Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold765
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: 464481
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 3
Found at i:360 original size:20 final size:20
Alignment explanation
Indices: 334--386 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
324 GTAGCCAAAC
* *
334 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
353 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
374 TTGTATCGATACA
1 TTGTATCGATACA
387 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:2293 original size:68 final size:68
Alignment explanation
Indices: 2184--2320 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
2174 CATATTAGAG
2184 ACCTATTATGAGGTATTTAAGTATTTAGAAGAATGACGGTACAAAAATGATGAATAATGTCTATG
1 ACCTATTATGAGGTATTTAAGTATTTAGAAGAATGACGGTACAAAAATGATGAATAATGTCTATG
2249 CAC
66 CAC
*
2252 ACCTATTATGAGGTATTTAAGTATTTAGAAGAATGATGGTACAAAAATGATGAATAATGTCTATG
1 ACCTATTATGAGGTATTTAAGTATTTAGAAGAATGACGGTACAAAAATGATGAATAATGTCTATG
2317 CAC
66 CAC
2320 A
1 A
2321 GAGGTTTGAC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.31
Consensus pattern (68 bp):
ACCTATTATGAGGTATTTAAGTATTTAGAAGAATGACGGTACAAAAATGATGAATAATGTCTATG
CAC
Found at i:3674 original size:13 final size:13
Alignment explanation
Indices: 3656--3681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3646 CAATTTTTTG
3656 TGTATCGATACAT
1 TGTATCGATACAT
3669 TGTATCGATACAT
1 TGTATCGATACAT
3682 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6241 original size:13 final size:13
Alignment explanation
Indices: 6223--6261 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
6213 ATAATCACCC
*
6223 TGTATCGATACAG
1 TGTATCGATACAA
6236 TGTATCGATACAA
1 TGTATCGATACAA
6249 TGTATCGATACAA
1 TGTATCGATACAA
6262 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6272 original size:20 final size:20
Alignment explanation
Indices: 6247--6325 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
6237 GTATCGATAC
6247 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
6267 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
6292 AATTTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
6312 CATGTATCGATACA
1 AATGTATCGATACA
6326 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:10203 original size:21 final size:21
Alignment explanation
Indices: 10174--10218 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10164 AAGTTTTCAT
*
10174 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
10194 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
10216 TTT
1 TTT
10219 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:12450 original size:13 final size:13
Alignment explanation
Indices: 12432--12457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12422 CAATTTTTTG
12432 TGTATCGATACAT
1 TGTATCGATACAT
12445 TGTATCGATACAT
1 TGTATCGATACAT
12458 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18752 original size:28 final size:27
Alignment explanation
Indices: 18619--18768 Score: 111
Period size: 28 Copynumber: 5.4 Consensus size: 27
18609 ACCTCTTTAC
* * *
18619 CAGATGCTAGCTAATGTAGACTTTGACT
1 CAGATGCCAACTAATGTAG-GTTTGACT
* * * *
18647 CGGATGCCAACTAATATTGGCTTTTACT
1 CAGATGCCAACTAATGTAGG-TTTGACT
* *
18675 CTGATGCCTACTAATGTAGGCTTTGACT
1 CAGATGCCAACTAATGTAGG-TTTGACT
* ** * *
18703 CAAATGCTGATTAATGTGGGTTTCGACT
1 CAGATGCCAACTAATGTAGGTTT-GACT
*
18731 CAGATGCCAACTAATGTAGGTTCTGAGT
1 CAGATGCCAACTAATGTAGGTT-TGACT
*
18759 TAGATGCCAA
1 CAGATGCCAA
18769 ATACTATGGG
Statistics
Matches: 94, Mismatches: 25, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
27 3 0.03
28 90 0.96
29 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (27 bp):
CAGATGCCAACTAATGTAGGTTTGACT
Found at i:18837 original size:28 final size:28
Alignment explanation
Indices: 18806--18886 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
18796 ATTAGTATAG
18806 GCTTTAACTTGAATGCTAGCTAATACAA
1 GCTTTAACTTGAATGCTAGCTAATACAA
* * * **
18834 GCTTTAAGTTGGATGCCAGCTAATATGA
1 GCTTTAACTTGAATGCTAGCTAATACAA
18862 GCTTTAACTT-ATATGCTAGCTAATA
1 GCTTTAACTTGA-ATGCTAGCTAATA
18887 TGGGATTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (28 bp):
GCTTTAACTTGAATGCTAGCTAATACAA
Found at i:23349 original size:17 final size:18
Alignment explanation
Indices: 23327--23362 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
23317 TCCATGCGAG
23327 ATTTTAGTTTGT-GTTTC
1 ATTTTAGTTTGTAGTTTC
*
23344 ATTTTATTTTGTAGTTTC
1 ATTTTAGTTTGTAGTTTC
23362 A
1 A
23363 AGTACAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (18 bp):
ATTTTAGTTTGTAGTTTC
Found at i:24327 original size:22 final size:22
Alignment explanation
Indices: 24297--24346 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
24287 TAAGGTGCCA
* *
24297 ATTCAAGCTTTTGACAAATTGC
1 ATTCAAGCTTCTGACAAAATGC
*
24319 ATTCTAGCTTCTGACAAAATGC
1 ATTCAAGCTTCTGACAAAATGC
24341 ATTCAA
1 ATTCAA
24347 TCCTAATTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (22 bp):
ATTCAAGCTTCTGACAAAATGC
Found at i:25017 original size:24 final size:25
Alignment explanation
Indices: 24958--25022 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
24948 TTATGCATTT
24958 ATATTTAAA-TTTTGTATTATTATA
1 ATATTTAAATTTTTGTATTATTATA
** *
24982 ATA-AAAATATTTTTTTATTA-TATA
1 ATATTTAA-ATTTTTGTATTATTATA
25006 ATATTTAAATTTATTGT
1 ATATTTAAATTT-TTGT
25023 TTGAAATACA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
23 2 0.06
24 15 0.48
25 14 0.45
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
ATATTTAAATTTTTGTATTATTATA
Found at i:26071 original size:19 final size:20
Alignment explanation
Indices: 26035--26074 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
26025 TATATTTTTC
26035 ATTACGTAAAAGTCAAATTA
1 ATTACGTAAAAGTCAAATTA
* *
26055 ATTAC-TAAAATTGAAATTA
1 ATTACGTAAAAGTCAAATTA
26074 A
1 A
26075 AAAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
ATTACGTAAAAGTCAAATTA
Found at i:26286 original size:16 final size:16
Alignment explanation
Indices: 26250--26329 Score: 81
Period size: 16 Copynumber: 4.9 Consensus size: 16
26240 GAACCTGAAA
*
26250 AATTTAAATTCAAAA-
1 AATTCAAATTCAAAAT
*
26265 ATATTCAAACTCAAAAT
1 A-ATTCAAATTCAAAAT
*
26282 AATTCGAATTCAAAAT
1 AATTCAAATTCAAAAT
* *
26298 AAATTAAAATTTAAAAT
1 -AATTCAAATTCAAAAT
*
26315 AATTCAAATTTAAAA
1 AATTCAAATTCAAAA
26330 ACAACTTATC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.02
16 39 0.72
17 14 0.26
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (16 bp):
AATTCAAATTCAAAAT
Found at i:26379 original size:14 final size:14
Alignment explanation
Indices: 26360--26390 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26350 CATTTGTCAC
*
26360 GTCTAATGTGAGCT
1 GTCTAATGTAAGCT
26374 GTCTAATGTAAGCT
1 GTCTAATGTAAGCT
26388 GTC
1 GTC
26391 AAAGATCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (14 bp):
GTCTAATGTAAGCT
Found at i:26641 original size:16 final size:16
Alignment explanation
Indices: 26622--26669 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
26612 AAAATCGCAA
26622 CTTAAAATAATCAAAC
1 CTTAAAATAATCAAAC
* *
26638 CTTAAAATAATTTAAAT
1 CTTAAAATAA-TCAAAC
26655 CTTAAAATAATCAAA
1 CTTAAAATAATCAAA
26670 GTCCCAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
CTTAAAATAATCAAAC
Found at i:29408 original size:14 final size:14
Alignment explanation
Indices: 29389--29420 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
29379 TAACTAATAT
29389 AATTATTTTTAAAA
1 AATTATTTTTAAAA
*
29403 AATTATTTTTAATA
1 AATTATTTTTAAAA
29417 AATT
1 AATT
29421 TAAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTATTTTTAAAA
Found at i:31042 original size:5 final size:5
Alignment explanation
Indices: 31032--31058 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31022 ACTAATTACC
31032 AAGAA AAGAA AAGAA AAGAA AAGAA AA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AA
31059 AAGAGAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:37529 original size:26 final size:28
Alignment explanation
Indices: 37484--37544 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
37474 TAAATCAATT
*
37484 AAAAATTTATATTTATTTATT-TAATATA
1 AAAAATTTATAATTATTTATTATAATA-A
*
37512 AAAAATTT-TAATTA-TTATTATATTAA
1 AAAAATTTATAATTATTTATTATAATAA
37538 AAAAATT
1 AAAAATT
37545 CTATTTCTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 13 0.43
27 9 0.30
28 8 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AAAAATTTATAATTATTTATTATAATAA
Found at i:38084 original size:2 final size:2
Alignment explanation
Indices: 38077--38107 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38067 AGTCATATGG
38077 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 A
38108 AATGATCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38237 original size:18 final size:18
Alignment explanation
Indices: 38212--38257 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
38202 AAATCAAGTT
*
38212 AAATTTTAA-AATATTAA
1 AAATTTTAATAATATAAA
*
38229 AAATATTTAATAATGTAAA
1 AAAT-TTTAATAATATAAA
38248 AAATTTTAAT
1 AAATTTTAAT
38258 TTTTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTTAATAATATAAA
Found at i:38649 original size:18 final size:19
Alignment explanation
Indices: 38628--38663 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38618 TTAATAATTT
38628 ATTATATT-TAAATATATC
1 ATTATATTATAAATATATC
*
38646 ATTATATTATAATTATAT
1 ATTATATTATAAATATAT
38664 TTAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATATTATAAATATATC
Found at i:38662 original size:11 final size:11
Alignment explanation
Indices: 38612--38780 Score: 51
Period size: 11 Copynumber: 16.1 Consensus size: 11
38602 ATACAGAGGC
38612 AATTAT-TTAAT
1 AATTATATT-AT
38623 AATT-TATTAT
1 AATTATATTAT
* *
38633 ATTTAAATATAT
1 AATTATAT-TAT
*
38645 CATTATATTAT
1 AATTATATTAT
38656 AATTATATT-T
1 AATTATATTAT
* *
38666 AAAATATTTTAT
1 -AATTATATTAT
*
38678 ATTTATA-TA-
1 AATTATATTAT
* *
38687 AATTTTAATAT
1 AATTATATTAT
*
38698 AATAATAATT-T
1 AATTAT-ATTAT
38709 ATATTATA-TA-
1 A-ATTATATTAT
* **
38719 AATTTTAAAAT
1 AATTATATTAT
38730 AATTAT-TTAT
1 AATTATATTAT
*
38740 -GTTATATTAT
1 AATTATATTAT
*
38750 -TTTATATT-T
1 AATTATATTAT
38759 CAATTAT-TT-T
1 -AATTATATTAT
*
38769 ATTTATATTAT
1 AATTATATTAT
38780 A
1 A
38781 TATTTACAAA
Statistics
Matches: 115, Mismatches: 26, Indels: 34
0.66 0.15 0.19
Matches are distributed among these distances:
9 20 0.17
10 32 0.28
11 48 0.42
12 15 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
AATTATATTAT
Found at i:38703 original size:45 final size:46
Alignment explanation
Indices: 38615--38703 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 46
38605 CAGAGGCAAT
* *
38615 TATTTAATAATTTATTATATTTAAATATATCATTATATTATAATTA
1 TATTTAATAATTTATTATATTTAAATAAATCATTATATAATAATTA
* *
38661 TATTTAA-AATATT-TTATATTTATATAAAT-TTTAATATAATAAT
1 TATTTAATAAT-TTATTATATTTAAATAAATCATT-ATATAATAAT
38704 AATTTATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
44 2 0.05
45 26 0.70
46 9 0.24
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (46 bp):
TATTTAATAATTTATTATATTTAAATAAATCATTATATAATAATTA
Found at i:38719 original size:32 final size:33
Alignment explanation
Indices: 38668--38732 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
38658 TTATATTTAA
* *
38668 AATATTTTATATTTATATAAATTTTAATATAAT
1 AATAATTTATATTTATATAAATTTTAAAATAAT
38701 AATAATTTATA-TTATATAAATTTTAAAATAAT
1 AATAATTTATATTTATATAAATTTTAAAATAAT
38733 TATTTATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTTAAAATAAT
Found at i:38778 original size:14 final size:15
Alignment explanation
Indices: 38646--38779 Score: 69
Period size: 16 Copynumber: 8.7 Consensus size: 15
38636 TAAATATATC
*
38646 ATTATATTATAATTAT
1 ATTATATTAT-TTTAT
* *
38662 ATTTAAAATATTTTAT
1 A-TTATATTATTTTAT
*
38678 ATTTATATAAATTTTAAT
1 A-TTATAT-TATTTT-AT
* * *
38696 ATAATAATAATTTAT
1 ATTATATTATTTTAT
* *
38711 ATTATATAAATTTTAA
1 ATTATAT-TATTTTAT
*
38727 AATA-ATTA-TTTAT
1 ATTATATTATTTTAT
*
38740 GTTATATTATTTTAT
1 ATTATATTATTTTAT
38755 ATT-TCAATTATTTTAT
1 ATTAT--ATTATTTTAT
38771 -TTATATTAT
1 ATTATATTAT
38780 ATATTTACAA
Statistics
Matches: 88, Mismatches: 21, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
13 6 0.07
14 11 0.12
15 18 0.20
16 34 0.39
17 16 0.18
18 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.57
Consensus pattern (15 bp):
ATTATATTATTTTAT
Found at i:39043 original size:26 final size:25
Alignment explanation
Indices: 38991--39048 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
38981 GGATTTTAAG
* * *
38991 TTAAATTAATTTAAATTTTTAAAAT
1 TTAAAATAATTTAAAGTTTGAAAAT
*
39016 TTAAAATAATTTTAAGTTTGAAATAT
1 TTAAAATAATTTAAAGTTTGAAA-AT
*
39042 TTTAAAT
1 TTAAAAT
39049 TTGAATAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (25 bp):
TTAAAATAATTTAAAGTTTGAAAAT
Found at i:39045 original size:16 final size:15
Alignment explanation
Indices: 38996--39083 Score: 65
Period size: 16 Copynumber: 5.6 Consensus size: 15
38986 TTAAGTTAAA
38996 TTAATTT-AAAT-TT
1 TTAATTTGAAATATT
*
39009 TTAAAATTTAAAATAATT
1 TT--AATTTGAAAT-ATT
39027 TTAAGTTTGAAATATT
1 TTAA-TTTGAAATATT
*
39043 TTAAATTTGAATAGATT
1 TT-AATTTGAA-ATATT
*
39060 TTAATTTTGATA-ATT
1 TTAA-TTTGAAATATT
39075 TTAATTTGA
1 TTAATTTGA
39084 TATTTAAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
13 2 0.03
14 5 0.08
15 12 0.19
16 20 0.32
17 20 0.32
18 4 0.06
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
TTAATTTGAAATATT
Found at i:39061 original size:33 final size:31
Alignment explanation
Indices: 38996--39083 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 31
38986 TTAAGTTAAA
*
38996 TTAATTT-AAAT-TTTTAAAATTTAAAATAATT
1 TTAATTTGAAATATTTT-AAATTT-GAATAATT
39027 TTAAGTTTGAAATATTTTAAATTTGAATAGATT
1 TTAA-TTTGAAATATTTTAAATTTGAATA-ATT
*
39060 TTAATTTTGATA-ATTTT-AATTTGA
1 TTAA-TTTGAAATATTTTAAATTTGA
39084 TATTTAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 11 0.22
32 12 0.24
33 23 0.46
34 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (31 bp):
TTAATTTGAAATATTTTAAATTTGAATAATT
Found at i:39062 original size:17 final size:16
Alignment explanation
Indices: 39020--39083 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
39010 TAAAATTTAA
*
39020 AATAATTTTAAGTTTG
1 AATAATTTTAAATTTG
39036 AA-ATATTTTAAATTTG
1 AATA-ATTTTAAATTTG
*
39052 AATAGATTTTAATTTTG
1 AATA-ATTTTAAATTTG
39069 -ATAATTTT-AATTTG
1 AATAATTTTAAATTTG
39083 A
1 A
39084 TATTTAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.12
15 6 0.15
16 18 0.44
17 12 0.29
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
AATAATTTTAAATTTG
Found at i:39093 original size:13 final size:14
Alignment explanation
Indices: 39042--39093 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
39032 TTTGAAATAT
39042 TTTAAATTTGAATAGA
1 TTTAAATTTG-ATA-A
*
39058 TTTTAATTTTGATAA
1 -TTTAAATTTGATAA
*
39073 TTTTAATTTGAT-A
1 TTTAAATTTGATAA
39086 TTTAAATT
1 TTTAAATT
39094 ATTTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 8 0.26
14 10 0.32
15 1 0.03
16 3 0.10
17 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (14 bp):
TTTAAATTTGATAA
Found at i:45777 original size:22 final size:22
Alignment explanation
Indices: 45735--45777 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45725 TTCAATCAGC
* *
45735 TAAATTTTATTAATTAGACTTT
1 TAAATTTTATAAATTAAACTTT
45757 TAAATTTTA-AAAGTTAAACTT
1 TAAATTTTATAAA-TTAAACTT
45778 ACATGAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
TAAATTTTATAAATTAAACTTT
Found at i:49271 original size:18 final size:18
Alignment explanation
Indices: 49248--49286 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49238 TTATTTTTTA
*
49248 TTTTT-ATAAATTTTAATT
1 TTTTTAATAAATGTT-ATT
49266 TTTTTAATAAATGTTATT
1 TTTTTAATAAATGTTATT
49284 TTT
1 TTT
49287 ATTTTTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTAATAAATGTTATT
Found at i:50114 original size:21 final size:21
Alignment explanation
Indices: 50090--50129 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50080 CATATGGTTA
50090 ATGTA-ATCTACATGAACTAAC
1 ATGTAGAT-TACATGAACTAAC
*
50111 ATGTAGATTACATTAACTA
1 ATGTAGATTACATGAACTA
50130 GATAAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
ATGTAGATTACATGAACTAAC
Found at i:50200 original size:105 final size:105
Alignment explanation
Indices: 50018--50218 Score: 321
Period size: 105 Copynumber: 1.9 Consensus size: 105
50008 TTAGCTTAAG
* * *
50018 TTAACTTGATAAAAACTCTAACTAGAGTAACATGAATTTAGGATGAACTATTTTTCTAAAGTCAT
1 TTAACTAGATAAAAACTCTAACTAGAGTAACATGAATTTAAGATGAACTATTTCTCTAAAGTCAT
50083 ATGGTTAATGTAATCTACATGAACTAACATGTAGATTACA
66 ATGGTTAATGTAATCTACATGAACTAACATGTAGATTACA
* ** * * *
50123 TTAACTAGATAAAAACTCTAGCTAGAGTAAGGTGAATTTAATATGAGCTATTTCTCTAAAGTTAT
1 TTAACTAGATAAAAACTCTAACTAGAGTAACATGAATTTAAGATGAACTATTTCTCTAAAGTCAT
50188 ATGGTTAATGTAATCTACATGAACTAACATG
66 ATGGTTAATGTAATCTACATGAACTAACATG
50219 GAAACAGTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (105 bp):
TTAACTAGATAAAAACTCTAACTAGAGTAACATGAATTTAAGATGAACTATTTCTCTAAAGTCAT
ATGGTTAATGTAATCTACATGAACTAACATGTAGATTACA
Found at i:51401 original size:7 final size:7
Alignment explanation
Indices: 51391--51415 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51381 TAATTATATA
51391 TTAAATT
1 TTAAATT
51398 TTAAATT
1 TTAAATT
51405 TTAAATT
1 TTAAATT
51412 TTAA
1 TTAA
51416 TAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:53309 original size:19 final size:20
Alignment explanation
Indices: 53277--53323 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
53267 TAAATTATTT
53277 TTTAAA-AATAAACTATAA-A
1 TTTAAATAATAAACTA-AATA
53296 TTTAAATAAT-AACTAAATA
1 TTTAAATAATAAACTAAATA
*
53315 TATAAATAA
1 TTTAAATAA
53324 ATATCGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 2 0.08
19 20 0.80
20 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTAAATAATAAACTAAATA
Found at i:62228 original size:50 final size:50
Alignment explanation
Indices: 62153--62283 Score: 262
Period size: 50 Copynumber: 2.6 Consensus size: 50
62143 TTGACACTAC
62153 CACTATTGGTCTCTAAGCTTTTAAAAATGATAATATTTTTGGGTAAAGTG
1 CACTATTGGTCTCTAAGCTTTTAAAAATGATAATATTTTTGGGTAAAGTG
62203 CACTATTGGTCTCTAAGCTTTTAAAAATGATAATATTTTTGGGTAAAGTG
1 CACTATTGGTCTCTAAGCTTTTAAAAATGATAATATTTTTGGGTAAAGTG
62253 CACTATTGGTCTCTAAGCTTTTAAAAATGAT
1 CACTATTGGTCTCTAAGCTTTTAAAAATGAT
62284 TTTGATCCCC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (50 bp):
CACTATTGGTCTCTAAGCTTTTAAAAATGATAATATTTTTGGGTAAAGTG
Found at i:63578 original size:47 final size:45
Alignment explanation
Indices: 63510--63666 Score: 212
Period size: 44 Copynumber: 3.5 Consensus size: 45
63500 CCAGACATTT
* * *
63510 TTTTTCTTCTTCCTTTCTTTTCTTCTCCTG-CAAGGCCCACTCATTTCC
1 TTTTT-TTCTTCCTTCCTTTTCCTCTCCTGCCCA-GCCCACTC-TTT-C
*
63558 TTTTTTTCTTCCTTCCTTTTCCTCTCTTGCCCAGCCCACTCTTT-
1 TTTTTTTCTTCCTTCCTTTTCCTCTCCTGCCCAGCCCACTCTTTC
*
63602 TTTTTTTCTTCCTTCCTTTTCCTCTTCTGCCCAGCCCACTCTTTC
1 TTTTTTTCTTCCTTCCTTTTCCTCTCCTGCCCAGCCCACTCTTTC
63647 TTTTTTTCTT-CTTCCTTTTC
1 TTTTTTTCTTCCTTCCTTTTC
63667 TTTTCTTCTT
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
44 52 0.51
45 10 0.10
46 3 0.03
47 29 0.29
48 7 0.07
ACGTcount: A:0.05, C:0.36, G:0.04, T:0.54
Consensus pattern (45 bp):
TTTTTTTCTTCCTTCCTTTTCCTCTCCTGCCCAGCCCACTCTTTC
Found at i:67192 original size:75 final size:75
Alignment explanation
Indices: 67069--67218 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
67059 TTAAATTGAG
67069 AAAACACTTGAAAATGAAAAGTTAAATATAAGTATGATCAATTAGGGAAAATGTAGAGGGTTCCT
1 AAAACACTTGAAAATGAAAAGTTAAATATAAGTATGATCAATTAGGGAAAATGTAGAGGGTTCCT
67134 AGCTTCCTTT
66 AGCTTCCTTT
67144 AAAACACTTGAAAATGAAAAGTTAAATATAAGTATGATCAATTAGGGAAAATGTAGAGGGTTCCT
1 AAAACACTTGAAAATGAAAAGTTAAATATAAGTATGATCAATTAGGGAAAATGTAGAGGGTTCCT
67209 AGCTTCCTTT
66 AGCTTCCTTT
67219 TCAACCTCAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (75 bp):
AAAACACTTGAAAATGAAAAGTTAAATATAAGTATGATCAATTAGGGAAAATGTAGAGGGTTCCT
AGCTTCCTTT
Found at i:70379 original size:19 final size:20
Alignment explanation
Indices: 70343--70380 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
70333 ATAACCTTTT
* *
70343 AAATTTATTATATTTATATA
1 AAATTTATTAAATATATATA
70363 AAATTT-TTAAATATATAT
1 AAATTTATTAAATATATAT
70381 TTATATCGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTTATTAAATATATATA
Found at i:70393 original size:25 final size:24
Alignment explanation
Indices: 70351--70410 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
70341 TTAAATTTAT
70351 TATATTTATATAAAATTTTTAAATA
1 TATATTTATATAAAA-TTTTAAATA
*** *
70376 TATATTTATATCGTATTTTAATTA
1 TATATTTATATAAAATTTTAAATA
70400 TATTATTTATA
1 TA-TATTTATA
70411 ATATATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TATATTTATATAAAATTTTAAATA
Found at i:70415 original size:14 final size:14
Alignment explanation
Indices: 70389--70425 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
70379 ATTTATATCG
70389 TATTT-TAATTATAT
1 TATTTATAA-TATAT
70403 TATTTATAATATAT
1 TATTTATAATATAT
70417 TA-TTATAAT
1 TATTTATAAT
70426 TTTATATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 12 0.55
15 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTATAATATAT
Found at i:70417 original size:25 final size:25
Alignment explanation
Indices: 70349--70417 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 25
70339 TTTTAAATTT
* *
70349 ATTATATT-TATATAAAAT-TTTTA
1 ATTATATTATTTATAATATATTTTA
* *
70372 AATATA-TATTTAT-ATCGTATTTTA
1 ATTATATTATTTATAAT-ATATTTTA
70396 ATTATATTATTTATAATATATT
1 ATTATATTATTTATAATATATT
70418 ATTATAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
22 2 0.06
23 10 0.29
24 10 0.29
25 11 0.31
26 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
ATTATATTATTTATAATATATTTTA
Found at i:70431 original size:21 final size:22
Alignment explanation
Indices: 70396--70439 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
70386 TCGTATTTTA
*
70396 ATTATATTATTTATA-ATATATT
1 ATTATAATATTTATATA-ATATT
70418 ATTATAAT-TTTATATAATATT
1 ATTATAATATTTATATAATATT
70439 A
1 A
70440 CAAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATAATATTTATATAATATT
Found at i:70438 original size:18 final size:18
Alignment explanation
Indices: 70411--70477 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 18
70401 ATTATTTATA
*
70411 ATATATTATTATAATTTT
1 ATATAATATTATAATTTT
* **
70429 ATATAATATTACAA-AAT
1 ATATAATATTATAATTTT
*
70446 ATATAAT-TTTTAATATTT
1 ATATAATATTATAAT-TTT
70464 ATA-AATATT-TAATT
1 ATATAATATTATAATT
70478 AAATTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
16 5 0.13
17 15 0.39
18 18 0.47
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATAATATTATAATTTT
Found at i:71286 original size:20 final size:20
Alignment explanation
Indices: 71232--71288 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
71222 ATAAAAACAC
71232 AACATGAATATAACATAAAAAT
1 AACATGAATAT-A-ATAAAAAT
* * *
71254 AA-TTACAACATAATAAAAAT
1 AACAT-GAATATAATAAAAAT
71274 AACATGAATATAATA
1 AACATGAATATAATA
71289 TATATATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
20 18 0.67
21 3 0.11
22 6 0.22
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.25
Consensus pattern (20 bp):
AACATGAATATAATAAAAAT
Found at i:71415 original size:15 final size:14
Alignment explanation
Indices: 71385--71449 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
71375 AACAAACAAT
*
71385 TTTTCTTATTTTTC
1 TTTTCTTTTTTTTC
71399 TTTTCTTTTTTTATC
1 TTTTCTTTTTTT-TC
71414 TTTT-TTTTTCTTTC
1 TTTTCTTTTT-TTTC
* *
71428 CTTTATTCTCTTTTTC
1 TTTTCTT-T-TTTTTC
71444 TTTTCT
1 TTTTCT
71450 CTCTCTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 21 0.50
15 10 0.24
16 9 0.21
17 2 0.05
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTTTTTTTTC
Found at i:71417 original size:20 final size:20
Alignment explanation
Indices: 71384--71426 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
71374 AAACAAACAA
71384 TTTTTCTTATTTTTCTTTTC
1 TTTTTCTTATTTTTCTTTTC
*
71404 TTTTT-TTATCTTTTTTTTTC
1 TTTTTCTTAT-TTTTCTTTTC
71424 TTT
1 TTT
71427 CCTTTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTCTTATTTTTCTTTTC
Found at i:71420 original size:24 final size:24
Alignment explanation
Indices: 71384--71459 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 24
71374 AAACAAACAA
*
71384 TTTTTC-TTATTTTTCTTTTCTTT
1 TTTTTCTTTATTTTTCTTTCCTTT
*
71407 TTTTATCTTTTTTTTTCTTTCCTTT
1 TTTT-TCTTTATTTTTCTTTCCTTT
* * * *
71432 ATTCTCTTTTTCTTTTCTCTCTCTTT
1 TTTTTCTTTAT-TTTTCTTTC-CTTT
71458 TT
1 TT
71460 ACCTTTTCTC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.09
24 9 0.21
25 25 0.58
26 5 0.12
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTCTTTATTTTTCTTTCCTTT
Found at i:71431 original size:25 final size:25
Alignment explanation
Indices: 71393--71459 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
71383 ATTTTTCTTA
*
71393 TTTTTCTTTTCTTTTTTTATCTTTT
1 TTTTTCTTTCCTTTTTTTATCTTTT
* *
71418 TTTTTCTTTCC-TTTATTCTCTTTT
1 TTTTTCTTTCCTTTTTTTATCTTTT
*
71442 TCTTTTCTCTCTCTTTTT
1 T-TTTTCTTTC-CTTTTT
71460 ACCTTTTCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.35
25 18 0.53
26 1 0.03
27 3 0.09
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTCTTTCCTTTTTTTATCTTTT
Found at i:71456 original size:17 final size:18
Alignment explanation
Indices: 71434--71472 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
71424 TTTCCTTTAT
71434 TCTCTTTTT-CTTTTCTC
1 TCTCTTTTTACTTTTCTC
71451 TCTCTTTTTACCTTTTCTC
1 TCTCTTTTTA-CTTTTCTC
71470 TCT
1 TCT
71473 ACCATGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TCTCTTTTTACTTTTCTC
Found at i:71465 original size:25 final size:23
Alignment explanation
Indices: 71406--71466 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
71396 TTCTTTTCTT
* *
71406 TTTTTATCTTTTTTTTTCTTTCC
1 TTTTTACCTTTTTTTTTCTCTCC
71429 TTTATT-CTCTTTTTCTTTTCTCTCTC
1 TTT-TTAC-CTTTTT-TTTTCTCTC-C
71455 TTTTTACCTTTT
1 TTTTTACCTTTT
71467 CTCTCTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
23 3 0.10
24 8 0.26
25 15 0.48
26 5 0.16
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTACCTTTTTTTTTCTCTCC
Found at i:74004 original size:16 final size:16
Alignment explanation
Indices: 73958--74096 Score: 89
Period size: 16 Copynumber: 8.2 Consensus size: 16
73948 ATTTATATTG
* *
73958 AAATGATTCAAACTTA
1 AAATGATTTAAACTCA
* **
73974 AAATAACATAAACTCA
1 AAATGATTTAAACTCA
*
73990 AAATGATTTAGACTCA
1 AAATGATTTAAACTCA
74006 AAATGATTTAAACTCA
1 AAATGATTTAAACTCA
* *
74022 AGACAGGTCCCATCATAAACTCA
1 A-A-A--T--GAT-TTAAACTCA
* **
74045 AAATAATACAAACTCA
1 AAATGATTTAAACTCA
*
74061 AAATAATTTAAACTCAA
1 AAATGATTTAAACTC-A
*
74078 AAATGATTTAAACTTA
1 AAATGATTTAAACTCA
74094 AAA
1 AAA
74097 ATAATATTAG
Statistics
Matches: 97, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
16 64 0.66
17 17 0.18
18 1 0.01
19 1 0.01
20 1 0.01
21 1 0.01
22 3 0.03
23 9 0.09
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.26
Consensus pattern (16 bp):
AAATGATTTAAACTCA
Found at i:74086 original size:17 final size:17
Alignment explanation
Indices: 74037--74101 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
74027 GGTCCCATCA
*
74037 TAAACTC-AAAATAATA
1 TAAACTCAAAAATAATT
*
74053 CAAACTC-AAAATAATT
1 TAAACTCAAAAATAATT
*
74069 TAAACTCAAAAATGATT
1 TAAACTCAAAAATAATT
*
74086 TAAACTTAAAAATAAT
1 TAAACTCAAAAATAAT
74102 ATTAGAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
16 20 0.48
17 22 0.52
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAACTCAAAAATAATT
Found at i:74091 original size:33 final size:33
Alignment explanation
Indices: 74037--74101 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
74027 GGTCCCATCA
*
74037 TAAACTCAAAATAATACAAAC-TCAAAATAATT
1 TAAACTCAAAATAATACAAACTTAAAAATAATT
* **
74069 TAAACTCAAAAATGATTTAAACTTAAAAATAAT
1 TAAACTC-AAAATAATACAAACTTAAAAATAAT
74102 ATTAGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 7 0.26
33 11 0.41
34 9 0.33
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (33 bp):
TAAACTCAAAATAATACAAACTTAAAAATAATT
Found at i:77148 original size:13 final size:13
Alignment explanation
Indices: 77130--77154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77120 TCAAAAACAA
77130 GGTATTCAAATAG
1 GGTATTCAAATAG
77143 GGTATTCAAATA
1 GGTATTCAAATA
77155 ACATGTGTTG
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:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
GGTATTCAAATAG
Found at i:80311 original size:21 final size:21
Alignment explanation
Indices: 80254--80312 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
80244 GAATTTCTAT
* *
80254 GTGTAGTATCAATACATGAAG
1 GTGTGGTATCAATACCTGAAG
*
80275 GTGTGGTATCAATACCTTAAG
1 GTGTGGTATCAATACCTGAAG
*
80296 GTGTGGTACCAATACCT
1 GTGTGGTATCAATACCT
80313 AGTGTGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (21 bp):
GTGTGGTATCAATACCTGAAG
Found at i:80435 original size:112 final size:114
Alignment explanation
Indices: 80278--80490 Score: 306
Period size: 112 Copynumber: 1.9 Consensus size: 114
80268 CATGAAGGTG
* *
80278 TGGTATCAATACCTTAAGGTGTGGTACCAATACCTAGTGTGATTGTATCGATACAAG-CCTTGAC
1 TGGTATCAATACCTCAAGGTGTGGTACCAATACCTAGTGTAATTGTATCGATA-AAGACCTTGAC
*
80342 AGTAGCTAAAATAC-AATTTTTAGATAACAAGTATCGTTGCATAAAGGCT
65 AGTAACTAAAATACAAATTTTTAGATAACAAGTATCGTTGCATAAAGGCT
* * * * *
80391 TGGTATCGATACC-CAAGGTGTGGTATCGATACCTAGTGTAATTGTATCGATATAGACCTTGGCA
1 TGGTATCAATACCTCAAGGTGTGGTACCAATACCTAGTGTAATTGTATCGATAAAGACCTTGACA
* *
80455 GTAACTAAAATTCAAATTTTTGGATAACAAGTATCG
66 GTAACTAAAATACAAATTTTTAGATAACAAGTATCG
80491 ATACTTAAGT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
111 2 0.02
112 53 0.60
113 33 0.38
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TGGTATCAATACCTCAAGGTGTGGTACCAATACCTAGTGTAATTGTATCGATAAAGACCTTGACA
GTAACTAAAATACAAATTTTTAGATAACAAGTATCGTTGCATAAAGGCT
Found at i:81174 original size:20 final size:20
Alignment explanation
Indices: 81149--81313 Score: 132
Period size: 20 Copynumber: 7.8 Consensus size: 20
81139 TTTTATCCAG
*
81149 ATGTATCCATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
81169 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
81189 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
81209 ATGTGTCGATACATTCTGTCTTTTTACTA
1 ATGTATCGATACA-------TTTTT-C-A
* *
81238 GATGTATCGATATATTTTTTA
1 -ATGTATCGATACATTTTTCA
* * *
81259 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
81279 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
81299 ATGTATCGATACATT
1 ATGTATCGATACATT
81314 CTGTCTTTTT
Statistics
Matches: 114, Mismatches: 21, Indels: 20
0.74 0.14 0.13
Matches are distributed among these distances:
20 91 0.80
21 1 0.01
23 5 0.04
27 4 0.04
28 1 0.01
29 1 0.01
30 11 0.10
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:81209 original size:40 final size:40
Alignment explanation
Indices: 81149--81312 Score: 168
Period size: 40 Copynumber: 3.9 Consensus size: 40
81139 TTTTATCCAG
* *
81149 ATGTATCCATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
*
81189 ATGTATCGATACATTCTTCAATGTGTCGATACATTCTGTCTTTTTACT-A
1 ATGTATCGATACATTCTTCAATGTATCGATACA---TG------TA-TGA
* * *
81238 GATGTATCGATATATTTTTTAATGTATCGATACATGTATGA
1 -ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
81279 ATGTATCGATACATTCTTCAATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACAT
81313 TCTGTCTTTT
Statistics
Matches: 102, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
40 62 0.61
41 3 0.03
43 2 0.02
47 2 0.02
49 3 0.03
50 30 0.29
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
Found at i:81292 original size:90 final size:91
Alignment explanation
Indices: 81138--81363 Score: 364
Period size: 90 Copynumber: 2.5 Consensus size: 91
81128 AAAAGTCACA
* * *
81138 TTTTTATCCAGATGTATCCATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATGTATCGATACAT
*
81203 TCTTCAATGTGTCGATACATTCTGTC
66 TCTTCAATGTATCGATACATTCTGTC
* *
81229 TTTTTA-CTAGATGTATCGATATATTTTTTAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATGTATCGATACAT
81293 TCTTCAATGTATCGATACATTCTGTC
66 TCTTCAATGTATCGATACATTCTGTC
***
81319 TTTTTACCCAGATGTATCGATACATTGAATAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACAT
81364 CTAGTTAAAA
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
90 85 0.69
91 39 0.31
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATGTATCGATACATTCTGTC
Found at i:95332 original size:8 final size:8
Alignment explanation
Indices: 95328--95390 Score: 83
Period size: 8 Copynumber: 7.6 Consensus size: 8
95318 GTAAAAAAAT
95328 AAAAAACA
1 AAAAAACA
95336 AAAAAACA
1 AAAAAACA
95344 AAAAAACA
1 AAAAAACA
95352 AAAAAACCA
1 AAAAAA-CA
95361 AAAACAA-A
1 AAAA-AACA
95369 CAAAAAACA
1 -AAAAAACA
*
95378 AACAAACA
1 AAAAAACA
95386 AAAAA
1 AAAAA
95391 GAGGTCCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
8 36 0.73
9 11 0.22
10 2 0.04
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:95340 original size:15 final size:14
Alignment explanation
Indices: 95320--95390 Score: 70
Period size: 15 Copynumber: 4.6 Consensus size: 14
95310 CGTCCTTCGT
95320 AAAAAAATAAAAAAC
1 AAAAAAA-AAAAAAC
95335 AAAAAAACAAAAAAAC
1 -AAAAAA-AAAAAAAC
*
95351 AAAAAAACCAAAAAC
1 AAAAAAA-AAAAAAC
*
95366 AAACAAAAAACAAAC
1 AAA-AAAAAAAAAAC
95381 AAACAAAAAA
1 AAA-AAAAAA
95391 GAGGTCCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
14 1 0.02
15 30 0.61
16 17 0.35
17 1 0.02
ACGTcount: A:0.85, C:0.14, G:0.00, T:0.01
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:96585 original size:83 final size:85
Alignment explanation
Indices: 96439--96656 Score: 266
Period size: 83 Copynumber: 2.6 Consensus size: 85
96429 TTATTTTTTT
* * * * * *
96439 AAAGCCCACAAGTCTGTGG-CACCCTTTCAAAGCCAACACGAA-TTAGTGGCA-CTCTTCCAAAG
1 AAAGCCCATAAGTCAGTGGATACCCTTTCAAAGCC--CAC-AAGTCAGTGGTACCCCTT-CAAAG
*
96501 CCTATAAGTCAATGGCACCCTTTC
62 CCCATAAGTCAATGGCACCCTTTC
*
96525 AAAGCCCATAAGTTAGTGG-TA-CCTTTCAAAGCCCACAAGTCAGTGGTACCCCTTCAAAGCCCA
1 AAAGCCCATAAGTCAGTGGATACCCTTTCAAAGCCCACAAGTCAGTGGTACCCCTTCAAAGCCCA
96588 TAAGTCAATGGCACCCTTTC
66 TAAGTCAATGGCACCCTTTC
* *
96608 AAAGCCCATGAGTCAGTGGCATACCCTTTCAAAGCCCACAAGTCGGTGG
1 AAAGCCCATAAGTCAGTGG-ATACCCTTTCAAAGCCCACAAGTCAGTGG
96657 CACCATTTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
82 2 0.02
83 55 0.47
84 4 0.03
85 14 0.12
86 41 0.35
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (85 bp):
AAAGCCCATAAGTCAGTGGATACCCTTTCAAAGCCCACAAGTCAGTGGTACCCCTTCAAAGCCCA
TAAGTCAATGGCACCCTTTC
Found at i:96657 original size:30 final size:28
Alignment explanation
Indices: 96439--96707 Score: 254
Period size: 28 Copynumber: 9.4 Consensus size: 28
96429 TTATTTTTTT
*
96439 AAAGCCCACAAGTCTGTGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
96467 AAAGCCAACACGAA-TTAGTGGCACTCTTCC
1 AAAGCC--CAC-AAGTCAGTGGCACCCTTTC
* * *
96497 AAAGCCTATAAGTCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
96525 AAAGCCCATAAGTTAGTGGTA-CCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
96552 AAAGCCCACAAGTCAGTGGTACCCCTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* *
96580 AAAGCCCATAAGTCAATGGCACCCTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
**
96608 AAAGCCCATGAGTCAGTGGCATACCCTTTC
1 AAAGCCCACAAGTCAGTGGC--ACCCTTTC
* *
96638 AAAGCCCACAAGTCGGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
96666 AAAGTCCACACAAGTCGGTGGTAACTCTTTTC
1 AAAG-CC-CACAAGTCAGTGG-CAC-CCTTTC
96698 AAAGCCCACA
1 AAAGCCCACA
96708 CAAGTTAGTG
Statistics
Matches: 201, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
27 27 0.13
28 94 0.47
29 2 0.01
30 63 0.31
31 6 0.03
32 9 0.04
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTC
Found at i:97646 original size:20 final size:20
Alignment explanation
Indices: 97621--97788 Score: 126
Period size: 20 Copynumber: 7.9 Consensus size: 20
97611 TTTTTACCCA
97621 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
* *
97641 AATGTATCGATACATGT-ATG
1 AATGTATCGATACAT-TCTTC
*
97661 AATGTATCGATACATTCTTG
1 AATGTATCGATACATTCTTC
*
97681 AATGTGTCGATACATTCTATCTTTTTACCC
1 AATGTATCGATACA---T-TC---TT---C
* *
97711 ACATGTATCGAAACATTTTTC
1 A-ATGTATCGATACATTCTTC
* *
97732 AATGTATTGATACATT-TATG
1 AATGTATCGATACATTCT-TC
97752 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
97772 -ATGTATCGATACATTCT
1 AATGTATCGATACATTCT
97789 GTCTTTTTAC
Statistics
Matches: 120, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
19 19 0.16
20 76 0.63
21 4 0.03
23 1 0.01
24 4 0.03
27 3 0.03
28 1 0.01
30 1 0.01
31 11 0.09
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:97826 original size:90 final size:91
Alignment explanation
Indices: 97611--97836 Score: 321
Period size: 91 Copynumber: 2.5 Consensus size: 91
97601 AAAAGTAATA
*
97611 TTTTTACCCAAATGTATCGATACATTCTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
97676 TCTTGAATGTGTCGATACATTCTATC
66 TCTTGAATGTATCGATACATTCTATC
* * * * *
97702 TTTTTACCCACATGTATCGAAACATTTTTCAATGTATTGATACATTTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATGTATGAATGTATCGATACAT
* *
97767 TCTT-CATGTATCGATACATTCTGTC
66 TCTTGAATGTATCGATACATTCTATC
* * *
97792 TTTTTACCCATATGTATCCATACATTGAAT-AATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATT-ATTCAATGTATCGATACAT
97837 CTAGTTAAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
90 55 0.46
91 65 0.54
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.41
Consensus pattern (91 bp):
TTTTTACCCAAATGTATCGATACATTATTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTGAATGTATCGATACATTCTATC
Found at i:99476 original size:10 final size:11
Alignment explanation
Indices: 99461--99489 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
99451 CTACTAGATG
99461 ATTTTTCAAA-
1 ATTTTTCAAAT
99471 ATTTTTCAAAT
1 ATTTTTCAAAT
99482 ATTTTTCA
1 ATTTTTCA
99490 TAAAAACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTTTCAAAT
Found at i:102647 original size:80 final size:80
Alignment explanation
Indices: 102548--102729 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
102538 CATTAAAAGG
* * * * * ** * * *
102548 GGATACTCTAACCCCACAATCTCTG-AGGGCGTACTCTAATCCTTTTTTTACTTCGAAAATACTT
1 GGATACTCCAACCCTACAATCTCTGAAGAG-ATACTCCAATCCCGTTTTTACTTCCAAAACACTG
* * *
102612 AATTTTTCATTTTTGA
65 AATTTTTCATCTCTAA
102628 GGATACTCCAACCCTACAATCTCTGAAGAGATACTCCAATCCCGTTTTTACTTCCAAAACACTGA
1 GGATACTCCAACCCTACAATCTCTGAAGAGATACTCCAATCCCGTTTTTACTTCCAAAACACTGA
**
102693 ATTTTTTGTCTCTAA
66 ATTTTTCATCTCTAA
*
102708 GGATACTCCAACCCTACCATCT
1 GGATACTCCAACCCTACAATCT
102730 TAAAATTCAT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
80 82 0.96
81 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (80 bp):
GGATACTCCAACCCTACAATCTCTGAAGAGATACTCCAATCCCGTTTTTACTTCCAAAACACTGA
ATTTTTCATCTCTAA
Found at i:103763 original size:34 final size:32
Alignment explanation
Indices: 103679--103774 Score: 108
Period size: 34 Copynumber: 3.0 Consensus size: 32
103669 CCTTACAACA
103679 CTATC-TTTC-AAGGCTAAGATAGAAACCTC-C
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTC
* ** *
103709 CTCTCTTTTCACCGGTTAAGATAGAACCTCTC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTC
103741 TCTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 -CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
103775 AATCACTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
30 4 0.08
31 10 0.19
32 11 0.21
33 4 0.08
34 24 0.45
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (32 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTC
Found at i:106543 original size:21 final size:20
Alignment explanation
Indices: 106509--106555 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
106499 GGAGGTGCTG
*
106509 AACATGCTGTAAATGCATGA
1 AACATGCTGAAAATGCATGA
106529 AACATAGCTGAAAATGCATGA
1 AACAT-GCTGAAAATGCATGA
*
106550 ATCATG
1 AACATG
106556 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (20 bp):
AACATGCTGAAAATGCATGA
Found at i:107471 original size:52 final size:52
Alignment explanation
Indices: 107393--107521 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
107383 CGAAATATGA
*
107393 AAATTTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
107445 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
107497 AAATTTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
107522 AAGGTCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:107532 original size:52 final size:50
Alignment explanation
Indices: 107393--107541 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 50
107383 CGAAATATGA
107393 AAATTTGCCTGCATGTATCGATACATTTCATGGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCA--GTGTATCGATACATCTGGGC
*
107445 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTC--AGTGTATCGATACATCTGGGC
* **
107497 AAATTTACCTGCATGTATCGATACAAAGGTCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATAC--ATTTCAGTGTATCGATACA
107542 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
52 84 0.95
54 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACATTTCAGTGTATCGATACATCTGGGC
Found at i:107548 original size:13 final size:13
Alignment explanation
Indices: 107530--107554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107520 CAAAGGTCAG
107530 TGTATCGATACAA
1 TGTATCGATACAA
107543 TGTATCGATACA
1 TGTATCGATACA
107555 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:107617 original size:13 final size:13
Alignment explanation
Indices: 107599--107682 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
107589 AGCTTCGTAG
107599 CGATACATTGTAT
1 CGATACATTGTAT
107612 CGATACAAAACTTACGTAT
1 CGATAC---A-TT--GTAT
107631 CGATACATTGTAT
1 CGATACATTGTAT
107644 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
*
107663 CCATACATTGTAT
1 CGATACATTGTAT
107676 CGATACA
1 CGATACA
107683 ATACTTACGT
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 25 0.44
14 1 0.02
15 2 0.04
16 8 0.14
17 2 0.04
18 1 0.02
19 18 0.32
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:107632 original size:19 final size:17
Alignment explanation
Indices: 107608--107703 Score: 73
Period size: 19 Copynumber: 5.8 Consensus size: 17
107598 GCGATACATT
107608 GTATCGATACAAAACTTA
1 GTATCGATAC-AAACTTA
107626 CGTATCGATAC--A-TT-
1 -GTATCGATACAAACTTA
107640 GTATCGATACAACACTTA
1 GTATCGATACAA-ACTTA
*
107658 TGTATCCATAC--A-TT-
1 -GTATCGATACAAACTTA
107672 GTATCGATACAATACTTA
1 GTATCGATACAA-ACTTA
107690 CGTATCGATACAAA
1 -GTATCGATACAAA
107704 TCGTTGAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 25
0.70 0.02 0.28
Matches are distributed among these distances:
13 19 0.30
15 4 0.06
16 4 0.06
17 4 0.06
18 1 0.02
19 31 0.49
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (17 bp):
GTATCGATACAAACTTA
Found at i:107640 original size:32 final size:32
Alignment explanation
Indices: 107594--107701 Score: 171
Period size: 32 Copynumber: 3.4 Consensus size: 32
107584 GCAGTAGCTT
*
107594 CGTAGCGATACATTGTATCGATACAAAACTTA
1 CGTATCGATACATTGTATCGATACAAAACTTA
*
107626 CGTATCGATACATTGTATCGATACAACACTTA
1 CGTATCGATACATTGTATCGATACAAAACTTA
* * *
107658 TGTATCCATACATTGTATCGATACAATACTTA
1 CGTATCGATACATTGTATCGATACAAAACTTA
107690 CGTATCGATACA
1 CGTATCGATACA
107702 AATCGTTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.31
Consensus pattern (32 bp):
CGTATCGATACATTGTATCGATACAAAACTTA
Found at i:112982 original size:567 final size:565
Alignment explanation
Indices: 110599--113954 Score: 4980
Period size: 567 Copynumber: 6.0 Consensus size: 565
110589 AAAGCTAAGT
* * * *
110599 TCATGCTAGTCCTTATTGGTTAGCGTTAGCATGCTATGCTTGGGGGAGGGTTTGGAAATCAATTT
1 TCATGCTAGTCCCTATTGGTT-GGGTTAGCATGCTTTGCTT-GGGGAAGGTTTGGAAATCAATTT
* * *
110664 TTGACAACCATCAAACAAGCATTTTGACAAGGAGAAGACAACAAATATATAAGGCGATGGCACAT
64 TTGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACAT
* * * *
110729 AACATGAATGGGGATGCCAACTTTACCAATGATCTTGACAAAGAAAGTATTATGAGCATATCTCA
129 AACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCA
* * *
110794 TGAAGAGAAGCATGCTGAAATTTACACGATAATATTACGATGCATGAATTATGACAAAATGCAAG
194 TGAAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAG
* * * * * *
110859 CTAATGCATTAACGTGCTTGAAAAATGCTAGGCTAAAGATTAATACATGGATTGAACATAACATG
259 CTAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATG
*
110924 ATGCTTGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCA
324 ATGCATGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCA
* *
110989 CTTTGAATATC-AA--AG---C--GGCATCAAAATCATAAACTACCACAAGTAAAAGCCACAATA
389 CTTTGAACATCAAAGCAGCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAATA
* * * * *
111046 ATATATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTACTAAAATGTTGAAAATGTTGA
454 ATACATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
* *
111111 AAAATAGAAAATGAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
519 AAAACAGAAAATAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
* * * *
111158 TCATGTTAGTCCTTATTAGTTAGGGTTAGCATGCTTTGCTTGGGGTAGGGTTTGGAAATCAATTT
1 TCATGCTAGTCCCTATTGGTT-GGGTTAGCATGCTTTGCTTGGGG-AAGGTTTGGAAATCAATTT
*
111223 TTGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGCCGATGGCACAT
64 TTGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACAT
111288 AACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCA
129 AACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCA
* * * * *
111353 TGAAGATAAGCATGCTGAAATTTACATGATAATATTACAATGCATG-A----GACAAAATGCAAG
194 TGAAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAG
*
111413 CTAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATGCATGGATTGAACATAACATG
259 CTAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATG
* * *
111478 ATGCATGGATATGGTATAAAATACATGAACCAAGTCTATTAAAATGATAAGGATGAAATAAGGCA
324 ATGCATGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCA
* * * *
111543 CTTTGACCATCAAAACGGCATCAAGGCATCAAAATCATAAGCTACCATAAGTAAAAGCCACAATA
389 CTTTGAACATCAAAGCAGCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAATA
* *
111608 ATACATTAGAATCCTAAGAGGATGATGGAAGTATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
454 ATACATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
*
111673 AAAACAGAAATTGAAAA-TGATTAAGTAGGAAATTATACCAACAAAGC
519 AAAACAGAAAAT-AAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
* * * *
111720 TCATACTAATCCCTACTGGTTGGG-TAGCATGCTTTGTTTGGGGGAAGGTTTGGAAATCAATTTT
1 TCATGCTAGTCCCTATTGGTTGGGTTAGCATGCTTTGCTT-GGGGAAGGTTTGGAAATCAATTTT
* * * *
111784 TTACAACCGTCAAAAAAGCATTTTGACAAGGAAAAGATAACAAACATACAAGGCGATGGCACATA
65 TGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACATA
* * *
111849 ACATGAATGGGGATGCTAGCTTTACAAATGATCTTGAAAAGGAAAGTGTTATGAGCATATTTCAT
130 ACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCAT
*
111914 GAAGAGAAGCATACTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAGC
195 GAAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAGC
*
111979 TAATGCATAAACATGGTTGGAATATGCTAGGATAAAGATTTATACATGGATTGAACATAACATGA
260 TAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATGA
* * * * *
112044 TGCATAGATATGGTATAAAATACGTGAACCAAGGCTATTAAAATGATGAGGATGAAATAAGG---
325 TGCATGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCAC
* * *
112106 --T--A-ATCAAAG-AGGCATTAAGGCATCAAAATCATAAGCTACCATAACTAAAAGCCACAATA
390 TTTGAACATCAAAGCA-GCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAATA
* * * *
112165 ATACATGAAAATCTTGAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTAA
454 ATACATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
* *
112230 AAAACA-AACAATGAAAGTGATTAAGTACGAAATTATACCAACAAAGC
519 AAAACAGAA-AATAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
* *
112277 TCATGCTAGTCCCTATTGGTTGGGGTTAGCATGCTTTGTTTGGGGGAAGGTTTGAAAATCAATTT
1 TCATGCTAGTCCCTATTGGTT-GGGTTAGCATGCTTTGCTT-GGGGAAGGTTTGGAAATCAATTT
** * * *
112342 TTGACAACTGTCAAACAAGCATTTTGACAAGGAAAAGGCAATAAACATACAAGGTGATGGCACAT
64 TTGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACAT
* *
112407 AACATGAATGGGGATGCCAACTTTACAAATGATCCTAACAAGGAAAGTGTTATGAGCATATTTCA
129 AACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCA
*
112472 TGAAGAGAAGCATACTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAG
194 TGAAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAG
* * *
112537 CTAATGCATAAACATGCTTGGAATATGCTAGGCTAAAGATTTATAAATGGATTTAACATAACATG
259 CTAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATG
* *
112602 ATGCATGGATATGGTATAAAATACATGAACCAAGGCTATTAAAATGATGAGGATGAAACAAGGCA
324 ATGCATGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCA
* *
112667 CTTTGAACATCAAAGCAGCATCAAGGCGTCAAAATCATAAGCTACCCCAAGTAAAAGCCACAATA
389 CTTTGAACATCAAAGCAGCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAATA
*
112732 ATACATTAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
454 ATACATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
*
112797 AAAACAGAAATTAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
519 AAAACAGAAAATAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
*
112844 TCATGCTAGTCCCTATTGGTTGGGATTAGCGTGCTTTGCTTGGGGAAGGATTTGGAAATCAATTT
1 TCATGCTAGTCCCTATTGGTTGGG-TTAGCATGCTTTGCTTGGGGAAGG-TTTGGAAATCAATTT
* * * *
112909 TTAACAACCATCAAACAAGTATTTTGATAAGGAAAAGACAACAAACATACAAAGCGATGGCACAT
64 TTGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACAT
*
112974 AACATGAATGGGGATGCCAACTTTACAAATAATCTTGACAAGGAAAGTGTTATGAGCATATTTCA
129 AACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCA
* *
113039 TGAAGAGAAGCATGCTAAAATTTACACAACAATATTACGATGCATGAATTGTGACAAAAT-ACAA
194 TGAAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGA-AA
*
113103 GCTAATGCATAAACATGGTTGGAATATGTTAGGCTAAAGATTTATACATGGATTGAACATAACAT
258 GCTAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACAT
* * * *
113168 GATGCATGGATATGGTATAAAATGCATGAACTAAGGCTATCAAAATGATGAGGATGAAATAAGGC
323 GATGCATGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGC
* * * *
113233 ACTTTGAACATCAAAGCATCATCAAGGCATCAAAAGCATAAGCTACTATAAGTAAAAGCCACAAT
388 ACTTTGAACATCAAAGCAGCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAAT
* * *
113298 AGTACATGAGAA-CCTTAAAAAGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCT
453 AATACATGAGAATCC-TAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCT
* * * *
113362 GAAAAATAGAAAATGAAAGTGATGAAGCAGGAAATTATACCAAC--A--
517 GAAAAACAGAAAATAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
*
113407 --A---T-G-----A-------GGTTAGCATGCTTTGTTTGGAGGAAGGTTTGGAAATCAA-TTT
1 TCATGCTAGTCCCTATTGGTTGGGTTAGCATGCTTTGCTTGG-GGAAGGTTTGGAAATCAATTTT
* *
113453 TGACAACCGTCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGTGATGGCACATA
65 TGACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACATA
* *
113518 ACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAAGAAAGTGTTATAAGCATATTTCAT
130 ACATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCAT
*
113583 GAAGAGAAGCATGCTGAAATTTACATGACAATATTACGATGCATGAATTGTGACAAAATGAAAGC
195 GAAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAGC
113648 TAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATGA
260 TAATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATGA
*
113713 TGCATAGG-TATGGTATAAAATACATGAACCAAGGTTATCAAAATGATAAGGATGAAACAAGGCA
325 TGCAT-GGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCA
* * *
113777 CTTTGAACATCAAAGCGGCATTAAGGCATCAAAATCATAAACTACCACAAGTAAAAGCCACAATA
389 CTTTGAACATCAAAGCAGCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAATA
* * *
113842 ATACATGAGAATCCTCAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGGTGAAGACGCTG-
454 ATACATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGA
* *
113906 AAAATAGAAAATAAAAGTGATTAAGTAGGAAATTATACTAACAAAGC
519 AAAACAGAAAATAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
113953 TC
1 TC
113955 CAACCTTTAG
Statistics
Matches: 2555, Mismatches: 197, Indels: 101
0.90 0.07 0.04
Matches are distributed among these distances:
542 38 0.01
543 417 0.16
544 34 0.01
545 8 0.00
552 1 0.00
554 141 0.06
555 2 0.00
556 5 0.00
557 168 0.07
558 9 0.00
559 563 0.22
560 197 0.08
561 9 0.00
562 152 0.06
563 3 0.00
564 1 0.00
565 135 0.05
566 15 0.01
567 654 0.26
568 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (565 bp):
TCATGCTAGTCCCTATTGGTTGGGTTAGCATGCTTTGCTTGGGGAAGGTTTGGAAATCAATTTTT
GACAACCATCAAACAAGCATTTTGACAAGGAAAAGACAACAAACATACAAGGCGATGGCACATAA
CATGAATGGGGATGCCAACTTTACAAATGATCTTGACAAGGAAAGTGTTATGAGCATATTTCATG
AAGAGAAGCATGCTGAAATTTACACGACAATATTACGATGCATGAATTGTGACAAAATGAAAGCT
AATGCATAAACATGGTTGGAATATGCTAGGCTAAAGATTTATACATGGATTGAACATAACATGAT
GCATGGATATGGTATAAAATACATGAACCAAGGCTATCAAAATGATAAGGATGAAACAAGGCACT
TTGAACATCAAAGCAGCATCAAGGCATCAAAATCATAAGCTACCACAAGTAAAAGCCACAATAAT
ACATGAGAATCCTAAGAGGATGATGGAAGCATGAAAAGCTTGCTAAAATGATGAAGATGCTGAAA
AACAGAAAATAAAAGTGATTAAGTAGGAAATTATACCAACAAAGC
Found at i:114821 original size:20 final size:20
Alignment explanation
Indices: 114796--114847 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
114786 GCATGGTCTA
* **
114796 GTATCGATACATGAGTTCAT
1 GTATCGATACATAAACTCAT
*
114816 GTATCGCTACATAAACTCAT
1 GTATCGATACATAAACTCAT
*
114836 ATATCGATACAT
1 GTATCGATACAT
114848 TTACACAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
GTATCGATACATAAACTCAT
Found at i:117060 original size:118 final size:117
Alignment explanation
Indices: 116927--117153 Score: 289
Period size: 118 Copynumber: 1.9 Consensus size: 117
116917 ATTTTGAAGA
* * *
116927 ATTCAAGTTATTTTATGA-G-TTTTAGAA-TTTTTTCTGTTACCAAAATATAGAGTTTTTTACTC
1 ATTCAAGTTATTTTAT-ATGTTTTTA-AATTTTTTTCTATT-CCAAAATATAGAGTTTCTTACCC
* *
116989 TGTAAATTTTTTCGGTGAGATTTTTTTAAGTTTATAATTTTTAAAATTTTTAAAAT
63 CGTAAATTTTTT-GATGAGATTTTTTTAAGTTTATAATTTTTAAAATTTTTAAAAT
* ** *
117045 ATTCAATTTATTTTATATGTTTTTAAATTTTTTTCTATTTTAAAATATGGAGTTTCTTACCCCGT
1 ATTCAAGTTATTTTATATGTTTTTAAATTTTTTTCTATTCCAAAATATAGAGTTTCTTACCCCGT
* * *
117110 AAATTTTTTGATGGGATTTTTTTGAGTTTATGATTTTTAAAATT
66 AAATTTTTTGATGAGATTTTTTTAAGTTTATAATTTTTAAAATT
117154 CCTTAAATAT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
117 32 0.34
118 47 0.50
119 15 0.16
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (117 bp):
ATTCAAGTTATTTTATATGTTTTTAAATTTTTTTCTATTCCAAAATATAGAGTTTCTTACCCCGT
AAATTTTTTGATGAGATTTTTTTAAGTTTATAATTTTTAAAATTTTTAAAAT
Found at i:117189 original size:117 final size:118
Alignment explanation
Indices: 116968--117193 Score: 269
Period size: 118 Copynumber: 1.9 Consensus size: 118
116958 TTCTGTTACC
* * * *
116968 AAAATATAGAGTTTTTTACTCTGTAAATTTTTTCGGTGAGATTTTTTTAAGTTTATAATTTTTAA
1 AAAATATAGAGTTTCTTACCCCGTAAATTTTTTCGATGAGATTTTTTTAAGTTTATAATTTTTAA
* * * * ***
117033 AATTTTTAAAATATTCAATTTATTTTATATGTTTTTAAATTTTTTTCTATTTT
66 AATTCTTAAAATATTCAATTAAATTAATATGTAAATAAATTTTTTTCTATTTT
* * * *
117086 AAAATATGGAGTTTCTTACCCCGTAAATTTTTT-GATGGGATTTTTTTGAGTTTATGATTTTTAA
1 AAAATATAGAGTTTCTTACCCCGTAAATTTTTTCGATGAGATTTTTTTAAGTTTATAATTTTTAA
*
117150 AATTCCTTAAATATTTTC-ATTAAATTAATAT-TAAATAAATTTTT
66 AATT-CTTAAA-ATATTCAATTAAATTAATATGTAAATAAATTTTT
117194 GGAGATTCAA
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
117 41 0.46
118 44 0.49
119 5 0.06
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.54
Consensus pattern (118 bp):
AAAATATAGAGTTTCTTACCCCGTAAATTTTTTCGATGAGATTTTTTTAAGTTTATAATTTTTAA
AATTCTTAAAATATTCAATTAAATTAATATGTAAATAAATTTTTTTCTATTTT
Found at i:117775 original size:20 final size:19
Alignment explanation
Indices: 117721--117776 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
117711 AAAACCCTTA
*
117721 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
117741 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
117761 AATGTATCGATACATG
1 AAAGTATCGATACATG
117777 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:117870 original size:20 final size:20
Alignment explanation
Indices: 117827--117878 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
117817 GTAGCCAAAC
*
117827 TTGTATCGATACACAAAATA
1 TTGTATCGATACACAAAAAA
117847 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
117866 TTGTATCGATACA
1 TTGTATCGATACA
117879 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:124062 original size:13 final size:13
Alignment explanation
Indices: 124044--124081 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
124034 CATTTTTCTT
124044 TGTATCGATACAA
1 TGTATCGATACAA
*
124057 TGTATCGATACAC
1 TGTATCGATACAA
124070 TGTATCGATACA
1 TGTATCGATACA
124082 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:126618 original size:20 final size:19
Alignment explanation
Indices: 126564--126619 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
126554 AAAACCCTTA
*
126564 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
126584 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
126604 AATGTATCGATACATG
1 AAAGTATCGATACATG
126620 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:126695 original size:19 final size:18
Alignment explanation
Indices: 126671--126734 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 18
126661 TAGCCAAACT
126671 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAA-A
126690 TGTATCGAT--AC---AA
1 TGTATCGATACACAAAAA
126703 TGTATCGATACACAAAAAA
1 TGTATCGATACAC-AAAAA
126722 TTGTATCGATACA
1 -TGTATCGATACA
126735 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 11 0.29
20 12 0.32
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (18 bp):
TGTATCGATACACAAAAA
Found at i:126707 original size:13 final size:13
Alignment explanation
Indices: 126689--126714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126679 TACACAAAAT
126689 ATGTATCGATACA
1 ATGTATCGATACA
126702 ATGTATCGATACA
1 ATGTATCGATACA
126715 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:126712 original size:32 final size:33
Alignment explanation
Indices: 126671--126734 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
126661 TAGCCAAACT
*
126671 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
126703 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
126735 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:128117 original size:20 final size:19
Alignment explanation
Indices: 128063--128118 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
128053 AAAACCCTTA
*
128063 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
128083 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
128103 AATGTATCGATACATG
1 AAAGTATCGATACATG
128119 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:128211 original size:32 final size:33
Alignment explanation
Indices: 128170--128233 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
128160 TAGCTAAACT
* *
128170 TGTATCGATACACAAAATA-TGTATTGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
128202 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
128234 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:129130 original size:16 final size:15
Alignment explanation
Indices: 129111--129141 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
129101 ATCAACCTAA
129111 AAAAATAAAAACAAAT
1 AAAAATAAAAA-AAAT
129127 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
129142 CAAGGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:131930 original size:18 final size:18
Alignment explanation
Indices: 131907--131944 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
131897 TGATATGGCC
*
131907 TATAAAAATAGAAAAAAA
1 TATAAAAATACAAAAAAA
*
131925 TATAAAAATTCAAAAAAA
1 TATAAAAATACAAAAAAA
131943 TA
1 TA
131945 GTGATATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
TATAAAAATACAAAAAAA
Found at i:132070 original size:21 final size:22
Alignment explanation
Indices: 132044--132084 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
132034 TATTCTTCAA
132044 TAATTA-CAAAATTGCCATTTG
1 TAATTATCAAAATTGCCATTTG
* *
132065 TAATTATCATATTTGCCATT
1 TAATTATCAAAATTGCCATT
132085 ACCAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (22 bp):
TAATTATCAAAATTGCCATTTG
Found at i:133855 original size:5 final size:5
Alignment explanation
Indices: 133845--133935 Score: 52
Period size: 5 Copynumber: 19.2 Consensus size: 5
133835 TAATTTTAAT
* * * *
133845 TATAA TATAA T-T-A TATAA AAT-A TATAA -AAAA TTTAA -ATAT TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
133890 -AAAA TATAA TATAA TATAAA AATAA TATAA -ATTAT TATAA TATAA T
1 TATAA TATAA TATAA TAT-AA TATAA TATAA TA-TAA TATAA TATAA T
133936 TTTTTTATAT
Statistics
Matches: 63, Mismatches: 14, Indels: 18
0.66 0.15 0.19
Matches are distributed among these distances:
3 2 0.03
4 14 0.22
5 42 0.67
6 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:133857 original size:11 final size:10
Alignment explanation
Indices: 133841--133936 Score: 67
Period size: 11 Copynumber: 9.5 Consensus size: 10
133831 TTGATAATTT
133841 TAATTATAATA
1 TAATTATAA-A
133852 TAATTATATAA
1 TAATTATA-AA
133863 -AATATATAAA
1 TAAT-TATAAA
*
133873 AAATT-TAAA
1 TAATTATAAA
133882 T-ATTATAAA
1 TAATTATAAA
*
133891 -AAATATAATA
1 TAATTATAA-A
*
133901 TAATATAAAAA
1 TAAT-TATAAA
133912 TAA-TATAAA
1 TAATTATAAA
*
133921 TTATTATAATA
1 TAATTATAA-A
133932 TAATT
1 TAATT
133937 TTTTTATATG
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
8 3 0.04
9 21 0.31
10 12 0.18
11 27 0.40
12 5 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATTATAAA
Found at i:133888 original size:18 final size:17
Alignment explanation
Indices: 133857--133921 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 17
133847 TAATATAATT
133857 ATATAAAATATATAAAAA
1 ATAT-AAATATATAAAAA
*
133875 ATTTAAATATTATAAAAA
1 ATATAAATA-TATAAAAA
133893 ATATAATATAATATAAAAATA
1 ATATAA-AT-ATAT-AAAA-A
133914 ATATAAAT
1 ATATAAAT
133922 TATTATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.12
18 16 0.40
19 5 0.12
20 7 0.17
21 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAATATATAAAAA
Found at i:141151 original size:31 final size:31
Alignment explanation
Indices: 141092--141181 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 31
141082 ATGAGTTGGG
**
141092 TTTGATTTACACCC-AATAAGCCCTTGACCT
1 TTTGATTTGTACCCAAATAAGCCCTTGACCT
141122 TTTGATTTGTACCCAAATAAGTCCC-TGACCT
1 TTTGATTTGTACCCAAATAAG-CCCTTGACCT
* *
141153 TTTGATTTGTATCCAAATGAGCCCTTGAC
1 TTTGATTTGTACCCAAATAAGCCCTTGAC
141182 ATAAATCAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
30 15 0.28
31 35 0.66
32 3 0.06
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (31 bp):
TTTGATTTGTACCCAAATAAGCCCTTGACCT
Found at i:152033 original size:34 final size:34
Alignment explanation
Indices: 151986--152069 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 34
151976 TACAAATAGT
* *
151986 AAATGTATCAATACAATGTATCGATATATGCCCA
1 AAATATATCAATACAATGTATCGATACATGCCCA
* *
152020 AAATATATTAATACAATGTATCGATACATGCTCA
1 AAATATATCAATACAATGTATCGATACATGCCCA
* *
152054 CAATATATCGATACAA
1 AAATATATCAATACAA
152070 AACTATCCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (34 bp):
AAATATATCAATACAATGTATCGATACATGCCCA
Found at i:152160 original size:20 final size:20
Alignment explanation
Indices: 152132--152172 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
152122 TGATGCATAC
*
152132 TTATAATTGTATGGATACAT
1 TTATAATTGTATCGATACAT
*
152152 TTATCATTGTATCGATACAT
1 TTATAATTGTATCGATACAT
152172 T
1 T
152173 CTGGGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (20 bp):
TTATAATTGTATCGATACAT
Found at i:153603 original size:32 final size:34
Alignment explanation
Indices: 153552--153643 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 34
153542 CCTTACAACA
*
153552 CTATC-TTTCAAGGCTAAGATAGAAACC-TC-C-
1 CTATCTTTTCAAAGCTAAGATAGAAACCTTCTCT
153582 CTATCTTTTCACAAGCTAAGATAG-AACCTTTCTCT
1 CTATCTTTTCA-AAGCTAAGATAGAAACC-TTCTCT
153617 CTATCTTTTTCAAAGGCTAAGATAGAA
1 CTATC-TTTTCAAA-GCTAAGATAGAA
153644 CTCACAATCA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
30 5 0.10
31 9 0.17
32 11 0.21
33 2 0.04
34 1 0.02
35 7 0.13
36 16 0.31
37 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (34 bp):
CTATCTTTTCAAAGCTAAGATAGAAACCTTCTCT
Found at i:154127 original size:13 final size:13
Alignment explanation
Indices: 154103--154144 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
154093 GATACTATTC
*
154103 ACAATGTATCGAT
1 ACAATATATCGAT
*
154116 ACACTATATCGAT
1 ACAATATATCGAT
*
154129 ACAATGTATCGAT
1 ACAATATATCGAT
154142 ACA
1 ACA
154145 TGAATAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (13 bp):
ACAATATATCGAT
Found at i:154212 original size:17 final size:17
Alignment explanation
Indices: 154190--154227 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
154180 ATAGTGATAC
154190 GTGAACAGTTATGAACA
1 GTGAACAGTTATGAACA
154207 GTGAACAGTTATGAACA
1 GTGAACAGTTATGAACA
154224 GTGA
1 GTGA
154228 TGTATCGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (17 bp):
GTGAACAGTTATGAACA
Found at i:156002 original size:79 final size:79
Alignment explanation
Indices: 155910--156622 Score: 681
Period size: 79 Copynumber: 9.1 Consensus size: 79
155900 TCATTGATGT
* * *
155910 TTTTATTTCTAAAATATCGATTTT-TCACCATCGGGGATAATCCATA-CTAGTTATTTCCGAGGA
1 TTTTATTTCTAAAACATCGATTTTCT-ACCATCGGGGATACTCCA-ACCTAGTTATTTTCGAGGA
* * *
155973 GATAATCCAATCTTGA
64 GATACTCCAACCTCGA
* * * ** *
155989 TTTTATTTTTAAAACATCGATTTTCTACCATCGAGGATACTCCAACCTCGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCTAGTTATTTTCGAGGAGA
**
156054 TACTCCAACCTTAA
66 TACTCCAACCTCGA
* * * * *
156068 TTTTATTTCTAAAACATCGATTTT-TCACAATCGGGGATACTCCAACC-CGAT-TTTTCCAAGAG
1 TTTTATTTCTAAAACATCGATTTTCT-ACCATCGGGGATACTCCAACCTAGTTATTTTCGAGGA-
*
156130 GATACTCTAA-CTCCGA
64 GATACTCCAACCT-CGA
* * * *
156146 TTTTATTTCTAAAACATCGATTTTCTACTATTGGGGATACTCCAACCCTA-TTATTTTTGAGGGG
1 TTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAA-CCTAGTTATTTTCGAGGAG
156210 ATACTCCAACCTCGA
65 ATACTCCAACCTCGA
* * *
156225 TTTTATTTCTAAAACATCGATTTTCTACCATCGGAGATACTCCAACTCCA-TTATTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAAC-CTAGTTATTTTCGAGGAG
*
156289 ATACTTCAACC-CTGA
65 ATACTCCAACCTC-GA
* **
156304 TTTTATCTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCCT-GTTATTTTTTAGG-G
1 TTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAA-CCTAGTTATTTTCGAGGAG
*
156367 AATACTCCAACC-CATA
65 -ATACTCCAACCTC-GA
* * * * * *
156383 TTTTATTTTTAAAACATCG-TTTTTTCACAATCGGGGATACTCAAACCCCA-TTATTCTCGAGGA
1 TTTTATTTCTAAAACATCGATTTTCT-ACCATCGGGGATACTCCAA-CCTAGTTATTTTCGAGGA
156446 GATACTCCAACCTCGA
64 GATACTCCAACCTCGA
* * * * * *
156462 TTTTA-TTCTTAAAAAATTGATTTTCAACCATTGGAGATACTCTAACCCT-GTTATTTTCGA-GA
1 TTTTATTTC-TAAAACATCGATTTTCTACCATCGGGGATACTCCAA-CCTAGTTATTTTCGAGGA
* *
156524 GGATACTACAACCCCGA
64 -GATACTCCAACCTCGA
* * * *
156541 TTTTATTTCTAAAACATTGATTTT-TCATCATCGGGGATACTCCAACCTTGTTATTTTTGAGG-G
1 TTTTATTTCTAAAACATCGATTTTCT-ACCATCGGGGATACTCCAACCTAGTTATTTTCGAGGAG
*
156604 GTACTCCAACCTCGA
65 ATACTCCAACCTCGA
156619 TTTT
1 TTTT
156623 GTTTTCAAAA
Statistics
Matches: 528, Mismatches: 79, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
77 8 0.02
78 88 0.17
79 412 0.78
80 20 0.04
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCTAGTTATTTTCGAGGAGA
TACTCCAACCTCGA
Found at i:156360 original size:158 final size:158
Alignment explanation
Indices: 155910--156586 Score: 802
Period size: 158 Copynumber: 4.3 Consensus size: 158
155900 TCATTGATGT
* *
155910 TTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATAATCCATACT--AGTTATTTCCGAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCA-ACTCCA-TTATTTCCGAGGA
* * * * *
155973 GATAATCCAATCTTGATTTTATTTTTAAAACATCGATTTTCTACCATCGAGGATACTCCAA-CCT
64 GATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCCT
* **
156037 CGTTATTTTTAAGGGGATACTCCAACCTTAA
129 -GTTATTTTTGAGGGGATACTCCAACCTCGA
* *
156068 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAAC-CCGATT-TTTCC-AAGAG
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACTCC-ATTATTTCCGAGGA-
* * *
156130 GATACTCTAACTCC-GATTTTATTTCTAAAACATCGATTTTCTACTATTGGGGATACTCCAACCC
64 GATACTCCAAC-CCTGATTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCC
*
156194 TATTATTTTTGAGGGGATACTCCAACCTCGA
128 TGTTATTTTTGAGGGGATACTCCAACCTCGA
* * *
156225 TTTTATTTCTAAAACATCGA-TTTTCTACCATCGGAGATACTCCAACTCCATTATTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTTC-ACCATCGGGGATACTCCAACTCCATTATTTCCGAGGAG
* *
156289 ATACTTCAACCCTGATTTTATCTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCCTG
65 ATACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCCTG
* * *
156354 TTATTTTTTAGGGAATACTCCAACC-CATA
130 TTATTTTTGAGGGGATACTCCAACCTC-GA
* * * * *
156383 TTTTATTTTTAAAACATCGTTTTTTCACAATCGGGGATACTCAAACCCCATTA-TTCTCGAGGAG
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACTCCATTATTTC-CGAGGAG
* * * * * *
156447 ATACTCCAA-CCTCGATTTTA-TTCTTAAAAAATTGATTTTCAACCATTGGAGATACTCTAACCC
65 ATACTCCAACCCT-GATTTTATTTC-TAAAACATCGATTTTCTACCATCGGGGATACTCCAACCC
* * * *
156510 TGTTATTTTCGAGAGGATACTACAACCCCGA
128 TGTTATTTTTGAGGGGATACTCCAACCTCGA
* *
156541 TTTTATTTCTAAAACATTGATTTTTCATCATCGGGGATACTCCAAC
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAAC
156587 CTTGTTATTT
Statistics
Matches: 444, Mismatches: 58, Indels: 34
0.83 0.11 0.06
Matches are distributed among these distances:
156 8 0.02
157 135 0.30
158 292 0.66
159 9 0.02
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (158 bp):
TTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATACTCCAACTCCATTATTTCCGAGGAGA
TACTCCAACCCTGATTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCCAACCCTGT
TATTTTTGAGGGGATACTCCAACCTCGA
Found at i:156518 original size:237 final size:232
Alignment explanation
Indices: 155910--156622 Score: 805
Period size: 237 Copynumber: 3.0 Consensus size: 232
155900 TCATTGATGT
* * * *
155910 TTTTATTTCTAAAATATCGATTTTTCACCATCGGGGATAATCCATA--CTAGTTATTTCCGAGGA
1 TTTTATTTCTAAAACATCG-TTTTTCACAATCGGGGATACT-CAAACCCTA-TTATTT-CGAGGA
* * * *
155973 GATAATCCAATCTTGATTTTATTTTTAAAACATCGATTTTCTACCA-TCGAGGATACTCCAA-CC
62 GATACTCCAACCTCGATTTTA-TTTTAAAACATCGATTTTCTACCATTGGA-GATACTCCAACCC
** * * * *
156036 TCGTTATTTTTAAGGGGATACTCCAACCTTAATTTTATTTCTAAAACATCGATTTTTCACAATCG
125 T-GTTATTTTCGAGGGGATACTACAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCG
*
156101 GGGATACTCCAACCC-G--ATTTTTCCAAGAGGATACTCTAACTCCGA
189 GGGATACTCCAACCCTGTTATTTTT--AAG-GGATACTCCAAC-CCGA
* * * * * *
156146 TTTTATTTCTAAAACATCGATTTTCTACTATTGGGGATACTCCAACCCTATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGTTTTTC-ACAATCGGGGATACTCAAACCCTATTA-TTTCGAGGAGA
* *
156211 TACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTCTACCATCGGAGATACTCCAACTCC-A
64 TACTCCAACCTCGATTTTATTT-TAAAACATCGATTTTCTACCATTGGAGATACTCCAAC-CCTG
* *
156275 TTATTTTCGAGGGGATACTTCAACCCTGATTTTATCTCTAAAACATCGA-TTTTCTACCATCGGG
127 TTATTTTCGAGGGGATACTACAACCCTGATTTTATTTCTAAAACATCGATTTTTC-ACCATCGGG
* *
156339 GATACTCCAACCCTGTTATTTTTTAGGGAATACTCCAACCCATA
191 GATACTCCAACCCTGTTATTTTTAAGGG-ATACTCCAACCC-GA
* *
156383 TTTTATTTTTAAAACATCGTTTTTTCACAATCGGGGATACTCAAACCCCATTATTCTCGAGGAGA
1 TTTTATTTCTAAAACATCG-TTTTTCACAATCGGGGATACTCAAACCCTATTATT-TCGAGGAGA
* * * *
156448 TACTCCAACCTCGATTTTATTCTTAAAAAATTGATTTTCAACCATTGGAGATACTCTAACCCTGT
64 TACTCCAACCTCGATTTTATT-TTAAAACATCGATTTTCTACCATTGGAGATACTCCAACCCTGT
* * * *
156513 TATTTTCGAGAGGATACTACAACCCCGATTTTATTTCTAAAACATTGATTTTTCATCATCGGGGA
128 TATTTTCGAGGGGATACTACAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGA
* * *
156578 TACTCCAACCTTGTTATTTTTGAGGGGTACTCCAACCTCGA
193 TACTCCAACCCTGTTATTTTTAAGGGATACTCCAACC-CGA
156619 TTTT
1 TTTT
156623 GTTTTCAAAA
Statistics
Matches: 408, Mismatches: 49, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
235 15 0.04
236 173 0.42
237 201 0.49
238 13 0.03
239 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (232 bp):
TTTTATTTCTAAAACATCGTTTTTCACAATCGGGGATACTCAAACCCTATTATTTCGAGGAGATA
CTCCAACCTCGATTTTATTTTAAAACATCGATTTTCTACCATTGGAGATACTCCAACCCTGTTAT
TTTCGAGGGGATACTACAACCCTGATTTTATTTCTAAAACATCGATTTTTCACCATCGGGGATAC
TCCAACCCTGTTATTTTTAAGGGATACTCCAACCCGA
Found at i:169813 original size:32 final size:31
Alignment explanation
Indices: 169667--170000 Score: 182
Period size: 32 Copynumber: 10.7 Consensus size: 31
169657 TGGTGATTTA
* * * *
169667 AAAAAGGTTACCACTGACTTGCGTGGGCTTT
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
** *
169698 AAAAAGGGTTGCCACCGA-AAGTGTGGACTTTT
1 -AAAAGGGTTGCCACCGACTTGTGTGGGC-TTT
** * * *
169730 GAAAAACGATGCCACCAACTTGTGTGAGCTTT
1 -AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
* *
169762 AAAAGGGTTTCCACCGACTTGTGCGGGCTTT
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
* *
169793 AAGAGAGGTTGCCACCGACTTGTATGGGCTTT
1 AAAAG-GGTTGCCACCGACTTGTGTGGGCTTT
*
169825 CAAAAGGGTTGCCACTGACTTGTGTGGGCTTT
1 -AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
* * ** **
169857 GAAATGAGTTGCCACTAACTCATGTGGGCTTT
1 -AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
* * * ** *
169889 GAAATGAGTTGCAATAGACTTGTGTAGGCTTT
1 -AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
* *
169921 GAAATA-AGTTGCCATCGAC-T-TGTGGGCTTT
1 -AAA-AGGGTTGCCACCGACTTGTGTGGGCTTT
* * * *
169951 GAAA-TGATGCCA-CGAAC-T-TGTGGGTTTT
1 AAAAGGGTTGCCACCG-ACTTGTGTGGGCTTT
* *
169979 GAAATGG-TGCCACCGACTTGTG
1 AAAAGGGTTGCCACCGACTTGTG
170001 GGATTTGAAA
Statistics
Matches: 240, Mismatches: 52, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
27 2 0.01
28 30 0.12
29 6 0.03
30 11 0.05
31 35 0.15
32 146 0.61
33 10 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (31 bp):
AAAAGGGTTGCCACCGACTTGTGTGGGCTTT
Found at i:169868 original size:64 final size:62
Alignment explanation
Indices: 169690--170251 Score: 241
Period size: 56 Copynumber: 9.5 Consensus size: 62
169680 CTGACTTGCG
* ** * * * *
169690 TGGGCTTTAAAAAGGGTTGCCACCGA-AAGTGTGGACTTTTGAAA-AACGATGCCACCAACTTGT
1 TGGGCTTT-AAAAGGGTTGCCACTGACTTGTGTGGGC-TTTGAAATGA-GTTGCCACCGACTTGT
* * * *
169753 GTGAGCTTTAAAAGGGTTTCCACCGACTTGTGCGGGCTTT-AAGA-GAGGTTGCCACCGACTTGT
1 -TGGGCTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAA-ATGA-GTTGCCACCGACTTGT
**
169816 ATGGGCTTTCAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACTAACTCATG
1 -TGGGCTTT-AAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACT--TG
169881 -
62 T
* * * * * *
169881 TGGGCTTTGAAATGAGTTG-CAATAGACTTGTGTAGGCTTTGAAATAAGTTGCCATCGACTTG-
1 TGGGCTTT-AAAAGGGTTGCCACT-GACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * * *
169943 TGGGCTTTGAAA-TGATGCCAC-GAAC-T-TGTGGGTTTTGAAATG-G-TGCCACCGACTTG-
1 TGGGCTTTAAAAGGGTTGCCACTG-ACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * ** ** *
169999 TGGGATTTGAAATAG-TGCCACTGAC-T-TGTGGGCTTTGAAATG-G-TGCCACTAACTT-A
1 TGGGCTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * ** * * * * * * *
170055 TGGGCTTTAAAA-TGATGCCACAAAC-T-TGCGGGCTTT-AAAAG-GATGCTACAGAGTT-A
1 TGGGCTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * * * *
170111 TGGGCCTTGAAATGG-TGCCACTGAC-T-TGTGGACTTTGAAATGA--TGCCACGGACTTG-
1 TGGGCTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * * **
170167 TGGGCTTT-GAAGGGATGCTACTGAC-T-TGTGGGCTTTGAAATGA--TGCCATAGACTTG-
1 TGGGCTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
* * *
170223 TGGAC-TTAAAAGGG-TGCCACGGAGTTGTG
1 TGGGCTTTAAAAGGGTTGCCACTGACTTGTG
170252 GACTTAAATA
Statistics
Matches: 401, Mismatches: 74, Indels: 53
0.76 0.14 0.10
Matches are distributed among these distances:
55 19 0.05
56 185 0.46
57 10 0.02
58 13 0.03
59 2 0.00
60 5 0.01
61 4 0.01
62 12 0.03
63 45 0.11
64 100 0.25
65 4 0.01
66 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (62 bp):
TGGGCTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGT
Found at i:170030 original size:84 final size:85
Alignment explanation
Indices: 169834--170214 Score: 369
Period size: 84 Copynumber: 4.4 Consensus size: 85
169824 TCAAAAGGGT
*
169834 TGCCACTGACTTGTGTGGGCTTTGAAATGAGTTGCCACTAACTCATGTGGGCTTTGAAATGAGTT
1 TGCCACTGAC-T-TGTGGGCTTTGAAATGA--TGCCACGAACT--TGTGGGCTTTGAAATGA--T
* * *
169899 GCAATAGACTTGTGTAGGCTTTGAAATAAGT
58 GCCACAGACTTGTG--GGCTTTGAAAT-AGA
* * *
169930 TGCCA-TCGACTTGTGGGCTTTGAAATGATGCCACGAACTTGTGGGTTTTGAAATGGTGCCACCG
1 TGCCACT-GACTTGTGGGCTTTGAAATGATGCCACGAACTTGTGGGCTTTGAAATGATGCCACAG
*
169994 ACTTGTGGGATTTGAAATAG-
65 ACTTGTGGGCTTTGAAATAGA
* * * * *
170014 TGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACTTATGGGCTTTAAAATGATGCCACAAA
1 TGCCACTGACTTGTGGGCTTTGAAATGATGCCACGAACTTGTGGGCTTTGAAATGATGCCACAGA
*
170079 CTTGCGGGCTTT-AAA-AGGA
66 CTTGTGGGCTTTGAAATA-GA
* * * * * * * *
170098 TGCTACAGAGTTATGGGCCTTGAAATGGTGCCACTG-ACTTGTGGACTTTGAAATGATGCCACGG
1 TGCCACTGACTTGTGGGCTTTGAAATGATGCCAC-GAACTTGTGGGCTTTGAAATGATGCCACAG
**
170162 ACTTGTGGGCTTTG-AAGGGA
65 ACTTGTGGGCTTTGAAATAGA
*
170182 TGCTACTGACTTGTGGGCTTTGAAATGATGCCA
1 TGCCACTGACTTGTGGGCTTTGAAATGATGCCA
170215 TAGACTTGTG
Statistics
Matches: 243, Mismatches: 35, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
82 1 0.00
83 4 0.02
84 161 0.66
85 3 0.01
86 10 0.04
88 12 0.05
90 15 0.06
92 10 0.04
94 17 0.07
95 2 0.01
96 8 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (85 bp):
TGCCACTGACTTGTGGGCTTTGAAATGATGCCACGAACTTGTGGGCTTTGAAATGATGCCACAGA
CTTGTGGGCTTTGAAATAGA
Found at i:170220 original size:28 final size:28
Alignment explanation
Indices: 169847--170225 Score: 295
Period size: 28 Copynumber: 13.2 Consensus size: 28
169837 CACTGACTTG
169847 TGTGGGCTTTGAAATGAGTTGCCACTA-ACT
1 TGTGGGCTTTGAAATGA--TGCCA-TAGACT
*
169877 CATGTGGGCTTTGAAATGAGTTGCAATAGACT
1 --TGTGGGCTTTGAAATGA--TGCCATAGACT
* *
169909 TGTGTAGGCTTTGAAATAAGTTGCCATCGACT
1 TGTG--GGCTTTGAAAT--GATGCCATAGACT
*
169941 TGTGGGCTTTGAAATGATGCCA-CGAACT
1 TGTGGGCTTTGAAATGATGCCATAG-ACT
* * **
169969 TGTGGGTTTTGAAATGGTGCCACCGACT
1 TGTGGGCTTTGAAATGATGCCATAGACT
*
169997 TGTGGGATTTGAAAT-AGTGCCACT-GACT
1 TGTGGGCTTTGAAATGA-TGCCA-TAGACT
*
170025 TGTGGGCTTTGAAATGGTGCCACTA-ACT
1 TGTGGGCTTTGAAATGATGCCA-TAGACT
* * * *
170053 TATGGGCTTTAAAATGATGCCACAAACT
1 TGTGGGCTTTGAAATGATGCCATAGACT
* * * * * *
170081 TGCGGGCTTTAAAAGGATGCTACAGAGT
1 TGTGGGCTTTGAAATGATGCCATAGACT
* * *
170109 TATGGGCCTTGAAATGGTGCCACT-GACT
1 TGTGGGCTTTGAAATGATGCCA-TAGACT
* **
170137 TGTGGACTTTGAAATGATGCCACGGACT
1 TGTGGGCTTTGAAATGATGCCATAGACT
** *
170165 TGTGGGCTTTGAAGGGATGCTACT-GACT
1 TGTGGGCTTTGAAATGATGCCA-TAGACT
170193 TGTGGGCTTTGAAATGATGCCATAGACT
1 TGTGGGCTTTGAAATGATGCCATAGACT
170221 TGTGG
1 TGTGG
170226 ACTTAAAAGG
Statistics
Matches: 287, Mismatches: 44, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.01
28 213 0.74
29 2 0.01
30 15 0.05
31 2 0.01
32 50 0.17
34 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCATAGACT
Found at i:170221 original size:84 final size:84
Alignment explanation
Indices: 169937--171332 Score: 374
Period size: 84 Copynumber: 16.8 Consensus size: 84
169927 AGTTGCCATC
* ** * * *
169937 GACTTGTGGGCTTTGAAATGATGCCACGA-ACTTGTGGGTTTTGAAATGGTGCCACCGACTTGTG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
* ** *
170001 GGATTTGAAATAGTGCCACT
66 GGCTTTGAAGGA-TGCTACT
* * * ** *
170021 GACTTGTGGGCTTTGAAATGGTGCCACTA-ACTTATGGGCTTTAAAATGATGCCACAAACTTGCG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
* *
170085 GGCTTTAAAAGGATGCTACA
66 GGCTTT-GAAGGATGCTACT
* * * * *
170105 GAGTTATGGGCCTTGAAATGGTGCCACT-GACTTGTGGACTTTGAAATGATGCCACGGACTTGTG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
170169 GGCTTTGAAGGGATGCTACT
66 GGCTTTGAA-GGATGCTACT
* * *
170189 GACTTGTGGGCTTTGAAATGATGCCA-TAGACTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
* ** *
170252 GACTTAAATAGG-TTCTA-T
66 GGCTTTGA-AGGATGCTACT
* * * * * * * * * * * *
170270 GGAGTTGTGGAC-CT-AAAAGGTGCCA-TGGAGTGGTGGACTTTAAAAGGGTGCCACGAAATTGT
1 -GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGT
* * ** * *
170332 AGACTTAAAAGGGTGCCA-T
65 GGGCTTTGAAGGATGCTACT
* * * * * * * * * *
170351 GGAGTTGTGGACTTTAAAAAGGTGCCA-TAGAGTTGTAGAC-TTAAAAGGGTGCCACGGAGTTGT
1 -GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGT
* * * * *
170414 AGACTTTAAAAGGGTGCCAC-
65 GGGCTTT-GAAGGATGCTACT
* * * * * * * * * * * * * * *
170434 GAAGTTGTGGAC-CTAAAAAGGTGTCAC-GGAGTTGTGGACTTGAATA-GATGTCACAGAGTTAT
1 G-ACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGT
* * *
170496 GGACTTTAAAAGG-TGCTACA
65 GGGCTTT-GAAGGATGCTACT
* * * * * * * * * * * *
170516 AAGTTGTGGACCTT-AAAGGGTGCCAC-AGAGTTGTGGGCTTAAAAAAGGGTGCCACGAACTTGT
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTT-TAAAATGATGCCACGGACTTGT
** * *
170579 GGGCTTAAAAAAGATGCCACT
65 GGGCTT-TGAAGGATGCTACT
* * * * * * *
170600 GACTTGTAGGCTTTGAAAAGGGTGCCACT-GACTTGTGG-CTTTGAAAGGGTGCCACTGACTTGT
1 GACTTGTGGGCTTTG-AAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGT
** * * *
170663 GGGCTTAAAAAGGGGTGCCATT
65 GGGCTT-TGAA-GGATGCTACT
* * * * * * * *
170685 GACTTGTGGGCTTTGAAAAGGTGCCACT-GACTTATGGGCTTAAAAAGGATGCCAAGGAGTTGTG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
* ** *
170749 GACTTAAAAGGATGAC-ACG
66 GGCTTTGAAGGATG-CTACT
* * * * * * * * * *
170768 GAGTTATGGACTTT-AAAGGGTGCCA-TGGAGTTATGGACTTTAAAA--ATGCCACGGAGTTATG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
** * *
170829 GGCTTAAAAAGGGGTGCCACT
66 GGCTT-TGAA-GGATGCTACT
** * * * * **
170850 GACTTGTGGGCTTAAAAAGGATGCCACT-GACTTGTAGG-CTTTGGAAAGGGTGCCACTAACTTG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGT-GGACTTT-AAAATGATGCCACGGACTTG
* ** *
170913 TGGACTTAAAAAGGATGCCACT
64 TGGGCTT-TGAAGGATGCTACT
* ** * * * * **
170935 GACTTGTAGGCTTTGGAAGGGGTGCCACT-GACTTGTGGGCTTAAAAAGGAATGCCATTGACTTG
1 GACTTGTGGGCTTT-GAAATGATGCCACTAGACTTGTGGACTTTAAAATG-ATGCCACGGACTTG
* *
170999 TGGGCTTTGAAAGGGTGCCACT
64 TGGGCTTTG-AAGGATGCTACT
** * * * ** *
171021 GACTTGTGGGCTTAAAAAGGATGCCA-T-GAAATTGTGGAC-TTAAAAGGATGCCATTGAGTTGT
1 GACTTGTGGGCTTTGAAATGATGCCACTAG-ACTTGTGGACTTTAAAATGATGCCACGGACTTGT
* * * * *
171083 GGACTTTAAAGGGTGCCACG
65 GGGCTTTGAAGGATGCTACT
* * * * * * * * * *
171103 GAGTTGTGGACTTT-AAAGGGTGCCAC-AGAGTTGT-GAGCTTAAAAAAAGGTGCCACTGACTTA
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGA-CTT-TAAAATGATGCCACGGACTTG
** *
171165 TGGGCTTAAAAAGGATGCCA-T
64 TGGGCTT-TGAAGGATGCTACT
* * * * * * * * * *
171186 GAAGTTGTGGAC-TTAAAAGGATGCCA-TGGAGTTGTGGACTTCAAAAGGATGCCACAGAGTTGT
1 G-ACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGT
** * *
171249 GGGCTTAAAAGGATGCCACG
65 GGGCTTTGAAGGATGCTACT
* * * * * * * * * *
171269 GAGTTATGGAC-TTAAAAGGATGTCAC-GGAGTTGTGGACTTTAAAATGCTGCCACGGAGTTGTG
1 GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
171332 G
66 G
171333 ACTTAAAAAA
Statistics
Matches: 1060, Mismatches: 198, Indels: 110
0.77 0.14 0.08
Matches are distributed among these distances:
80 42 0.04
81 106 0.10
82 225 0.21
83 197 0.19
84 291 0.27
85 98 0.09
86 101 0.10
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.27
Consensus pattern (84 bp):
GACTTGTGGGCTTTGAAATGATGCCACTAGACTTGTGGACTTTAAAATGATGCCACGGACTTGTG
GGCTTTGAAGGATGCTACT
Found at i:170250 original size:27 final size:27
Alignment explanation
Indices: 170220--171369 Score: 760
Period size: 27 Copynumber: 41.6 Consensus size: 27
170210 TGCCATAGAC
170220 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
170247 TTGTGGACTTAAATA-GGTTCTATGGAG
1 TTGTGGACTTAAA-AGGGTGCCACGGAG
* *
170274 TTGTGGACCTAAAA-GGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
170300 TGGTGGACTTTAAAAGGGTGCCACGAAA
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
170328 TTGTAGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* **
170355 TTGTGGACTTTAAAAAGGTGCCATAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
170383 TTGTAGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
170410 TTGTAGACTTTAAAAGGGTGCCACGAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
170438 TTGTGGACCTAAAAAGGTGTCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
170465 TTGTGGACTTGAATA-GATGTCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* * **
170492 TTATGGACTTTAAAA-GGTGCTACAAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
170519 TTGTGGACCTT-AAAGGGTGCCACAGAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAG
* * *
170546 TTGTGGGCTTAAAAAAGGGTGCCACGAAC
1 TTGTGGACTT--AAAAGGGTGCCACGGAG
* * * * *
170575 TTGTGGGCTTAAAAAAGATGCCACTGAC
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* *
170603 TTGTAGG-CTTTGAAAAGGGTGCCACTGAC
1 TTGT-GGAC-TT-AAAAGGGTGCCACGGAG
* * *
170632 TTGTGG-CTTTGAAAGGGTGCCACTGAC
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* ** *
170659 TTGTGGGCTTAAAAAGGGGTGCCATTGAC
1 TTGTGGACTT-AAAA-GGGTGCCACGGAG
* * *
170688 TTGTGGGCTTTGAAAA-GGTGCCACTGAC
1 TTGTGGAC-TT-AAAAGGGTGCCACGGAG
* * * *
170716 TTATGGGCTTAAAAAGGATGCCAAGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* *
170744 TTGTGGACTTAAAAGGATGACACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
170771 TTATGGACTTTAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
170798 TTATGGACTTTAAAA--ATGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * *
170824 TTATGGGCTTAAAAAGGGGTGCCACTGAC
1 TTGTGGACTT-AAAA-GGGTGCCACGGAG
* * * *
170853 TTGTGGGCTTAAAAAGGATGCCACTGAC
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* ** *
170881 TTGTAGG-CTTTGGAAAGGGTGCCACTAAC
1 TTGT-GGAC-TT-AAAAGGGTGCCACGGAG
* * *
170910 TTGTGGACTTAAAAAGGATGCCACTGAC
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* * * *
170938 TTGTAGG-CTTTGGAAGGGGTGCCACTGAC
1 TTGT-GGAC-TT-AAAAGGGTGCCACGGAG
* * ** *
170967 TTGTGGGCTTAAAAAGGAATGCCATTGAC
1 TTGTGGACTT-AAAAGG-GTGCCACGGAG
* * * *
170996 TTGTGGGCTTTGAAAGGGTGCCACTGAC
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * * * *
171024 TTGTGGGCTTAAAAAGGATGCCATGAAA
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* **
171052 TTGTGGACTTAAAAGGATGCCATTGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
171079 TTGTGGACTTTAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
171106 TTGTGGACTTTAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
171133 TTGT-GAGCTTAAAAAAAGGTGCCACTGAC
1 TTGTGGA-CTT--AAAAGGGTGCCACGGAG
* * * * *
171162 TTATGGGCTTAAAAAGGATGCCATGAAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* *
171190 TTGTGGACTTAAAAGGATGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
171217 TTGTGGACTTCAAAAGGATGCCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
* *
171245 TTGTGGGCTTAAAAGGATGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
171272 TTATGGACTTAAAAGGATGTCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
171299 TTGTGGACTTTAAAATGCTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
***
171327 TTGTGGACTTAAAAAAATGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
171354 TTATGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
171370 ATGCTACTGA
Statistics
Matches: 935, Mismatches: 149, Indels: 78
0.80 0.13 0.07
Matches are distributed among these distances:
25 2 0.00
26 46 0.05
27 411 0.44
28 292 0.31
29 175 0.19
30 9 0.01
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:170354 original size:55 final size:54
Alignment explanation
Indices: 170087--171373 Score: 722
Period size: 55 Copynumber: 23.3 Consensus size: 54
170077 AACTTGCGGG
* * * * * *
170087 CTTTAAAAGGATGCTACAGAGTTATGGGCCTTGAAATGGTGCCACT-GACTTGTGGA
1 CTTTAAAAGGATGCCAC-GAGTTGT-GGACTTAAAAGGGTGCCA-TGGAGTTGTGGA
* * * * ** * * *
170143 CTTTGAAATGATGCCACGGACTTGTGGGCTTTGAAGGGATGCTACT-GACTTGTGGG
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTTAAAAGGG-TGCCA-TGGAGTTGTGGA
* * * * *
170199 CTTTGAAATGATGCCATAGACTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGATGCCA-CGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * * * *
170254 C-TTAAATAGG-TTCTATGGAGTTGTGGACCTAAAA-GGTGCCATGGAGTGGTGGA
1 CTTTAAA-AGGATGCCA-CGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * *
170307 CTTTAAAAGGGTGCCACGAAATTGTAGACTTAAAAGGGTGCCATGGAGTTGTGGA
1 CTTTAAAAGGATGCCACG-AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * * *
170362 CTTTAAAAAGG-TGCCATAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTAGA
1 CTTT-AAAAGGATGCCA-CGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * * * *
170417 CTTTAAAAGGGTGCCACGAAGTTGTGGACCTAAAAAGGTGTCACGGAGTTGTGGA
1 CTTTAAAAGGATGCCACG-AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * * * * ***
170472 CTTGAATA-GATGTCACAGAGTTATGGACTTTAAAA-GGTGCTACAAAGTTGTGGA
1 CTTTAAAAGGATGCCAC-GAGTTGTGGAC-TTAAAAGGGTGCCATGGAGTTGTGGA
* * * * * * *
170526 CCTT-AAAGGGTGCCACAGAGTTGTGGGCTTAAAAAAGGGTGCCACGAACTTGTGGG
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTT--AAAAGGGTGCCATGGAGTTGTGGA
* * * *
170582 CTTAAAAAAGATGCCACTGACTTGTAGG-CTTTGAAAAGGGTGCCACT-GACTTGTGG-
1 CTTTAAAAGGATGCCAC-GAGTTGT-GGAC-TT-AAAAGGGTGCCA-TGGAGTTGTGGA
* * * * * * *
170638 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGGGTGCCATTGACTTGTGGG
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTT-AAAA-GGGTGCCATGGAGTTGTGGA
* * * * *
170695 CTTTGAAAAGG-TGCCACTGACTTATGGGCTTAAAAAGGATGCCAAGGAGTTGTGGA
1 CTTT-AAAAGGATGCCAC-GAGTTGTGGACTT-AAAAGGGTGCCATGGAGTTGTGGA
* * * *
170751 C-TTAAAAGGATGACACGGAGTTATGGACTTTAAAGGGTGCCATGGAGTTATGGA
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * * *
170805 CTTTAAAA--ATGCCACGGAGTTATGGGCTTAAAAAGGGGTGCCACT-GACTTGTGGG
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTT-AAAA-GGGTGCCA-TGGAGTTGTGGA
* * * * *
170860 CTTAAAAAGGATGCCACTGACTTGTAGG-CTTTGGAAAGGGTGCCACT-AACTTGTGGA
1 CTTTAAAAGGATGCCAC-GAGTTGT-GGAC-TT-AAAAGGGTGCCA-TGGAGTTGTGGA
* * * * * *
170917 CTTAAAAAGGATGCCACTGACTTGTAGG-CTTTGGAAGGGGTGCCACT-GACTTGTGGG
1 CTTTAAAAGGATGCCAC-GAGTTGT-GGAC-TT-AAAAGGGTGCCA-TGGAGTTGTGGA
* * * * * * *
170974 CTTAAAAAGGAATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACT-GACTTGTGGG
1 CTTTAAAAGG-ATGCCA-CGAGTTGTGGAC-TTAAAAGGGTGCCA-TGGAGTTGTGGA
* * * * *
171031 CTTAAAAAGGATGCCATGAAATTGTGGACTTAAAAGGATGCCATTGAGTTGTGGA
1 CTTTAAAAGGATGCCACG-AGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * **
171086 CTTT-AAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGT-GA
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * * * * *
171139 GCTTAAAAAAAGG-TGCCACTGACTTATGGGCTTAAAAAGGATGCCATGAAGTTGTGGA
1 -CTT--TAAAAGGATGCCAC-GAGTTGTGGACTT-AAAAGGGTGCCATGGAGTTGTGGA
* * ** *
171197 C-TTAAAAGGATGCCATGGAGTTGTGGACTTCAAAAGGATGCCACAGAGTTGTGGG
1 CTTTAAAAGGATGCCA-CGAGTTGTGGACTT-AAAAGGGTGCCATGGAGTTGTGGA
* * * *
171252 C-TTAAAAGGATGCCACGGAGTTATGGACTTAAAAGGATGTCACGGAGTTGTGGA
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
* * *** * *
171306 CTTTAAAATGCTGCCACGGAGTTGTGGACTTAAAAAAATGCCACGGAGTTATGGA
1 CTTTAAAAGGATGCCAC-GAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
171361 C-TTAAAAGGATGC
1 CTTTAAAAGGATGC
171374 TACTGAATCG
Statistics
Matches: 1016, Mismatches: 163, Indels: 106
0.79 0.13 0.08
Matches are distributed among these distances:
53 47 0.05
54 209 0.21
55 330 0.32
56 178 0.18
57 217 0.21
58 35 0.03
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (54 bp):
CTTTAAAAGGATGCCACGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGA
Found at i:171057 original size:56 final size:55
Alignment explanation
Indices: 169930--171266 Score: 656
Period size: 56 Copynumber: 24.1 Consensus size: 55
169920 TGAAATAAGT
* * * * * *
169930 TGCCATCGACTTGTGGGCTTTGAAATGATGCCAC-GAACTTGTGGGTTTTGAAATGG-
1 TGCCAT-GACTTGTGGGCTTTAAAAGGGTGCCACTG-ACTTGTGGG-CTTAAAAAGGA
* * * ** * *
169986 TGCCACCGACTTGTGGGATTTGAAATAGTGCCACTGACTTGTGGGCTTTGAAATGG-
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGC-TTAAAAAGGA
* * * * ** * *
170042 TGCCACTAACTTATGGGCTTTAAAATGATGCCACAAACTTGCGGGCTTTAAAAGGA
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * * * ** *
170098 TGCTACA-GAGTTATGGGCCTTGAAATGGTGCCACTGACTTGTGGACTTTGAAATGA
1 TGC--CATGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * ** *
170154 TGCCACGGACTTGTGGGCTTT-GAAGGGATGCTACTGACTTGTGGGCTTTGAAATGA
1 TGCCA-TGACTTGTGGGCTTTAAAAGGG-TGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * *
170210 TGCCATAGACTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAATAGG-
1 TGCCAT-GACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * * * * * * *
170264 TTCTATGGAGTTGTGGAC-CTAAAA-GGTGCCA-TGGAGTGGTGGACTTTAAAAGGG
1 TGCCAT-GACTTGTGGGCTTTAAAAGGGTGCCACT-GACTTGTGGGCTTAAAAAGGA
* * * * * *
170318 TGCCACGAAATTGTAGAC-TTAAAAGGGTGCCA-TGGAGTTGTGGACTTTAAAAAGG-
1 TGCCATG-ACTTGTGGGCTTTAAAAGGGTGCCACT-GACTTGTGGGC-TTAAAAAGGA
* * * * * * * * *
170373 TGCCATAGAGTTGTAGAC-TTAAAAGGGTGCCACGGAGTTGTAGACTTTAAAAGGG
1 TGCCAT-GACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * * * * * * * *
170428 TGCCACGAAGTTGTGGAC-CTAAAAAGGTGTCACGGAGTTGTGGACTTGAATA-GA
1 TGCCATG-ACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * ** * * *
170482 TGTCACA-GAGTTATGGACTTTAAAA-GGTGCTACAAAGTTGTGGACCTT--AAAGGG
1 TG-C-CATGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGG-GCTTAAAAAGGA
* * * *
170536 TGCCACAGAGTTGTGGGCTTAAAAAAGGGTGCCAC-GAACTTGTGGGCTTAAAAAAGA
1 TGCCA-TGACTTGTGGGCTT-TAAAAGGGTGCCACTG-ACTTGTGGGCTTAAAAAGGA
* ** *
170593 TGCCACTGACTTGTAGGCTTTGAAAAGGGTGCCACTGACTTGT-GGCTTTGAAAGGG
1 TGCCA-TGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * *
170649 TGCCACTGACTTGTGGGCTTAAAAAGGGGTGCCATTGACTTGTGGGCTTTGAAAAGG-
1 TGCCA-TGACTTGTGGGCTTTAAAA-GGGTGCCACTGACTTGTGGGC-TTAAAAAGGA
* * * ** * *
170706 TGCCACTGACTTATGGGCTTAAAAAGGATGCCAAGGAGTTGTGGACTT-AAAAGGA
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * * * * * *
170761 TGACACGGAGTTATGGACTTT-AAAGGGTGCCA-TGGAGTTATGGACTTTAAAA--A
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACT-GACTTGTGGGCTTAAAAAGGA
* * * *
170814 TGCCACGGAGTTATGGGCTTAAAAAGGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
1 TGCCA-TGACTTGTGGGCTTTAAAA-GGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * *
170871 TGCCACTGACTTGTAGGCTTTGGAAAGGGTGCCACTAACTTGTGGACTTAAAAAGGA
1 TGCCA-TGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * *
170928 TGCCACTGACTTGTAGGCTTTGGAAGGGGTGCCACTGACTTGTGGGCTTAAAAAGGAA
1 TGCCA-TGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGG-A
*
170986 TGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * * * * *
171042 TGCCATGAAATTGTGGAC-TTAAAAGGATGCCATTGAGTTGTGGACTT-TAAAGGG
1 TGCCATG-ACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
* * * * * *
171096 TGCCACGGAGTTGTGGACTTT-AAAGGGTGCCACAGAGTTGTGAGCTTAAAAAAAGG-
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTT--AAAAAGGA
* * * * *
171152 TGCCACTGACTTATGGGCTTAAAAAGGATGCCA-TGAAGTTGTGGACTT-AAAAGGA
1 TGCCA-TGACTTGTGGGCTTTAAAAGGGTGCCACTG-ACTTGTGGGCTTAAAAAGGA
* * * * * *
171207 TGCCATGGAGTTGTGGACTTCAAAAGGATGCCACAGAGTTGTGGGCTT-AAAAGGA
1 TGCCAT-GACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
171262 TGCCA
1 TGCCA
171267 CGGAGTTATG
Statistics
Matches: 1048, Mismatches: 175, Indels: 117
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.00
53 47 0.04
54 164 0.16
55 275 0.26
56 302 0.29
57 225 0.21
58 33 0.03
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (55 bp):
TGCCATGACTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGA
Found at i:171387 original size:82 final size:82
Alignment explanation
Indices: 170089--171391 Score: 651
Period size: 82 Copynumber: 15.7 Consensus size: 82
170079 CTTGCGGGCT
* * * * * * * *
170089 TTAAAAGGATGCTACAGAGTTATGGGCCTTGAAATGG-TGCCACTGACTTGTGGACTTTGAAATG
1 TTAAAAAGATGCCACGGAGTTAT-GGACTT-AAAAGGATGCCACTGAGTTGTGGACTTTAAAAGG
* * *
170153 ATGCCACGGACTTGTGGGC
64 ATGCCACTGAGTTGTGGAC
* ** * * * * * * * *
170172 TTTGAAGGGATGCTACTGACTTGTGGGCTTTGAAATGATGCCA-TAGACTTGTGGAC-TTAAAAG
1 -TTAAAAAGATGCCACGGAGTTATGGAC-TTAAAAGGATGCCACT-GAGTTGTGGACTTTAAAAG
* *
170235 GGTGCCACGGAGTTGTGGAC
63 GATGCCACTGAGTTGTGGAC
* * * * * * * * *
170255 TTAAATAGGTTCTATGGAGTTGTGGACCTAAAAGG-TGCCA-TGGAGTGGTGGACTTTAAAAGGG
1 TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACT-GAGTTGTGGACTTTAAAAGGA
* *
170318 TGCCAC-GAAATTGTAGAC
65 TGCCACTG-AGTTGTGGAC
* * * * *
170336 TTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAAGG-TGCCA-TAGAGTTGTAGAC-TTAAAAG
1 TTAAAAAGATGCCACGGAGTTATGGAC-TT-AAAAGGATGCCACT-GAGTTGTGGACTTTAAAAG
* * *
170398 GGTGCCACGGAGTTGTAGAC
63 GATGCCACTGAGTTGTGGAC
* * * * * * * * *
170418 TTTAAAAGGGTGCCACGAAGTTGTGGACCTAAAAAGG-TGTCACGGAGTTGTGGACTTGAATA-G
1 -TTAAAAAGATGCCACGGAGTTATGGA-CTTAAAAGGATGCCACTGAGTTGTGGACTTTAAAAGG
* * *
170481 ATGTCACAGAGTTATGGAC
64 ATGCCACTGAGTTGTGGAC
* * * ** * * * * *
170500 TTTAAAAGGTGCTACAAAGTTGTGGACCTT-AAAGGGTGCCACAGAGTTGTGGGCTTAAAAAAGG
1 TTAAAAAGATGCCACGGAGTTATGGA-CTTAAAAGGATGCCACTGAGTTGTGGACTT-TAAAAGG
* * *
170564 GTGCCAC-GAACTTGTGGGC
64 ATGCCACTG-AGTTGTGGAC
* * * * * *
170583 TTAAAAAAGATGCCACTGACTTGTAGG-CTTTGAAAAGGGTGCCACTGACTTGTGG-CTTTGAAA
1 TT-AAAAAGATGCCACGGAGTTAT-GGAC-TT-AAAAGGATGCCACTGAGTTGTGGACTTTAAAA
* * *
170646 GGGTGCCACTGACTTGTGGGC
62 GGATGCCACTGAGTTGTGGAC
* ** * * * * * * *
170667 TTAAAAAGGGGTGCCATTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTATGGGCTTAAAAA
1 TTAAAAA--GATGCCACGGAGTTATGGAC-TT-AAAAGGATGCCACTGAGTTGTGGACTTTAAAA
**
170731 GGATGCCAAGGAGTTGTGGAC
62 GGATGCCACTGAGTTGTGGAC
* * * * *
170752 TTAAAAGGATGACACGGAGTTATGGACTTTAAAGGGTGCCA-TGGAGTTATGGACTTTAAAA--A
1 TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACT-GAGTTGTGGACTTTAAAAGGA
* * *
170814 TGCCACGGAGTTATGGGC
65 TGCCACTGAGTTGTGGAC
* * * * * * *
170832 TTAAAAAGGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACTGACTTGTAGG-CTTTGGAA
1 TTAAAAA--GATGCCACGGAGTTATGGACTT-AAAAGGATGCCACTGAGTTGT-GGACTTT-AAA
* * *
170896 AGGGTGCCACTAACTTGTGGAC
61 AGGATGCCACTGAGTTGTGGAC
* * * * * * * * *
170918 TTAAAAAGGATGCCACTGACTTGTAGG-CTTTGGAAGGGGTGCCACTGACTTGTGGGCTTAAAAA
1 TTAAAAA-GATGCCACGGAGTTAT-GGAC-TT-AAAAGGATGCCACTGAGTTGTGGACTTTAAAA
* * *
170982 GGAATGCCATTGACTTGTGGGC
62 GG-ATGCCACTGAGTTGTGGAC
* * * * * * * *
171004 TTTGAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCA-TGAAATTGTGGAC-TTAAAAG
1 -TTAAAAAGATGCCACGGAGTTATGGACTT-AAAAGGATGCCACTG-AGTTGTGGACTTTAAAAG
*
171067 GATGCCATTGAGTTGTGGAC
63 GATGCCACTGAGTTGTGGAC
* * * * * * * *
171087 TTTAAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGT-GAGCTTAAAAAAAG
1 TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACTGAGTTGTGGA-CTT--TAAAAG
* * *
171151 G-TGCCACTGACTTATGGGC
63 GATGCCACTGAGTTGTGGAC
* * * *
171170 TTAAAAAGGATGCCATGAAGTTGTGGACTTAAAAGGATGCCA-TGGAGTTGTGGACTTCAAAAGG
1 TTAAAAA-GATGCCACGGAGTTATGGACTTAAAAGGATGCCACT-GAGTTGTGGACTTTAAAAGG
* *
171234 ATGCCACAGAGTTGTGGGC
64 ATGCCACTGAGTTGTGGAC
* * * * *
171253 TTAAAAGGATGCCACGGAGTTATGGACTTAAAAGGATGTCACGGAGTTGTGGACTTTAAAATGCT
1 TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGAT
*
171318 GCCACGGAGTTGTGGAC
66 GCCACTGAGTTGTGGAC
* * * *
171335 TTAAAAAAATGCCACGGAGTTATGGACTTAAAAGGATGCTACTGAATCGTGGACTTT
1 TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACTGAGTTGTGGACTTT
171392 GAAGAGGTCA
Statistics
Matches: 979, Mismatches: 187, Indels: 108
0.77 0.15 0.08
Matches are distributed among these distances:
80 45 0.05
81 115 0.12
82 267 0.27
83 190 0.19
84 155 0.16
85 106 0.11
86 96 0.10
87 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (82 bp):
TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCACTGAGTTGTGGACTTTAAAAGGAT
GCCACTGAGTTGTGGAC
Found at i:171390 original size:27 final size:27
Alignment explanation
Indices: 170089--171373 Score: 750
Period size: 27 Copynumber: 46.4 Consensus size: 27
170079 CTTGCGGGCT
* * * *
170089 TTAAAAGGATGCTACAGAGTTATGGGCC
1 TTAAAAGGATGCCACGGAGTTGT-GGAC
* * *
170117 TTGAAATGG-TGCCACTGACTTGTGGAC
1 TT-AAAAGGATGCCACGGAGTTGTGGAC
* * * *
170144 TTTGAAATGATGCCACGGACTTGTGGGC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
* * * * * *
170172 TTTGAAGGGATGCTACTGACTTGTGGGC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
* * ** *
170200 TTTGAAATGATGCCATAGACTTGTGGAC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
*
170228 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* * *
170255 TTAAATAGG-TTCTATGGAGTTGTGGAC
1 TTAAA-AGGATGCCACGGAGTTGTGGAC
* * *
170282 CTAAAAGG-TGCCATGGAGTGGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* * * *
170308 TTTAAAAGGGTGCCACGAAATTGTAGAC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
* *
170336 TTAAAAGGGTGCCATGGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
** *
170363 TTTAAAAAGG-TGCCATAGAGTTGTAGAC
1 -TT-AAAAGGATGCCACGGAGTTGTGGAC
* *
170391 TTAAAAGGGTGCCACGGAGTTGTAGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* *
170418 TTTAAAAGGGTGCCACGAAGTTGTGGACC
1 -TTAAAAGGATGCCACGGAGTTGTGGA-C
* *
170447 TAAAAAGG-TGTCACGGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* * * *
170473 TTGAATA-GATGTCACAGAGTTATGGAC
1 TT-AAAAGGATGCCACGGAGTTGTGGAC
* **
170500 TTTAAAAGG-TGCTACAAAGTTGTGGACC
1 -TTAAAAGGATGCCACGGAGTTGTGGA-C
* * *
170528 TT-AAAGGGTGCCACAGAGTTGTGGGC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* * * *
170554 TTAAAAAAGGGTGCCACGAACTTGTGGGC
1 TT--AAAAGGATGCCACGGAGTTGTGGAC
* * *
170583 TTAAAAAAGATGCCACTGACTTGTAGG-C
1 TT-AAAAGGATGCCACGGAGTTGT-GGAC
* * *
170611 TTTGAAAAGGGTGCCACTGACTTGTGG-C
1 -TT-AAAAGGATGCCACGGAGTTGTGGAC
* * * * *
170639 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
* ** * *
170667 TTAAAAAGGGGTGCCATTGACTTGTGGGC
1 TT-AAAA-GGATGCCACGGAGTTGTGGAC
* * * *
170696 TTTGAAAAGG-TGCCACTGACTTATGGGC
1 -TT-AAAAGGATGCCACGGAGTTGTGGAC
*
170724 TTAAAAAGGATGCCAAGGAGTTGTGGAC
1 TT-AAAAGGATGCCACGGAGTTGTGGAC
* *
170752 TTAAAAGGATGACACGGAGTTATGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* * * *
170779 TTTAAAGGGTGCCATGGAGTTATGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* *
170806 TTTAAAA--ATGCCACGGAGTTATGGGC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
* * * *
170832 TTAAAAAGGGGTGCCACTGACTTGTGGGC
1 TT-AAAA-GGATGCCACGGAGTTGTGGAC
* *
170861 TTAAAAAGGATGCCACTGACTTGTAGG-C
1 TT-AAAAGGATGCCACGGAGTTGT-GGAC
* * ** *
170889 TTTGGAAAGGGTGCCACTAACTTGTGGAC
1 -TT-AAAAGGATGCCACGGAGTTGTGGAC
* *
170918 TTAAAAAGGATGCCACTGACTTGTAGG-C
1 TT-AAAAGGATGCCACGGAGTTGT-GGAC
* * * * * *
170946 TTTGGAAGGGGTGCCACTGACTTGTGGGC
1 -TT-AAAAGGATGCCACGGAGTTGTGGAC
** * *
170975 TTAAAAAGGAATGCCATTGACTTGTGGGC
1 TT-AAAAGG-ATGCCACGGAGTTGTGGAC
* * * * *
171004 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
* * *
171032 TTAAAAAGGATGCCATGAAATTGTGGAC
1 TT-AAAAGGATGCCACGGAGTTGTGGAC
**
171060 TTAAAAGGATGCCATTGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* *
171087 TTTAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* * *
171114 TTTAAAGGGTGCCACAGAGTTGT-GAGC
1 TTAAAAGGATGCCACGGAGTTGTGGA-C
* * * *
171141 TTAAAAAAAGG-TGCCACTGACTTATGGGC
1 TT---AAAAGGATGCCACGGAGTTGTGGAC
* *
171170 TTAAAAAGGATGCCATGAAGTTGTGGAC
1 TT-AAAAGGATGCCACGGAGTTGTGGAC
*
171198 TTAAAAGGATGCCATGGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* *
171225 TTCAAAAGGATGCCACAGAGTTGTGGGC
1 TT-AAAAGGATGCCACGGAGTTGTGGAC
*
171253 TTAAAAGGATGCCACGGAGTTATGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
*
171280 TTAAAAGGATGTCACGGAGTTGTGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
* *
171307 TTTAAAATGCTGCCACGGAGTTGTGGAC
1 -TTAAAAGGATGCCACGGAGTTGTGGAC
** *
171335 TTAAAAAAATGCCACGGAGTTATGGAC
1 TTAAAAGGATGCCACGGAGTTGTGGAC
171362 TTAAAAGGATGC
1 TTAAAAGGATGC
171374 TACTGAATCG
Statistics
Matches: 1041, Mismatches: 167, Indels: 99
0.80 0.13 0.08
Matches are distributed among these distances:
25 2 0.00
26 57 0.05
27 427 0.41
28 357 0.34
29 184 0.18
30 14 0.01
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (27 bp):
TTAAAAGGATGCCACGGAGTTGTGGAC
Found at i:172701 original size:22 final size:22
Alignment explanation
Indices: 172673--172741 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 22
172663 CATGTCCTCG
*
172673 TTTTTTTATTTTTG-TTGTTCCC
1 TTTTTTTATTTTTGCTT-TTCCA
*
172695 TTTTTTTA-TTTTGCTTTTGCA
1 TTTTTTTATTTTTGCTTTTCCA
172716 TTTTTTTATTTTT-CTTTT-CA
1 TTTTTTTATTTTTGCTTTTCCA
172736 TTTTTT
1 TTTTTT
172742 GTGCTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.19
21 21 0.49
22 14 0.33
ACGTcount: A:0.07, C:0.10, G:0.06, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTTTTGCTTTTCCA
Found at i:179156 original size:157 final size:157
Alignment explanation
Indices: 178870--179183 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
178860 ACTTAGAAAA
178870 AAGTTTGATGATATTAACTCTCAACATCTACTCCGAGAAAAAATCAAATTGCAAACGCCTTAGCC
1 AAGTTTGATGATATTAACTCTCAACATCTACTCCGAGAAAAAATCAAATTGCAAACGCCTTAGCC
178935 ACGTTACCATCTATGTTCAAAGTCAATCGAGAATCCAATGTTGCTCTCGTCCAGATGAGTATTCA
66 ACGTTACCATCTATGTTCAAAGTCAATCGAGAATCCAATGTTGCTCTCGTCCAGATGAGTATTCA
179000 CACAACCCCAACGCATTGCTAGAATGT
131 CACAACCCCAACGCATTGCTAGAATGT
179027 AAGTTTGATGATATTAACTCTCAACATCTACTCCGAGAAAAAATCAAATTGCAAACGCCTTAGCC
1 AAGTTTGATGATATTAACTCTCAACATCTACTCCGAGAAAAAATCAAATTGCAAACGCCTTAGCC
179092 ACGTTACCATCTATGTTCAAAGTCAATCGAGAATCCAATGTTGCTCTCGTCCAGATGAGTATTCA
66 ACGTTACCATCTATGTTCAAAGTCAATCGAGAATCCAATGTTGCTCTCGTCCAGATGAGTATTCA
179157 CACAACCCCAACGCATTGCTAGAATGT
131 CACAACCCCAACGCATTGCTAGAATGT
179184 TGAAGAAGAA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (157 bp):
AAGTTTGATGATATTAACTCTCAACATCTACTCCGAGAAAAAATCAAATTGCAAACGCCTTAGCC
ACGTTACCATCTATGTTCAAAGTCAATCGAGAATCCAATGTTGCTCTCGTCCAGATGAGTATTCA
CACAACCCCAACGCATTGCTAGAATGT
Found at i:180531 original size:13 final size:13
Alignment explanation
Indices: 180509--180571 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
180499 TTTTCTTTTC
180509 AAAAAA-AAAAAG
1 AAAAAAGAAAAAG
180521 AAAAAAG-AAAA-
1 AAAAAAGAAAAAG
*
180532 AAAAAAGCAAAAAC
1 AAAAAAG-AAAAAG
*
180546 AAAAAATG-GAAAG
1 AAAAAA-GAAAAAG
180559 AAAAAATGAAAAA
1 AAAAAA-GAAAAA
180572 ACAACCTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 7 0.17
12 10 0.24
13 15 0.36
14 9 0.21
15 1 0.02
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:181639 original size:61 final size:61
Alignment explanation
Indices: 181535--181921 Score: 386
Period size: 61 Copynumber: 6.4 Consensus size: 61
181525 CTAAACTTAA
* *
181535 ACCTTTCAGTCCTCAAAGAGCATGACGCCTTC-TCTTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTC-TTTCAAAGCCCACACAAGTTGGTGGC
* ** * *
181596 ACCTTTCAGTCCTCAAAGAGCAAGACGTTTTTTTCTTTCAAAGCCCACACAAGTTGGTAGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * ** *
181657 ATCTTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTCAAAGCCCATGCAAGTTAGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGC
* * * ** * *
181718 ACATTTTAGTCCTAAAAGAGCAGGTTGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * *
181779 ACATTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAACCCATACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTC-TTTCAAAGCCCACACAAGTTGGTGGC
* * * * * * * * * *
181841 ACCTTTTAGTTCTCAAAAAGTAGGAC-ACTT-TTTTTTTAAAGCCTACATAAGCTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGC
*
181900 ATC-TTCTAGTCCTCAAAGAGCA
1 ACCTTTC-AGTCCTCAAAGAGCA
181922 AGGCACCTCT
Statistics
Matches: 270, Mismatches: 53, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
58 2 0.01
59 34 0.13
60 2 0.01
61 185 0.69
62 47 0.17
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (61 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGC
Done.