 ACATGCCAAA
5890962 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
5891012 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
5891062 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
5891112 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
5891147 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:5891262 original size:13 final size:13
Alignment explanation
Indices: 5891241--5891272 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5891231 GCTTGGATCA
*
5891241 TCATCAAATAAAT
1 TCATAAAATAAAT
5891254 TCATAAAATAAAT
1 TCATAAAATAAAT
5891267 TCATAA
1 TCATAA
5891273 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:5891432 original size:5 final size:5
Alignment explanation
Indices: 5891419--5891491 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
5891409 TTGTTTTATG
5891419 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
5891467 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
5891492 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:5891444 original size:19 final size:19
Alignment explanation
Indices: 5891420--5891462 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5891410 TGTTTTATGT
5891420 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
5891439 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
5891458 ATATA
1 ATATA
5891463 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:5891472 original size:24 final size:24
Alignment explanation
Indices: 5891426--5891490 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
5891416 ATGTATATAT
* * *
5891426 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
5891450 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
5891474 ATTACTATAATATAATA
1 A-TAATATAATATAATA
5891491 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:5892248 original size:99 final size:99
Alignment explanation
Indices: 5892071--5892251 Score: 283
Period size: 99 Copynumber: 1.8 Consensus size: 99
5892061 ACCCCTAAAA
**
5892071 AACAATCACTACATGCATATTATTAAAAAAAAATACTCGTTGCATGCATATTAAAAAATAGTCAA
1 AACAATCACTACATGCATATTATT--AAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAA
5892136 CAACATGTATATTAAAAAAAAACAGTCATACCCACC
64 CAACATGTATATTAAAAAAAAACAGTCATACCCACC
* * *
5892172 AACAATCATTGCATGCATATTATT-AAAAAATACTTACTGCATGCATATTAAAAAAATAGTCAAC
1 AACAATCACTACATGCATATTATTAAAAAAATACTCACTGCATGCATATT-AAAAAATAGTCAAC
5892236 AACATGTATATTAAAA
65 AACATGTATATTAAAA
5892252 TCAGTCATAC
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
98 22 0.30
99 30 0.41
101 22 0.30
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (99 bp):
AACAATCACTACATGCATATTATTAAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACA
ACATGTATATTAAAAAAAAACAGTCATACCCACC
Found at i:5894260 original size:61 final size:62
Alignment explanation
Indices: 5894185--5894315 Score: 210
Period size: 62 Copynumber: 2.1 Consensus size: 62
5894175 TTTCTATCAA
*
5894185 ACAATAACCAATAC-AAAATAATTTGATACAAAAACAACCATTTCTATCATGCACATGACAG
1 ACAATAACCAATACAAAAATAATTTAATACAAAAACAACCATTTCTATCATGCACATGACAG
* * * *
5894246 ACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGGCAG
1 ACAATAACCAATACAAAAATAATTTAATACAAAAACAACCATTTCTATCATGCACATGACAG
5894308 ACAATAAC
1 ACAATAAC
5894316 AGACAATAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
61 14 0.22
62 50 0.78
ACGTcount: A:0.49, C:0.21, G:0.07, T:0.23
Consensus pattern (62 bp):
ACAATAACCAATACAAAAATAATTTAATACAAAAACAACCATTTCTATCATGCACATGACAG
Found at i:5894583 original size:6 final size:6
Alignment explanation
Indices: 5894574--5894631 Score: 80
Period size: 6 Copynumber: 9.7 Consensus size: 6
5894564 AAATAACCCT
* * **
5894574 AAATCA AAATCA AAATCA AAATCA AAATCG AAATCG AAATCA AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
5894622 AAATCA AAAT
1 AAATCA AAAT
5894632 TGAAATCAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATCA
Found at i:5894597 original size:18 final size:18
Alignment explanation
Indices: 5894547--5894718 Score: 100
Period size: 18 Copynumber: 9.4 Consensus size: 18
5894537 CATTAATAAC
5894547 AAAT-AAAATCAAAATCG
1 AAATCAAAATCAAAATCG
* *
5894564 AAATAACCCTAAATCAAAATCA
1 AAAT----CAAAATCAAAATCG
5894586 AAATCAAAATCAAAATCG
1 AAATCAAAATCAAAATCG
* *
5894604 AAATCGAAATCAAAATTG
1 AAATCAAAATCAAAATCG
**
5894622 AAATCAAAATTGAAATCAG
1 AAATCAAAATCAAAATC-G
* *** *
5894641 TGAAT--GTTTCAAAATTG
1 -AAATCAAAATCAAAATCG
5894658 AAATCAAAATCAAAATCG
1 AAATCAAAATCAAAATCG
** **
5894676 AAATTGAAATC-AAATTA
1 AAATCAAAATCAAAATCG
* * *
5894693 AAATTAAAATCAGAATAG
1 AAATCAAAATCAAAATCG
5894711 AAATCAAA
1 AAATCAAA
5894719 TTTGAAATTG
Statistics
Matches: 114, Mismatches: 31, Indels: 19
0.70 0.19 0.12
Matches are distributed among these distances:
16 3 0.03
17 19 0.17
18 73 0.64
19 1 0.01
20 3 0.03
22 15 0.13
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.22
Consensus pattern (18 bp):
AAATCAAAATCAAAATCG
Found at i:5894632 original size:12 final size:12
Alignment explanation
Indices: 5894574--5894702 Score: 93
Period size: 12 Copynumber: 10.8 Consensus size: 12
5894564 AAATAACCCT
**
5894574 AAATCAAAATCA
1 AAATCAAAATTG
**
5894586 AAATCAAAATCA
1 AAATCAAAATTG
* *
5894598 AAATCGAAATCG
1 AAATCAAAATTG
5894610 AAATCAAAATTG
1 AAATCAAAATTG
5894622 AAATCAAAATTG
1 AAATCAAAATTG
*
5894634 AAATCAGTGAA-TG
1 AAATCA--AAATTG
**
5894647 -TTTCAAAATTG
1 AAATCAAAATTG
**
5894658 AAATCAAAATCA
1 AAATCAAAATTG
*
5894670 AAATCGAAATTG
1 AAATCAAAATTG
*
5894682 AAATC-AAATTA
1 AAATCAAAATTG
*
5894693 AAATTAAAAT
1 AAATCAAAAT
5894703 CAGAATAGAA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
10 2 0.02
11 11 0.12
12 78 0.82
13 2 0.02
14 2 0.02
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.24
Consensus pattern (12 bp):
AAATCAAAATTG
Found at i:5894695 original size:29 final size:29
Alignment explanation
Indices: 5894658--5894720 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
5894648 TTCAAAATTG
* *
5894658 AAATCAAAATCAAAATC-GAAATTGAAATC
1 AAATTAAAATCAAAATCAG-AATAGAAATC
*
5894687 AAATTAAAATTAAAATCAGAATAGAAATC
1 AAATTAAAATCAAAATCAGAATAGAAATC
5894716 AAATT
1 AAATT
5894721 TGAAATTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (29 bp):
AAATTAAAATCAAAATCAGAATAGAAATC
Found at i:5894744 original size:16 final size:16
Alignment explanation
Indices: 5894723--5894759 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
5894713 ATCAAATTTG
*
5894723 AAATTGGAATAACCCT
1 AAATTGAAATAACCCT
5894739 AAATTGAAATAACCCT
1 AAATTGAAATAACCCT
5894755 AAATT
1 AAATT
5894760 CAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (16 bp):
AAATTGAAATAACCCT
Found at i:5895195 original size:21 final size:20
Alignment explanation
Indices: 5895171--5895213 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
5895161 AACGTGGCAT
5895171 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAG-TG
5895192 GTTAACTTGCCACATCAGTG
1 GTTAACTTGCCACATCAGTG
5895212 GT
1 GT
5895214 CCCATTAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (20 bp):
GTTAACTTGCCACATCAGTG
Found at i:5902527 original size:19 final size:19
Alignment explanation
Indices: 5902491--5902528 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5902481 TTTTTATAAG
*
5902491 GGTGTTTTTGTTTTTTGTT
1 GGTGTTTTTGTTTGTTGTT
5902510 GGTGTTTTATG-TTGTTGTT
1 GGTGTTTT-TGTTTGTTGTT
5902529 TCGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTGTTTGTTGTT
Found at i:5903852 original size:75 final size:75
Alignment explanation
Indices: 5903729--5903872 Score: 279
Period size: 75 Copynumber: 1.9 Consensus size: 75
5903719 GTTCTTTTAG
5903729 ATATGTAATGTCCTTTCTCTTGTGTAATGAAGATGTGGATTTTATGAACTAATCATGGAAAAATG
1 ATATGTAATGTCCTTTCTCTTGTGTAATGAAGATGTGGATTTTATGAACTAATCATGGAAAAATG
5903794 TTTTACCAGA
66 TTTTACCAGA
*
5903804 ATATGTAATGTCCTTTCTCTTGTGTAATGAAGATGTGGATTTTATGAACTAATCATGTAAAAATG
1 ATATGTAATGTCCTTTCTCTTGTGTAATGAAGATGTGGATTTTATGAACTAATCATGGAAAAATG
5903869 TTTT
66 TTTT
5903873 GCTAGAAAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (75 bp):
ATATGTAATGTCCTTTCTCTTGTGTAATGAAGATGTGGATTTTATGAACTAATCATGGAAAAATG
TTTTACCAGA
Found at i:5921870 original size:27 final size:26
Alignment explanation
Indices: 5921820--5921881 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
5921810 AGTGAAAAAT
5921820 AAATTAAAATTATAAAAATATTTAAA
1 AAATTAAAATTATAAAAATATTTAAA
*
5921846 AAATTCAAAATTATAAAAA-AGTTTATA
1 AAATT-AAAATTATAAAAATA-TTTAAA
*
5921873 AAACTAAAA
1 AAATTAAAA
5921882 AAATAAGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (26 bp):
AAATTAAAATTATAAAAATATTTAAA
Found at i:5925867 original size:12 final size:13
Alignment explanation
Indices: 5925850--5925886 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5925840 GAACCGGACA
5925850 CGAACCGAA-CTC
1 CGAACCGAAGCTC
5925862 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
5925874 CGAACCGTAGCTC
1 CGAACCGAAGCTC
5925887 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:5926230 original size:24 final size:25
Alignment explanation
Indices: 5926193--5926239 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
5926183 TCAATAATGG
*
5926193 AGCACTTTATATGGC-TAAAATTTC
1 AGCACTTTACATGGCATAAAATTTC
*
5926217 AGCACTTTGCATGGCATAAAATT
1 AGCACTTTACATGGCATAAAATT
5926240 GCTCCACGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (25 bp):
AGCACTTTACATGGCATAAAATTTC
Found at i:5930361 original size:11 final size:11
Alignment explanation
Indices: 5930345--5930372 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
5930335 TAAGTAAAAC
5930345 TATTATGTTAT
1 TATTATGTTAT
5930356 TATTATGTTAT
1 TATTATGTTAT
5930367 TATTAT
1 TATTAT
5930373 TTTAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (11 bp):
TATTATGTTAT
Found at i:5931249 original size:40 final size:41
Alignment explanation
Indices: 5931181--5931270 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
5931171 AGCTGCATTA
* * *
5931181 TGAAA-TACTGAATATTGTTTTTGAGTACTGAATTGAATTG
1 TGAAATTACTAAATATTGTTTATGAGTACTGAATTGAACTG
* * * *
5931221 TGAAGTTACTAAATATTG-TTATGTGTACTGCATTTAACTG
1 TGAAATTACTAAATATTGTTTATGAGTACTGAATTGAACTG
5931261 TGAAATTACT
1 TGAAATTACT
5931271 GAAGTAATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 30 0.73
41 11 0.27
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (41 bp):
TGAAATTACTAAATATTGTTTATGAGTACTGAATTGAACTG
Found at i:5931546 original size:45 final size:45
Alignment explanation
Indices: 5931477--5931577 Score: 132
Period size: 45 Copynumber: 2.2 Consensus size: 45
5931467 GCCGACTACT
* * *
5931477 GTTACTGTTACCAATTCGATACTTTGTGTGTCGGATACTGTTACC
1 GTTACTGTTACAAATTCGACACTTTGTGTGTCGAATACTGTTACC
* *
5931522 GTTACTGTTACAAATTC-AGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAAATTCGA-CACTTTGTGTGTCGAATACTGTTACC
*
5931567 GTTATTGTTAC
1 GTTACTGTTAC
5931578 TGCTACCGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 48 0.98
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (45 bp):
GTTACTGTTACAAATTCGACACTTTGTGTGTCGAATACTGTTACC
Found at i:5932056 original size:177 final size:177
Alignment explanation
Indices: 5931760--5932113 Score: 672
Period size: 177 Copynumber: 2.0 Consensus size: 177
5931750 AGAATGGTAT
* *
5931760 TGTAATAGCCCGATTTTCAGAAATGTCGAAAATAGTGGTACGAGATCACCAAATTCAGAAAATAA
1 TGTAATAGCCCGATTTTCAAAAATGTCGAAAACAGTGGTACGAGATCACCAAATTCAGAAAATAA
5931825 GCTCGTAAATTTTATTATCAATAATTACGAGCCAAATATGATTTTTAAGATATTTTTAAATTAGT
66 GCTCGTAAATTTTATTATCAATAATTACGAGCCAAATATGATTTTTAAGATATTTTTAAATTAGT
* *
5931890 AATTTGTATTTTATAAAAATTTATTAAGTTAAGAAATTGAGGAAAAG
131 AATTTGTATTTTATAAAAATTTATTAAGTCAAGAAATTGAGAAAAAG
5931937 TGTAATAGCCCGATTTTCAAAAATGTCGAAAACAGTGGTACGAGATCACCAAATTCAGAAAATAA
1 TGTAATAGCCCGATTTTCAAAAATGTCGAAAACAGTGGTACGAGATCACCAAATTCAGAAAATAA
5932002 GCTCGTAAATTTTATTATCAATAATTACGAGCCAAATATGATTTTTAAGATATTTTTAAATTAGT
66 GCTCGTAAATTTTATTATCAATAATTACGAGCCAAATATGATTTTTAAGATATTTTTAAATTAGT
5932067 AATTTGTATTTTATAAAAATTTATTAAGTCAAGAAATTGAGAAAAAG
131 AATTTGTATTTTATAAAAATTTATTAAGTCAAGAAATTGAGAAAAAG
5932114 AGGTATCGAG
Statistics
Matches: 173, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 173 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (177 bp):
TGTAATAGCCCGATTTTCAAAAATGTCGAAAACAGTGGTACGAGATCACCAAATTCAGAAAATAA
GCTCGTAAATTTTATTATCAATAATTACGAGCCAAATATGATTTTTAAGATATTTTTAAATTAGT
AATTTGTATTTTATAAAAATTTATTAAGTCAAGAAATTGAGAAAAAG
Found at i:5934251 original size:46 final size:46
Alignment explanation
Indices: 5934184--5934338 Score: 204
Period size: 46 Copynumber: 3.6 Consensus size: 46
5934174 TTTGAGTACT
*
5934184 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
5934230 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
5934266 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
5934312 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTG
5934339 TGATCAAGTG
Statistics
Matches: 94, Mismatches: 5, Indels: 20
0.79 0.04 0.17
Matches are distributed among these distances:
36 30 0.32
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 56 0.60
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:5934261 original size:36 final size:36
Alignment explanation
Indices: 5934220--5934292 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
5934210 GGTAGCTTTA
*
5934220 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
*
5934256 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
5934292 G
1 G
5934293 GTAGCTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
Found at i:5934348 original size:25 final size:25
Alignment explanation
Indices: 5934314--5934363 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
5934304 TACACTTATC
5934314 TGATCAAGTGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
5934339 TGATCAAGTGACAAAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
5934364 GTAGCCTAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (25 bp):
TGATCAAGTGACAAAGTGATAAGTG
Found at i:5934352 original size:71 final size:68
Alignment explanation
Indices: 5934268--5934406 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 68
5934258 TACACTTATC
* *
5934268 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGTGA
5934333 TAAGTG
63 TAAGTG
*
5934339 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
5934404 GTG
66 GTG
5934407 ATCATACGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
68 12 0.18
69 5 0.08
70 19 0.29
71 29 0.45
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (68 bp):
TGATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
GTG
Found at i:5937615 original size:45 final size:45
Alignment explanation
Indices: 5937538--5937644 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
5937528 TAATCAGTAA
* *
5937538 CGGTAGCAGTAACAGTAACAGTATTCAGCACACAAAGTGCT-GAAT
1 CGGTAACAGTAACAGTAACAGTATGCAGCACACAAAGTG-TAGAAT
** * *
5937583 TTGTTACAGTAACAGTAACAGTATGC-GACACACAATGTGTAGAAT
1 CGGTAACAGTAACAGTAACAGTATGCAG-CACACAAAGTGTAGAAT
5937628 CGGTAACAGTAACAGTA
1 CGGTAACAGTAACAGTA
5937645 GTTGGCATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.04
45 49 0.96
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.22
Consensus pattern (45 bp):
CGGTAACAGTAACAGTAACAGTATGCAGCACACAAAGTGTAGAAT
Found at i:5937878 original size:40 final size:40
Alignment explanation
Indices: 5937832--5937924 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
5937822 AATTCATTAC
* *
5937832 TTCAGTAATTTCACAGTTCAATGCAGTA-CACATAACAATA
1 TTCAGTAATTTCACAATTCAATGCAGTATCA-AAAACAATA
* *
5937872 TTCAGTAACTTCACAATTCAATTCAGTATTCAAAAACAATA
1 TTCAGTAATTTCACAATTCAATGCAGTA-TCAAAAACAATA
5937913 TTCAGT-ATTTCA
1 TTCAGTAATTTCA
5937925 TAATGCAGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 30 0.65
41 14 0.30
42 2 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAATTTCACAATTCAATGCAGTATCAAAAACAATA
Found at i:5937897 original size:21 final size:21
Alignment explanation
Indices: 5937832--5937899 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
5937822 AATTCATTAC
* *
5937832 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
5937853 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
5937872 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
5937893 TTCAGTA
1 TTCAGTA
5937900 TTCAAAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:5938649 original size:14 final size:14
Alignment explanation
Indices: 5938625--5938673 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
5938615 CCTATTTTTC
5938625 CTTTTTCTTTTCTTT
1 CTTTTT-TTTTCTTT
*
5938640 CTTTTTTTTTCCTT
1 CTTTTTTTTTCTTT
**
5938654 CTTTCCTTTTCTTT
1 CTTTTTTTTTCTTT
5938668 CTTTTT
1 CTTTTT
5938674 CCTTCTTTCC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTTTTTCTTT
Found at i:5938655 original size:18 final size:18
Alignment explanation
Indices: 5938634--5938685 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
5938624 CCTTTTTCTT
* *
5938634 TTCTTTCTTTTTTTTTCC
1 TTCTTTCCTTTTCTTTCC
5938652 TTCTTTCCTTTTCTTT-C
1 TTCTTTCCTTTTCTTTCC
5938669 TT-TTTCC--TTCTTTCC
1 TTCTTTCCTTTTCTTTCC
5938684 TT
1 TT
5938686 TCTCTGTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.19
15 3 0.10
16 5 0.16
17 3 0.10
18 14 0.45
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTCCTTTTCTTTCC
Found at i:5938664 original size:24 final size:24
Alignment explanation
Indices: 5938629--5938686 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
5938619 TTTTTCCTTT
* *
5938629 TTCTTTTC-TTTCTTTTTTTTTCC
1 TTCTTTCCTTTTCTTTCTTTTTCC
5938652 TTCTTTCCTTTTCTTTCTTTTTCC
1 TTCTTTCCTTTTCTTTCTTTTTCC
5938676 TTCTTTCCTTT
1 TTCTTTCCTTT
5938687 CTCTGTTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 7 0.22
24 25 0.78
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTCTTTCCTTTTCTTTCTTTTTCC
Found at i:5938679 original size:14 final size:14
Alignment explanation
Indices: 5938619--5938682 Score: 59
Period size: 14 Copynumber: 5.0 Consensus size: 14
5938609 AAAAACCCTA
5938619 TTTTTCCTT-TTTC
1 TTTTTCCTTCTTTC
* *
5938632 -TTTTCTTTCTTTT
1 TTTTTCCTTCTTTC
5938645 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
*
5938659 --CTT--TTCTTTC
1 TTTTTCCTTCTTTC
5938669 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
5938683 CTTTCTCTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
10 7 0.18
12 11 0.28
13 3 0.08
14 18 0.46
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:5938734 original size:13 final size:14
Alignment explanation
Indices: 5938716--5938744 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5938706 TCTGTTTTAT
5938716 TTCTTTT-TTTCTA
1 TTCTTTTATTTCTA
5938729 TTCTTTTATTTCTA
1 TTCTTTTATTTCTA
5938743 TT
1 TT
5938745 ATGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTCTTTTATTTCTA
Found at i:5938935 original size:22 final size:20
Alignment explanation
Indices: 5938910--5938950 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
5938900 AATAATATAA
5938910 TATAACATAATATAATATATTT
1 TATAA-ATAA-ATAATATATTT
*
5938932 TATAATTAAATAATATATT
1 TATAAATAAATAATATATT
5938951 AATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATAAATAATATATTT
Found at i:5941135 original size:28 final size:30
Alignment explanation
Indices: 5941104--5941227 Score: 96
Period size: 29 Copynumber: 4.2 Consensus size: 30
5941094 GTTTTTCAGT
*
5941104 TTTTAAGGGCCCAAAATTTTTTTT-T-AAC
1 TTTTAAAGGCCCAAAATTTTTTTTATCAAC
*
5941132 TTTTAAAGG-TCAAAATTTTTTTTATCAAC
1 TTTTAAAGGCCCAAAATTTTTTTTATCAAC
* * * *
5941161 TTTTGATGGCCC-AAATTTCTTTTACCAAC
1 TTTTAAAGGCCCAAAATTTTTTTTATCAAC
* * ** *
5941190 ATTTAAGAGACTTAAAATTTTTTTCT-CCAAC
1 TTTTAA-AGGCCCAAAATTTTTTT-TATCAAC
5941221 TTTTAAA
1 TTTTAAA
5941228 AATTTTAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
27 13 0.17
28 9 0.12
29 29 0.39
30 4 0.05
31 19 0.25
32 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.45
Consensus pattern (30 bp):
TTTTAAAGGCCCAAAATTTTTTTTATCAAC
Found at i:5942337 original size:11 final size:10
Alignment explanation
Indices: 5942305--5942339 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
5942295 GTTTTTTAAG
5942305 TTTTATAATA
1 TTTTATAATA
5942315 TTTTATAATA
1 TTTTATAATA
*
5942325 TTTATATATTA
1 TTT-TATAATA
5942336 TTTT
1 TTTT
5942340 CACTTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAATA
Found at i:5942365 original size:8 final size:8
Alignment explanation
Indices: 5942349--5942381 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
5942339 TCACTTTCTA
5942349 AATTTTAT
1 AATTTTAT
*
5942357 AATTATAT
1 AATTTTAT
5942365 -ATTTTAT
1 AATTTTAT
5942372 AATTTTAT
1 AATTTTAT
5942380 AA
1 AA
5942382 AAAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTAT
Found at i:5942368 original size:15 final size:15
Alignment explanation
Indices: 5942350--5942380 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5942340 CACTTTCTAA
5942350 ATTTTATAATTATAT
1 ATTTTATAATTATAT
*
5942365 ATTTTATAATTTTAT
1 ATTTTATAATTATAT
5942380 A
1 A
5942381 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTATAATTATAT
Found at i:5942379 original size:23 final size:23
Alignment explanation
Indices: 5942307--5942381 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 23
5942297 TTTTTAAGTT
5942307 TTATAATATTTTATAATATTTATATA
1 TTAT-ATATTTTATAAT-TTTATA-A
*
5942333 TTATTTTCACTTTCTA-AATTTTATAA
1 TTA-TAT-A-TTT-TATAATTTTATAA
5942359 TTATATATTTTATAATTTTATAA
1 TTATATATTTTATAATTTTATAA
5942382 AAAAATTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
22 2 0.05
23 13 0.31
24 1 0.02
25 2 0.05
26 8 0.19
27 8 0.19
28 6 0.14
29 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATATATTTTATAATTTTATAA
Found at i:5943839 original size:12 final size:12
Alignment explanation
Indices: 5943816--5943858 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
5943806 CCAGCACTTT
*
5943816 CAACAACAACAA
1 CAACAGCAACAA
*
5943828 CACCAGCAACAA
1 CAACAGCAACAA
* *
5943840 CAACAGCATCAG
1 CAACAGCAACAA
5943852 CAACAGC
1 CAACAGC
5943859 TGTGGCTCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.51, C:0.37, G:0.09, T:0.02
Consensus pattern (12 bp):
CAACAGCAACAA
Found at i:5943839 original size:18 final size:18
Alignment explanation
Indices: 5943816--5943856 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5943806 CCAGCACTTT
5943816 CAACAACAACAACACCAG
1 CAACAACAACAACACCAG
* *
5943834 CAACAACAACAGCATCAG
1 CAACAACAACAACACCAG
5943852 CAACA
1 CAACA
5943857 GCTGTGGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.37, G:0.07, T:0.02
Consensus pattern (18 bp):
CAACAACAACAACACCAG
Found at i:5950190 original size:2 final size:2
Alignment explanation
Indices: 5950183--5950210 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5950173 AGCATGGATG
5950183 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
5950211 AAAGGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5957878 original size:7 final size:7
Alignment explanation
Indices: 5957866--5957893 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5957856 AACTGGTAAA
5957866 TGGAAAT
1 TGGAAAT
5957873 TGGAAAT
1 TGGAAAT
5957880 TGGAAAT
1 TGGAAAT
5957887 TGGAAAT
1 TGGAAAT
5957894 AACTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
TGGAAAT
Found at i:5958463 original size:24 final size:24
Alignment explanation
Indices: 5958414--5958463 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
5958404 TACAATATAA
*
5958414 TATTATTATAATATTTAATCTCAT
1 TATTATTATAATATTTAATCTAAT
* *
5958438 TATTATTATTATTTTTACA-CTAAT
1 TATTATTATAATATTTA-ATCTAAT
5958462 TA
1 TA
5958464 GTAAACATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTATTATAATATTTAATCTAAT
Found at i:5963293 original size:28 final size:29
Alignment explanation
Indices: 5963261--5963316 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
5963251 AAAACTTTTT
* *
5963261 ATTATTTATGAAAAT-ATCCATTTTAAAA
1 ATTATGTACGAAAATGATCCATTTTAAAA
* *
5963289 ATTATGTACGTAAATGATTCATTTTAAA
1 ATTATGTACGAAAATGATCCATTTTAAA
5963317 CAGTAAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (29 bp):
ATTATGTACGAAAATGATCCATTTTAAAA
Found at i:5963582 original size:26 final size:27
Alignment explanation
Indices: 5963543--5963594 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
5963533 ATTAAATTGA
*
5963543 AATAACCTTTAAAAAATAT-TAAAAAC
1 AATAACCTTAAAAAAATATATAAAAAC
* *
5963569 AATAATCTTAAAAAATTATATAAAAA
1 AATAACCTTAAAAAAATATATAAAAA
5963595 TCTTATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (27 bp):
AATAACCTTAAAAAAATATATAAAAAC
Found at i:5964575 original size:21 final size:23
Alignment explanation
Indices: 5964552--5964599 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
5964542 TTCCATTTTT
*
5964552 AAATTTTTTT-TATATTTTTATA
1 AAATTTTTTTGAATATTTTTATA
*
5964574 AAATTTTTTTGAATATTTTTAAA
1 AAATTTTTTTGAATATTTTTATA
5964597 AAA
1 AAA
5964600 ATCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AAATTTTTTTGAATATTTTTATA
Found at i:5964811 original size:33 final size:32
Alignment explanation
Indices: 5964750--5964813 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
5964740 AATTTTAAAA
5964750 TTTTAAAAATAAAAATAAAAATACATATAATTT
1 TTTTAAAAATAAAAATAAAAATA-ATATAATTT
*
5964783 TTTTAAAATTAATAAATTAAAAAT-ATATAAT
1 TTTTAAAAATAA-AAA-TAAAAATAATATAAT
5964814 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 18 0.64
34 3 0.11
35 7 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
TTTTAAAAATAAAAATAAAAATAATATAATTT
Found at i:5964813 original size:18 final size:17
Alignment explanation
Indices: 5964787--5964827 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
5964777 TAATTTTTTT
5964787 AAAAT-TAATAAATTAA
1 AAAATATAATAAATTAA
5964803 AAATATATAATAAATTAA
1 AAA-ATATAATAAATTAA
5964821 AAAATAT
1 AAAATAT
5964828 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 6 0.26
18 14 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATAATAAATTAA
Found at i:5964999 original size:17 final size:16
Alignment explanation
Indices: 5964979--5965020 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5964969 ATTTTAGAAA
*
5964979 TTTAAAAATATATAAAT
1 TTTAAAAA-ATAAAAAT
5964996 TTTAAAAAATAAAAAT
1 TTTAAAAAATAAAAAT
*
5965012 TATAAAAAA
1 TTTAAAAAA
5965021 GTTAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTTAAAAAATAAAAAT
Found at i:5971639 original size:10 final size:10
Alignment explanation
Indices: 5971619--5971699 Score: 60
Period size: 10 Copynumber: 8.1 Consensus size: 10
5971609 ATTTAAATAT
*
5971619 TATAGAATTA
1 TATAAAATTA
*
5971629 TAGAAAATTA
1 TATAAAATTA
*
5971639 TATAAATATAA
1 TATAAA-ATTA
*
5971650 T-TAAAATGA
1 TATAAAATTA
*
5971659 TA-AAAATTC
1 TATAAAATTA
5971668 TATAAAATTAA
1 TATAAAATT-A
*
5971679 TAAAAAATTA
1 TATAAAATTA
5971689 TA-AAAACTTA
1 TATAAAA-TTA
5971699 T
1 T
5971700 TGAAAGTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
9 15 0.26
10 30 0.53
11 12 0.21
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
TATAAAATTA
Found at i:5971644 original size:29 final size:29
Alignment explanation
Indices: 5971612--5971683 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
5971602 TTTAAATATT
* *
5971612 TAAATATTA-TAGAATTATAGAAAATTATA
1 TAAATATTATTAAAATGATA-AAAATTATA
* *
5971641 TAAATATAATTAAAATGATAAAAATTCTA
1 TAAATATTATTAAAATGATAAAAATTATA
*
5971670 TAAA-ATTAATAAAA
1 TAAATATTATTAAAA
5971684 AATTATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
28 8 0.22
29 20 0.56
30 8 0.22
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (29 bp):
TAAATATTATTAAAATGATAAAAATTATA
Found at i:5971684 original size:29 final size:30
Alignment explanation
Indices: 5971632--5971699 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
5971622 AGAATTATAG
*
5971632 AAAATTATATAAATATAAT-TAAAATGATA
1 AAAATTATATAAATATAATAAAAAATGATA
* *
5971661 AAAATTCTATAAA-ATTAATAAAAAATTATA
1 AAAATTATATAAATA-TAATAAAAAATGATA
5971691 AAAACTTAT
1 AAAA-TTAT
5971700 TGAAAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 16 0.50
30 12 0.38
31 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTATATAAATATAATAAAAAATGATA
Found at i:5977611 original size:22 final size:21
Alignment explanation
Indices: 5977570--5977614 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
5977560 TCCAACTTAA
*
5977570 TTTAAATATAATAAATTAATT
1 TTTAAATATAATAAAATAATT
5977591 TTTAAATTATAA-ACAAATAATT
1 TTTAAA-TATAATA-AAATAATT
5977613 TT
1 TT
5977615 ATTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAAATATAATAAAATAATT
Found at i:5982445 original size:20 final size:21
Alignment explanation
Indices: 5982420--5982469 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
5982410 AAACTTTATT
*
5982420 TAATATTTTATAAATTT-TAA
1 TAATATTTTACAAATTTATAA
5982440 TAATA-TTTACAAATTTATAA
1 TAATATTTTACAAATTTATAA
*
5982460 AAATAATTTT
1 TAAT-ATTTT
5982470 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 10 0.40
20 11 0.44
21 1 0.04
22 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATATTTTACAAATTTATAA
Found at i:5990619 original size:7 final size:7
Alignment explanation
Indices: 5990607--5990637 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5990597 ATAGTTCAAA
5990607 ATTATAT
1 ATTATAT
5990614 ATTATAT
1 ATTATAT
5990621 ATTATAT
1 ATTATAT
*
5990628 ATTATTT
1 ATTATAT
5990635 ATT
1 ATT
5990638 TCTATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTATAT
Found at i:5992288 original size:31 final size:31
Alignment explanation
Indices: 5992252--5992313 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
5992242 AACGGATTCA
5992252 GAATTAATTATAATTGGATCAAGTCTAATGT
1 GAATTAATTATAATTGGATCAAGTCTAATGT
* *
5992283 GAATTAATTATACTTGGGTCAAGTCTAATGT
1 GAATTAATTATAATTGGATCAAGTCTAATGT
5992314 ATCATTCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (31 bp):
GAATTAATTATAATTGGATCAAGTCTAATGT
Found at i:5996960 original size:26 final size:28
Alignment explanation
Indices: 5996930--5996982 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
5996920 ATAATTATTG
*
5996930 AAAAATAAA-ATAAATATATTTTTTTTT
1 AAAATTAAATATAAATATATTTTTTTTT
*
5996957 AAAATTAAATATTAATATATTTTTTT
1 AAAATTAAATATAAATATATTTTTTT
5996983 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAAATTAAATATAAATATATTTTTTTTT
Found at i:5996988 original size:28 final size:26
Alignment explanation
Indices: 5996930--5996988 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
5996920 ATAATTATTG
*
5996930 AAAAATAAAATAAATATATTTTTTTTT
1 AAAAATAAAATAAATATA-TTTTTTTA
* *
5996957 AAAATTAAATATTAATATATTTTTTTA
1 AAAAATAAA-ATAAATATATTTTTTTA
5996984 AAAAA
1 AAAAA
5996989 ATAACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAAATAAAATAAATATATTTTTTTA
Found at i:5998602 original size:12 final size:12
Alignment explanation
Indices: 5998578--5998610 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
5998568 AATCAAATTA
5998578 GTATATA-TTTT
1 GTATATATTTTT
5998589 GTATATATTTTT
1 GTATATATTTTT
5998601 GTATATATTT
1 GTATATATTT
5998611 CATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (12 bp):
GTATATATTTTT
Found at i:5998605 original size:23 final size:22
Alignment explanation
Indices: 5998578--5998632 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
5998568 AATCAAATTA
* *
5998578 GTATATATTTTGTATATATTTTT
1 GTATATATTTT-CATATAATTTT
*
5998601 GTATATA-TTTCATTTAATTTT
1 GTATATATTTTCATATAATTTT
5998622 GTATATATTTT
1 GTATATATTTT
5998633 TATGTCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
22 6 0.21
23 7 0.25
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (22 bp):
GTATATATTTTCATATAATTTT
Found at i:5999786 original size:72 final size:72
Alignment explanation
Indices: 5999709--5999968 Score: 504
Period size: 72 Copynumber: 3.6 Consensus size: 72
5999699 TATTATTATT
5999709 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
5999774 TTTTAAG
66 TTTTAAG
5999781 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
5999846 TTTTAAG
66 TTTTAAG
5999853 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
5999918 TTTTAAG
66 TTTTAAG
*
5999925 TGGATGTAATGATGGAACTTAGTTGTATTCCAACTAAG-TTGTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTA
5999969 AGTTGTAAGC
Statistics
Matches: 187, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
71 6 0.03
72 181 0.97
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:6000654 original size:27 final size:25
Alignment explanation
Indices: 6000616--6000666 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
6000606 TATATGTATG
*
6000616 TTTTTAGTAAATTTATATATTTTTAAT
1 TTTTTAGTAAATAT-TA-ATTTTTAAT
6000643 TTTTTA-TAAAATATTAATTTTTAA
1 TTTTTAGT-AAATATTAATTTTTAA
6000667 GTTATTATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.36
26 3 0.14
27 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTAGTAAATATTAATTTTTAAT
Found at i:6002014 original size:17 final size:17
Alignment explanation
Indices: 6001992--6002026 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6001982 TTTATTACTA
6001992 TTTTT-ATTATATACACT
1 TTTTTAATT-TATACACT
6002009 TTTTTAATTTATACACT
1 TTTTTAATTTATACACT
6002026 T
1 T
6002027 GTACCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTATACACT
Found at i:6003198 original size:10 final size:10
Alignment explanation
Indices: 6003164--6003216 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
6003154 GAATAATATA
6003164 AAAAATTTAT
1 AAAAATTTAT
* *
6003174 AATATATAATAT
1 AA-AAAT-TTAT
6003186 AAAAATTTAT
1 AAAAATTTAT
6003196 AAAAATTTAT
1 AAAAATTTAT
6003206 --AAATTTAT
1 AAAAATTTAT
6003214 AAA
1 AAA
6003217 TATACATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 8 0.23
10 16 0.46
11 6 0.17
12 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:6003535 original size:15 final size:14
Alignment explanation
Indices: 6003515--6003561 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
6003505 TTCCTTTTTG
6003515 TTAATTTATATATTT
1 TTAATTTATA-ATTT
*
6003530 TTAATTTTTAATTT
1 TTAATTTATAATTT
6003544 TTAA--TAT-ATTT
1 TTAATTTATAATTT
6003555 TTAATTT
1 TTAATTT
6003562 TAAAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 1 0.04
14 8 0.29
15 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTAATTTATAATTT
Found at i:6003562 original size:7 final size:7
Alignment explanation
Indices: 6003515--6003548 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6003505 TTCCTTTTTG
6003515 TTAATTT
1 TTAATTT
*
6003522 ATATATTT
1 TTA-ATTT
6003530 TTAATTT
1 TTAATTT
6003537 TTAATTT
1 TTAATTT
6003544 TTAAT
1 TTAAT
6003549 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:6003573 original size:25 final size:25
Alignment explanation
Indices: 6003522--6003576 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
6003512 TTGTTAATTT
* * **
6003522 ATATATTTTTAATTTTTAATTTTTA
1 ATATATTTTTAATTTTAAAATAATA
6003547 ATATATTTTTAATTTTAAAATAATA
1 ATATATTTTTAATTTTAAAATAATA
6003572 ATATA
1 ATATA
6003577 AATAACCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATATTTTTAATTTTAAAATAATA
Found at i:6005085 original size:9 final size:9
Alignment explanation
Indices: 6005068--6005104 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6005058 TGAGTTTTCG
6005068 AATTCGAAT
1 AATTCGAAT
*
6005077 AACTCGAAT
1 AATTCGAAT
6005086 AATTCGAAT
1 AATTCGAAT
6005095 AATTCGAAT
1 AATTCGAAT
6005104 A
1 A
6005105 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:6005347 original size:25 final size:25
Alignment explanation
Indices: 6005319--6005366 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6005309 AACCTTTTAT
*
6005319 TTTCCCCCAAAATTTTTACTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCAC
* *
6005344 TTTCCCCTAAAACTTTTATTCCC
1 TTTCCCCCAAAACTTTTACTCCC
6005367 TTCTCACCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTCCCCCAAAACTTTTACTCCCAC
Found at i:6006391 original size:10 final size:11
Alignment explanation
Indices: 6006360--6006388 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6006350 TGATATTAGA
6006360 GATATTTTAAT
1 GATATTTTAAT
6006371 GATATTTTAAT
1 GATATTTTAAT
6006382 GATATTT
1 GATATTT
6006389 AATTAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (11 bp):
GATATTTTAAT
Found at i:6008279 original size:45 final size:46
Alignment explanation
Indices: 6008215--6008306 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
6008205 ACGAATAATG
* * * *
6008215 TTATGTATTTAATATATTGTT-GAAAAATGGAATGTTGTTAAATTA
1 TTATGTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTA
*
6008260 TTATGTATTTAGCATATTGTTAAAAAAATGAAATATTGTTAAATTA
1 TTATGTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTA
6008306 T
1 T
6008307 GAATTGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 19 0.46
46 22 0.54
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (46 bp):
TTATGTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTA
Found at i:6008392 original size:24 final size:24
Alignment explanation
Indices: 6008365--6008412 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6008355 TCGTTTTGTG
*
6008365 GCAAAGGATCAATTGA-AGACAAAT
1 GCAAAGGATAAATTGACAG-CAAAT
6008389 GCAAAGGATAAATTGACAGCAAAT
1 GCAAAGGATAAATTGACAGCAAAT
6008413 TACCCAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.17
Consensus pattern (24 bp):
GCAAAGGATAAATTGACAGCAAAT
Found at i:6008589 original size:42 final size:43
Alignment explanation
Indices: 6008503--6008624 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 43
6008493 CTCATATGAG
* ***
6008503 TTTCAGTTTAACCCTTATAGGTTTTTGTTCAGCTCTTTTTAGC
1 TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
6008546 -TTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
1 TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
* * * * *
6008588 TTTCA-TTCAAACCTTATGGGTTTCTGTTTAGCACTTA
1 TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTA
6008625 TGTGCTTCTG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 65 0.94
43 4 0.06
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
Found at i:6010369 original size:41 final size:40
Alignment explanation
Indices: 6010324--6010425 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
6010314 TGATTCAGTA
6010324 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
6010365 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
6010406 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
6010426 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:6010440 original size:41 final size:41
Alignment explanation
Indices: 6010324--6010440 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
6010314 TGATTCAGTA
* * * * *
6010324 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
6010365 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
6010406 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
6010441 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:6011627 original size:54 final size:54
Alignment explanation
Indices: 6011556--6011663 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
6011546 AAAATGAGCT
6011556 AGCAATGGCATCTATTGGTGAGATTACCTCAAACATGCGGATGAAGAAAAAATC
1 AGCAATGGCATCTATTGGTGAGATTACCTCAAACATGCGGATGAAGAAAAAATC
6011610 AGCAATGGCATCTATTGGTGAGATTACCTCAAACATGCGGATGAAGAAAAAATC
1 AGCAATGGCATCTATTGGTGAGATTACCTCAAACATGCGGATGAAGAAAAAATC
6011664 GATGTTGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (54 bp):
AGCAATGGCATCTATTGGTGAGATTACCTCAAACATGCGGATGAAGAAAAAATC
Found at i:6011821 original size:19 final size:20
Alignment explanation
Indices: 6011781--6011824 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
6011771 GTCTCTTTAG
* *
6011781 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
6011800 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
6011819 GCATTA
1 GCATTA
6011825 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:6014385 original size:7 final size:8
Alignment explanation
Indices: 6014364--6014392 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6014354 TCTCATGAAT
6014364 TCAAAAAA
1 TCAAAAAA
6014372 TCAAAAAA
1 TCAAAAAA
6014380 TCAAAAAA
1 TCAAAAAA
6014388 TCAAA
1 TCAAA
6014393 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (8 bp):
TCAAAAAA
Found at i:6016730 original size:86 final size:88
Alignment explanation
Indices: 6016527--6016781 Score: 331
Period size: 86 Copynumber: 2.9 Consensus size: 88
6016517 CAGATCAATG
*
6016527 AAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTC
1 AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-ACACAAAGCCTTGCCTC
** * * * *
6016591 TTTCGGTTG-TGATAGAGCTGGTTG
65 CATCGGTTGCAG-TGGAGCTAGTTA
*
6016615 AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCATCC
1 AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
*
6016679 ATCGATTGCAGTGGAGCTAGTTA
66 ATCGGTTGCAGTGGAGCTAGTTA
** * *
6016702 AAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCCTCC
1 AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
*
6016765 ATCGGTTGCATTGGAGC
66 ATCGGTTGCAGTGGAGC
6016782 AGATTGAAGC
Statistics
Matches: 149, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
85 3 0.02
86 71 0.48
87 28 0.19
88 47 0.32
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (88 bp):
AAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAACACAAAGCCTTGCCTCC
ATCGGTTGCAGTGGAGCTAGTTA
Found at i:6016799 original size:86 final size:84
Alignment explanation
Indices: 6016525--6016835 Score: 313
Period size: 86 Copynumber: 3.6 Consensus size: 84
6016515 GACAGATCAA
* * * *
6016525 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAG-CAAGAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
** * * *
6016590 CTTTCGGTTGTGATAGAGCTGGT
64 CCATCGGTTG-CATGGAGC-AGT
* *
6016613 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACAAAGCCTTGCAT
1 TGAAG-CAAGAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATC-AAAGACAAAGCCTTGCCT
*
6016677 CCATCGATTGCAGTGGAGCTAGT
64 CCATCGGTTGCA-TGGAGC-AGT
* *
6016700 TAAAG-AAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTC
1 TGAAGCAAG-AGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTC
6016764 CATCGGTTGCATTGGAGCAGAT
65 CATCGGTTGCA-TGGAGCAG-T
* ** * * *
6016786 TGAAGCCAGAGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAAGA
1 TGAAGCAAGAGATCTTGCCTTCCT-ACATTAACAGCGAAGCAGATCAAAGA
6016836 TAGTAATCCT
Statistics
Matches: 192, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
85 7 0.04
86 102 0.53
87 33 0.17
88 48 0.25
89 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (84 bp):
TGAAGCAAGAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCAAAGACAAAGCCTTGCCTCC
ATCGGTTGCATGGAGCAGT
Found at i:6016849 original size:44 final size:44
Alignment explanation
Indices: 6016797--6017170 Score: 267
Period size: 44 Copynumber: 8.6 Consensus size: 44
6016787 GAAGCCAGAG
*
6016797 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTA
* * * * *
6016841 ATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---G--
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTA
* * * *
6016880 ATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTA
* * * *
6016921 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GT-A
* * * *
6016966 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTA
* * *
6017010 ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAG-A
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTA
* *
6017053 GATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGA-ATTTCA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GT-A
* * * ** *
6017099 GATCTTATTTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTA
*
6017144 ATCCTATCTCCCTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
6017171 ACGGATTAAA
Statistics
Matches: 254, Mismatches: 52, Indels: 48
0.72 0.15 0.14
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 24 0.09
41 29 0.11
42 3 0.01
43 34 0.13
44 87 0.34
45 3 0.01
46 70 0.28
47 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTA
Found at i:6016989 original size:46 final size:46
Alignment explanation
Indices: 6016917--6017127 Score: 220
Period size: 46 Copynumber: 4.7 Consensus size: 46
6016907 GAAGATCACA
* *
6016917 TCAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
* * *
6016963 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
* * * ** *
6017006 -CACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGA-TTAA-AATA
1 TCA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGACCAAAGAATT
**
6017050 AGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
* *
6017096 TCAGATCTTATTTCCCTGAGATTACAGCGGAG
1 TCAGATCTTATCTCCCTGAGATTACAGTGGAG
6017128 TAGATTGAAG
Statistics
Matches: 134, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
42 6 0.04
43 27 0.20
44 28 0.21
45 5 0.04
46 68 0.51
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATT
Found at i:6017076 original size:133 final size:134
Alignment explanation
Indices: 6016922--6017211 Score: 444
Period size: 133 Copynumber: 2.2 Consensus size: 134
6016912 TCACATCAGG
6016922 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
*
6016987 CAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAAT
66 CAGCGGAGCAGATCGAAG-CTACTAATCCTATCTCCCTGAGA-TTACAGTGGAACGGATTAAAAT
6017049 AAGA-GA
129 AA-ATGA
* *
6017055 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTTCAGATCTTATTTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
* * *
6017120 CAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAA
66 CAGCGGAGCAGATCGAAGCTACTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAA
6017185 ATGA
131 ATGA
* * *
6017189 TCTTATCTCTCTAAGGTTACAGT
1 TCTTATCTCCCTGAGATTACAGT
6017212 AGAGTAGATC
Statistics
Matches: 144, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
132 1 0.01
133 82 0.57
134 60 0.42
135 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (134 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATTA
CAGCGGAGCAGATCGAAGCTACTAATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAA
ATGA
Found at i:6017196 original size:44 final size:43
Alignment explanation
Indices: 6016796--6017220 Score: 204
Period size: 44 Copynumber: 9.8 Consensus size: 43
6016786 TGAAGCCAGA
* * * *
6016796 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA-AAAAT
* * * * * *
6016840 AATCCTATCTCCTTGAGATTACAATGGAGCGGATT----AAAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAT
* * * * * **
6016879 GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCA-
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAAAAT
* * ** **
6016920 GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA-AAAAT
* * * * *
6016964 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT
1 --GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAAAAAAT
* *
6017010 -ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGA-
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAA-AA-AT
** **
6017053 GATCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATTT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA-AAAAT
* * * *** *
6017097 CAGATCTTATTTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGT
1 --GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAAAAAT
* * * *
6017143 AATCCTATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-AAAT
* * * * *
6017187 GATCTTATCTCTCTAAGGTTACAGTAGAGTAGAT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
6017221 CGTTTCAGAT
Statistics
Matches: 275, Mismatches: 83, Indels: 46
0.68 0.21 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.09
41 26 0.09
42 7 0.03
43 32 0.12
44 115 0.42
45 2 0.01
46 63 0.23
47 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAAAAT
Found at i:6025215 original size:20 final size:20
Alignment explanation
Indices: 6025167--6025257 Score: 84
Period size: 19 Copynumber: 4.8 Consensus size: 20
6025157 TCAATCACTA
*
6025167 AAAATTTAT-TAAAAATTAG-
1 AAAATATATATAAAAATT-GT
*
6025186 AAAA-AAATATAAAAATTGT
1 AAAATATATATAAAAATTGT
*
6025205 AAAATATATAT-GAAATTGT
1 AAAATATATATAAAAATTGT
* *
6025224 AAAAT-TTTATAAAAATCGT
1 AAAATATATATAAAAATTGT
*
6025243 AAAAAATATATAAAA
1 AAAATATATATAAAA
6025258 TATATAGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.12
19 38 0.66
20 13 0.22
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAATATATATAAAAATTGT
Found at i:6025571 original size:27 final size:28
Alignment explanation
Indices: 6025541--6025597 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
6025531 ACAATTTTTA
6025541 TAAAAAATTCTA-ATTTTTAATAAAATT
1 TAAAAAATTCTATATTTTTAATAAAATT
* * *
6025568 T-AAAATTTTTATATTTTTATTAAAATT
1 TAAAAAATTCTATATTTTTAATAAAATT
6025595 TAA
1 TAA
6025598 TATTATTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 8 0.32
27 16 0.64
28 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAAAAATTCTATATTTTTAATAAAATT
Found at i:6025824 original size:85 final size:85
Alignment explanation
Indices: 6025657--6025869 Score: 216
Period size: 86 Copynumber: 2.5 Consensus size: 85
6025647 TAATAAGAGC
* * * *
6025657 AGGGGCTTAATTGC-TTTTTAGAAAAATTTTAAGGGTCTTTTTGATGCATTTTAAAATTCAAATA
1 AGGGGCTTAATTGCTTTTTTATAAAAAGTTTGAGGGT-TTTTTGATGCATTTGAAAATTCAAATA
* **
6025721 CCTAATTGAGTGAAAAAAAGT
65 CCTAATTAAGTGAAAAAAAAA
* * * *
6025742 AGGGGCTTAATTGCTTTTTTATAAGAAGTTTGAGGGTTTTTTGATGCACTTTGAAAGTTTAAGT-
1 AGGGGCTTAATTGCTTTTTTATAAAAAGTTTGAGGGTTTTTTGATGCA-TTTGAAAATTCAAATA
* *
6025806 GCTCAATTAAGTG-CAAAAAAA
65 CCT-AATTAAGTGAAAAAAAAA
* * * *
6025827 AGGAGCTTAATTACTTTTTTTTGAAAAAGTTTGAGGGATTTTT
1 AGGGGCTTAATTGCTTTTTTAT-AAAAAGTTTGAGGGTTTTTT
6025870 ACACCCTTAG
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
85 51 0.48
86 55 0.52
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (85 bp):
AGGGGCTTAATTGCTTTTTTATAAAAAGTTTGAGGGTTTTTTGATGCATTTGAAAATTCAAATAC
CTAATTAAGTGAAAAAAAAA
Found at i:6030702 original size:11 final size:10
Alignment explanation
Indices: 6030681--6030711 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
6030671 GAATAAATTT
6030681 AATTTTTTTA
1 AATTTTTTTA
6030691 AATTTCTTTTA
1 AATTT-TTTTA
6030702 AATTTTTTTA
1 AATTTTTTTA
6030712 TTTTTGCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:6033761 original size:4 final size:4
Alignment explanation
Indices: 6033752--6033794 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
6033742 CAAACGAAAT
*
6033752 AAGA AAGAA AAGA AAGA AAGA ATAGA AAGA AGAAA AAGA AAGA
1 AAGA AAG-A AAGA AAGA AAGA A-AGA AAGA A-AGA AAGA AAGA
6033795 GACGCACGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 23 0.68
5 11 0.32
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:6033770 original size:13 final size:13
Alignment explanation
Indices: 6033752--6033794 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
6033742 CAAACGAAAT
6033752 AAGAAAGAAAAGA
1 AAGAAAGAAAAGA
*
6033765 AAGAAAGAATAGA
1 AAGAAAGAAAAGA
6033778 AAG-AAGAAAAAGA
1 AAGAAAG-AAAAGA
6033791 AAGA
1 AAGA
6033795 GACGCACGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 3 0.12
13 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (13 bp):
AAGAAAGAAAAGA
Found at i:6034589 original size:8 final size:8
Alignment explanation
Indices: 6034578--6034612 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
6034568 TATATGTATA
6034578 AATGTGAT
1 AATGTGAT
6034586 AATGTGAT
1 AATGTGAT
*
6034594 AATGTGCT
1 AATGTGAT
*
6034602 AATATGAT
1 AATGTGAT
6034610 AAT
1 AAT
6034613 TAGATATTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (8 bp):
AATGTGAT
Found at i:6038786 original size:18 final size:18
Alignment explanation
Indices: 6038759--6038851 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
6038749 TACGACCGTT
6038759 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
6038777 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
6038795 TACAATACTATTCACGTA
1 TACGGTACTATTCACGTA
**
6038813 TACGACACTATTCACGTA
1 TACGGTACTATTCACGTA
*
6038831 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
6038849 TAC
1 TAC
6038852 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:6042921 original size:11 final size:11
Alignment explanation
Indices: 6042905--6042935 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6042895 ATACCCATAC
6042905 CCCATACCTTG
1 CCCATACCTTG
*
6042916 CCCATACCTTT
1 CCCATACCTTG
6042927 CCCATACCT
1 CCCATACCT
6042936 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:6058255 original size:20 final size:20
Alignment explanation
Indices: 6058230--6058279 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6058220 TGGCTTAAAA
6058230 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
6058250 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
6058267 GTGGTAGTGGATT
1 TTGGTAGTGGATT
6058280 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:6062894 original size:20 final size:20
Alignment explanation
Indices: 6062869--6062918 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
6062859 TGGCTTAAAA
6062869 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
6062889 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
6062906 GTGGTAGTGGATT
1 TTGGTAGTGGATT
6062919 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:6065137 original size:19 final size:19
Alignment explanation
Indices: 6065113--6065149 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6065103 GAATGAAAGT
6065113 AGTTGTGGTAGTTAGCTGC
1 AGTTGTGGTAGTTAGCTGC
6065132 AGTTGTGGTAGTTAGCTG
1 AGTTGTGGTAGTTAGCTG
6065150 GTATTCTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.08, G:0.38, T:0.38
Consensus pattern (19 bp):
AGTTGTGGTAGTTAGCTGC
Found at i:6065159 original size:19 final size:19
Alignment explanation
Indices: 6065113--6065162 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
6065103 GAATGAAAGT
*
6065113 AGTTGTGGTAGTTAGCTGC
1 AGTTCTGGTAGTTAGCTGC
* *
6065132 AGTTGTGGTAGTTAGCTGGT
1 AGTTCTGGTAGTTAGCT-GC
6065152 A-TTCTGGTAGT
1 AGTTCTGGTAGT
6065163 AGTTAGTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (19 bp):
AGTTCTGGTAGTTAGCTGC
Found at i:6068553 original size:13 final size:13
Alignment explanation
Indices: 6068535--6068559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6068525 TAATTTATAT
6068535 GTGTGAAAATTTC
1 GTGTGAAAATTTC
6068548 GTGTGAAAATTT
1 GTGTGAAAATTT
6068560 TATCGTTGGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:6070383 original size:41 final size:41
Alignment explanation
Indices: 6070333--6070431 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
6070323 GTGAAATTAT
* *
6070333 TCAGACTATATGTCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
*
6070374 TCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
* * *
6070415 TTAGACTTTAAACCTAG
1 TCAGACTATAAGCCTAG
6070432 TAGATGAAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (41 bp):
TCAGACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAA
Found at i:6072676 original size:11 final size:13
Alignment explanation
Indices: 6072660--6072693 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
6072650 AATTTTACGG
6072660 AAAAATTTCG-T-
1 AAAAATTTCGTTC
6072671 AAAAATTTCGTTC
1 AAAAATTTCGTTC
6072684 AAAAATTTCG
1 AAAAATTTCG
6072694 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:6073820 original size:44 final size:45
Alignment explanation
Indices: 6073758--6074014 Score: 277
Period size: 51 Copynumber: 5.4 Consensus size: 45
6073748 GGGTGTTACA
*
6073758 TGACAAGTGATAAGTGGTAGCTTTAACTACACTTAAT-TGATCAA-
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTT-ATCTGATCAAG
*
6073802 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC---TGA-T--CAAG
6073853 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG---A-T--CAAG
6073904 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG---A-T--CAAG
*
6073955 TAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-AG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
* *
6073999 GGACAAGTGACAAGTG
1 TGACAAGTGATAAGTG
6074015 ATAAATGTGA
Statistics
Matches: 195, Mismatches: 7, Indels: 22
0.87 0.03 0.10
Matches are distributed among these distances:
43 2 0.01
44 48 0.25
45 1 0.01
47 3 0.02
48 3 0.02
50 3 0.02
51 135 0.69
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (45 bp):
TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
Found at i:6073857 original size:51 final size:51
Alignment explanation
Indices: 6073802--6074018 Score: 407
Period size: 51 Copynumber: 4.3 Consensus size: 51
6073792 AATTGATCAA
*
6073802 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
6073853 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
6073904 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
* *
6073955 TAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
6074006 TGACAAGTGATAA
1 TGACAAGTGATAA
6074019 ATGTGATCCG
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 162 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
Found at i:6073938 original size:102 final size:102
Alignment explanation
Indices: 6073758--6074018 Score: 421
Period size: 102 Copynumber: 2.6 Consensus size: 102
6073748 GGGTGTTACA
*
6073758 TGACAAGTGATAAGTGGTAGCTTTAACTACACTTA----AT---TGATCAA-TGACAAGTGATAA
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGA-CAAGTGACAAGTGATAA
*
6073815 GTGGTAGCTTTAGCTACACTTATCTTATCAGTGACAAG
65 GTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
6073853 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAG
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAG
6073918 TGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
66 TGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
* *
6073955 TAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAGTGACAAGTGATAA
1 TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAA
6074019 ATGTGATCCG
Statistics
Matches: 154, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
95 34 0.22
99 2 0.01
101 3 0.02
102 115 0.75
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (102 bp):
TGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTGATAAG
TGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
Found at i:6075810 original size:19 final size:19
Alignment explanation
Indices: 6075769--6075813 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6075759 AAAGAATTTG
*
6075769 TGGTAGTTAGCTGAAGTTG
1 TGGTAGTTAGCTGAAGTTC
*
6075788 TGGTAGTTAGCTGGTA-TTC
1 TGGTAGTTAGCT-GAAGTTC
6075807 TGGTAGT
1 TGGTAGT
6075814 AGTTAGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.18, C:0.07, G:0.36, T:0.40
Consensus pattern (19 bp):
TGGTAGTTAGCTGAAGTTC
Found at i:6077947 original size:42 final size:42
Alignment explanation
Indices: 6077895--6078016 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
6077885 GATTTGAGAT
6077895 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATAA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATAA
* * * * *
6077937 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTAA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATATAA
* * * *
6077980 TTACATGTAATACCACGTTTGGGACGTTGGCATTGTA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
6078017 CGAGCTTTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATAA
Found at i:6078003 original size:43 final size:42
Alignment explanation
Indices: 6077895--6078012 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
6077885 GATTTGAGAT
* * *
6077895 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATAA
1 TTACATGTAAGACCACGTCTGGGACAGTGGCATCGTATATAA
* *
6077937 TTACGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTAA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATATAA
* *
6077980 TTACATGTAATACCACGTTTGGGAC-GTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACAG-TGGCAT
6078013 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.48
43 32 0.50
44 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCGTATATAA
Done.