Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 26 of 206
Found at i:7621386 original size:18 final size:18
Alignment explanation
Indices: 7621363--7621399 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7621353 CTCTAAAATC
7621363 ACATGCAAAAACAAGACT
1 ACATGCAAAAACAAGACT
*
7621381 ACATGCATAAACAAGACT
1 ACATGCAAAAACAAGACT
7621399 A
1 A
7621400 AAAAATGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.14
Consensus pattern (18 bp):
ACATGCAAAAACAAGACT
Found at i:7623342 original size:20 final size:20
Alignment explanation
Indices: 7623314--7623354 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7623304 TTAATATTTT
* *
7623314 ATTAAAAATTTATATTAATA
1 ATTAAAAATATATAGTAATA
*
7623334 ATTATAAATATATAGTAATA
1 ATTAAAAATATATAGTAATA
7623354 A
1 A
7623355 ATGTTCTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTAAAAATATATAGTAATA
Found at i:7630365 original size:24 final size:24
Alignment explanation
Indices: 7630296--7630365 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 24
7630286 ATTTCCCCTC
7630296 TTTTCCTTCTTTCTCCTT-TGTTTA
1 TTTTCCTTCTTTCT-CTTCTGTTTA
* * *
7630320 -TTTCCTTTTTTTTCTAAC-GTTTA
1 TTTTCCTTCTTTCTCT-TCTGTTTA
*
7630343 TTTTCCTTCTTTGTCTTCTGTTT
1 TTTTCCTTCTTTCTCTTCTGTTT
7630366 TCTCTCGTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
22 2 0.06
23 17 0.47
24 17 0.47
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (24 bp):
TTTTCCTTCTTTCTCTTCTGTTTA
Found at i:7634147 original size:24 final size:24
Alignment explanation
Indices: 7634115--7634162 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7634105 ATAGCCGACA
7634115 AGAAATTAATCTTTGTTATGAACT
1 AGAAATTAATCTTTGTTATGAACT
7634139 AGAAATTAATCTTTGTTATGAACT
1 AGAAATTAATCTTTGTTATGAACT
7634163 TTCTCTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (24 bp):
AGAAATTAATCTTTGTTATGAACT
Found at i:7637079 original size:6 final size:6
Alignment explanation
Indices: 7637070--7637109 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
7637060 CCAAGACATA
7637070 ACTTTG ACTTTG ACTTTG ACTTTG ACTTTG ACTTTG ACTT
1 ACTTTG ACTTTG ACTTTG ACTTTG ACTTTG ACTTTG ACTT
7637110 GTTCAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
ACTTTG
Found at i:7644274 original size:13 final size:13
Alignment explanation
Indices: 7644256--7644281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7644246 ACTGTTTTGC
7644256 CTTGTTCCTCAAA
1 CTTGTTCCTCAAA
7644269 CTTGTTCCTCAAA
1 CTTGTTCCTCAAA
7644282 GAGAATGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
CTTGTTCCTCAAA
Found at i:7645361 original size:13 final size:13
Alignment explanation
Indices: 7645343--7645367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7645333 GAATTACTAT
7645343 GTATGAAAATTTC
1 GTATGAAAATTTC
7645356 GTATGAAAATTT
1 GTATGAAAATTT
7645368 GATCGTTTGA
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:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:7646579 original size:13 final size:12
Alignment explanation
Indices: 7646552--7646585 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
7646542 AATTTTACAA
7646552 AAAAATTTC-TT
1 AAAAATTTCGTT
7646563 AAAAATTTCGTT
1 AAAAATTTCGTT
7646575 CAAAAATTTCG
1 -AAAAATTTCG
7646586 ACATTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (12 bp):
AAAAATTTCGTT
Found at i:7647499 original size:20 final size:21
Alignment explanation
Indices: 7647471--7647510 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7647461 ATTTAATTCA
*
7647471 ATATTTTGACA-TTATTTGAT
1 ATATGTTGACATTTATTTGAT
*
7647491 ATATGTTGAGATTTATTTGA
1 ATATGTTGACATTTATTTGA
7647511 ACATAGAATA
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:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (21 bp):
ATATGTTGACATTTATTTGAT
Found at i:7647739 original size:27 final size:29
Alignment explanation
Indices: 7647701--7647784 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 29
7647691 TTAAATGTGA
*
7647701 AAGGGGTCGCTAAGTGCTGATTCCC-C-C
1 AAGGGGTTGCTAAGTGCTGATTCCCACTC
*
7647728 AAGGGGTTGCTAAGTGTTGATTCCCTGACTC
1 AAGGGGTTGCTAAGTGCTGATTCCC--ACTC
*
7647759 ATTGGTGGTTGCTAAGTGCTGATTCC
1 A-AGG-GGTTGCTAAGTGCTGATTCC
7647785 ACCGTATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 23 0.49
30 1 0.02
31 2 0.04
32 2 0.04
33 19 0.40
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (29 bp):
AAGGGGTTGCTAAGTGCTGATTCCCACTC
Found at i:7647809 original size:102 final size:102
Alignment explanation
Indices: 7647663--7647931 Score: 448
Period size: 102 Copynumber: 2.6 Consensus size: 102
7647653 TCCCCCAAGG
*
7647663 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
* *
7647728 AAGGGGTTGCTAAGTGTTGATTCCCTGACTCATTGGT
66 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
* * *
7647765 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGTTAAGTGCTGATTCCTCC
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
7647830 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
66 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
* * *
7647867 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATATGAAAGGGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
7647932 GAATCACTGG
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 122 0.79
103 32 0.21
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (102 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
Found at i:7647876 original size:33 final size:33
Alignment explanation
Indices: 7647834--7647958 Score: 117
Period size: 33 Copynumber: 3.5 Consensus size: 33
7647824 TCCTCCAAGG
*
7647834 GGTTGCTAAGTGTTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
7647867 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATATGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----AT-TG---GT
*
7647910 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
7647943 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
7647959 ACCCACCGAT
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
33 37 0.49
34 5 0.07
36 2 0.03
37 1 0.01
39 2 0.03
40 2 0.03
42 5 0.07
43 22 0.29
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:7649588 original size:2 final size:2
Alignment explanation
Indices: 7649583--7649619 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7649573 TTCGAATAGG
7649583 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7649620 GTGTGAGTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7649813 original size:75 final size:75
Alignment explanation
Indices: 7649676--7649815 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 75
7649666 CTTACATATA
* * * * * *
7649676 TGTATATGTTCTTTTATTGAATTTAGGTAGGACATTTATATAAGTTTATATGAGGTTTGATTATG
1 TGTATATGTTCTTGTAATGAATTTAAGTAGGAAATTTATATAAGTGTATATGAAGTTTGATTATG
7649741 CAACATTATG
66 CAACATTATG
* *
7649751 TGTATATGTTCTTGTAATGAATTTAAGTATGAAATTTATAT-A-TGTATGTGAAAGTTTCGATTA
1 TGTATATGTTCTTGTAATGAATTTAAGTAGGAAATTTATATAAGTGTATATG-AAGTTT-GATTA
7649814 TG
64 TG
7649816 TATGTATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 6 0.11
74 6 0.11
75 43 0.78
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (75 bp):
TGTATATGTTCTTGTAATGAATTTAAGTAGGAAATTTATATAAGTGTATATGAAGTTTGATTATG
CAACATTATG
Found at i:7649962 original size:41 final size:41
Alignment explanation
Indices: 7649905--7650016 Score: 147
Period size: 41 Copynumber: 2.7 Consensus size: 41
7649895 TGTAATACAA
*
7649905 ACTTTACGTCTAGCAGGCTTGATGCCGGTGA-A-ATGATTCAG
1 ACTTTACGTCTAGCAGGCTTAATGCCGGTGATACAT--TTCAG
7649946 ACTTTACGTCTAGCAGGCTTAATGCCGGTGATACATTTCAG
1 ACTTTACGTCTAGCAGGCTTAATGCCGGTGATACATTTCAG
* * * *
7649987 ACTATAGGTCTAGCAGGCTAAAAGCCGGTG
1 ACTTTACGTCTAGCAGGCTTAATGCCGGTG
7650017 TACCGAATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 61 0.95
42 1 0.02
43 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
ACTTTACGTCTAGCAGGCTTAATGCCGGTGATACATTTCAG
Found at i:7650364 original size:2 final size:2
Alignment explanation
Indices: 7650357--7650390 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7650347 ATTTGAGATT
7650357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7650391 AATGTACTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7652470 original size:15 final size:15
Alignment explanation
Indices: 7652450--7652494 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
7652440 TCGTAATTTT
7652450 ATTAAATAATTTAAG
1 ATTAAATAATTTAAG
7652465 ATTAAAT--TTT---
1 ATTAAATAATTTAAG
7652475 ATTAAATAATTTAAG
1 ATTAAATAATTTAAG
7652490 ATTAA
1 ATTAA
7652495 TATTTGATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
10 7 0.28
12 3 0.12
13 3 0.12
15 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
ATTAAATAATTTAAG
Found at i:7652472 original size:25 final size:25
Alignment explanation
Indices: 7652444--7652499 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
7652434 AATTTTTCGT
7652444 AATTTTATTAAATAATTTAAGATTA
1 AATTTTATTAAATAATTTAAGATTA
7652469 AATTTTATTAAATAATTTAAGATTA
1 AATTTTATTAAATAATTTAAGATTA
7652494 ATATTT
1 A-ATTT
7652500 GATGTATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
AATTTTATTAAATAATTTAAGATTA
Found at i:7654748 original size:11 final size:11
Alignment explanation
Indices: 7654732--7654762 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
7654722 TGAAAATTTG
7654732 AAATTCAAATA
1 AAATTCAAATA
7654743 AAATTCAAATA
1 AAATTCAAATA
7654754 AAATATCAA
1 AAAT-TCAA
7654763 TTTAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATTCAAATA
Found at i:7654752 original size:24 final size:23
Alignment explanation
Indices: 7654685--7654752 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
7654675 ATATAAATAA
* *
7654685 AAATTCAAATAAACTTTAA-TTG
1 AAATTCAAATAAAATTAAATTTG
* * *
7654707 AAAGTTCCAATGAAATGAAAATTTG
1 AAA-TTCAAATAAAAT-TAAATTTG
7654732 AAATTCAAATAAAATTCAAAT
1 AAATTCAAATAAAATT-AAAT
7654753 AAAATATCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 3 0.09
23 9 0.26
24 16 0.47
25 6 0.18
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (23 bp):
AAATTCAAATAAAATTAAATTTG
Found at i:7654812 original size:19 final size:17
Alignment explanation
Indices: 7654788--7654835 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
7654778 ATCAAATTAC
*
7654788 AATTTAAATATATGAATAA
1 AATTTAAATAAAT--ATAA
* *
7654807 AATTTATATAAATATAT
1 AATTTAAATAAATATAA
7654824 AATTTAAATAAA
1 AATTTAAATAAA
7654836 GAAAGCAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
19 11 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATTTAAATAAATATAA
Found at i:7654898 original size:71 final size:71
Alignment explanation
Indices: 7654766--7654898 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
7654756 ATATCAATTT
* * *
7654766 AAAGCAATATTTATCAAATTACAATTTAAATATATGAATAAAATTTATATAAATATATAATTTAA
1 AAAGCAATATTTATCAAATTACAATTTAAATATATAAATAAAATTCAAATAAATATATAATTTAA
7654831 ATAAAG
66 ATAAAG
* *
7654837 AAAGCAATATTTATTAAATTACAATTTAAATATATAAATAAAAATTCAAATAAA-ATTTAATT
1 AAAGCAATATTTATCAAATTACAATTTAAATATATAAAT-AAAATTCAAATAAATATATAATT
7654899 AAAAATTACA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 44 0.79
72 12 0.21
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (71 bp):
AAAGCAATATTTATCAAATTACAATTTAAATATATAAATAAAATTCAAATAAATATATAATTTAA
ATAAAG
Found at i:7660312 original size:3 final size:3
Alignment explanation
Indices: 7660295--7660366 Score: 92
Period size: 3 Copynumber: 23.7 Consensus size: 3
7660285 TATACATAAA
* * *
7660295 TAT TA- TAT ATAT TAT TAT TAT AAT TAT TAAC CAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
7660341 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7660367 AATAAAGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 54 0.90
4 4 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:7665407 original size:21 final size:21
Alignment explanation
Indices: 7665366--7665409 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7665356 AAACATTATA
*
7665366 AAAATTGTAAAAATGAGAAAT
1 AAAATTGTAAAAATGAAAAAT
*
7665387 AAAATTTTAAAAAAT-AAAAAT
1 AAAATTGT-AAAAATGAAAAAT
7665408 AA
1 AA
7665410 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (21 bp):
AAAATTGTAAAAATGAAAAAT
Found at i:7671673 original size:15 final size:14
Alignment explanation
Indices: 7671637--7671675 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
7671627 ATATTTAGTG
7671637 AATATTTATTGTTGA
1 AATA-TTATTGTTGA
*
7671652 GATATTATTGGTTGA
1 AATATTATT-GTTGA
7671667 AATATTATT
1 AATATTATT
7671676 TTATTATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (14 bp):
AATATTATTGTTGA
Found at i:7681618 original size:2 final size:2
Alignment explanation
Indices: 7681611--7681635 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7681601 ATGGGTTCTT
7681611 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7681636 TTCTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7708010 original size:15 final size:16
Alignment explanation
Indices: 7707990--7708026 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7707980 ACAAAATCAA
*
7707990 ATAAAA-TTACATTGT
1 ATAAAAGTTACATTAT
7708005 ATAAAAGTTACATTAT
1 ATAAAAGTTACATTAT
7708021 ATAAAA
1 ATAAAA
7708027 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
ATAAAAGTTACATTAT
Found at i:7708237 original size:60 final size:60
Alignment explanation
Indices: 7708144--7708265 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
7708134 ATACTAAACT
* * * * * *
7708144 AAACACAACAATTTATAGCTTAATCCTAAATTACTAATAAATTAATTTTTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
7708204 AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
7708264 AA
1 AA
7708266 TATTCATACA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAAAAAATTAATTATAAAATAATTAC
Found at i:7708362 original size:61 final size:61
Alignment explanation
Indices: 7708297--7708440 Score: 252
Period size: 61 Copynumber: 2.4 Consensus size: 61
7708287 TTCATACAAA
**
7708297 AATTACAATATTCATACAAAATACTAATCCAAAACTATAAATAAAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATAAAAAACTATAAATAAAAAATTAATTATAAAAT
* *
7708358 AATTACAATATTCATACAAAATACTAATAAAAAACTATAAATACAAAATTTATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATAAAAAACTATAAATAAAAAATTAATTATAAAAT
7708419 AATTACAATATTCATACAAAAT
1 AATTACAATATTCATACAAAAT
7708441 TACAATATTC
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 79 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (61 bp):
AATTACAATATTCATACAAAATACTAATAAAAAACTATAAATAAAAAATTAATTATAAAAT
Found at i:7708397 original size:143 final size:139
Alignment explanation
Indices: 7708250--7708664 Score: 495
Period size: 141 Copynumber: 2.9 Consensus size: 139
7708240 AAAAATTAAT
7708250 TATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAAATTACAATATTCATACA
1 TATAAAATAA-TACAATATTCATACAAAATTACAATATTCATACAAAAATTACAATATTCATACA
* *
7708315 AAATACTAATCCAAAACTATAAATAAAAAATTAATTATAAAATAATTACAATATTCATACAAAAT
65 AAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAA-
7708380 ACTAATAAAAAAC
129 A--AATAAAAAAC
*
7708393 TAT-AAATACA-A-AATTTATT-ATAAAATAATTACAATATTCATAC-AAAATTACAATATTCAT
1 TATAAAATA-ATACAA--TATTCATACAA-AATTACAATATTCATACAAAAATTACAATATTCAT
*
7708453 ACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATATTTACAATATTCATACAA
62 ACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAA
* * * *
7708518 AAAATTACAATAT
127 AAAAATAAAAAAC
* * * * * * *
7708531 TCATACAA-AATACTA-ATCCAAAACTATAAA-TACAAAATTTATTATGAAATAATTACAATATT
1 T-ATAAAATAATACAATATTC-ATAC-A-AAATTACAATATTCA-TA-CAAA-AATTACAATATT
*
7708593 CATACAAAATACTAATAAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATA
59 CATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATA
7708658 CAAAAAA
124 CAAAAAA
7708665 TTACAATATT
Statistics
Matches: 238, Mismatches: 18, Indels: 32
0.83 0.06 0.11
Matches are distributed among these distances:
137 2 0.01
138 8 0.03
139 15 0.06
140 11 0.05
141 88 0.37
142 28 0.12
143 86 0.36
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (139 bp):
TATAAAATAATACAATATTCATACAAAATTACAATATTCATACAAAAATTACAATATTCATACAA
AATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAAAA
ATAAAAAAC
Found at i:7708436 original size:34 final size:34
Alignment explanation
Indices: 7708341--7708441 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 34
7708331 CTATAAATAA
*
7708341 AAAATTAATTATAAAATAATTACAATATTCATAC
1 AAAATTTATTATAAAATAATTACAATATTCATAC
* **
7708375 AAAA--TACTA-ATAAA-AA--AC--TATAAATAC
1 AAAATTTATTATA-AAATAATTACAATATTCATAC
7708402 AAAATTTATTATAAAATAATTACAATATTCATAC
1 AAAATTTATTATAAAATAATTACAATATTCATAC
7708436 AAAATT
1 AAAATT
7708442 ACAATATTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 18
0.67 0.09 0.24
Matches are distributed among these distances:
27 11 0.22
29 9 0.18
30 3 0.06
31 3 0.06
32 8 0.16
34 17 0.33
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (34 bp):
AAAATTTATTATAAAATAATTACAATATTCATAC
Found at i:7708453 original size:80 final size:80
Alignment explanation
Indices: 7708241--7708602 Score: 461
Period size: 80 Copynumber: 4.5 Consensus size: 80
7708231 AAATTACTAA
*
7708241 AAAATTAATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAAATTACAAT
1 AAAATTTATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATAC-AAAA-TAC--T
* * *
7708306 ATTCATACAAAATACT-AATCC
62 AATCA-A-AAACTA-TAAATAC
* * *
7708327 AAAA-CTATAAATAAAA-AATT---A-ATT-ATAAAATAATTACAATATTCATACAAAATACTAA
1 AAAATTTAT-TATAAAATAATTACAATATTCATACAA-AATTACAATATTCATACAAAATACTAA
*
7708385 TAAAAAACTATAAATAC
64 TCAAAAACTATAAATAC
7708402 AAAATTTATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATACTAATC
1 AAAATTTATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATACTAATC
7708467 AAAAACTATAAATAC
66 AAAAACTATAAATAC
* *
7708482 AAAATTAATTATAAAATATTTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAA
1 AAAATTTATTATAAAATAATTACAATATTCATAC--AAAATTACAATATTCATACAAAATACTAA
*
7708547 TCCAAAACTATAAATAC
64 TCAAAAACTATAAATAC
*
7708564 AAAATTTATTATGAAATAATTACAATATTCATACAAAAT
1 AAAATTTATTATAAAATAATTACAATATTCATACAAAAT
7708603 ACTAATAAAA
Statistics
Matches: 246, Mismatches: 18, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
74 1 0.00
75 19 0.08
76 8 0.03
77 4 0.02
79 4 0.02
80 92 0.37
81 25 0.10
82 77 0.31
85 6 0.02
86 10 0.04
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (80 bp):
AAAATTTATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATACTAATC
AAAAACTATAAATAC
Found at i:7708505 original size:61 final size:61
Alignment explanation
Indices: 7708438--7708662 Score: 216
Period size: 61 Copynumber: 3.3 Consensus size: 61
7708428 ATTCATACAA
7708438 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
* * *
7708499 ATTTACAATATTCATACAAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATAC
1 AATTACAATATTCATAC--AAAA-TAC--TA---AT-CAAAA-ACT-AT-AAATAC-A-AAAT--
*
7708564 AAAATTTATTATGAAAT
50 -TAA-TTA-TA--AAAT
*
7708581 AATTACAATATTCATACAAAATACTAATAAAAAACTATAAATACAAAATTAATTATAAAAT
1 AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
7708642 AATTACAATATTCATACAAAA
1 AATTACAATATTCATACAAAA
7708663 AATTACAATA
Statistics
Matches: 134, Mismatches: 9, Indels: 42
0.72 0.05 0.23
Matches are distributed among these distances:
61 41 0.31
63 6 0.04
64 6 0.04
65 2 0.01
66 2 0.01
68 4 0.03
69 3 0.02
70 9 0.07
71 5 0.04
72 5 0.04
73 8 0.06
74 3 0.02
75 4 0.03
77 2 0.01
78 2 0.01
79 6 0.04
80 6 0.04
82 20 0.15
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (61 bp):
AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
Found at i:7708527 original size:21 final size:21
Alignment explanation
Indices: 7708501--7708683 Score: 89
Period size: 21 Copynumber: 8.9 Consensus size: 21
7708491 TATAAAATAT
7708501 TTACAATATTCATACAAAAAA
1 TTACAATATTCATACAAAAAA
7708522 TTACAATATTCATAC--AAAA
1 TTACAATATTCATACAAAAAA
* * * * *
7708541 -TACTA-ATCCAAAACTATAAA
1 TTACAATATTC-ATACAAAAAA
* * * *
7708561 -TACAAAATTTATTATGAAATAA
1 TTACAATATTCA-TA-CAAAAAA
7708583 TTACAATATTCATAC--AAAA
1 TTACAATATTCATACAAAAAA
** * * *
7708602 -TACTAATA-AAAAACTATAAA
1 TTAC-AATATTCATACAAAAAA
* * *
7708622 -TACAAAATTAATTATAAAATAA
1 TTACAATATTCA-TACAAAA-AA
7708644 TTACAATATTCATACAAAAAA
1 TTACAATATTCATACAAAAAA
7708665 TTACAATATTCATACAAAA
1 TTACAATATTCATACAAAA
7708684 TTATCCATTG
Statistics
Matches: 119, Mismatches: 29, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
17 3 0.03
18 13 0.11
19 14 0.12
20 16 0.13
21 42 0.35
22 13 0.11
23 18 0.15
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.30
Consensus pattern (21 bp):
TTACAATATTCATACAAAAAA
Found at i:7708567 original size:82 final size:82
Alignment explanation
Indices: 7708353--7708601 Score: 430
Period size: 82 Copynumber: 3.0 Consensus size: 82
7708343 AATTAATTAT
*
7708353 AAAATAATTACAATATTCATACAAAATACTAATAAAAAACTATAAATACAAAATTTATTATAAAA
1 AAAA-AATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTTATTATAAAA
7708418 TAATTACAATATTCATAC
65 TAATTACAATATTCATAC
*
7708436 --AAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAAT
1 AAAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTTATTATAAAAT
*
7708499 ATTTACAATATTCATAC
66 AATTACAATATTCATAC
* *
7708516 AAAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTTATTATGAAAT
1 AAAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTTATTATAAAAT
7708581 AATTACAATATTCATAC
66 AATTACAATATTCATAC
7708598 AAAA
1 AAAA
7708602 TACTAATAAA
Statistics
Matches: 157, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
80 75 0.48
81 2 0.01
82 80 0.51
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (82 bp):
AAAAAATTACAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTTATTATAAAAT
AATTACAATATTCATAC
Found at i:7708659 original size:34 final size:33
Alignment explanation
Indices: 7708560--7708662 Score: 101
Period size: 34 Copynumber: 3.2 Consensus size: 33
7708550 AAAACTATAA
*
7708560 ATACAAAATTTATTATGAAATAATTACAATATTC
1 ATACAAAATTAATTAT-AAATAATTACAATATTC
* * **
7708594 ATACAAAA-TACTAATAAA-AA--AC--TATAA
1 ATACAAAATTAATTATAAATAATTACAATATTC
7708621 ATACAAAATTAATTATAAAATAATTACAATATTC
1 ATACAAAATTAATTAT-AAATAATTACAATATTC
7708655 ATACAAAA
1 ATACAAAA
7708663 AATTACAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
27 11 0.21
28 5 0.09
29 5 0.09
30 2 0.04
31 2 0.04
32 5 0.09
33 4 0.08
34 19 0.36
ACGTcount: A:0.58, C:0.10, G:0.01, T:0.31
Consensus pattern (33 bp):
ATACAAAATTAATTATAAATAATTACAATATTC
Found at i:7708673 original size:143 final size:135
Alignment explanation
Indices: 7708398--7708686 Score: 418
Period size: 143 Copynumber: 2.1 Consensus size: 135
7708388 AAAACTATAA
* * * * *
7708398 ATACAAAATTTATTATAAAATAATTACAATATTCATACAAAATTACAATATTCATACAAAATACT
1 ATACAAAATTAATCATAAAATAAATACAAAATTCATAAAAAATTACAATATTCATACAAAATACT
*
7708463 AATCAAAAACTATAAATACAAAATTAATTATAAAATATTTACAATATTCATACAAAAAATTACAA
66 AATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAA
7708528 TATTC
131 TATTC
*
7708533 ATACAAAATACTAATCCA-AAACTATAAATACAAAATTTATTATGAAATAATTACAATATTCATA
1 ATACAAAAT--TAAT-CATAAA--ATAAATACAAAATTCA-TA--AAA-AATTACAATATTCATA
*
7708597 CAAAATACTAATAAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAA
57 CAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAA
7708662 AAATTACAATATTC
122 AAATTACAATATTC
7708676 ATACAAAATTA
1 ATACAAAATTA
7708687 TCCATTGTCG
Statistics
Matches: 137, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
135 9 0.07
137 6 0.04
138 1 0.01
139 13 0.09
140 2 0.01
141 2 0.01
142 2 0.01
143 102 0.74
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (135 bp):
ATACAAAATTAATCATAAAATAAATACAAAATTCATAAAAAATTACAATATTCATACAAAATACT
AATCAAAAACTATAAATACAAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAA
TATTC
Found at i:7708686 original size:19 final size:20
Alignment explanation
Indices: 7708258--7708683 Score: 126
Period size: 19 Copynumber: 21.1 Consensus size: 20
7708248 ATTATAAAAT
7708258 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
7708277 AATTACAATATTCATACAAA
1 AATTACAATATTCATACAAA
7708297 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* * * *
7708316 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-AAA
* *
7708336 AATAAAAAATTAATT-ATA-AAA
1 AAT-TACAA-T-ATTCATACAAA
7708357 TAATTACAATATTCATAC-AA
1 -AATTACAATATTCATACAAA
** * *
7708377 AA-TACTAATA-AAAAACTATA
1 AATTAC-AATATTCATAC-AAA
* * *
7708397 AA-TACAAAATTTATTATAAAA
1 AATTACAATATTCA-TA-CAAA
7708418 TAATTACAATATTCATAC-AA
1 -AATTACAATATTCATACAAA
7708438 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* *
7708457 AA-TAC--TAATCA-AAAACTA
1 AATTACAATATTCATACAA--A
* * * *
7708475 TAAATACAAAATTAATTATAAA
1 -AATTACAATATTCA-TACAAA
7708497 ATATTTACAATATTCATACAAAA
1 A-A-TTACAATATTCATAC-AAA
7708520 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* * * *
7708539 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-AAA
* * *
7708559 AA-TACAAAATTTATTATGAAA
1 AATTACAATATTCA-TA-CAAA
7708580 TAATTACAATATTCATAC-AA
1 -AATTACAATATTCATACAAA
** * *
7708600 AA-TACTAATA-AAAAACTATA
1 AATTAC-AATATTCATAC-AAA
* * *
7708620 AA-TACAAAATTAATTATAAAA
1 AATTACAATATTCA-TA-CAAA
7708641 TAATTACAATATTCATACAAAA
1 -AATTACAATATTCATAC-AAA
7708663 AATTACAATATTCATACAAA
1 AATTACAATATTCATACAAA
7708683 A
1 A
7708684 TTATCCATTG
Statistics
Matches: 298, Mismatches: 60, Indels: 97
0.65 0.13 0.21
Matches are distributed among these distances:
15 1 0.00
16 6 0.02
17 6 0.02
18 30 0.10
19 69 0.23
20 62 0.21
21 49 0.16
22 28 0.09
23 42 0.14
24 3 0.01
25 2 0.01
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTACAATATTCATACAAA
Found at i:7711676 original size:3 final size:3
Alignment explanation
Indices: 7711670--7711703 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
7711660 TGGTGGGGAA
*
7711670 GAT GAT GAT GAT GAT GAT GAT GAT GAT TAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
7711704 GTGAGAGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
GAT
Found at i:7714784 original size:21 final size:19
Alignment explanation
Indices: 7714760--7714805 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
7714750 ACATTTTGCT
7714760 AAATTGTCATTTTTTTTTATA
1 AAATTGT-ATTTTTTTTTA-A
*
7714781 AAATTTGTTTTTTTTTTTAA
1 AAA-TTGTATTTTTTTTTAA
7714801 AAATT
1 AAATT
7714806 AGTCTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 2 0.09
20 4 0.17
21 13 0.57
22 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (19 bp):
AAATTGTATTTTTTTTTAA
Found at i:7717868 original size:21 final size:21
Alignment explanation
Indices: 7717843--7717886 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
7717833 ATAGTTTAAA
*
7717843 AAAAGTAATTCTATTCATCCT
1 AAAAGCAATTCTATTCATCCT
7717864 AAAAGCAATTCTATTCATCCT
1 AAAAGCAATTCTATTCATCCT
7717885 AA
1 AA
7717887 CATGTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (21 bp):
AAAAGCAATTCTATTCATCCT
Found at i:7719818 original size:23 final size:23
Alignment explanation
Indices: 7719792--7719844 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
7719782 CAAATTCCTC
7719792 ATGTAAAGAAGCATGACACAAAA
1 ATGTAAAGAAGCATGACACAAAA
*
7719815 ATGTTAAGAAGCATGACACAAAA
1 ATGTAAAGAAGCATGACACAAAA
*
7719838 GTGTAAA
1 ATGTAAA
7719845 CCAAGTGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.17
Consensus pattern (23 bp):
ATGTAAAGAAGCATGACACAAAA
Found at i:7722404 original size:24 final size:26
Alignment explanation
Indices: 7722368--7722417 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
7722358 TATGGTTTGA
*
7722368 TAAATGATAATCAACTATCAATTCAT
1 TAAATGATAATCAAATATCAATTCAT
*
7722394 TAAAT-AT-ATCAAATTTCAATTCAT
1 TAAATGATAATCAAATATCAATTCAT
7722418 CATATTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 2 0.09
26 5 0.23
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (26 bp):
TAAATGATAATCAAATATCAATTCAT
Found at i:7723255 original size:10 final size:10
Alignment explanation
Indices: 7723242--7723284 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
7723232 AAAATTAGCC
7723242 TAATTAACTA
1 TAATTAACTA
7723252 TAATTAACTA
1 TAATTAACTA
*
7723262 -AACTTAATTA
1 TAA-TTAACTA
7723272 TAATTAA-TA
1 TAATTAACTA
7723281 TAAT
1 TAAT
7723285 CAGTGGATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.27
10 20 0.67
11 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATTAACTA
Found at i:7738069 original size:46 final size:46
Alignment explanation
Indices: 7737998--7738253 Score: 354
Period size: 46 Copynumber: 5.3 Consensus size: 46
7737988 GAAATCAGTA
7737998 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
*
7738044 ACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
7738090 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
**
7738136 ACAAAGTGATAAGTGGTAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
1 ACAAAGTGATAAGTGGTA--G---CCT--TAG------CTACACTTATCTGATCAAGTG
7738195 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAG-G
1 ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
7738240 AC-AAGTGATAAGTG
1 ACAAAGTGATAAGTG
7738254 ATCATACGTA
Statistics
Matches: 191, Mismatches: 6, Indels: 28
0.85 0.03 0.12
Matches are distributed among these distances:
44 12 0.06
45 3 0.02
46 127 0.66
48 1 0.01
51 1 0.01
52 3 0.02
53 3 0.02
54 1 0.01
57 1 0.01
59 39 0.20
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (46 bp):
ACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTG
Found at i:7738158 original size:13 final size:13
Alignment explanation
Indices: 7738140--7738167 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7738130 CAAGTGACAA
7738140 AGTGATAAGTGGT
1 AGTGATAAGTGGT
7738153 AGTGATAAGTGGT
1 AGTGATAAGTGGT
7738166 AG
1 AG
7738168 CCTTAGCTAC
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:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (13 bp):
AGTGATAAGTGGT
Found at i:7738162 original size:59 final size:59
Alignment explanation
Indices: 7738094--7738213 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
7738084 CAAGTGACAA
7738094 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
7738153 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
7738212 AG
1 AG
7738214 CCTTAGCTAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (59 bp):
AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
Found at i:7738176 original size:105 final size:103
Alignment explanation
Indices: 7738048--7738253 Score: 385
Period size: 105 Copynumber: 2.0 Consensus size: 103
7738038 CAAGTGACAA
*
7738048 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
7738113 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
66 AGCTACACTTATCTGATCAAG-GAC-AAGTGATAAGTGGT
7738153 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
1 AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
7738218 AGCTACACTTATCTGATCAAGGACAAGTGATAAGTG
66 AGCTACACTTATCTGATCAAGGACAAGTGATAAGTG
7738254 ATCATACGTA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 12 0.12
104 3 0.03
105 85 0.85
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (103 bp):
AGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTT
AGCTACACTTATCTGATCAAGGACAAGTGATAAGTGGT
Found at i:7740788 original size:21 final size:21
Alignment explanation
Indices: 7740764--7740832 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
7740754 ACGAAATAAA
7740764 ATTTTGAGAAACCCGAATGAG
1 ATTTTGAGAAACCCGAATGAG
* **
7740785 ATTTT-AGATTGA-TGGAATGAG
1 ATTTTGAGA--AACCCGAATGAG
*
7740806 ATTTTGAGAAACCCGGATGAG
1 ATTTTGAGAAACCCGAATGAG
7740827 ATTTTG
1 ATTTTG
7740833 GAGGTAATGG
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
20 4 0.11
21 29 0.78
22 4 0.11
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (21 bp):
ATTTTGAGAAACCCGAATGAG
Found at i:7745435 original size:143 final size:148
Alignment explanation
Indices: 7745204--7745593 Score: 384
Period size: 159 Copynumber: 2.6 Consensus size: 148
7745194 TTAGTAAAGT
** * ** *
7745204 TACATAAAATTTGAAATGTATTAATTTAGTGTGTTTTTATTATATAAATTTAGTAAAAAATTCTC
1 TACATAATGTTTGAAATGTATTATTTTAGTGTG-TTTT-TTATATAAATTTAGTAAAAAACCCTT
* * * * * *
7745269 ATTTTGACCCTTTGTTCG-GTTTTTA-TTAC---TT-T-TAAAAAATATATTATTTTCGTGTCTA
64 ATTTTGGCCATTTGTTCGTATTTTTATTTACGTTTTATATAAAAAATATAATATTGTCGT-ACTA
*
7745327 T-TTATTTTATTTTATTTTAG
128 TATTATTTTATATTATTTTAG
7745347 TACATAATGTTTGAAATGTATTATTTTAGTGTG-TTTTTATATAAATTTAGTAAAAAAAACCCTT
1 TACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT--AAAAAACCCTT
* * *
7745411 ATTTTGGCCTTTTATTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATAATATT
64 ATTTTGGCCATTTGTTCGTA--TTT-TTATTTAC-G-TTTTA-TA---T-AAAAAATATAATATT
* * *
7745476 TTCGTATTTTATTATTTTATATTATTTTAG
119 GTCGTACTATATTATTTTATATTATTTTAG
* *
7745506 TACATAATGTTTGAAATGTATTATTTTTGTGTGTTTTTTATATAAATTTAGTGAAAAACCCTTAT
1 TACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTAT
*
7745571 TTTGGCAATTTGTTCGTATTTTT
66 TTTGGCCATTTGTTCGTATTTTT
7745594 CTCTTTTTTT
Statistics
Matches: 205, Mismatches: 21, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
140 15 0.07
141 3 0.01
142 23 0.11
143 30 0.15
145 3 0.01
146 3 0.01
147 3 0.01
152 2 0.01
154 1 0.00
155 2 0.01
156 3 0.01
158 30 0.15
159 69 0.34
160 18 0.09
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (148 bp):
TACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTAT
TTTGGCCATTTGTTCGTATTTTTATTTACGTTTTATATAAAAAATATAATATTGTCGTACTATAT
TATTTTATATTATTTTAG
Found at i:7745654 original size:159 final size:158
Alignment explanation
Indices: 7745289--7745652 Score: 493
Period size: 159 Copynumber: 2.3 Consensus size: 158
7745279 TTTGTTCGGT
* * * * *
7745289 TTTTATTACTTTTAAAAAATATATTATTTTCGT-GTCTATTTATTTTATTTTATTTTAGTACATA
1 TTTTATTACTTTCAAAAAATATAATATTTTC-TATTTTATTTATTTTATATTATTTTAGTACATA
7745353 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTATATAAATTTAGTAAAAAAAACCCTTATTTTGG
65 ATGTTTGAAATGTATTATTTTAGTGTGTTTTTATATAAATTTAGT-AAAAAAACCCTTATTTTGG
** *
7745418 CCTTTTATTCGTATTTTTCTTATTTTCGGA
129 CAATTTATTCGTATTTTTCTTATTTTCAGA
7745448 TTTTATTACTTTCAAAAAATATAATATTTTCGTATTTTA-TTATTTTATATTATTTTAGTACATA
1 TTTTATTACTTTCAAAAAATATAATATTTTC-TATTTTATTTATTTTATATTATTTTAGTACATA
* *
7745512 ATGTTTGAAATGTATTATTTTTGTGTGTTTTTTATATAAATTTAGT-GAAAAACCCTTATTTTGG
65 ATGTTTGAAATGTATTATTTTAGTGTG-TTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGG
* *
7745576 CAATTTGTTCGTATTTTTCTCTTTTTTTCAGA
129 CAATTTATTCGTA-TTTT-TCTTATTTTCAGA
** * *
7745608 TTTTATTACTTTCAGTAAATTTACTATTTT-TATTTTTATTTATTT
1 TTTTATTACTTTCAAAAAATATAATATTTTCTA-TTTTATTTATTT
7745653 ATTTTCGTAT
Statistics
Matches: 183, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
158 29 0.16
159 90 0.49
160 64 0.35
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (158 bp):
TTTTATTACTTTCAAAAAATATAATATTTTCTATTTTATTTATTTTATATTATTTTAGTACATAA
TGTTTGAAATGTATTATTTTAGTGTGTTTTTATATAAATTTAGTAAAAAAACCCTTATTTTGGCA
ATTTATTCGTATTTTTCTTATTTTCAGA
Found at i:7745802 original size:27 final size:27
Alignment explanation
Indices: 7745755--7745823 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
7745745 AACAAAGTGG
* *
7745755 GGTGCCGCCTATGGCCGTGGCACCTTT
1 GGTGCCGCCTATGGCCCTGGCACCATT
*
7745782 GGTGCCGCCTCT-GCCACTGGCACCATT
1 GGTGCCGCCTATGGCC-CTGGCACCATT
7745809 GGTGCCGCCTATGGC
1 GGTGCCGCCTATGGC
7745824 AGTCCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 3 0.08
27 31 0.86
28 2 0.06
ACGTcount: A:0.09, C:0.36, G:0.32, T:0.23
Consensus pattern (27 bp):
GGTGCCGCCTATGGCCCTGGCACCATT
Found at i:7749891 original size:20 final size:20
Alignment explanation
Indices: 7749866--7749905 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7749856 AGTCTTTCTG
7749866 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
7749886 CGATTTCCCCTCATCCTTTC
1 CGATTTCCCCTCATCCTTTC
7749906 TTCATCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.45, G:0.05, T:0.40
Consensus pattern (20 bp):
CGATTTCCCCTCATCCTTTC
Found at i:7751605 original size:17 final size:17
Alignment explanation
Indices: 7751583--7751615 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7751573 TTATTTTCTA
7751583 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
7751600 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
7751616 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:7751661 original size:15 final size:16
Alignment explanation
Indices: 7751624--7751662 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7751614 ATAATTATTC
*
7751624 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
7751640 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
7751655 TAAATTTA
1 TAAATTTA
7751663 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:7751662 original size:61 final size:61
Alignment explanation
Indices: 7751594--7751743 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 61
7751584 ATAAGTTTTC
7751594 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* * * * * *
7751655 TAAATTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
7751716 CAATTTTACACGTTTTGTAAATAATTAT
1 TAAATTTATAAGTTTTGTAAATAATTAT
7751744 ATATATTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.96
62 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:7751980 original size:8 final size:7
Alignment explanation
Indices: 7751967--7752012 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
7751957 TAACGTATAT
7751967 ATAATAAC
1 ATAAT-AC
7751975 ATAATA-
1 ATAATAC
*
7751981 A-ATTAC
1 ATAATAC
7751987 ATAATAC
1 ATAATAC
7751994 ATAATAAC
1 ATAAT-AC
7752002 ATAATAC
1 ATAATAC
7752009 ATAA
1 ATAA
7752013 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:7752000 original size:95 final size:95
Alignment explanation
Indices: 7751888--7752151 Score: 386
Period size: 95 Copynumber: 2.8 Consensus size: 95
7751878 AATCATTTGC
* * * *
7751888 TTACTTAATACATAATAACACAATGCATAA-TTGGTATATAAGCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTT-ATATATAAGCTTGCATAACTTACATAATAAC
7751952 TTCCATAACGTATATATAATAACATAATAAA
65 TTCCATAACGTATATATAATAACATAATAAA
*
7751983 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGTATAACTTACATAATAACT
1 TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
* * *** *
7752048 TTCATAACTTATATATAATCTGATAATACA
66 TCCATAACGTATATATAATAACATAATAAA
* *
7752078 TTACATAATACATAATAACATAATACATAACTTATATTATAATCTTGCACAACTTACATAATAAC
1 TTACATAATACATAATAACATAATACATAACTTATA-TATAAGCTTGCATAACTTACATAATAAC
7752143 TTCCATAAC
65 TTCCATAAC
7752152 TTAATACACC
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
95 117 0.77
96 35 0.23
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (95 bp):
TTACATAATACATAATAACATAATACATAACTTATATATAAGCTTGCATAACTTACATAATAACT
TCCATAACGTATATATAATAACATAATAAA
Found at i:7752005 original size:15 final size:15
Alignment explanation
Indices: 7751967--7752012 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
7751957 TAACGTATAT
7751967 ATAATAACATAAT--
1 ATAATAACATAATAC
*
7751980 A-AATTACATAATAC
1 ATAATAACATAATAC
7751994 ATAATAACATAATAC
1 ATAATAACATAATAC
7752009 ATAA
1 ATAA
7752013 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:7752034 original size:21 final size:20
Alignment explanation
Indices: 7752008--7752065 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 20
7751998 TAACATAATA
7752008 CATAACTTATATATAAGCTTGT
1 CATAACTTATATATAA-CTT-T
*
7752030 -ATAACTTACATAATAACTTT
1 CATAACTTATAT-ATAACTTT
7752050 CATAACTTATATATAA
1 CATAACTTATATATAA
7752066 TCTGATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 23 0.72
22 4 0.12
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (20 bp):
CATAACTTATATATAACTTT
Found at i:7752087 original size:12 final size:14
Alignment explanation
Indices: 7752070--7752106 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
7752060 ATATAATCTG
7752070 ATAATACAT-T-AC
1 ATAATACATATAAC
7752082 ATAATACATAATAAC
1 ATAATACAT-ATAAC
7752097 ATAATACATA
1 ATAATACATA
7752107 ACTTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
14 2 0.09
15 11 0.50
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAATACATATAAC
Found at i:7752100 original size:8 final size:7
Alignment explanation
Indices: 7752070--7752107 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
7752060 ATATAATCTG
7752070 ATAATAC
1 ATAATAC
7752077 AT--TAC
1 ATAATAC
7752082 ATAATAC
1 ATAATAC
7752089 ATAATAAC
1 ATAAT-AC
7752097 ATAATAC
1 ATAATAC
7752104 ATAA
1 ATAA
7752108 CTTATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAATAC
Found at i:7752119 original size:27 final size:27
Alignment explanation
Indices: 7752050--7752120 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
7752040 TAATAACTTT
***
7752050 CATAACTTATA-TATAATCTGATAATA
1 CATAACTTATATTATAATAACATAATA
* * *
7752076 CATTACATA-ATACATAATAACATAATA
1 CATAACTTATAT-TATAATAACATAATA
7752103 CATAACTTATATTATAAT
1 CATAACTTATATTATAAT
7752121 CTTGCACAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 5
0.70 0.19 0.11
Matches are distributed among these distances:
25 1 0.03
26 7 0.21
27 23 0.70
28 2 0.06
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (27 bp):
CATAACTTATATTATAATAACATAATA
Found at i:7752141 original size:22 final size:21
Alignment explanation
Indices: 7752106--7752154 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
7752096 CATAATACAT
* * *
7752106 AACTTATATTATAATCTTGCAC
1 AACTTACATAATAA-CTTCCAC
*
7752128 AACTTACATAATAACTTCCAT
1 AACTTACATAATAACTTCCAC
7752149 AACTTA
1 AACTTA
7752155 ATACACCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (21 bp):
AACTTACATAATAACTTCCAC
Found at i:7752253 original size:9 final size:9
Alignment explanation
Indices: 7752225--7752414 Score: 91
Period size: 9 Copynumber: 22.2 Consensus size: 9
7752215 CATATATAGA
*
7752225 AACTGACAT
1 AACTTACAT
* *
7752234 AAATTAAAT
1 AACTTACAT
7752243 AACTTACAT
1 AACTTACAT
7752252 AACTTACAT
1 AACTTACAT
* *
7752261 AAATTAAAT
1 AACTTACAT
*
7752270 TACTTACAT
1 AACTTACAT
7752279 AACTTACAT
1 AACTTACAT
*
7752288 TA--TACAT
1 AACTTACAT
*
7752295 AACCTT-CTT
1 AA-CTTACAT
7752304 AACTTACAT
1 AACTTACAT
* *
7752313 TA--TACAC
1 AACTTACAT
* *
7752320 GACTCACAT
1 AACTTACAT
7752329 AA-TTA-AT
1 AACTTACAT
* *
7752336 -ATTATACAC
1 AACT-TACAT
7752345 AACTTACAT
1 AACTTACAT
*
7752354 AA-TAAC-T
1 AACTTACAT
***
7752361 TTTTTACAT
1 AACTTACAT
7752370 AACTTACAT
1 AACTTACAT
*
7752379 TACTTACAGT
1 AACTTACA-T
7752389 -ACTTACAT
1 AACTTACAT
7752397 AA--TACAT
1 AACTTACAT
7752404 AACTTACAT
1 AACTTACAT
7752413 AA
1 AA
7752415 TACATAAAAA
Statistics
Matches: 132, Mismatches: 33, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
6 1 0.01
7 22 0.17
8 14 0.11
9 91 0.69
10 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:7752255 original size:27 final size:27
Alignment explanation
Indices: 7752225--7752287 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
7752215 CATATATAGA
*
7752225 AACTGACATAAATTAAATAACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
*
7752252 AACTTACATAAATTAAATTACTTACAT
1 AACTTACATAAATTAAATAACTTACAT
7752279 AACTTACAT
1 AACTTACAT
7752288 TATACATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (27 bp):
AACTTACATAAATTAAATAACTTACAT
Found at i:7752408 original size:16 final size:16
Alignment explanation
Indices: 7752365--7752421 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
7752355 ATAACTTTTT
*
7752365 TACATAACTTACATTACT
1 TACATAACTTACA-TA-A
7752383 TACAGT-ACTTACATAA
1 TACA-TAACTTACATAA
7752399 TACATAACTTACATAA
1 TACATAACTTACATAA
7752415 TACATAA
1 TACATAA
7752422 AAATATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
15 1 0.03
16 21 0.58
17 2 0.06
18 11 0.31
19 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:7754490 original size:21 final size:21
Alignment explanation
Indices: 7754465--7754505 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7754455 ACTTAAAGAA
*
7754465 GAGGCGGCAGCGAGGGAAGCG
1 GAGGCGGCAGCGAGAGAAGCG
* *
7754486 GAGGCTGTAGCGAGAGAAGC
1 GAGGCGGCAGCGAGAGAAGC
7754506 AGAGCAGAGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.17, G:0.51, T:0.05
Consensus pattern (21 bp):
GAGGCGGCAGCGAGAGAAGCG
Found at i:7754794 original size:42 final size:42
Alignment explanation
Indices: 7754748--7754862 Score: 178
Period size: 42 Copynumber: 2.7 Consensus size: 42
7754738 GAAAAACGCC
*
7754748 GCTAAATAACATGTTCTTTAGCGGCGTTTTTT-CTTAAGCGCA
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTAC-TAAGCGCA
* *
7754790 GCTAAAGAACATGGTCTTTAGCGGCGTTTTTTACTAAGCGCC
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACTAAGCGCA
*
7754832 GCTAAAGAATATGTTCTTTAGCGGCGTTTTT
1 GCTAAAGAACATGTTCTTTAGCGGCGTTTTT
7754863 GTTTATAAAC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
GCTAAAGAACATGTTCTTTAGCGGCGTTTTTTACTAAGCGCA
Found at i:7755290 original size:16 final size:17
Alignment explanation
Indices: 7755258--7755290 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7755248 ACTATAATTA
7755258 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
7755275 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
7755291 CTATAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:7758657 original size:88 final size:87
Alignment explanation
Indices: 7758520--7758759 Score: 264
Period size: 88 Copynumber: 2.7 Consensus size: 87
7758510 GCTCCGCAAC
* * * * * * * *
7758520 GACCCAAAGTGAAACACGTATCTACCAGGCCTAAGCCCGCACGAGATGTCAGTACTAGGAATAGA
1 GACCCAGAGTGAGACACGTGTCCAGCAGGCCTAAGCCCGCACGAAATGTCAGTACTAGGAACAAA
* * * *
7758585 AAGGACCACGTGCTCCGCAGGT
66 AAGAACCACGTCCACCACAGGT
* * *
7758607 GACCCAGAGTGAGACATGTGTCCAGCCGGCCTGAAGCCCGCACGAAATGTCAGCACTAGGAACAA
1 GACCCAGAGTGAGACACGTGTCCAGCAGGCCT-AAGCCCGCACGAAATGTCAGTACTAGGAACAA
*
7758672 AAAGAACCGCGTCCACCACAGGT
65 AAAGAACCACGTCCACCACAGGT
* * ** * *
7758695 GATCCAGAGTGAGACACGTGTCCAGCAAGCCTAAAGCCTACACGAATTGTCAGTACTAAGAACAA
1 GACCCAGAGTGAGACACGTGTCCAGCAGGCCT-AAGCCCGCACGAAATGTCAGTACTAGGAACAA
7758760 CGAAGTCAAG
Statistics
Matches: 126, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
87 25 0.20
88 101 0.80
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.14
Consensus pattern (87 bp):
GACCCAGAGTGAGACACGTGTCCAGCAGGCCTAAGCCCGCACGAAATGTCAGTACTAGGAACAAA
AAGAACCACGTCCACCACAGGT
Found at i:7761690 original size:23 final size:23
Alignment explanation
Indices: 7761655--7761705 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
7761645 ACCTATTTTT
* *
7761655 TTACTGTAATAATTTTCGGGGTA
1 TTACAGTAATAATTTTCGGGATA
*
7761678 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAATAATTTTCGGGATA
7761701 TTACA
1 TTACA
7761706 CCCCATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAATAATTTTCGGGATA
Found at i:7762144 original size:19 final size:19
Alignment explanation
Indices: 7762107--7762144 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7762097 AAAAATTACA
*
7762107 TTTTTTACATTTAATATAT
1 TTTTTTACATTTAAAATAT
7762126 TTTTTTA-ATTTCAAAATAT
1 TTTTTTACATTT-AAAATAT
7762145 ATAGTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTACATTTAAAATAT
Found at i:7763352 original size:56 final size:55
Alignment explanation
Indices: 7763275--7763379 Score: 138
Period size: 56 Copynumber: 1.9 Consensus size: 55
7763265 TATTATTGAA
* * * * *
7763275 TATGTTATATTACCTTGTTTGGTTCATTTACTTAGAATGTAAGGTATTGTCCAAG
1 TATGTTACATTACCTTATTTGGTTCATTTACTTAAAATATAAAGTATTGTCCAAG
* *
7763330 TATGTTTACATTACTTTATTTGGTTCATTTAGTTAAAATATAAAGTATTG
1 TATG-TTACATTACCTTATTTGGTTCATTTACTTAAAATATAAAGTATTG
7763380 CTATTTGACA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 4 0.10
56 38 0.90
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.48
Consensus pattern (55 bp):
TATGTTACATTACCTTATTTGGTTCATTTACTTAAAATATAAAGTATTGTCCAAG
Found at i:7780145 original size:3 final size:3
Alignment explanation
Indices: 7780132--7780175 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
7780122 GGAACTCTTG
*
7780132 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7780176 CCTTATAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7780695 original size:51 final size:51
Alignment explanation
Indices: 7780619--7780721 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
7780609 ATTTGAATAA
7780619 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
1 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
7780670 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
1 TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
7780721 T
1 T
7780722 CACGCAAGAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (51 bp):
TTTGTAAGAATTTCCAGATGAATTAGATCTATCAACCTGGTCGTCTAACTT
Found at i:7784709 original size:3 final size:3
Alignment explanation
Indices: 7784701--7784727 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7784691 ATTCGCCCAA
7784701 CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC
7784728 ATCTTCATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:7789809 original size:26 final size:24
Alignment explanation
Indices: 7789774--7789822 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7789764 ATTTTATTGG
7789774 ATTTTAAATTTATGTTTATATTTTAT
1 ATTTTAAATTTA-GTTTAT-TTTTAT
*
7789800 ATTTTCAATTTAGTTTATTTTTA
1 ATTTTAAATTTAGTTTATTTTTA
7789823 GTAAGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 6 0.27
26 11 0.50
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTAAATTTAGTTTATTTTTAT
Found at i:7796188 original size:2 final size:2
Alignment explanation
Indices: 7796181--7796234 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
7796171 TTACACAGTT
7796181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7796223 TA TA TA TA TA TA
1 TA TA TA TA TA TA
7796235 NNNNNNNNNN
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7800664 original size:17 final size:17
Alignment explanation
Indices: 7800642--7800694 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
7800632 TTTTTTTAAA
*
7800642 TAAAAATAAATATTATT
1 TAAAAATAAATATGATT
*
7800659 TAAAAATAAGTA-GATT
1 TAAAAATAAATATGATT
*
7800675 AAGAAAATAAATATGATT
1 TA-AAAATAAATATGATT
7800693 TA
1 TA
7800695 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 4 0.14
17 20 0.69
18 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
TAAAAATAAATATGATT
Found at i:7800824 original size:20 final size:19
Alignment explanation
Indices: 7800799--7800837 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7800789 GGCATTATTT
7800799 TTATTTAAAATAAATAAATA
1 TTATTTAAAA-AAATAAATA
*
7800819 TTATTTAGAAAAATAAATA
1 TTATTTAAAAAAATAAATA
7800838 GATTAAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TTATTTAAAAAAATAAATA
Found at i:7807262 original size:2 final size:2
Alignment explanation
Indices: 7807255--7807285 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7807245 TGGTATGAAT
7807255 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7807286 AATGAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7810493 original size:10 final size:10
Alignment explanation
Indices: 7810480--7810504 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7810470 GCTCAACTAA
7810480 GCAACCTTCT
1 GCAACCTTCT
7810490 GCAACCTTCT
1 GCAACCTTCT
7810500 GCAAC
1 GCAAC
7810505 ATCCTCCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (10 bp):
GCAACCTTCT
Found at i:7817075 original size:13 final size:14
Alignment explanation
Indices: 7817056--7817093 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
7817046 AAATGGCATA
7817056 GAAATAATATAAAC
1 GAAATAATATAAAC
7817070 -AAATAA-ATAAAC
1 GAAATAATATAAAC
7817082 GAAATTAATATA
1 GAAA-TAATATA
7817094 CAAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:7817473 original size:29 final size:31
Alignment explanation
Indices: 7817421--7817491 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
7817411 AAAAATATTC
* * *
7817421 ATTAGAAAAAAATATATATATACATGTACAT
1 ATTATAAAAAAAAATATATATACATATACAT
* *
7817452 A-TATAAAAAAAAAT-TATCTACATATATAT
1 ATTATAAAAAAAAATATATATACATATACAT
7817481 ATTATAAAAAA
1 ATTATAAAAAA
7817492 GATAATTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 13 0.38
30 20 0.59
31 1 0.03
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (31 bp):
ATTATAAAAAAAAATATATATACATATACAT
Found at i:7817685 original size:17 final size:17
Alignment explanation
Indices: 7817653--7817686 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7817643 TAGGAAATAA
* *
7817653 AAAATGTATATGTATAT
1 AAAATGTAAATATATAT
7817670 AAAATGTAAATATATAT
1 AAAATGTAAATATATAT
7817687 GTATATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (17 bp):
AAAATGTAAATATATAT
Found at i:7817721 original size:2 final size:2
Alignment explanation
Indices: 7817714--7817746 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7817704 AAATAGAATA
7817714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7817747 ATTGTAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7818164 original size:19 final size:19
Alignment explanation
Indices: 7818140--7818193 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
7818130 AATCATATCT
7818140 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
7818159 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
7818178 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
7818194 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7819484 original size:5 final size:5
Alignment explanation
Indices: 7819479--7819512 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
7819469 TAAATAAAAT
*
7819479 TTAAT TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
1 TTAAC TTAAC TTAAC TTAAC TTAAC TTAAC TTAA
7819513 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAC
Found at i:7819582 original size:17 final size:17
Alignment explanation
Indices: 7819560--7819609 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
7819550 TAAAATAAAA
7819560 TTTTAAATAGTTTTAAC
1 TTTTAAATAGTTTTAAC
**
7819577 TTTTAAA-ATGTTTTAGT
1 TTTTAAATA-GTTTTAAC
7819594 TTTTAACATA-TTTTAA
1 TTTTAA-ATAGTTTTAA
7819610 AAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.04
17 24 0.89
18 1 0.04
19 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTTAAATAGTTTTAAC
Found at i:7825229 original size:26 final size:26
Alignment explanation
Indices: 7825200--7825262 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
7825190 CCAGCTACCA
* * *
7825200 CAACTCACTAGACCCATTGGCGACCC
1 CAACTCGCTAGACCCACTGACGACCC
* * *
7825226 CAACTTGCTAGGCTCACTGACGACCC
1 CAACTCGCTAGACCCACTGACGACCC
7825252 CAACTCGCTAG
1 CAACTCGCTAG
7825263 GCTCACTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.17
Consensus pattern (26 bp):
CAACTCGCTAGACCCACTGACGACCC
Found at i:7825285 original size:26 final size:26
Alignment explanation
Indices: 7825220--7825270 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7825210 GACCCATTGG
*
7825220 CGACCCCAACTTGCTAGGCTCACTGA
1 CGACCCCAACTCGCTAGGCTCACTGA
7825246 CGACCCCAACTCGCTAGGCTCACTG
1 CGACCCCAACTCGCTAGGCTCACTG
7825271 GTGACCCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.41, G:0.20, T:0.18
Consensus pattern (26 bp):
CGACCCCAACTCGCTAGGCTCACTGA
Found at i:7826248 original size:19 final size:19
Alignment explanation
Indices: 7826224--7826262 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7826214 CAGTTAAGGG
*
7826224 TAATTAGCGATTTAATTGA
1 TAATTAGCGATGTAATTGA
*
7826243 TAATTAGGGATGTAATTGA
1 TAATTAGCGATGTAATTGA
7826262 T
1 T
7826263 CATAGGCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (19 bp):
TAATTAGCGATGTAATTGA
Found at i:7830760 original size:18 final size:18
Alignment explanation
Indices: 7830737--7830812 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 18
7830727 AGATTTATGG
*
7830737 GCCCACATACCCGTGTGA
1 GCCCACATGCCCGTGTGA
* *
7830755 GCCCACACGCCTGTGTGA
1 GCCCACATGCCCGTGTGA
*
7830773 -CCCATATGCCCGTGTG-
1 GCCCACATGCCCGTGTGA
* * *
7830789 GCCTACACGCCTGTGTG-
1 GCCCACATGCCCGTGTGA
7830806 GCCCACA
1 GCCCACA
7830813 CACCCAGATT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
17 31 0.67
18 15 0.33
ACGTcount: A:0.17, C:0.39, G:0.25, T:0.18
Consensus pattern (18 bp):
GCCCACATGCCCGTGTGA
Found at i:7830787 original size:17 final size:18
Alignment explanation
Indices: 7830746--7830813 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
7830736 GGCCCACATA
7830746 CCCGTGTGAGCCCACACG
1 CCCGTGTGAGCCCACACG
* * *
7830764 CCTGTGTGA-CCCATATG
1 CCCGTGTGAGCCCACACG
*
7830781 CCCGTGTG-GCCTACACG
1 CCCGTGTGAGCCCACACG
*
7830798 CCTGTGTG-GCCCACAC
1 CCCGTGTGAGCCCACAC
7830814 ACCCAGATTG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 32 0.80
18 8 0.20
ACGTcount: A:0.15, C:0.40, G:0.26, T:0.19
Consensus pattern (18 bp):
CCCGTGTGAGCCCACACG
Found at i:7832662 original size:41 final size:41
Alignment explanation
Indices: 7832590--7832675 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
7832580 CATGTTAACG
* * * * *
7832590 CATATCGATGCCACTGTCCGAGATAGGGTCTTATACG-AAT
1 CATATCGATGCCAATGTCCCAGACAGAGTCTTACACGAAAT
*
7832630 CATATACGATGCCAATGTCCCAGACATAGTCTTACACGAAAT
1 CATAT-CGATGCCAATGTCCCAGACAGAGTCTTACACGAAAT
7832672 CATA
1 CATA
7832676 CCTCCGAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 5 0.13
41 26 0.68
42 7 0.18
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
CATATCGATGCCAATGTCCCAGACAGAGTCTTACACGAAAT
Found at i:7832851 original size:31 final size:31
Alignment explanation
Indices: 7832815--7832949 Score: 157
Period size: 31 Copynumber: 4.4 Consensus size: 31
7832805 ATATACATAT
*
7832815 TCATATACGAATCAAATTCGACAATGTATAA
1 TCATATACGAATCAAATTCGGCAATGTATAA
** * *
7832846 TCATATAAAAATC-AATTTGGCAATGTAGAA
1 TCATATACGAATCAAATTCGGCAATGTATAA
* * *
7832876 CCATATATGAATCAAGTTCGGCAATGTATAA
1 TCATATACGAATCAAATTCGGCAATGTATAA
*
7832907 TCATATGC-AAGTCAAATTCGGCAATGTATAA
1 TCATATACGAA-TCAAATTCGGCAATGTATAA
*
7832938 CCATATACGAAT
1 TCATATACGAAT
7832950 TAATTTGGCT
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
30 26 0.31
31 56 0.67
32 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (31 bp):
TCATATACGAATCAAATTCGGCAATGTATAA
Found at i:7832888 original size:61 final size:62
Alignment explanation
Indices: 7832816--7832949 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 62
7832806 TATACATATT
*
7832816 CATATACGAATCAAATTCGACAATGTATAATCATATAAAAATC-AATTTGGCAATGTAGAAC
1 CATATACGAATCAAATTCGACAATGTATAATCATATAAAAATCAAATTCGGCAATGTAGAAC
* * * ** * *
7832877 CATATATGAATCAAGTTCGGCAATGTATAATCATATGCAAGTCAAATTCGGCAATGTATAAC
1 CATATACGAATCAAATTCGACAATGTATAATCATATAAAAATCAAATTCGGCAATGTAGAAC
7832939 CATATACGAAT
1 CATATACGAAT
7832950 TAATTTGGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
61 37 0.59
62 26 0.41
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (62 bp):
CATATACGAATCAAATTCGACAATGTATAATCATATAAAAATCAAATTCGGCAATGTAGAAC
Found at i:7832998 original size:92 final size:92
Alignment explanation
Indices: 7832792--7832998 Score: 206
Period size: 92 Copynumber: 2.2 Consensus size: 92
7832782 CCAATGGTCA
* *
7832792 AATCAATTT-AACAATATACATATTCATATACGAATCAAATTCGACAATGTATAATCATATAAAA
1 AATCAATTTCAACAATAT--ATAATCATATACGAATCAAATTCGACAATGTATAACCATATAAAA
*
7832856 ATCAATTTGGCAATGTAGAACCATATATG
64 ATCAATTTGGCAATGTAGAACCATATATC
* ** * * * **
7832885 AATCAAGTTCGGCAATGTATAATCATATGC-AAGTCAAATTCGGCAATGTATAACCATATACGAA
1 AATCAATTTCAACAATATATAATCATATACGAA-TCAAATTCGACAATGTATAACCATATAAAAA
* * * *
7832949 TTAATTTGGCTACT-TATATCCATATA-C
65 TCAATTTGGC-AATGTAGAACCATATATC
7832976 AATTCAATTTCAACAATATATAA
1 AA-TCAATTTCAACAATATATAA
7832999 CCATGTACAA
Statistics
Matches: 91, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
91 4 0.04
92 72 0.79
93 10 0.11
94 5 0.05
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (92 bp):
AATCAATTTCAACAATATATAATCATATACGAATCAAATTCGACAATGTATAACCATATAAAAAT
CAATTTGGCAATGTAGAACCATATATC
Found at i:7833029 original size:31 final size:30
Alignment explanation
Indices: 7832927--7833029 Score: 84
Period size: 31 Copynumber: 3.4 Consensus size: 30
7832917 GTCAAATTCG
* *
7832927 GCAATGTATAACCATATACGAATTAATTT-G
1 GCAAAGTATAACCATATAC-AATTAATTTCA
* ** *
7832957 GCTACTTATATCCATATACAATTCAATTTCA
1 GCAAAGTATAACCATATACAATT-AATTTCA
* *
7832988 ACAATA-TATAACCATGTACAAATTAATTTCA
1 GCAA-AGTATAACCATATAC-AATTAATTTCA
7833019 GCAAAGTATAA
1 GCAAAGTATAA
7833030 TTGTAATACC
Statistics
Matches: 57, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
29 4 0.07
30 21 0.37
31 28 0.49
32 4 0.07
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.33
Consensus pattern (30 bp):
GCAAAGTATAACCATATACAATTAATTTCA
Found at i:7841140 original size:50 final size:50
Alignment explanation
Indices: 7840985--7841146 Score: 145
Period size: 50 Copynumber: 3.2 Consensus size: 50
7840975 AGCCGTTGTA
* * * *
7840985 GCTTTAATATT-TTTAATTGCAATGTCGGGGAAGCAAGATTCACTAATGTG
1 GCTTTAATCTTGTTT-ACTGCAATGTCGGGGAAGTAAGATTCACTGATGTG
** * * *
7841035 GCTTTAATC-TGCTCCACTGC-ATCGCCTGGGG-AGATAAGATT-AGCTGTTGTA
1 GCTTTAATCTTG-TTTACTGCAAT-GTC-GGGGAAG-TAAGATTCA-CTGATGTG
*
7841086 GCTTTAATCTTGTTTACTGCAATGTCGGGGAAGTAAGATTCACCGATGTG
1 GCTTTAATCTTGTTTACTGCAATGTCGGGGAAGTAAGATTCACTGATGTG
7841136 GCTTTAATCTT
1 GCTTTAATCTT
7841147 CTCCGCTACT
Statistics
Matches: 87, Mismatches: 15, Indels: 20
0.71 0.12 0.16
Matches are distributed among these distances:
49 3 0.03
50 44 0.51
51 36 0.41
52 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (50 bp):
GCTTTAATCTTGTTTACTGCAATGTCGGGGAAGTAAGATTCACTGATGTG
Found at i:7842573 original size:13 final size:13
Alignment explanation
Indices: 7842540--7842607 Score: 75
Period size: 13 Copynumber: 5.0 Consensus size: 13
7842530 TTAGCCTCTC
7842540 CATTTTTACTTTTT
1 CATTTTT-CTTTTT
7842554 CATTTTTTCATTTTT
1 CA-TTTTTC-TTTTT
7842569 C-TTTTTCATTTTT
1 CATTTTTC-TTTTT
* *
7842582 CATCTCTCTTTTT
1 CATTTTTCTTTTT
7842595 CATTTTTCTTTTT
1 CATTTTTCTTTTT
7842608 TTTTTGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 29 0.62
14 7 0.15
15 11 0.23
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:7842580 original size:20 final size:20
Alignment explanation
Indices: 7842540--7842612 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
7842530 TTAGCCTCTC
7842540 CATTTTTACTTTTTCATTTTTT
1 CATTTTT-CTTTTTCA-TTTTT
7842562 CATTTTTCTTTTTCATTTTT
1 CATTTTTCTTTTTCATTTTT
* *
7842582 CATCTCTCTTTTTCATTTTT
1 CATTTTTCTTTTTCATTTTT
7842602 C-TTTTT-TTTTT
1 CATTTTTCTTTTT
7842613 GAATTGGTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.11
19 3 0.06
20 24 0.51
21 8 0.17
22 7 0.15
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (20 bp):
CATTTTTCTTTTTCATTTTT
Found at i:7842608 original size:7 final size:7
Alignment explanation
Indices: 7842540--7842607 Score: 72
Period size: 7 Copynumber: 10.0 Consensus size: 7
7842530 TTAGCCTCTC
7842540 CATTTTT
1 CATTTTT
7842547 -ACTTTTT
1 CA-TTTTT
7842554 CATTTTTT
1 CA-TTTTT
7842562 CATTTTT
1 CATTTTT
7842569 C-TTTTT
1 CATTTTT
7842575 CATTTTT
1 CATTTTT
* *
7842582 CATCTCT
1 CATTTTT
7842589 C-TTTTT
1 CATTTTT
7842595 CATTTTT
1 CATTTTT
7842602 C-TTTTT
1 CATTTTT
7842608 TTTTTGAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
6 16 0.31
7 28 0.54
8 8 0.15
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:7843361 original size:22 final size:23
Alignment explanation
Indices: 7843306--7843365 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
7843296 GAAGTCTTCT
*
7843306 TTTTTCATTTTTGATTTGGATGAC
1 TTTTT-ATTTTTGATTTGGATCAC
7843330 TTTTTA-TTTTGACTTT-GATCA-
1 TTTTTATTTTTGA-TTTGGATCAC
7843351 TTTTTATTTTT-ATTT
1 TTTTTATTTTTGATTT
7843366 TTTTTGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 3 0.09
21 7 0.21
22 14 0.42
23 4 0.12
24 5 0.15
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (23 bp):
TTTTTATTTTTGATTTGGATCAC
Found at i:7847906 original size:2 final size:2
Alignment explanation
Indices: 7847899--7847939 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7847889 TATACCATAC
7847899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7847940 CTAATACTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7867491 original size:18 final size:18
Alignment explanation
Indices: 7867458--7867493 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7867448 TAATTAAACA
*
7867458 TATAAAAAATTATAAAAT
1 TATAAAAAAATATAAAAT
*
7867476 TATAAAAAAATCTAAAAT
1 TATAAAAAAATATAAAAT
7867494 CTGAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAAAATATAAAAT
Found at i:7869040 original size:21 final size:21
Alignment explanation
Indices: 7869014--7869055 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7869004 ATTTTCCCTT
7869014 TCTCCTTTCTCTTCTAAGCAA
1 TCTCCTTTCTCTTCTAAGCAA
7869035 TCTCCTTTCTCTTCTAAGCAA
1 TCTCCTTTCTCTTCTAAGCAA
7869056 ATTTTCTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.05, T:0.43
Consensus pattern (21 bp):
TCTCCTTTCTCTTCTAAGCAA
Found at i:7869292 original size:15 final size:15
Alignment explanation
Indices: 7869272--7869302 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7869262 TCCAAATTGT
*
7869272 TTGTTGAAGCTTCCA
1 TTGTTGAAGATTCCA
7869287 TTGTTGAAGATTCCA
1 TTGTTGAAGATTCCA
7869302 T
1 T
7869303 AAAACATTTT
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:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (15 bp):
TTGTTGAAGATTCCA
Found at i:7869614 original size:15 final size:13
Alignment explanation
Indices: 7869588--7869613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7869578 TCAGGTTAGG
7869588 AGTGAGAGATATA
1 AGTGAGAGATATA
7869601 AGTGAGAGATATA
1 AGTGAGAGATATA
7869614 TGAATAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
AGTGAGAGATATA
Found at i:7871977 original size:14 final size:14
Alignment explanation
Indices: 7871954--7871990 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7871944 AAACACCAAA
7871954 AAAT-ATTTT-CAG
1 AAATCATTTTCCAG
7871966 TAAATCATTTTCCAG
1 -AAATCATTTTCCAG
7871981 AAATCATTTT
1 AAATCATTTT
7871991 ACGGGAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 15 0.68
15 3 0.14
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:7877388 original size:18 final size:18
Alignment explanation
Indices: 7877347--7877388 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7877337 ATAGCAGTGT
7877347 AAAGAACAAAAGGAAAAA
1 AAAGAACAAAAGGAAAAA
* *
7877365 AGAGAAGAAAA-GAAAAGA
1 AAAGAACAAAAGGAAAA-A
7877383 AAAGAA
1 AAAGAA
7877389 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAACAAAAGGAAAAA
Found at i:7886043 original size:2 final size:2
Alignment explanation
Indices: 7886036--7886073 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7886026 CTATTTGTAT
7886036 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7886074 ATCTTACATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7896543 original size:21 final size:22
Alignment explanation
Indices: 7896490--7896551 Score: 56
Period size: 26 Copynumber: 2.7 Consensus size: 22
7896480 ATGTTTTAAT
7896490 AATTATTCACTTTTTTTTACAAAA
1 AATTATTCAC-TTTTTTTA-AAAA
*
7896514 ATGATTATTCACTTTTTTT-AAAG
1 A--ATTATTCACTTTTTTTAAAAA
*
7896537 AATTATT-ACTCTTTT
1 AATTATTCACTTTTTT
7896552 AATAAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.21
21 6 0.18
23 4 0.12
24 1 0.03
25 7 0.21
26 9 0.26
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.53
Consensus pattern (22 bp):
AATTATTCACTTTTTTTAAAAA
Found at i:7899845 original size:17 final size:17
Alignment explanation
Indices: 7899823--7899868 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
7899813 ATGTATATAT
*
7899823 AGAGAGAGATAGAGGGA
1 AGAGAGAGAGAGAGGGA
7899840 AGAGAGAGAGAGAGGG-
1 AGAGAGAGAGAGAGGGA
* *
7899856 GGAGGGAGAGAGA
1 AGAGAGAGAGAGA
7899869 TGGTGGGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.54, T:0.02
Consensus pattern (17 bp):
AGAGAGAGAGAGAGGGA
Found at i:7903106 original size:19 final size:19
Alignment explanation
Indices: 7903082--7903133 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
7903072 AATCTTCAAG
7903082 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7903101 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
7903120 GATATGCAATCTTA
1 GATATGCAATCTTA
7903134 CAAGATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7903126 original size:38 final size:40
Alignment explanation
Indices: 7903082--7903158 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
7903072 AATCTTCAAG
7903082 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
7903120 GATATGCAATCTTACAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
7903159 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:7903732 original size:23 final size:24
Alignment explanation
Indices: 7903686--7903734 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7903676 TATACGTATG
7903686 TTTTCTTATATTATTCTTCATAAA
1 TTTTCTTATATTATTCTTCATAAA
*
7903710 TTTT-TTATATATATTTTTC-TAAA
1 TTTTCTTATAT-TATTCTTCATAAA
7903733 TT
1 TT
7903735 AATTAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTCTTATATTATTCTTCATAAA
Found at i:7914181 original size:56 final size:56
Alignment explanation
Indices: 7914121--7914286 Score: 144
Period size: 51 Copynumber: 3.1 Consensus size: 56
7914111 TTTAATAATT
7914121 TTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTAATGTCC
1 TTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTAATGTCC
* * * * *
7914177 TT-AAAAAT----C-ATTT-CTTA-TTCTATCTCAGTGT-CCATATTTTAA--TAAT-T--
1 TTAAAAAATAAAACAATTTAC-AACTTTTAT-T-A-TATAGCAT-TTCTAATTTAATGTCC
7914224 TTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTAATGTCC
1 TTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTAATGTCC
7914280 TTAAAAA
1 TTAAAAA
7914287 TCATTTCTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 38
0.63 0.08 0.29
Matches are distributed among these distances:
47 2 0.02
48 6 0.07
49 7 0.09
50 10 0.12
51 12 0.15
52 12 0.15
53 10 0.12
54 7 0.09
55 6 0.07
56 9 0.11
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.43
Consensus pattern (56 bp):
TTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTAATGTCC
Found at i:7914213 original size:103 final size:103
Alignment explanation
Indices: 7914106--7914313 Score: 416
Period size: 103 Copynumber: 2.0 Consensus size: 103
7914096 TATAATTTCA
7914106 CATATTTTAATAATTTTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTA
1 CATATTTTAATAATTTTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTA
7914171 ATGTCCTTAAAAATCATTTCTTATTCTATCTCAGTGTC
66 ATGTCCTTAAAAATCATTTCTTATTCTATCTCAGTGTC
7914209 CATATTTTAATAATTTTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTA
1 CATATTTTAATAATTTTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTA
7914274 ATGTCCTTAAAAATCATTTCTTATTCTATCTCAGTGTC
66 ATGTCCTTAAAAATCATTTCTTATTCTATCTCAGTGTC
7914312 CA
1 CA
7914314 CTAACCTCAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (103 bp):
CATATTTTAATAATTTTAAAAAATAAAACAATTTACAACTTTTATTATATAGCATTTCTAATTTA
ATGTCCTTAAAAATCATTTCTTATTCTATCTCAGTGTC
Done.