Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 20 of 105
Found at i:4224252 original size:29 final size:28
Alignment explanation
Indices: 4224181--4224250 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
4224171 AATGGAATTA
* *
4224181 AAATCTTTTAAAATAATAGTATAAGAACT
1 AAAT-TTTTAAAATAATAGTAGAAAAACT
*
4224210 AAATTCATTT-AAATAATATTAGAAAAACT
1 AAATT--TTTAAAATAATAGTAGAAAAACT
4224239 AAATTTTTAAAA
1 AAATTTTTAAAA
4224251 ATTGAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 4 0.11
29 25 0.71
30 3 0.09
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (28 bp):
AAATTTTTAAAATAATAGTAGAAAAACT
Found at i:4225226 original size:1 final size:1
Alignment explanation
Indices: 4225220--4225248 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4225210 CTAACTAGTA
4225220 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4225249 CAGTTTTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4225414 original size:15 final size:15
Alignment explanation
Indices: 4225383--4225442 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
4225373 ATTGTTTTGG
4225383 ATTTAGATTTATTTTAA
1 ATTTA-ATTT-TTTTAA
4225400 ATTTAATTTTTTT-A
1 ATTTAATTTTTTTAA
* *
4225414 ATTTGGATATTTTTAA
1 ATTT-AATTTTTTTAA
*
4225430 ATTCAATTTTTTT
1 ATTTAATTTTTTT
4225443 TTATATTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 5 0.14
15 18 0.50
16 8 0.22
17 5 0.14
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (15 bp):
ATTTAATTTTTTTAA
Found at i:4225451 original size:33 final size:30
Alignment explanation
Indices: 4225393--4225464 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
4225383 ATTTAGATTT
* *
4225393 ATTTTAAATTTAATTTTTTTAATTTGGAT-
1 ATTTTAAATTCAATTTTTTTAATTTGAATC
4225422 ATTTTTAAATTCAATTTTTTTTTATATTTGAATC
1 A-TTTTAAATTCAA--TTTTTTTA-ATTTGAATC
4225456 ATTTTAAAT
1 ATTTTAAAT
4225465 AACAGTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 1 0.03
30 11 0.31
32 8 0.22
33 15 0.42
34 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (30 bp):
ATTTTAAATTCAATTTTTTTAATTTGAATC
Found at i:4226435 original size:13 final size:13
Alignment explanation
Indices: 4226417--4226441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4226407 TTAACTTAAA
4226417 AAATCAATAGATC
1 AAATCAATAGATC
4226430 AAATCAATAGAT
1 AAATCAATAGAT
4226442 ATAATGAAAT
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:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
AAATCAATAGATC
Found at i:4230748 original size:26 final size:27
Alignment explanation
Indices: 4230695--4230750 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
4230685 ATTATAATTA
* * * *
4230695 ATATTTTTTTAAAAAATATATGTTAAT
1 ATATATTTATAAAAAATATATATAAAT
4230722 ATATATTTATAAAAAA-ATATATAAAT
1 ATATATTTATAAAAAATATATATAAAT
4230748 ATA
1 ATA
4230751 CAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
ATATATTTATAAAAAATATATATAAAT
Found at i:4230750 original size:18 final size:19
Alignment explanation
Indices: 4230719--4230757 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4230709 AATATATGTT
**
4230719 AATATATATTTATA-AAAA
1 AATATATAAATATACAAAA
4230737 AATATATAAATATACAAAA
1 AATATATAAATATACAAAA
4230756 AA
1 AA
4230758 AAAAACTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AATATATAAATATACAAAA
Found at i:4234418 original size:2 final size:2
Alignment explanation
Indices: 4234411--4234437 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4234401 GGCAAATCTA
4234411 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 A
4234438 ACGTTTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4238508 original size:21 final size:21
Alignment explanation
Indices: 4238477--4238519 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
4238467 AACTCAAATA
*
4238477 TTTTACAATAAA-TGTAAGTT
1 TTTTACAATAAATTCTAAGTT
4238497 TTTTACACATAAATTCTAAGTT
1 TTTTACA-ATAAATTCTAAGTT
4238519 T
1 T
4238520 ATATCTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (21 bp):
TTTTACAATAAATTCTAAGTT
Found at i:4238532 original size:80 final size:81
Alignment explanation
Indices: 4238448--4238617 Score: 236
Period size: 80 Copynumber: 2.1 Consensus size: 81
4238438 ATAATTTATG
* *
4238448 TAATCATATAACTATATAAAACTCAAATATTTTACAATAAATG-TAAGTTTTTTAC-ACATAAAT
1 TAATCATATAAATATATAAAACTCAAATATTTTACAATAAATGTTAAGTCTTTT-CTACATAAAT
**
4238511 TCTAAGTTTATATCTCC
65 TCTAAACTTATATCTCC
* * *
4238528 TAATCATAAAAATATATAAAACTCAAATATTTTATAATAAATGTTAAGTCTTTTCTATATAAATT
1 TAATCATATAAATATATAAAACTCAAATATTTTACAATAAATGTTAAGTCTTTTCTACATAAATT
*
4238593 CTAAACTTATATCTCT
66 CTAAACTTATATCTCC
*
4238609 TAATTATAT
1 TAATCATAT
4238618 TACATAAAAC
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 41 0.53
81 37 0.47
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (81 bp):
TAATCATATAAATATATAAAACTCAAATATTTTACAATAAATGTTAAGTCTTTTCTACATAAATT
CTAAACTTATATCTCC
Found at i:4238657 original size:2 final size:2
Alignment explanation
Indices: 4238650--4238677 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4238640 TGGTTGCCTA
4238650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4238678 TTAAAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4239255 original size:18 final size:18
Alignment explanation
Indices: 4239232--4239269 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
4239222 AGTAAATAAA
4239232 TTCATTTTTGTT-TTTATT
1 TTCATTTTT-TTATTTATT
4239250 TTCATTTTTTTATTTATT
1 TTCATTTTTTTATTTATT
4239268 TT
1 TT
4239270 ATAGTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (18 bp):
TTCATTTTTTTATTTATT
Found at i:4239915 original size:24 final size:24
Alignment explanation
Indices: 4239883--4239935 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
4239873 ATGTAATCTC
* *
4239883 TTTAACTTTTTA-ATTTTATTTACT
1 TTTAACTTTTAAGAATTT-TTTACT
*
4239907 TTTATCTTTTAAGAATTTTTTACT
1 TTTAACTTTTAAGAATTTTTTACT
4239931 TTTAA
1 TTTAA
4239936 AGTTAAAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTAACTTTTAAGAATTTTTTACT
Found at i:4241517 original size:30 final size:30
Alignment explanation
Indices: 4241445--4241518 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
4241435 GTTTGAGGGA
* **
4241445 TTATTTGAATACAAATTAAAGGTTAAGAGT
1 TTATTTGAATGCAAATTAAAAATTAAGAGT
*
4241475 TTATTTGGATGCAAATTAAAAATTAAGAGT
1 TTATTTGAATGCAAATTAAAAATTAAGAGT
4241505 TTATTTGAATGCAA
1 TTATTTGAATGCAA
4241519 CAAGAGTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (30 bp):
TTATTTGAATGCAAATTAAAAATTAAGAGT
Found at i:4249554 original size:16 final size:17
Alignment explanation
Indices: 4249522--4249556 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4249512 AAAGATAATG
4249522 AAAAATAAAATTGTTAA
1 AAAAATAAAATTGTTAA
*
4249539 AAAAATAAGATT-TTAA
1 AAAAATAAAATTGTTAA
4249555 AA
1 AA
4249557 TTTTAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAAATAAAATTGTTAA
Found at i:4253636 original size:6 final size:6
Alignment explanation
Indices: 4253625--4253649 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4253615 AAAATTAATT
4253625 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
4253650 GTTTTAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:4254592 original size:2 final size:2
Alignment explanation
Indices: 4254585--4254618 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4254575 GTTTTATAGG
4254585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4254619 GCCTTGCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4254777 original size:59 final size:59
Alignment explanation
Indices: 4254713--4254836 Score: 149
Period size: 59 Copynumber: 2.1 Consensus size: 59
4254703 CTAAAGAATT
* * *
4254713 AATTTTTTTAAAAAATAAAAATTTTAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTTTAAAAAATAAAAATTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
** ** * * **
4254772 AATTTTTTTTTATGATCAAATTTTTTTAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
1 AATTTTTTTAAAAAATAAAAATTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
4254831 AATTTT
1 AATTTT
4254837 CCTTGAAGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (59 bp):
AATTTTTTTAAAAAATAAAAATTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
Found at i:4254862 original size:59 final size:58
Alignment explanation
Indices: 4254731--4254868 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 58
4254721 TAAAAAATAA
* * * ** * *
4254731 AAATTTTAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTTTATGATC
1 AAATTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAGATC
**
4254789 AAATTTTTTTAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAGATC
1 AAA-TTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAGATC
*
4254848 AAATTTCAAGAAAAAATACTT
1 AAATTTTAA-AAAAAATACTT
4254869 CAAGCAAATT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 6 0.09
59 60 0.91
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (58 bp):
AAATTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAGATC
Found at i:4258993 original size:25 final size:25
Alignment explanation
Indices: 4258965--4259017 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
4258955 GAAAGAAAAA
*
4258965 AAAGAAAAAAAAAAAAGAGAAAATG
1 AAAGAAAAAAAAAAAAGAAAAAATG
* * *
4258990 AAAGAATAAGAAAAATGAAAAAATG
1 AAAGAAAAAAAAAAAAGAAAAAATG
4259015 AAA
1 AAA
4259018 ATGGAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAGAAAAAAAAAAAAGAAAAAATG
Found at i:4260246 original size:34 final size:34
Alignment explanation
Indices: 4260208--4260421 Score: 128
Period size: 34 Copynumber: 6.2 Consensus size: 34
4260198 GAAGTTTCTC
* *
4260208 CAATTTTTACGAATCTGAATGCCTTGTGAATCTT
1 CAATTTTTACGAATCTGAAAGCCTTGCGAATCTT
* * * * *
4260242 CAATTTTTGCTAATCTGAAAACTTTGTGAAT-TT
1 CAATTTTTACGAATCTGAAAGCCTTGCGAATCTT
* * * ** *
4260275 CCAATTCTTGCGAATCTAAAAGTTTTTGCGAATATT
1 -CAATTTTTACGAATCTGAAAG-CCTTGCGAATCTT
* *
4260311 C-ATTTCTTACGAATCAGAAAGCCTTGCGAATCTC
1 CAATTT-TTACGAATCTGAAAGCCTTGCGAATCTT
* * ** **
4260345 CAATTCTTACAAATCTGAAAGTTTTTATGAATC-T
1 CAATTTTTACGAATCTGAAAG-CCTTGCGAATCTT
* * * * *
4260379 CTAATTATTGCAAATCTGAAAGTCTTGCAAATCTT
1 C-AATTTTTACGAATCTGAAAGCCTTGCGAATCTT
4260414 CAATTTTT
1 CAATTTTT
4260422 GTGAATCTCC
Statistics
Matches: 138, Mismatches: 34, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
33 2 0.01
34 83 0.60
35 51 0.37
36 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (34 bp):
CAATTTTTACGAATCTGAAAGCCTTGCGAATCTT
Found at i:4260400 original size:69 final size:69
Alignment explanation
Indices: 4260234--4260418 Score: 174
Period size: 69 Copynumber: 2.7 Consensus size: 69
4260224 GAATGCCTTG
* * * * * * * *
4260234 TGAATCTTCAATTTTTGCTAATCTGAAAACTTTGTGAATTTCCAATTCTTGCGAATCTAAAAGTT
1 TGAATCTTCAATTATTGCAAATCTGAAAGCCTTGCGAATCTCCAATTCTTACAAATCTAAAAGTT
*
4260299 TTTG
66 TTTA
* * * * * * * *
4260303 CGAATATTCATTTCTTACGAATCAGAAAGCCTTGCGAATCTCCAATTCTTACAAATCTGAAAGTT
1 TGAATCTTCAATTATTGCAAATCTGAAAGCCTTGCGAATCTCCAATTCTTACAAATCTAAAAGTT
4260368 TTTA
66 TTTA
* * *
4260372 TGAATC-TCTAATTATTGCAAATCTGAAAGTCTTGCAAATCTTCAATT
1 TGAATCTTC-AATTATTGCAAATCTGAAAGCCTTGCGAATCTCCAATT
4260419 TTTGTGAATC
Statistics
Matches: 90, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
68 2 0.02
69 88 0.98
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (69 bp):
TGAATCTTCAATTATTGCAAATCTGAAAGCCTTGCGAATCTCCAATTCTTACAAATCTAAAAGTT
TTTA
Found at i:4260428 original size:17 final size:17
Alignment explanation
Indices: 4260408--4260446 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4260398 AAGTCTTGCA
* *
4260408 AATCTTCAATTTTTGTG
1 AATCTCCAATTCTTGTG
4260425 AATCTCCAATTCTTGTG
1 AATCTCCAATTCTTGTG
4260442 AATCT
1 AATCT
4260447 GAAATTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (17 bp):
AATCTCCAATTCTTGTG
Found at i:4260452 original size:17 final size:17
Alignment explanation
Indices: 4260391--4260452 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
4260381 AATTATTGCA
* **
4260391 AATCTGAAAGTCTTGCA
1 AATCTGAAATTCTTGTG
** *
4260408 AATCTTCAATTTTTGTG
1 AATCTGAAATTCTTGTG
**
4260425 AATCTCCAATTCTTGTG
1 AATCTGAAATTCTTGTG
4260442 AATCTGAAATT
1 AATCTGAAATT
4260453 GTTACAAATT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (17 bp):
AATCTGAAATTCTTGTG
Found at i:4260461 original size:51 final size:52
Alignment explanation
Indices: 4260346--4260461 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
4260336 GCGAATCTCC
*
4260346 AATTCTTACAAATCTGAAAGTTTTTATGAATCTCTAATTATTGCAAATCTGA
1 AATTCTTACAAATCTGAAAGTTTTTATGAATCTCCAATTATTGCAAATCTGA
* * ** * * **
4260398 AAGTCTTGCAAATCTTCAA-TTTTTGTGAATCTCCAATTCTTGTGAATCTGA
1 AATTCTTACAAATCTGAAAGTTTTTATGAATCTCCAATTATTGCAAATCTGA
*
4260449 AATTGTTACAAAT
1 AATTCTTACAAAT
4260462 TTTTGAATCC
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
51 37 0.71
52 15 0.29
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (52 bp):
AATTCTTACAAATCTGAAAGTTTTTATGAATCTCCAATTATTGCAAATCTGA
Found at i:4260771 original size:80 final size:81
Alignment explanation
Indices: 4260682--4260882 Score: 208
Period size: 85 Copynumber: 2.4 Consensus size: 81
4260672 TGTTGTAAAG
* * *
4260682 TCAGACTTCGGTTC-CAAGTCATTTTGTTTTTATTTCAACTTATGCCATAT-CCTCCTTCGGTTC
1 TCAGACTTCGGTTCTCAAGTCATTTTGTTTTTATTTCAACCTATGCCAAATCCCT-ATTCGGTTC
*
4260745 AGTCCAAGTTAATTATT
65 AATCCAAGTTAATTATT
* * * *** *
4260762 TCAGACTTCGATTCTATCTAGGTCATTTTGTTTTGGATTTTGGCCTATGCCAAATCCCTATTTGG
1 TCAGACTTCGGTTC--TC-AAGTCATTTTGTTTT-TATTTCAACCTATGCCAAATCCCTATTCGG
*
4260827 TTCAATCCAAGTTACTTATT
62 TTCAATCCAAGTTAATTATT
4260847 TCAGACTTCGGTTCCATTCAAGTCATTTTGTTTTTA
1 TCAGACTTCGGTT-C--TCAAGTCATTTTGTTTTTA
4260883 GATTTTAACT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
80 13 0.13
83 1 0.01
84 15 0.15
85 62 0.64
86 6 0.06
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (81 bp):
TCAGACTTCGGTTCTCAAGTCATTTTGTTTTTATTTCAACCTATGCCAAATCCCTATTCGGTTCA
ATCCAAGTTAATTATT
Found at i:4260935 original size:86 final size:85
Alignment explanation
Indices: 4260745--4261389 Score: 468
Period size: 86 Copynumber: 7.7 Consensus size: 85
4260735 CCTTCGGTTC
* * * * * * *
4260745 AGTCCAAGTTAATT-ATTTCAGACTTCGATTCTATCTAGGTCATTTT-GTTTTGGATTTTGGCCT
1 AGTCTAAGTT-ATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTT
* * * *
4260808 ATGCCAAATC-CCTATTTGGTT
65 ATGCCAGATCTTCT-TTAGCTT
* * * * * * * *
4260829 CAATCCAAGTTACTT-ATTTCAGACTTCGGTTCCATTCAAGTCATTTTGTTTTTAGATTTTAACT
1 -AGTCTAAGTTA-TTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACT
* * * * *
4260893 TTTGTCAAATCTTTTTTTGGCTT
64 TATGCCAGATC-TTCTTTAGCTT
* * * * *
4260916 AGTCTAAGTTATTCGTTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTA
1 AGTCTAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTTA
4260981 TGCCAGATCTT-TTTCAG-TT
66 TGCCAGATCTTCTTT-AGCTT
* * * * * * *
4261000 CAGTCCAAGTTATTCA-TTCAAACTTTGGTTTAATCCAGGTCATTCTATTTTTAGATTTTGACCT
1 -AGTCTAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTT
*
4261064 ATGCCAGATCCTTCTTTGGCTT
65 ATGCCAGAT-CTTCTTTAGCTT
* * * * *
4261086 AGTCCAAGTTATTCATTTCAGACTTTGGTTCAATCCAAGTCATTCTATTTTTGGATTTTAACTTA
1 AGTCTAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTTA
*
4261151 TGCCAGATCCTTCTTTAGCTC
66 TGCCAGAT-CTTCTTTAGCTT
* * * * * *
4261172 AGTCTAAGTTATTCATTTCAGGCTTCGATTCAGTCCAGGT-ATTTCAATTTTGGATTTTGACTTT
1 AGTCTAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTTA
* *
4261236 TGTCA-A--ATCTTT--CTT
66 TGCCAGATCTTCTTTAGCTT
* * * ** * *
4261251 AGTCTAAGTTATTCGTTTTAGACTTCGATTCAATCCA-GTGGTTTTA------GATTTTGGCATA
1 AGTCTAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTTA
4261309 TGCCAGATCCTTCTTTAGCTT
66 TGCCAGAT-CTTCTTTAGCTT
* * * * * *
4261330 AGTTTAAGTCA-TCTGTTTCAGACTTCGATTCAATCTAGGTCATTCTATTTTTGGATTTTG
1 AGTCTAAGTTATTC-ATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTG
4261390 GCTTCGGCTT
Statistics
Matches: 453, Mismatches: 81, Indels: 51
0.77 0.14 0.09
Matches are distributed among these distances:
73 13 0.03
74 1 0.00
77 5 0.01
78 4 0.01
79 72 0.16
80 6 0.01
81 5 0.01
84 58 0.13
85 98 0.22
86 185 0.41
87 5 0.01
88 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (85 bp):
AGTCTAAGTTATTCATTTCAGACTTCGGTTCAATCCAGGTCATTTTATTTTTGGATTTTGACTTA
TGCCAGATCTTCTTTAGCTT
Found at i:4261107 original size:170 final size:170
Alignment explanation
Indices: 4260694--4261188 Score: 518
Period size: 170 Copynumber: 2.9 Consensus size: 170
4260684 AGACTTCGGT
* * * * * * *
4260694 TCCAAGTCATTTTGTTTTT--ATTTCAACTTATGCCATATCCTCCTTCGG-TTCAGTCCAAGTTA
1 TCCAAGTCATTCTATTTTTAGATTTTAACCTATGCCAAATCCTTCTTTGGCTT-AGTCCAAGTT-
* * * * *
4260756 ATT-ATTTCAGACTTCGATTCTATCTAGGTCATTTTG-TTTTGGATTTTGGCCTATGCCAAATCC
64 ATTCATTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTATGCCAGAT-C
* * * * *
4260819 CTATTTGGTTCAATCCAAGTTACTT-ATTTCAGACTTCGGTTCCA
128 CTTTTTAGTTCAGTCCAAGTTA-TTCA-TTCAAACTTCGGTTCAA
* * * * * * * * *
4260863 TTCAAGTCATTTTGTTTTTAGATTTTAACTTTTGTCAAATCTTTTTTTGGCTTAGTCTAAGTTAT
1 TCCAAGTCATTCTATTTTTAGATTTTAACCTATGCCAAATCCTTCTTTGGCTTAGTCCAAGTTAT
*
4260928 TCGTTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTATGCCAGAT-CTT
66 TCATTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTATGCCAGATCCTT
* *
4260992 TTTCAGTTCAGTCCAAGTTATTCATTCAAACTTTGGTTTAA
131 TTT-AGTTCAGTCCAAGTTATTCATTCAAACTTCGGTTCAA
* * *
4261033 TCCAGGTCATTCTATTTTTAGATTTTGACCTATGCCAGATCCTTCTTTGGCTTAGTCCAAGTTAT
1 TCCAAGTCATTCTATTTTTAGATTTTAACCTATGCCAAATCCTTCTTTGGCTTAGTCCAAGTTAT
* * * ** *
4261098 TCATTTCAGACTTTGGTTCAATCCAAGTCATTCTATTTTTGGATTTTAACTTATGCCAGATCCTT
66 TCATTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTATGCCAGATCCTT
* *
4261163 CTTTAGCTCAGTCTAAGTTATTCATT
131 -TTTAGTTCAGTCCAAGTTATTCATT
4261189 TCAGGCTTCG
Statistics
Matches: 273, Mismatches: 44, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
169 18 0.07
170 130 0.48
171 96 0.35
172 29 0.11
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (170 bp):
TCCAAGTCATTCTATTTTTAGATTTTAACCTATGCCAAATCCTTCTTTGGCTTAGTCCAAGTTAT
TCATTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTATGCCAGATCCTT
TTTAGTTCAGTCCAAGTTATTCATTCAAACTTCGGTTCAA
Found at i:4261211 original size:256 final size:255
Alignment explanation
Indices: 4260741--4261230 Score: 596
Period size: 256 Copynumber: 1.9 Consensus size: 255
4260731 TCCTCCTTCG
* * * *
4260741 GTTCAGTCCAAGTTAATTATTTCAGACTTCGATTCTATCTAGGTCATTTTGTTTTGGATTTTGGC
1 GTTCAGTCCAAGTTAATTATTTCAAACTTCGATTCTATCCAGGTCATTTTGTTTTAGATTTTGAC
* *
4260806 CTATGCCAAATCCCTATTTGGTTCAATCCAAGTTACTTATTTCAGACTTCGGTTCCATTCAAGTC
66 CTATGCCAAATCCCTATTTGGTTCAATCCAAGTTACTTATTTCAGACTTCGGTTCAATCCAAGTC
* * * * * * * * *
4260871 ATTTTGTTTTTAGATTTTAACTTTTGTCAAATCTTTTTTTGGCTTAGTCTAAGTTATTCGTTTCA
131 ATTCTATTTTTAGATTTTAACTTATGCCAAATCCTTCTTTAGCTCAGTCTAAGTTATTCATTTCA
* * ***
4260936 GACTTTGGTTCAATCCAGGTCATTTTGTTTTTGGATTTTGGCCTATGCCAGATCTTTTTCA
196 GACTTCGATTCAATCCAGGT-ATTTCAATTTTGGATTTTGGCCTATGCCAGATCTTTTTCA
* *
4260997 GTTCAGTCCAAGTT-ATTCA-TTCAAACTTTGGTT-TAATCCAGGTCATTCTAT-TTTTAGATTT
1 GTTCAGTCCAAGTTAATT-ATTTCAAACTTCGATTCT-ATCCAGGTCATT-T-TGTTTTAGATTT
* * * * *
4261058 TGACCTATGCCAGATCCTTCTTTGGCTT-AGTCCAAGTTA-TTCATTTCAGACTTTGGTTCAATC
62 TGACCTATGCCAAATCCCTATTTGG-TTCAATCCAAGTTACTT-ATTTCAGACTTCGGTTCAATC
* *
4261121 CAAGTCATTCTATTTTTGGATTTTAACTTATGCCAGATCCTTCTTTAGCTCAGTCTAAGTTATTC
125 CAAGTCATTCTATTTTTAGATTTTAACTTATGCCAAATCCTTCTTTAGCTCAGTCTAAGTTATTC
* *
4261186 ATTTCAGGCTTCGATTCAGTCCAGGTATTTCAATTTTGGATTTTG
190 ATTTCAGACTTCGATTCAATCCAGGTATTTCAATTTTGGATTTTG
4261231 ACTTTTGTCA
Statistics
Matches: 197, Mismatches: 31, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
254 1 0.01
255 43 0.22
256 150 0.76
257 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (255 bp):
GTTCAGTCCAAGTTAATTATTTCAAACTTCGATTCTATCCAGGTCATTTTGTTTTAGATTTTGAC
CTATGCCAAATCCCTATTTGGTTCAATCCAAGTTACTTATTTCAGACTTCGGTTCAATCCAAGTC
ATTCTATTTTTAGATTTTAACTTATGCCAAATCCTTCTTTAGCTCAGTCTAAGTTATTCATTTCA
GACTTCGATTCAATCCAGGTATTTCAATTTTGGATTTTGGCCTATGCCAGATCTTTTTCA
Found at i:4261442 original size:70 final size:70
Alignment explanation
Indices: 4261326--4261461 Score: 186
Period size: 70 Copynumber: 1.9 Consensus size: 70
4261316 TCCTTCTTTA
* * * * *
4261326 GCTTAGTTTAAGTCATCTGTTTCAGACTTCGATTCAATCTAGGTCATTCTATTTTTGGATTTTGG
1 GCTTAGTTCAAGTCATCTATTTCAAACTTCGATTCAATCCAAGTCATTCTATTTTTGGATTTTGG
4261391 CTTCG
66 CTTCG
*
4261396 GCTTAGTTCAAGTCAT-TCATTTCAAACTTC-AGTTCAATCCAAGTCATTTTATTTTTGGATTTT
1 GCTTAGTTCAAGTCATCT-ATTTCAAACTTCGA-TTCAATCCAAGTCATTCTATTTTTGGATTTT
4261459 GGC
64 GGC
4261462 ATATACTAGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 2 0.03
70 56 0.97
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (70 bp):
GCTTAGTTCAAGTCATCTATTTCAAACTTCGATTCAATCCAAGTCATTCTATTTTTGGATTTTGG
CTTCG
Found at i:4261543 original size:86 final size:85
Alignment explanation
Indices: 4261391--4261653 Score: 296
Period size: 86 Copynumber: 3.1 Consensus size: 85
4261381 TGGATTTTGG
* * * * * *
4261391 CTTCGGCTTAGTTCAAGTCATTCATTTCAAACTTCAGTTCAATCCAAGTCATTTTATTTTTGGAT
1 CTTCGACTTAGTCCAAGTCATTCGTTTCAAACTTCAGTTCAATCTAAGTCATTCT-GTTTTGGAT
*
4261456 TTTGGCATATACTAGATCCTT
65 TTTGGCATATGCTAGATCCTT
* * *
4261477 CTTCGACTTAGTCCAAGTCATTCGTTTCAGACTTC-GATTCAATCTAGGTCATTCTGTTTTCAGA
1 CTTCGACTTAGTCCAAGTCATTCGTTTCAAACTTCAG-TTCAATCTAAGTCATTCTGTTTT-GGA
*
4261541 TTTCGGCATATGCTAGATCCTT
64 TTTTGGCATATGCTAGATCCTT
* * * * * * *
4261563 CTT-TAGCTTAGTCTAGGTTATTCGTTTCAAACTTCAGTTCAGTCTAAGTAATTGTGTTTTGGAT
1 CTTCGA-CTTAGTCCAAGTCATTCGTTTCAAACTTCAGTTCAATCTAAGTCATTCTGTTTTGGAT
*
4261627 TTTGGCTTATGCTAGATCCTT
65 TTTGGCATATGCTAGATCCTT
*
4261648 TTTCGA
1 CTTCGA
4261654 GTCATTATAT
Statistics
Matches: 147, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
85 30 0.20
86 116 0.79
87 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (85 bp):
CTTCGACTTAGTCCAAGTCATTCGTTTCAAACTTCAGTTCAATCTAAGTCATTCTGTTTTGGATT
TTGGCATATGCTAGATCCTT
Found at i:4263172 original size:59 final size:60
Alignment explanation
Indices: 4263076--4263231 Score: 203
Period size: 59 Copynumber: 2.6 Consensus size: 60
4263066 CTAAAGAATT
* * * * *
4263076 AATTTTTCTTAAAAAT-AAAATTTTCAAAAAAAATACTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAAATCAAATTTTTCAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
* * *
4263135 AATTTT-CTTGGAGATCAAATTTTTTAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAAATCAAATTTTTCAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
4263194 AATTTTCCTTGAAAATCAAA--TTTCAAGAAAAAATACTT
1 AATTTTCCTTGAAAATCAAATTTTTCAA-AAAAAATACTT
4263232 CAAGCAAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 11 0.13
59 62 0.74
60 11 0.13
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (60 bp):
AATTTTCCTTGAAAATCAAATTTTTCAAAAAAAATACTTTAAGAAAAAGTTGAAAGTATC
Found at i:4265111 original size:20 final size:21
Alignment explanation
Indices: 4265076--4265115 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4265066 AAATAGAAAC
*
4265076 ATTATCTTATAAATTAAAATT
1 ATTATCTTAAAAATTAAAATT
4265097 ATTAT-TTAAAAATTAAAAT
1 ATTATCTTAAAAATTAAAAT
4265116 ATAATGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTATCTTAAAAATTAAAATT
Found at i:4267077 original size:21 final size:20
Alignment explanation
Indices: 4267040--4267078 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4267030 TTACATCAAA
* *
4267040 ATTTTTATTTTTATATAAAG
1 ATTTTTAATTATATATAAAG
4267060 ATTTTTAATTATATTATAA
1 ATTTTTAATTATA-TATAA
4267079 TTAATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTAATTATATATAAAG
Found at i:4267187 original size:2 final size:2
Alignment explanation
Indices: 4267180--4267219 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4267170 AGACTAGTTT
4267180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4267220 AAGGAAAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4268662 original size:11 final size:11
Alignment explanation
Indices: 4268633--4268678 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
4268623 TTTTATATCT
*
4268633 AAATT-TATTT
1 AAATTATATTA
4268643 AAA-TATATTA
1 AAATTATATTA
4268653 AAATTATATTA
1 AAATTATATTA
*
4268664 AAATAATATATA
1 AAATTATAT-TA
4268676 AAA
1 AAA
4268679 ATAATGAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 1 0.03
10 10 0.32
11 15 0.48
12 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAATTATATTA
Found at i:4268673 original size:13 final size:13
Alignment explanation
Indices: 4268644--4268683 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
4268634 AATTTATTTA
4268644 AATATATTAAAAT
1 AATATATTAAAAT
4268657 --TATATTAAAAT
1 AATATATTAAAAT
*
4268668 AATATATAAAAAT
1 AATATATTAAAAT
4268681 AAT
1 AAT
4268684 GAACCAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 11 0.46
13 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:4269239 original size:25 final size:24
Alignment explanation
Indices: 4269205--4269252 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4269195 ATAAATAAAC
*
4269205 ATAAAATAATATAA-ATGTATATAA
1 ATAAAATAAT-TAACATGAATATAA
4269229 ATAAACATAATTAACATGAATATA
1 ATAAA-ATAATTAACATGAATATA
4269253 TATGAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAAAATAATTAACATGAATATAA
Found at i:4270350 original size:25 final size:24
Alignment explanation
Indices: 4270309--4270359 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
4270299 AAACATTTTC
*
4270309 ATAACTAACTAATTAATTAAAATAA
1 ATAACTAACTAAATAA-TAAAATAA
*
4270334 ATAACTATA-TAAATAATAAAGTAA
1 ATAACTA-ACTAAATAATAAAATAA
4270358 AT
1 AT
4270360 CAACAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 13 0.57
26 1 0.04
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (24 bp):
ATAACTAACTAAATAATAAAATAA
Found at i:4270434 original size:23 final size:24
Alignment explanation
Indices: 4270387--4270470 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
4270377 AATTTAATTT
* *
4270387 AAATAATTCATAATTATAATTTAA
1 AAATAATTAATAATTATAATATAA
*
4270411 AAATAATTAAT-ATTTTAATATAA
1 AAATAATTAATAATTATAATATAA
* * * *
4270434 AAATAATCATATAAATA-AATACAT
1 AAATAATTA-ATAATTATAATATAA
4270458 AAATAATTAATAA
1 AAATAATTAATAA
4270471 ATAATTGATT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 22 0.45
24 25 0.51
25 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATAATTAATAATTATAATATAA
Found at i:4270436 original size:24 final size:23
Alignment explanation
Indices: 4270387--4270470 Score: 66
Period size: 23 Copynumber: 3.6 Consensus size: 23
4270377 AATTTAATTT
*
4270387 AAATAATTCATAATTATAATTTAA
1 AAATAATTAATAATTATAA-TTAA
*
4270411 AAATAATTAAT-ATTTTAATATAA
1 AAATAATTAATAATTATAAT-TAA
* *
4270434 AAATAATCATATAA--ATAAATACA
1 AAATAATTA-ATAATTATAATTA-A
4270457 TAAATAATTAATAA
1 -AAATAATTAATAA
4270471 ATAATTGATT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
22 3 0.06
23 25 0.51
24 20 0.41
25 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAATTAATAATTATAATTAA
Found at i:4270472 original size:11 final size:11
Alignment explanation
Indices: 4270386--4270476 Score: 60
Period size: 11 Copynumber: 7.8 Consensus size: 11
4270376 TAATTTAATT
*
4270386 TAAATAATTCA
1 TAAATAATTAA
4270397 TAATTATAATTTAA
1 TAA--ATAA-TTAA
4270411 -AAATAATTAA
1 TAAATAATTAA
**
4270421 TATTTTAATATAA
1 TA-AATAAT-TAA
*
4270434 -AAATAATCATA
1 TAAATAATTA-A
*
4270445 TAAATAAATACA
1 TAAATAATTA-A
4270457 TAAATAATTAA
1 TAAATAATTAA
4270468 TAAATAATT
1 TAAATAATT
4270477 GATTAAACAA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
10 5 0.08
11 23 0.37
12 22 0.35
13 9 0.15
14 3 0.05
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATAATTAA
Found at i:4274900 original size:16 final size:16
Alignment explanation
Indices: 4274879--4274909 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4274869 GTATTTACAA
4274879 AAATTAATAAATAAAT
1 AAATTAATAAATAAAT
*
4274895 AAATTATTAAATAAA
1 AAATTAATAAATAAA
4274910 CATCTATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTAATAAATAAAT
Found at i:4275003 original size:13 final size:13
Alignment explanation
Indices: 4274985--4275012 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4274975 ATAATTCATT
4274985 AATTTTTATCTAC
1 AATTTTTATCTAC
4274998 AATTTTTATCTAC
1 AATTTTTATCTAC
4275011 AA
1 AA
4275013 ATGGATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTTTATCTAC
Found at i:4282673 original size:933 final size:942
Alignment explanation
Indices: 4281320--4283198 Score: 2569
Period size: 969 Copynumber: 2.0 Consensus size: 942
4281310 TATTCCTCCT
* * * *
4281320 ATTTTCAAATCTTTTATCTACTAACACTGTTTTATTGGTATATCATTACCAACTTTGAATAAAGT
1 ATTTTCAAATCTTTTATCTACTAACACTGTATTATTGGTATATCATTACCAACCTTAAATAAAGC
4281385 TTTTATAGTTATCATAATTATTCCTAAATGTATATATCTAACTTCAGGATAATTTTATTTAATTC
66 TTTTATAGTTATCATAATTATTCCTAAATGTATATATCTAACTTCAGGATAATTTTATTTAATTC
* *
4281450 TCCTAATTTTGTCTTTAATGAATAAAGAATATCTATAGATCCTTGATTAGAATCAATAACTATGG
131 TCCTAATTTTGTCTTTAATGAATAAAGAATATCTATAGATCCTTGATTAGAATCAACAACTATAG
* * *
4281515 TATTTTCGCTAATTTTTCTGTATGTCTTTGTGTCCATGGTTTGAATTTTGAAACAAACAGTATAT
196 TATTTTCGCTAATTTTTCTATATGTCTCTGTGTCCATGGTTTAAATTTTGAAACAAACAGTATAT
* *
4281580 AATCTCATCTTTCTTTAATGATTGTAGTTTTTCTAATAGTTTATATGAAATAGTAACATATTGTC
261 AATCTCATCTTTCTTTAATGATTATAGTTTTTCTAACAGTTTATATGAAATAGTAACATATTGTC
* * *
4281645 CAAGACATCACTTAATTTAGTCATCTAATGTTTTTCAGCAGGTATATTTTTAGTTTCAAAACTAA
326 CAAGACATCACTTAATTTAGTCATCTAATGTTTTTCAGCAAGTATATCTTTAATTTCAAAACTAA
* * *
4281710 GTTGATTATTAATTTTTGATATAGAATTATTGAGCATGCAAACATA-C-TC-CATCTGAATCAGA
391 GTTGATTATTAATTTTTGATATAAAATTATTGAGCATCCAAACATACCATCACATCTAAATCAGA
* * * * * *
4281772 ATCTATTTTAGAATTTAATTTACAAATGATTTCTTATTTAAAAACTTCTTATCAAAAATAAATTT
456 ATATATTTCAGAAATTAATTCACAAATAATTTCTTATTCAAAAACTTCTTATCAAAAATAAATTT
* *
4281837 CTAAATCTCATTCTTTAAGAGTTTTAATAACCTTTTTAGCA-TTTTT-TTCCT-TT-ATT-AGG-
521 CTAAATCTCATTCTTCAAAAGTTTTAATAACCTTTTTAGCACTTTTTCTT-CTATTAATTAAGGT
* * ** *
4281896 AC-ATAGAA-CAT-T-TACATTTAGATTT-TTTTTTTTTAGAAGTTTTTCTTCTAACAAA-TT-T
585 ACTATAGAATCATATAAACATTTACATTTAGATTTTTTTAGAAGATTTTCTTCTAACAAATTTCT
* * *
4281954 TTTTGTCAAATTTATGCTTTTTTTGCTTCCATTTGGCCAATTTATATCTTCTTTTCATTTTGTAT
650 TTTTGTCAAATTTATGCTTTTTTGGCTTCCATTTGACCAACTTATATCTTCTTTTCATTTTGTAT
* *
4282019 TTCTTTGAATAAGTTTTAGATTGAGATAT-ACATCCAAATTTCCATTCATTTTCTAATATTTTTA
715 TTCTTTGAATAAGTATTAGATTGAGAT-TCACATCCAAATTCCCATTCATTTTCTAATATTTTTA
* * * * * *
4282083 TGCACTATTATTAGTTAATTTACTTTTAACTTGCTTAGCTGCCTTTGTTTC-AAGGCAATGTTCT
779 TGCACTATTATTAGTTAATCTACTTTTAACTTGATCAACTACCTTTGTTTCAAAAGCAATGTTCT
** * * *
4282147 ATAATTTGTTTAGAAGTAAAATAAATTCTATTTTCTATAGAATTTAAATAATCTTTATTTTCTAT
844 ATAATTTGTTTAGAAACAAAATAAATTATATTTTCTATAGAATCTAAAAAATCTTTATTTTCTAT
4282212 TGTAGGATTGTGAACTATAATTGGTTTTACTAGG
909 TGTAGGATTGTGAACTATAATTGGTTTTACTAGG
4282246 ATTTTCAAATCTTTTATCTACTAACACTGCTATTATTGGTATATCATTACCAACCTTAAATAAAG
1 ATTTTCAAATCTTTTATCTACTAACACTG-TATTATTGGTATATCATTACCAACCTTAAATAAAG
* *
4282311 CTTTTATAGTTATCATAATTATTCCTAAATGTATATATCTAACTTTAGGATATTTTTATTTAATT
65 CTTTTATAGTTATCATAATTATTCCTAAATGTATATATCTAACTTCAGGATAATTTTATTTAATT
* *
4282376 CTCCTAATTTTTTCTTTCAA-GAATAAAGGAATATCTATAGATCCTTGATTAGAATCAACAGCTA
130 CTCCTAATTTTGTCTTT-AATGAATAAA-GAATATCTATAGATCCTTGATTAGAATCAACAACTA
* * *
4282440 TAGTATTTTTGCTAAATTTTTCTATTTGTCTCTGTGTCCATGGTTTAAATTTT-AAA-AAGACGG
193 TAGTATTTTCGCT-AATTTTTCTATATGTCTCTGTGTCCATGGTTTAAATTTTGAAACAA-ACAG
* * *
4282503 ATAATTTATGTATTTCATCTTTCTTTAATGATTATAGTTTTTCTAACAGTTTATCTGAAATAGTA
256 -T-A--TAT-AATCTCATCTTTCTTTAATGATTATAGTTTTTCTAACAGTTTATATGAAATAGTA
* * * *
4282568 ACATCTTGTCATAAGACATCACTTAATTTAGTCATTTGATG-TTTTCAGCAAGTATATCTTTAAT
316 ACATATTGTC-CAAGACATCACTTAATTTAGTCATCTAATGTTTTTCAGCAAGTATATCTTTAAT
* * *
4282632 TTTAGAACTAAGTTGATTATTAATTTTTGATATAAAATTATTGAGCATCCAAATATACTCATCAT
380 TTCAAAACTAAGTTGATTATTAATTTTTGATATAAAATTATTGAGCATCCAAACATAC-CATCA-
* * * * * *
4282697 CATCTAAATCTGAATATGTTTCAGAAATTAATTCATAAATAATTTCTTCTTCAGAAACTTCTTTT
443 CATCTAAATCAGAATATATTTCAGAAATTAATTCACAAATAATTTCTTATTCAAAAACTTCTTAT
* *
4282762 CCAAAATAAATTTCTAAATCTCATTCTTCAAAAGTTTTAATAACCTTTTTAGCACTTTTTCTTTT
508 CAAAAATAAATTTCTAAATCTCATTCTTCAAAAGTTTTAATAACCTTTTTAGCACTTTTTCTTCT
*
4282827 ATTAAGACATTAAGGTACTATATAACCTTCTTCATCACAAATGAAACATTTACATTTAGATTTTT
573 ATT---A-ATTAAGGTACTATAGAA------TCAT-----AT-AAACATTTACATTTAGATTTTT
4282892 TTAGAAGATTTTCTTCTAACAAATTTTTTCTTTTTGTCAAATTTATGCTTTTTTGGCTTCCATTT
622 TTAGAAGATTTTCTTCTAACAAA---TTTCTTTTTGTCAAATTTATGCTTTTTTGGCTTCCATTT
* * * *
4282957 GACCAGCTTATATCTTCTTTTCTTTTTGTATTTCTTTGAATAGGTATTAGATTGAGATTCATATC
684 GACCAACTTATATCTTCTTTTCATTTTGTATTTCTTTGAATAAGTATTAGATTGAGATTCACATC
* * *
4283022 CAAATTCCCATTCATTTTCTAATATTTTTGTGCATTGTTATTAGTTAATCTACTTTTAACTTGAT
749 CAAATTCCCATTCATTTTCTAATATTTTTATGCACTATTATTAGTTAATCTACTTTTAACTTGAT
*
4283087 CAACTACCTTTGTTTCAAAAGCAATGTTCTATAATTTGTTTAGAAACAAAATAAATTATATTTTT
814 CAACTACCTTTGTTTCAAAAGCAATGTTCTATAATTTGTTTAGAAACAAAATAAATTATATTTTC
*
4283152 TATAGAATCTAAAAAATCTTTATTTTCTGTTGTAGGATTGTGAACTA
879 TATAGAATCTAAAAAATCTTTATTTTCTATTGTAGGATTGTGAACTA
4283199 AATAAAGAAA
Statistics
Matches: 822, Mismatches: 81, Indels: 56
0.86 0.08 0.06
Matches are distributed among these distances:
926 29 0.04
927 119 0.14
928 53 0.06
929 36 0.04
930 1 0.00
932 3 0.00
933 131 0.16
934 27 0.03
935 1 0.00
936 2 0.00
938 103 0.13
939 6 0.01
940 4 0.00
945 3 0.00
946 3 0.00
947 2 0.00
948 5 0.01
955 3 0.00
961 1 0.00
963 11 0.01
964 27 0.03
968 3 0.00
969 162 0.20
970 87 0.11
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (942 bp):
ATTTTCAAATCTTTTATCTACTAACACTGTATTATTGGTATATCATTACCAACCTTAAATAAAGC
TTTTATAGTTATCATAATTATTCCTAAATGTATATATCTAACTTCAGGATAATTTTATTTAATTC
TCCTAATTTTGTCTTTAATGAATAAAGAATATCTATAGATCCTTGATTAGAATCAACAACTATAG
TATTTTCGCTAATTTTTCTATATGTCTCTGTGTCCATGGTTTAAATTTTGAAACAAACAGTATAT
AATCTCATCTTTCTTTAATGATTATAGTTTTTCTAACAGTTTATATGAAATAGTAACATATTGTC
CAAGACATCACTTAATTTAGTCATCTAATGTTTTTCAGCAAGTATATCTTTAATTTCAAAACTAA
GTTGATTATTAATTTTTGATATAAAATTATTGAGCATCCAAACATACCATCACATCTAAATCAGA
ATATATTTCAGAAATTAATTCACAAATAATTTCTTATTCAAAAACTTCTTATCAAAAATAAATTT
CTAAATCTCATTCTTCAAAAGTTTTAATAACCTTTTTAGCACTTTTTCTTCTATTAATTAAGGTA
CTATAGAATCATATAAACATTTACATTTAGATTTTTTTAGAAGATTTTCTTCTAACAAATTTCTT
TTTGTCAAATTTATGCTTTTTTGGCTTCCATTTGACCAACTTATATCTTCTTTTCATTTTGTATT
TCTTTGAATAAGTATTAGATTGAGATTCACATCCAAATTCCCATTCATTTTCTAATATTTTTATG
CACTATTATTAGTTAATCTACTTTTAACTTGATCAACTACCTTTGTTTCAAAAGCAATGTTCTAT
AATTTGTTTAGAAACAAAATAAATTATATTTTCTATAGAATCTAAAAAATCTTTATTTTCTATTG
TAGGATTGTGAACTATAATTGGTTTTACTAGG
Found at i:4284963 original size:26 final size:25
Alignment explanation
Indices: 4284934--4284982 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
4284924 ATATTGTCTT
*
4284934 TACCA-TAGATAAAGAATTTATAAAAA
1 TACCATTAG-TAAA-AAATTATAAAAA
4284960 TACCATTAGTAAAAAATTATAAA
1 TACCATTAGTAAAAAATTATAAA
4284983 TATATATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 9 0.43
27 3 0.14
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (25 bp):
TACCATTAGTAAAAAATTATAAAAA
Found at i:4289455 original size:30 final size:29
Alignment explanation
Indices: 4289419--4289500 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 29
4289409 TTTAATGGTA
* *
4289419 TAAATAATTTTTAAATTATAATAAAATATT
1 TAAATAATATTTAAATTATAA-AAAAAATT
* *
4289449 TAAATAATATTAAAATTTTAAAAAAAATT
1 TAAATAATATTTAAATTATAAAAAAAATT
*
4289478 TAATGTAATATTTAAATTATAAA
1 TAA-ATAATATTTAAATTATAAA
4289501 TTTATTAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 10 0.23
30 34 0.77
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (29 bp):
TAAATAATATTTAAATTATAAAAAAAATT
Found at i:4289470 original size:18 final size:18
Alignment explanation
Indices: 4289427--4289470 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
4289417 TATAAATAAT
*
4289427 TTTTAAATTATAATAAAA
1 TTTTAAATAATAATAAAA
*
4289445 TATTTAAATAATATTAAAA
1 T-TTTAAATAATAATAAAA
4289464 TTTTAAA
1 TTTTAAA
4289471 AAAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTTAAATAATAATAAAA
Found at i:4289480 original size:19 final size:19
Alignment explanation
Indices: 4289440--4289477 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4289430 TAAATTATAA
* *
4289440 TAAAATATTTAAATAATAT
1 TAAAATATTTAAAAAAAAT
4289459 TAAAAT-TTTAAAAAAAAT
1 TAAAATATTTAAAAAAAAT
4289477 T
1 T
4289478 TAATGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATATTTAAAAAAAAT
Found at i:4289528 original size:19 final size:18
Alignment explanation
Indices: 4289495--4289530 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4289485 ATATTTAAAT
*
4289495 TATAAATTTATTAATTAA
1 TATAAATTTAATAATTAA
4289513 TATAATATTTAATAATTA
1 TATAA-ATTTAATAATTA
4289531 TTTATCCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAAATTTAATAATTAA
Found at i:4289634 original size:29 final size:29
Alignment explanation
Indices: 4289575--4289644 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
4289565 TAATTAATAA
* * * *
4289575 ATTAATAATTTT-ATAATTTAAATATTAT
1 ATTAAAAATTTTAAAAATTCAAATATCAT
*
4289603 ATTAAAAATTTTAAAAATTCAAGTATCAT
1 ATTAAAAATTTTAAAAATTCAAATATCAT
*
4289632 ATTAAATATTTTA
1 ATTAAAAATTTTA
4289645 TTATATTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (29 bp):
ATTAAAAATTTTAAAAATTCAAATATCAT
Found at i:4291752 original size:18 final size:17
Alignment explanation
Indices: 4291729--4291763 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4291719 TAAAGTAGTT
4291729 TTATTTAACTAAATGATG
1 TTATTTAACTAAA-GATG
*
4291747 TTATTTAATTAAAGATG
1 TTATTTAACTAAAGATG
4291764 ACATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.46
Consensus pattern (17 bp):
TTATTTAACTAAAGATG
Found at i:4299037 original size:55 final size:56
Alignment explanation
Indices: 4298953--4299069 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
4298943 TTTAATAAGT
* * * *
4298953 TTTTATACATAAATTTTAATATTTAATTATGATTATAATTTATTTTATACTTATAA
1 TTTTATACATAAATTATAATATTTAATTATAATTATAACTTATCTTATACTTATAA
* * * * * *
4299009 TTTTATATATAAA-TATAATATTTTATTATAATTGTAACTTCTCTTGTATTTATAA
1 TTTTATACATAAATTATAATATTTAATTATAATTATAACTTATCTTATACTTATAA
4299064 TTTTAT
1 TTTTAT
4299070 TAAAAAAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 39 0.76
56 12 0.24
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (56 bp):
TTTTATACATAAATTATAATATTTAATTATAATTATAACTTATCTTATACTTATAA
Found at i:4299314 original size:29 final size:28
Alignment explanation
Indices: 4299272--4299327 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
4299262 AAAGAATAGA
*
4299272 CAAGTATACGTATTTATATTATTTTTTGT
1 CAAGAATACGTATTTATA-TATTTTTTGT
* *
4299301 CAAGAATATGTATTTGTATATTTTTTG
1 CAAGAATACGTATTTATATATTTTTTG
4299328 AGTTAATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (28 bp):
CAAGAATACGTATTTATATATTTTTTGT
Found at i:4299565 original size:28 final size:28
Alignment explanation
Indices: 4299506--4299564 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
4299496 AATTAATAAA
*
4299506 TTTATAATTTAATATTAAATTATAAATT
1 TTTAAAATTTAATATTAAATTATAAATT
*
4299534 TTTAAAATTTAAATATTATATTA-AATATT
1 TTTAAAATTT-AATATTAAATTATAA-ATT
4299563 TT
1 TT
4299565 ATTATAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTAAAATTTAATATTAAATTATAAATT
Found at i:4300927 original size:14 final size:16
Alignment explanation
Indices: 4300908--4300940 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4300898 TTAGTTTGAA
4300908 AATAT-AAA-AATTAT
1 AATATAAAATAATTAT
4300922 AATATAAAATAATTAT
1 AATATAAAATAATTAT
4300938 AAT
1 AAT
4300941 TAATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 3 0.18
16 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:4302094 original size:2 final size:2
Alignment explanation
Indices: 4302087--4302112 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4302077 GTTTAATGCA
4302087 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4302113 GAGCTCAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4302773 original size:22 final size:22
Alignment explanation
Indices: 4302748--4302798 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
4302738 TTTTTCACTC
4302748 TTCCACTCTTCCATGTCAAATT
1 TTCCACTCTTCCATGTCAAATT
*
4302770 TTCCTCTCTTCCATGTCAAATT
1 TTCCACTCTTCCATGTCAAATT
4302792 TTCCACT
1 TTCCACT
4302799 TTAAGCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.33, G:0.04, T:0.43
Consensus pattern (22 bp):
TTCCACTCTTCCATGTCAAATT
Found at i:4304357 original size:18 final size:18
Alignment explanation
Indices: 4304330--4304365 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4304320 TAACTCAATC
*
4304330 TCTTCTTCTTCATCATTT
1 TCTTCCTCTTCATCATTT
*
4304348 TCTTCCTCTTCATGATTT
1 TCTTCCTCTTCATCATTT
4304366 CTGTGAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.28, G:0.03, T:0.58
Consensus pattern (18 bp):
TCTTCCTCTTCATCATTT
Found at i:4305749 original size:30 final size:30
Alignment explanation
Indices: 4305715--4305773 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
4305705 CTTAAAAAAC
*
4305715 AATCAACAATTATCTAGTGAAATTATAAAT
1 AATCAACAATTATCTAGTAAAATTATAAAT
4305745 AATCAACAATTATCTAGTAAAATTATAAA
1 AATCAACAATTATCTAGTAAAATTATAAA
4305774 ATTAATCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (30 bp):
AATCAACAATTATCTAGTAAAATTATAAAT
Found at i:4306888 original size:21 final size:20
Alignment explanation
Indices: 4306813--4306892 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 20
4306803 TTAAAAATAT
4306813 TTTTAATTATAAAAAAATTAA
1 TTTTAATT-TAAAAAAATTAA
* *
4306834 TTATTACTTTATATAAAA-TAA
1 TT-TTAATTTA-AAAAAATTAA
* *
4306855 -TTAAATCTTAAAATAATTAA
1 TTTTAAT-TTAAAAAAATTAA
4306875 TTTTAATTTAAAAAAATT
1 TTTTAATTTAAAAAAATT
4306893 TATATTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
19 7 0.15
20 17 0.37
21 12 0.26
22 10 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAATTTAAAAAAATTAA
Found at i:4307811 original size:18 final size:19
Alignment explanation
Indices: 4307790--4307827 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4307780 ATTATATAAA
4307790 TAATTT-AAATTTAATATT
1 TAATTTCAAATTTAATATT
*
4307808 TAATTTCAAATTTATTATT
1 TAATTTCAAATTTAATATT
4307827 T
1 T
4307828 TTTATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATTTCAAATTTAATATT
Found at i:4308009 original size:15 final size:15
Alignment explanation
Indices: 4307980--4308008 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4307970 GTAAAGTATT
4307980 TTAAAATATTAAAAA
1 TTAAAATATTAAAAA
4307995 TTAAAA-ATTAAAAA
1 TTAAAATATTAAAAA
4308009 AATTCTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAATATTAAAAA
Found at i:4314782 original size:13 final size:13
Alignment explanation
Indices: 4314764--4314789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4314754 GCAGGGAGAG
4314764 AGAGGAAGAAGGA
1 AGAGGAAGAAGGA
4314777 AGAGGAAGAAGGA
1 AGAGGAAGAAGGA
4314790 GAAAGAAAGT
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:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (13 bp):
AGAGGAAGAAGGA
Found at i:4315525 original size:21 final size:21
Alignment explanation
Indices: 4315484--4315526 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4315474 AAAGTAAAAA
* *
4315484 AAAATCATAAAATATAATTTT
1 AAAATCATAAAAAAAAATTTT
4315505 AAAAT-ATAAAAAAAAAGTTTT
1 AAAATCATAAAAAAAAA-TTTT
4315526 A
1 A
4315527 GATGTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATCATAAAAAAAAATTTT
Found at i:4315666 original size:30 final size:30
Alignment explanation
Indices: 4315630--4315689 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
4315620 TTAGTTGAAA
*
4315630 GATATACTAATGTATGGAGAATGTCATAAT
1 GATATACTAATGTATAGAGAATGTCATAAT
4315660 GATATACTAATGTATAGAGAATGTCATAAT
1 GATATACTAATGTATAGAGAATGTCATAAT
4315690 TCACTTACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (30 bp):
GATATACTAATGTATAGAGAATGTCATAAT
Found at i:4315976 original size:11 final size:10
Alignment explanation
Indices: 4315939--4315992 Score: 62
Period size: 9 Copynumber: 5.6 Consensus size: 10
4315929 TCATTGGGAG
4315939 AAAAATTC-A
1 AAAAATTCTA
4315948 AAAAA-TCTA
1 AAAAATTCTA
4315957 AAAATATTCTTA
1 AAAA-ATTC-TA
4315969 AAAAATTCT-
1 AAAAATTCTA
4315978 AAAAATTC-A
1 AAAAATTCTA
4315987 AAAAAT
1 AAAAAT
4315993 AAAAATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
8 2 0.05
9 24 0.60
10 2 0.05
11 6 0.15
12 6 0.15
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:4316406 original size:10 final size:9
Alignment explanation
Indices: 4316367--4316428 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 9
4316357 AATACAACTG
4316367 AAATATTAA
1 AAATATTAA
*
4316376 TAAACATTATTA
1 -AAATATTA--A
4316388 AAA-ATTAA
1 AAATATTAA
4316396 AAATATCTAA
1 AAATAT-TAA
4316406 AAATATTCAA
1 AAATATT-AA
4316416 AAATATTCAA
1 AAATATT-AA
4316426 AAA
1 AAA
4316429 AGAAAAATTA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 35 0.76
11 3 0.07
12 1 0.02
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (9 bp):
AAATATTAA
Found at i:4316582 original size:21 final size:21
Alignment explanation
Indices: 4316545--4316608 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
4316535 ATTTATAATA
* *
4316545 TTTAAGTTTTC-AGATTTTTT
1 TTTAACTTTTCTAAATTTTTT
* * *
4316565 TTTTACTTTTCTCAATTTTGT
1 TTTAACTTTTCTAAATTTTTT
* *
4316586 TATAATTTTTCTAAATTTTTT
1 TTTAACTTTTCTAAATTTTTT
4316607 TT
1 TT
4316609 ATTCTTTAAG
Statistics
Matches: 32, Mismatches: 11, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTAACTTTTCTAAATTTTTT
Found at i:4316729 original size:10 final size:10
Alignment explanation
Indices: 4316682--4316720 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
4316672 TGATATTTTC
4316682 TTTTTTAAAAA
1 TTTTTT-AAAA
4316693 TTTTATATAAAA
1 TTTT-T-TAAAA
4316705 TTTTTTAAAA
1 TTTTTTAAAA
4316715 TTTTTT
1 TTTTTT
4316721 TAGATTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 11 0.42
11 5 0.19
12 9 0.35
13 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:4316932 original size:25 final size:26
Alignment explanation
Indices: 4316904--4316968 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
4316894 TTTGGGAATT
** *
4316904 TTTTTCAAAATTTTACTATTTTTTAT
1 TTTTTCAAAATTTTAAAATTTTTTAG
**
4316930 TTTTTC-ACTTTTTAAAATTTTTTAG
1 TTTTTCAAAATTTTAAAATTTTTTAG
4316955 TTTTTCAAAATTTT
1 TTTTTCAAAATTTT
4316969 TTTAATTTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTCAAAATTTTAAAATTTTTTAG
Found at i:4316951 original size:18 final size:18
Alignment explanation
Indices: 4316928--4316970 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4316918 ACTATTTTTT
4316928 ATTTTTTCACTTTTT-AAA
1 ATTTTTT-ACTTTTTCAAA
*
4316946 ATTTTTTAGTTTTTCAAA
1 ATTTTTTACTTTTTCAAA
4316964 ATTTTTT
1 ATTTTTT
4316971 TAATTTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTTTACTTTTTCAAA
Found at i:4316969 original size:19 final size:18
Alignment explanation
Indices: 4316928--4316972 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
4316918 ACTATTTTTT
*
4316928 ATTTTTTCACTTTTTAAA
1 ATTTTTTTACTTTTTAAA
*
4316946 A-TTTTTTAGTTTTTCAAA
1 ATTTTTTTACTTTTT-AAA
4316964 ATTTTTTTA
1 ATTTTTTTA
4316973 ATTTGTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 5 0.22
19 7 0.30
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTTTTACTTTTTAAA
Found at i:4318637 original size:13 final size:13
Alignment explanation
Indices: 4318619--4318659 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
4318609 TGGATTTTTT
4318619 TCTAAAATATTTG
1 TCTAAAATATTTG
*
4318632 TCTAAAATGTTTTG
1 TCTAAAAT-ATTTG
*
4318646 TCTAAAATGTTTG
1 TCTAAAATATTTG
4318659 T
1 T
4318660 TATATGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (13 bp):
TCTAAAATATTTG
Found at i:4318647 original size:14 final size:14
Alignment explanation
Indices: 4318614--4318657 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
4318604 ATGTTTGGAT
*
4318614 TTTTTTCTAAAAT-
1 TTTTGTCTAAAATG
*
4318627 ATTTGTCTAAAATG
1 TTTTGTCTAAAATG
4318641 TTTTGTCTAAAATG
1 TTTTGTCTAAAATG
4318655 TTT
1 TTT
4318658 GTTATATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.55
Consensus pattern (14 bp):
TTTTGTCTAAAATG
Found at i:4320539 original size:23 final size:22
Alignment explanation
Indices: 4320500--4320542 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4320490 ATATGAATAC
* *
4320500 AAATGAAATAAATAGTTTAATT
1 AAATAAAATAAACAGTTTAATT
4320522 AAATAAAATTAAACAGTTTAA
1 AAATAAAA-TAAACAGTTTAA
4320543 AGCCTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
AAATAAAATAAACAGTTTAATT
Found at i:4323196 original size:59 final size:58
Alignment explanation
Indices: 4323030--4323201 Score: 175
Period size: 59 Copynumber: 2.9 Consensus size: 58
4323020 AAATTGAAAA
* * * * * * *
4323030 AAAAAATTTTTTTGAAGAAAAGTTGAATATATCAATTTCTTTTGAATACAAAAATTTTT
1 AAAAAATATTTTTGAAGAAAAGTTAAAAATATCAATTT-TATTGAAAATAAAAATTTTC
* * * ** *
4323089 AAAAAATATTTTTGAGGGAAAGTTAAAAGTATCAATTTCCCTTAAAAATAAAAATTTTC
1 AAAAAATATTTTTGAAGAAAAGTTAAAAATATCAATTT-TATTGAAAATAAAAATTTTC
*
4323148 AAAAAATATTTTT-AAGAAAACGTTAAAAATATTAATTTTAATTGAAAATAAAAA
1 AAAAAATATTTTTGAAGAAAA-GTTAAAAATATCAATTTT-ATTGAAAATAAAAA
4323202 AAGAAAGATT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
58 5 0.05
59 87 0.95
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (58 bp):
AAAAAATATTTTTGAAGAAAAGTTAAAAATATCAATTTTATTGAAAATAAAAATTTTC
Found at i:4323274 original size:13 final size:13
Alignment explanation
Indices: 4323256--4323297 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
4323246 TCAATTTTTC
4323256 TTGAAAAAAAAAT
1 TTGAAAAAAAAAT
4323269 TTGAAAAAAAATAT
1 TTGAAAAAAAA-AT
*
4323283 TTTAAAGAAAAAAT
1 TTGAAA-AAAAAAT
4323297 T
1 T
4323298 AAAAATATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.42
14 10 0.38
15 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (13 bp):
TTGAAAAAAAAAT
Found at i:4323293 original size:15 final size:14
Alignment explanation
Indices: 4323259--4323297 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4323249 ATTTTTCTTG
4323259 AAAAAAAAATTTGA
1 AAAAAAAAATTTGA
* *
4323273 AAAAAAATATTTTA
1 AAAAAAAAATTTGA
*
4323287 AAGAAAAAATT
1 AAAAAAAAATT
4323298 AAAAATATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (14 bp):
AAAAAAAAATTTGA
Found at i:4326147 original size:4 final size:4
Alignment explanation
Indices: 4326134--4326163 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4326124 AAAAATTATG
4326134 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4326164 ATTTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4326224 original size:19 final size:19
Alignment explanation
Indices: 4326202--4326255 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
4326192 TTTGATATAG
4326202 AATTAATTTAATAATTT-AT
1 AATT-ATTTAATAATTTCAT
*
4326221 AATTATTTATTAATTTCAT
1 AATTATTTAATAATTTCAT
* *
4326240 AAATATTAAATAATTT
1 AATTATTTAATAATTT
4326256 TAAAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTATTTAATAATTTCAT
Found at i:4326595 original size:21 final size:21
Alignment explanation
Indices: 4326571--4326610 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4326561 CTATTTTTAT
* *
4326571 TTAAACAAGTCATATTAATTA
1 TTAAAAAAATCATATTAATTA
4326592 TTAAAAAAATCATATTAAT
1 TTAAAAAAATCATATTAAT
4326611 AAATTTAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAAAAAAATCATATTAATTA
Found at i:4340659 original size:16 final size:15
Alignment explanation
Indices: 4340638--4340694 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
4340628 TTTTTCGGAC
4340638 TTTGGACTTCAAGGAT
1 TTTGGA-TTCAAGGAT
* *
4340654 TTTGGATTTCGAGCGGT
1 TTTGGA-TTCAAG-GAT
*
4340671 TTTGGATTTAATGGAT
1 TTTGGATTCAA-GGAT
4340687 TTTGGATT
1 TTTGGATT
4340695 TTTAAGGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 24 0.73
17 9 0.27
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (15 bp):
TTTGGATTCAAGGAT
Found at i:4342266 original size:26 final size:28
Alignment explanation
Indices: 4342218--4342272 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
4342208 GACTTCTTTC
4342218 TTTTTTTTTGTTTGTTTACTTGTTTTGTT
1 TTTTTTTTTGTTTGTTTA-TTGTTTTGTT
*
4342247 TTTTTTTTTTTTTG-TT-TTGTTTTGTT
1 TTTTTTTTTGTTTGTTTATTGTTTTGTT
4342273 AAATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
28 2 0.08
29 13 0.52
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (28 bp):
TTTTTTTTTGTTTGTTTATTGTTTTGTT
Found at i:4348901 original size:51 final size:48
Alignment explanation
Indices: 4348846--4349708 Score: 505
Period size: 51 Copynumber: 17.5 Consensus size: 48
4348836 ACAGATAAGA
4348846 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-A-CCTTTTCAAGA-ATGAG
* * ** *
4348897 ATTTTTTAAAAGTTGTTGAGTCTCTACTGAGAGGAGTTTTTCCAA-AATGAA
1 A--TTTT-AAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTT-CAAGAATGAG
* *
4348948 ATTTTAAAGTTGTTGAACCTCTACTGAGAGGAGCCCTTTTCAAGATATGAGG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA--CCTTTTCAAGA-ATGA-G
* * * * *
4349000 ATTTTAAAGTGGTGGAGCCTCTACTGAAAGGAGCTTTTCCAA-AATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTT-CAAGAATGAG
* * *
4349048 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCCAG-ATGAG
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTTCAAGAATGAG
* * * *
4349096 ATTTTAGAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAG-ATCAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTT-CAAGAATGAG
* * * *
4349144 ATTTTTAAAGTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTGTTCCAAG-ATAAG
1 A---TT----TTAAAGTTGTTGAGCCTCTGCTGAGAGGACCT-TTTCAAGAATGAG
* * *
4349199 ATTTTTTTAAAGTTGTTGAGCCTCTGTTGAGAAGAGCTTTTTCAAG-ATGAG
1 A---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGAATGAG
* ** * * *
4349250 ATTTTTTTAAAGTTGTTGAGCTTCTATTGAGATGAGCTTTTTGAAG-ATGAG
1 A---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGAATGAG
* * * * *
4349301 ATTTTTTAAAGTTGTTAAGCCTCTGCTGAAATGAGCTTTTTTAAG-A-GA-
1 A--TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGAATGAG
* * * *
4349349 ATTTTAAAGTTGTTGAACCTCTACTGAGAGAAACTTTTCCAA-AATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTT-CAAGAATGAG
* * * * * *
4349397 AATTTTAAAGTTGTTGAACCT-TACTGATATGAGCTTTTCCAAG-ATAAG
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTT-CAAGAATGAG
* * * *
4349445 ATTTTTTTAATGTTGTTGAGCCTCTGTTGAGAGTAGCTTTTTCAAG-ATGAG
1 A---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGAATGAG
* *
4349496 ATTTTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAACTTTTTCAAG-ATGAG
1 A---TTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-ACCTTTTCAAGAATGAG
* * * * *
4349547 ATTTTTTAAAGTTGTTGAGCTTCTGTTAAGATGAGCTTTTTCAAG-A-GA-
1 A--TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGAATGAG
* * * **
4349595 ATTTTAAAGTTGTTGAGCTTCTACTGAGAGGAGCTTTT--TTAAT-AG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTTCAAGAATGAG
* * **
4349640 AATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGTTTTTTCAAG-A-GA-
1 -ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGAATGAG
*
4349687 ATTTCAAAGTTGTTGAGCCTCT
1 ATTTTAAAGTTGTTGAGCCTCT
4349709 ACTTAGATGA
Statistics
Matches: 673, Mismatches: 96, Indels: 91
0.78 0.11 0.11
Matches are distributed among these distances:
44 2 0.00
45 8 0.01
46 106 0.16
47 42 0.06
48 66 0.10
49 69 0.10
50 105 0.16
51 159 0.24
52 39 0.06
53 8 0.01
54 24 0.04
55 43 0.06
56 2 0.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (48 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTTCAAGAATGAG
Found at i:4348969 original size:102 final size:96
Alignment explanation
Indices: 4348845--4349724 Score: 604
Period size: 101 Copynumber: 8.9 Consensus size: 96
4348835 AACAGATAAG
4348845 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATATGAGATTTTTTAAAAGT
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGG-A-CCTTTTCAAG--ATGAGA-TTTTT-AAAGT
* *
4348910 TGTTGAGTCTCTACTGAGAGGAGTTTTTCCAAAATGA-
60 TGTTGAGCCTCTACTGAGAGGAGTTTTT-CAAGATGAT
* * *
4348947 AATTTTAAAGTTGTTGAACCTCTACTGAGAGGAGCCCTTTTCAAGATATGAGGA-TTTTAAAGTG
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA--CCTTTTCAAG--ATGA-GATTTTTAAAGTT
* * * * *
4349011 GTGGAGCCTCTACTGAAAGGAGCTTTTCCAAAATGAG
61 GTTGAGCCTCTACTGAGAGGAG-TTTTTCAAGATGAT
* * * *
4349048 AATTTTAAAGTTGTTGAACCTCTGCTGAGAGGAGCTTTTCCAGATGAGA-TTTTAGAGTTGTTGA
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTTCAAGATGAGATTTTTAAAGTTGTTGA
** *
4349112 GCCTCTGTTGAGAGGAGCTTTTCCAAGATCAGATTTTT
66 GCCTCTACTGAGAGGAG-TTTTTCAAGAT--GA----T
** * * * *
4349150 AAAGTTAAAGTTGTTGAGCCTTTGCTGAGAGGAGCTGTTCCAAGATAAGATTTTTTTAAAGTTGT
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCT-TTTCAAGATGAGA--TTTTTAAAGTTGT
** *
4349215 TGAGCCTCTGTTGAGAAGAGCTTTTTCAAGATGAGAT
63 TGAGCCTCTACTGAGAGGAG-TTTTTCAAGAT--GAT
** * ** * * *
4349252 TTTTTTAAAGTTGTTGAGCTTCTATTGAGATGAGCTTTTTGAAGATGAGATTTTTTAAAGTTGTT
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGATGAGA-TTTTTAAAGTTGTT
* * * * *
4349317 AAGCCTCTGCTGAAATGAGCTTTTTTAAGA-G--
64 GAGCCTCTACTGAGAGGAG-TTTTTCAAGATGAT
* * * * * *
4349348 AATTTTAAAGTTGTTGAACCTCTACTGAGAGAAACTTTTCCAAAATGAGAATTTTAAAGTTGTTG
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTT-CAAGATGAGATTTTTAAAGTTGTTG
* * * *
4349413 AACCT-TACTGATATGAGCTTTTCCAAGATAAGAT
65 AGCCTCTACTGAGAGGAG-TTTTTCAAGAT--GAT
** * * * * *
4349447 TTTTTTAATGTTGTTGAGCCTCTGTTGAGAGTAGCTTTTTCAAGATGAGATTTTTTTAAAGTTAT
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGATGAGA--TTTTTAAAGTTGT
* * *
4349512 TGAGCCTCTGCTGAGAGGAACTTTTTCAAGATGAG
63 TGAGCCTCTACTGAGAGG-AGTTTTTCAAGATGAT
* * * * * *
4349547 ATTTTTTAAAGTTGTTGAGCTTCTGTTAAGATGAGCTTTTTCAAGA-GA-A-TTTTAAAGTTGTT
1 A-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGATGAGATTTTTAAAGTTGTT
* * *
4349609 GAGCTTCTACTGAGAGGAGCTTTTT-TA-AT-AG
64 GAGCCTCTACTGAGAGGAG-TTTTTCAAGATGAT
* * ** *
4349640 AATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGTTTTTTCAAGA-GA-A-TTTCAAAGTTGTTG
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-CCTTTTCAAGATGAGATTTTTAAAGTTGTTG
* *
4349702 AGCCTCTACTTAGATGAGTTTTT
65 AGCCTCTACTGAGAGGAGTTTTT
4349725 TTTTAATTTT
Statistics
Matches: 644, Mismatches: 106, Indels: 67
0.79 0.13 0.08
Matches are distributed among these distances:
91 5 0.01
92 69 0.11
93 3 0.00
94 21 0.03
95 23 0.04
96 105 0.16
97 5 0.01
98 3 0.00
99 44 0.07
100 40 0.06
101 137 0.21
102 131 0.20
103 14 0.02
106 44 0.07
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (96 bp):
AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGACCTTTTCAAGATGAGATTTTTAAAGTTGTTGA
GCCTCTACTGAGAGGAGTTTTTCAAGATGAT
Found at i:4349490 original size:246 final size:246
Alignment explanation
Indices: 4348843--4349684 Score: 884
Period size: 246 Copynumber: 3.4 Consensus size: 246
4348833 AAAACAGATA
* * *
4348843 AGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACCCTTTTCAAGATATGAGATTTTTTAAAA
1 AGAATTTTAAAGTTGTTGAGCCTCTACTGAGA-GAA-GCTTTTCAA-A-ATGAGATATTTT-AAA
* * * *
4348908 GTTGTTGAGTCTCTACTGAGAGGAGTTTTTCCAAAATGAA-A---TTTTAAAGTTGTTGAACCTC
61 GTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGAT-AAGATTTTTTTAAAGTTGTTGAGCCTC
** * *** * * *
4348969 TACTGAGAGGAGCCCTTTTCAAGAT-ATGAGGATTTTAAAGTGGTGGAGCCTCTACTGAAAGGAG
125 TGTTGAGA-GAG-CTTTTTCAAGATGA-GATTTTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG
* * * * * *
4349033 CTTTTCCAAAATGAGA-ATTTTAAAGTTGTTGAA-CCTCTGCTGAGAGGAGC-TTTTCCAG
187 CTTTTTCAAGATGAGATTTTTTAAAGTTGTT-AAGCCTCTGCTGAAATGAGCTTTTTCAAG
* ** * * * *
4349091 ATGAGATTTTAGAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAAGATCAGATTTTTAAAGTT
1 A-GA-ATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTT-CAAAATGAGA-TATT----TT
* * *
4349156 AAAGTTGTTGAGCCTTTGCTGAGAGGAGCTGTTCCAAGATAAGATTTTTTTAAAGTTGTTGAGCC
58 AAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATAAGATTTTTTTAAAGTTGTTGAGCC
* * *
4349221 TCTGTTGAGAAGAGCTTTTTCAAGATGAGATTTTTTTAAAGTTGTTGAGCTTCTATTGAGATGAG
123 TCTGTTGAG-AGAGCTTTTTCAAGATGAGATTTTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG
* *
4349286 CTTTTTGAAGATGAGATTTTTTAAAGTTGTTAAGCCTCTGCTGAAATGAGCTTTTTTAAG
187 CTTTTTCAAGATGAGATTTTTTAAAGTTGTTAAGCCTCTGCTGAAATGAGCTTTTTCAAG
* *
4349346 AGAATTTTAAAGTTGTTGAACCTCTACTGAGAGAAACTTTTCCAAAATGAGA-ATTTTAAAGTTG
1 AGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTT-CAAAATGAGATATTTTAAAGTTG
* * * *
4349410 TTGAACCT-TACTGATATGAGCTTTTCCAAGATAAGATTTTTTTAATGTTGTTGAGCCTCTGTTG
65 TTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATAAGATTTTTTTAAAGTTGTTGAGCCTCTGTTG
* * *
4349474 AGAGTAGCTTTTTCAAGATGAGATTTTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAACTTTTTC
130 AGAG-AGCTTTTTCAAGATGAGATTTTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTC
* * *
4349539 AAGATGAGATTTTTTAAAGTTGTTGAGCTTCTG-TTAAGATGAGCTTTTTCAAG
194 AAGATGAGATTTTTTAAAGTTGTTAAGCCTCTGCTGAA-ATGAGCTTTTTCAAG
* * **
4349592 AGAATTTTAAAGTTGTTGAGCTTCTACTGAGAGGAGCTTTT-TTAAT-AGA-ATTTTAAAGTTGT
1 AGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCAAAATGAGATATTTTAAAGTTGT
* * *
4349654 TGAGCCTCTACTGAGATGAGTTTTTTCAAGA
66 TGAGCCTCTACTGAGAGGAGCTTTTCCAAGA
4349685 GAATTTCAAA
Statistics
Matches: 505, Mismatches: 69, Indels: 44
0.82 0.11 0.07
Matches are distributed among these distances:
243 22 0.04
244 23 0.05
245 5 0.01
246 188 0.37
247 21 0.04
248 10 0.02
249 7 0.01
250 29 0.06
251 37 0.07
252 2 0.00
253 95 0.19
254 58 0.11
255 8 0.02
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (246 bp):
AGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCAAAATGAGATATTTTAAAGTTGT
TGAGCCTCTACTGAGAGGAGCTTTTCCAAGATAAGATTTTTTTAAAGTTGTTGAGCCTCTGTTGA
GAGAGCTTTTTCAAGATGAGATTTTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAA
GATGAGATTTTTTAAAGTTGTTAAGCCTCTGCTGAAATGAGCTTTTTCAAG
Found at i:4349747 original size:45 final size:46
Alignment explanation
Indices: 4349558--4349760 Score: 189
Period size: 46 Copynumber: 4.4 Consensus size: 46
4349548 TTTTTTAAAG
* * * * *
4349558 TTGTTGAGCTTCT-GTTAAGATGAGCTTTTTCAAGAGAATTTTAAAG
1 TTGTTGAGCCTCTACTT-AGATGAGTTTTTTCAAGAGAATTTCAAAA
* * * * * *
4349604 TTGTTGAGCTTCTACTGAGAGGAGCTTTTTT-AATAGAATTTTAAAG
1 TTGTTGAGCCTCTACTTAGATGAG-TTTTTTCAAGAGAATTTCAAAA
* *
4349650 TTGTTGAGCCTCTACTGAGATGAGTTTTTTCAAGAGAATTTCAAAG
1 TTGTTGAGCCTCTACTTAGATGAGTTTTTTCAAGAGAATTTCAAAA
*** *
4349696 TTGTTGAGCCTCTACTTAGATGAGTTTTTT-TTTA-ATTTTCAAAAA
1 TTGTTGAGCCTCTACTTAGATGAGTTTTTTCAAGAGAATTTC-AAAA
*
4349741 TTGTTGAGCCTCTGCTTAGA
1 TTGTTGAGCCTCTACTTAGA
4349761 GGAACCTTTT
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
44 5 0.04
45 29 0.21
46 97 0.71
47 6 0.04
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (46 bp):
TTGTTGAGCCTCTACTTAGATGAGTTTTTTCAAGAGAATTTCAAAA
Found at i:4349994 original size:18 final size:18
Alignment explanation
Indices: 4349959--4350022 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
4349949 ATTTAATTTA
*
4349959 ATTTT-TTTTCTTTTTTTC
1 ATTTTCTTTT-TTTCTTTC
4349977 ATTTTCTTTTTTTCTTTC
1 ATTTTCTTTTTTTCTTTC
* * *
4349995 TTTTTTCTTTTCTTCTGTC
1 -ATTTTCTTTTTTTCTTTC
*
4350014 TTTTTCTTT
1 ATTTTCTTT
4350023 CTTCTTCTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 21 0.52
19 19 0.47
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.80
Consensus pattern (18 bp):
ATTTTCTTTTTTTCTTTC
Found at i:4350000 original size:19 final size:18
Alignment explanation
Indices: 4349978--4350031 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 18
4349968 CTTTTTTTCA
* *
4349978 TTTTCTTTTTTTCTTTCTT
1 TTTTCTTTTCTTCTGTC-T
4349997 TTTTCTTTTCTTCTGTCT
1 TTTTCTTTTCTTCTGTCT
4350015 TTTTC-TTTCTTCT-TCT
1 TTTTCTTTTCTTCTGTCT
4350031 T
1 T
4350032 CCTTATTCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 6 0.18
19 15 0.45
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTCTTCTGTCT
Found at i:4351306 original size:20 final size:20
Alignment explanation
Indices: 4351256--4351306 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
4351246 TTTGTTAACA
*
4351256 ATAAATAAAAATTAATTAAT
1 ATAAATAAAAAATAATTAAT
*
4351276 AT-ATTAAAAAATAA-TAAT
1 ATAAATAAAAAATAATTAAT
4351294 ATAAATAAGAAAA
1 ATAAATAA-AAAA
4351307 ATTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAATAAAAAATAATTAAT
Found at i:4352864 original size:11 final size:11
Alignment explanation
Indices: 4352848--4352874 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4352838 GTACAATCTC
4352848 AACTTACAAAT
1 AACTTACAAAT
4352859 AACTTACAAAT
1 AACTTACAAAT
4352870 AACTT
1 AACTT
4352875 TTCAAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.30
Consensus pattern (11 bp):
AACTTACAAAT
Found at i:4352915 original size:36 final size:36
Alignment explanation
Indices: 4352874--4352989 Score: 103
Period size: 36 Copynumber: 3.2 Consensus size: 36
4352864 ACAAATAACT
4352874 TTTCAAAGTTTAGGTGTAACTTTTACATTAATTATC
1 TTTCAAAGTTTAGGTGTAACTTTTACATTAATTATC
* * * ** * *
4352910 TTTCAATGCTAAGGTACAATCTCAACTTACA--AA-TAAC
1 TTTCAAAGTTTAGGTGTAA-CT---TTTACATTAATTATC
4352947 TTTTCAAAGTTTAGGTGTAACTTTTACATTAATTATC
1 -TTTCAAAGTTTAGGTGTAACTTTTACATTAATTATC
4352984 TTTCAA
1 TTTCAA
4352990 TGCTAAGGTA
Statistics
Matches: 58, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
34 5 0.09
36 22 0.38
37 10 0.17
38 16 0.28
40 5 0.09
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (36 bp):
TTTCAAAGTTTAGGTGTAACTTTTACATTAATTATC
Found at i:4352980 original size:74 final size:74
Alignment explanation
Indices: 4352859--4353006 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
4352849 ACTTACAAAT
4352859 AACTTACAAATAACTTTTCAAAGTTTAGGTGTAACTTTTACATTAATTATCTTTCAATGCTAAGG
1 AACTTACAAATAACTTTTCAAAGTTTAGGTGTAACTTTTACATTAATTATCTTTCAATGCTAAGG
4352924 TACAATCTC
66 TACAATCTC
4352933 AACTTACAAATAACTTTTCAAAGTTTAGGTGTAACTTTTACATTAATTATCTTTCAATGCTAAGG
1 AACTTACAAATAACTTTTCAAAGTTTAGGTGTAACTTTTACATTAATTATCTTTCAATGCTAAGG
*
4352998 TATAATCTC
66 TACAATCTC
4353007 TAAATCCTTA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (74 bp):
AACTTACAAATAACTTTTCAAAGTTTAGGTGTAACTTTTACATTAATTATCTTTCAATGCTAAGG
TACAATCTC
Found at i:4353165 original size:12 final size:12
Alignment explanation
Indices: 4353148--4353172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4353138 CAATAATATA
4353148 TAAAAATATTAT
1 TAAAAATATTAT
4353160 TAAAAATATTAT
1 TAAAAATATTAT
4353172 T
1 T
4353173 TATAATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:4353401 original size:2 final size:2
Alignment explanation
Indices: 4353394--4353478 Score: 64
Period size: 2 Copynumber: 41.5 Consensus size: 2
4353384 AAGATATCTT
* * *
4353394 TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA TA CTC T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
4353436 TA CA TA TA CA CTCA TA TA CA CA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA -T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4353479 TTTGATCTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
1 1 0.01
2 64 0.94
3 2 0.03
4 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (2 bp):
TA
Found at i:4356703 original size:3 final size:3
Alignment explanation
Indices: 4356695--4356737 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
4356685 TCATTTAATC
*
4356695 TAT TAT TAT TATT TAT TAT GAT T-T TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
4356738 CTTGTAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4359047 original size:23 final size:24
Alignment explanation
Indices: 4359018--4359068 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4359008 TTATTATTTC
4359018 TATAT-TTTTA-ATATTTT-ATTA
1 TATATATTTTAGATATTTTAATTA
4359039 TATATATTTTAGATATTTTAATTA
1 TATATATTTTAGATATTTTAATTA
*
4359063 TTTATA
1 TATATA
4359069 ATAATTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 7 0.27
24 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TATATATTTTAGATATTTTAATTA
Found at i:4359554 original size:29 final size:29
Alignment explanation
Indices: 4359517--4359586 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
4359507 TCAATTAAGG
4359517 ATTTAATTAATT-TAAATAAAATATTAAAA
1 ATTTAATTAATTGT-AATAAAATATTAAAA
*
4359546 ATTTGATTAATTGTAATAAAATATTAAAA
1 ATTTAATTAATTGTAATAAAATATTAAAA
* *
4359575 TTTTAAATAATT
1 ATTTAATTAATT
4359587 TTTTAATCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 35 0.97
30 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (29 bp):
ATTTAATTAATTGTAATAAAATATTAAAA
Found at i:4361428 original size:61 final size:62
Alignment explanation
Indices: 4361287--4361437 Score: 153
Period size: 61 Copynumber: 2.5 Consensus size: 62
4361277 TTTTAGCAAG
* * * * * * *
4361287 GGATTATTCAAGGCGTTTTTGACCAAAAACACCTTAAATAATCTCTAATAAAAATTAGAGGA
1 GGATTATTTAAGGTGTTTTTCACCAAAAACACCTTAAATAATCCCCAATAAAAAATAGAAGA
* * ** *
4361349 -GATTATTTAAGATGTTTTTCACCCAAAACATTTTGAATAATCCCCAATAAAAAAT-GAAGA
1 GGATTATTTAAGGTGTTTTTCACCAAAAACACCTTAAATAATCCCCAATAAAAAATAGAAGA
* **
4361409 GGATTATTTAAGGTATTTTTGGCCAAAAA
1 GGATTATTTAAGGTGTTTTTCACCAAAAA
4361438 AGTCTTGAAT
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
60 4 0.06
61 67 0.94
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (62 bp):
GGATTATTTAAGGTGTTTTTCACCAAAAACACCTTAAATAATCCCCAATAAAAAATAGAAGA
Found at i:4361539 original size:63 final size:62
Alignment explanation
Indices: 4361408--4361575 Score: 169
Period size: 63 Copynumber: 2.7 Consensus size: 62
4361398 AAAAATGAAG
* ** *
4361408 AGGATTATTTAAGGTATTTTTGGCCAAAAAAGTCTTGAATAACCCCATTTAATTTTTTGTAA
1 AGGATTATTTAAGGCATTTTTGGCCAAAAAACACTTGAATAACCCCATTTAATTTTTTCTAA
* * * *
4361470 AAGATTATTTAAGGCATTTTTGGCTAAAAAACACATTGAATAA-TCCTTTTCAATTTTTTCTAA
1 AGGATTATTTAAGGCATTTTTGGCCAAAAAACAC-TTGAATAACCCCATTT-AATTTTTTCTAA
* * * **
4361533 GGGATTATTCAAGGCGTTTTCTCACCAAAAATAC-CTTGAATAA
1 AGGATTATTTAAGGCATTTT-TGGCCAAAAA-ACACTTGAATAA
4361576 TCTAAAAAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
62 34 0.39
63 43 0.49
64 8 0.09
65 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (62 bp):
AGGATTATTTAAGGCATTTTTGGCCAAAAAACACTTGAATAACCCCATTTAATTTTTTCTAA
Found at i:4365386 original size:35 final size:37
Alignment explanation
Indices: 4365345--4365413 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 37
4365335 GAGGATAAGA
*
4365345 AAAAGGACAAGATAAA-GAAAAAA-AAAAGAAACAAG
1 AAAAGGACAAGAAAAATGAAAAAAGAAAAGAAACAAG
* * *
4365380 AAAAGGATAGGAAAAATGAAAAAAGAAGAGAAAC
1 AAAAGGACAAGAAAAATGAAAAAAGAAAAGAAAC
4365414 TTTTGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 13 0.46
36 7 0.25
37 8 0.29
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (37 bp):
AAAAGGACAAGAAAAATGAAAAAAGAAAAGAAACAAG
Found at i:4369674 original size:15 final size:15
Alignment explanation
Indices: 4369652--4369753 Score: 65
Period size: 15 Copynumber: 7.1 Consensus size: 15
4369642 AAAAATATTT
* *
4369652 ACAAATAAATGAATT
1 ACAAATAAATAAATA
*
4369667 ATAAATAAATAAATA
1 ACAAATAAATAAATA
4369682 ACAAATAAAT-AATA
1 ACAAATAAATAAATA
* *
4369696 ACAAA-AACATAGATGG
1 ACAAATAA-ATAAAT-A
*
4369712 A-AAATAGATAAATA
1 ACAAATAAATAAATA
4369726 ACTAAAT--ATAAAT-
1 AC-AAATAAATAAATA
*
4369739 A-AAATAAATCAATA
1 ACAAATAAATAAATA
4369753 A
1 A
4369754 AAAAATAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.06
13 8 0.12
14 19 0.28
15 31 0.46
16 6 0.09
ACGTcount: A:0.67, C:0.06, G:0.05, T:0.23
Consensus pattern (15 bp):
ACAAATAAATAAATA
Found at i:4371455 original size:20 final size:20
Alignment explanation
Indices: 4371430--4371467 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4371420 TAAGTATTTT
*
4371430 TAAAAATTAAATCATTTAAC
1 TAAAAACTAAATCATTTAAC
*
4371450 TAAAAACTAAATCTTTTA
1 TAAAAACTAAATCATTTA
4371468 TATGTCAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAACTAAATCATTTAAC
Found at i:4372229 original size:45 final size:45
Alignment explanation
Indices: 4372157--4372248 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
4372147 AATAATTGAT
* *
4372157 CATTTTTGTTTGCTGCCATTACATGAAGGTAAGGTCTCATGCCTC
1 CATTTTTGTTTGCTGCCACTACATGAAGGTAAGGCCTCATGCCTC
* * * *
4372202 CATTTTTGTTTGCTTCCACTACTTGAAGTTAAGGCCTGATGCCTC
1 CATTTTTGTTTGCTGCCACTACATGAAGGTAAGGCCTCATGCCTC
4372247 CA
1 CA
4372249 CAAATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (45 bp):
CATTTTTGTTTGCTGCCACTACATGAAGGTAAGGCCTCATGCCTC
Found at i:4374255 original size:17 final size:16
Alignment explanation
Indices: 4374235--4374275 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
4374225 TTTTTTGCTC
4374235 TCTTCTTCTCTTTTTTT
1 TCTT-TTCTCTTTTTTT
4374252 TCTTTTC-CTTTTTCTT
1 TCTTTTCTCTTTTT-TT
4374268 TCTTTTCT
1 TCTTTTCT
4374276 TCATTTCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.27
16 12 0.55
17 4 0.18
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TCTTTTCTCTTTTTTT
Found at i:4375140 original size:33 final size:33
Alignment explanation
Indices: 4375102--4375173 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
4375092 CCAATTCAAA
4375102 ATTTAAATGGGCCTTAAAATTATGCCCAAACCC
1 ATTTAAATGGGCCTTAAAATTATGCCCAAACCC
** * * * *
4375135 ATTT-AATGGGTTTTAATATTTTGTCCAAACCT
1 ATTTAAATGGGCCTTAAAATTATGCCCAAACCC
4375167 ATTTAAA
1 ATTTAAA
4375174 ACTTGAACAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (33 bp):
ATTTAAATGGGCCTTAAAATTATGCCCAAACCC
Found at i:4382746 original size:2 final size:2
Alignment explanation
Indices: 4382739--4382787 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4382729 TAAAATCAAA
4382739 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4382781 AG AG AG A
1 AG AG AG A
4382788 TTGTGTGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4388517 original size:23 final size:24
Alignment explanation
Indices: 4388491--4388537 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
4388481 AGTTTGGAAT
* *
4388491 TGAATTTGTTTATAAATAT-TAAA
1 TGAATATGTTTACAAATATATAAA
4388514 TGAATATGTTTACAAATATATAAA
1 TGAATATGTTTACAAATATATAAA
4388538 CAAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (24 bp):
TGAATATGTTTACAAATATATAAA
Found at i:4388543 original size:24 final size:23
Alignment explanation
Indices: 4388497--4388544 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4388487 GAATTGAATT
* **
4388497 TGTTTATAAATATTAAATGAATA
1 TGTTTACAAATATTAAACAAATA
4388520 TGTTTACAAATATATAAACAAATA
1 TGTTTACAAATAT-TAAACAAATA
4388544 T
1 T
4388545 AAACTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (23 bp):
TGTTTACAAATATTAAACAAATA
Found at i:4389175 original size:59 final size:57
Alignment explanation
Indices: 4389041--4389501 Score: 586
Period size: 59 Copynumber: 7.7 Consensus size: 57
4389031 TTTTTTTTAG
4389041 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGGAAATTT--ATTTCT-AA
* ** * *
4389101 GGAAAATTGATACTTTCAATTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTATAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTGGAAATTTATTTCTAA
* **
4389160 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTGGAAATTTATTTC-TAA
4389218 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTTGGAAATTTATTTCTAA
* * *
4389277 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTTGGAAATTTATTTCTAA
4389336 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTTATTTCTAA
4389393 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTATTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA--TTT-TTTTGGAAATTTA--TTTC---TA
4389458 A
57 A
4389459 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATAT-TTTTTT
4389502 TAGAATTTTT
Statistics
Matches: 364, Mismatches: 20, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
57 56 0.15
58 52 0.14
59 139 0.38
60 41 0.11
61 27 0.07
63 4 0.01
64 5 0.01
65 2 0.01
66 38 0.10
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
Found at i:4389191 original size:27 final size:27
Alignment explanation
Indices: 4389161--4389251 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
4389151 TATTTATAAG
4389161 AAAAATTGATACTTTCAACTTTTCCCT
1 AAAAATTGATACTTTCAACTTTTCCCT
* ** * * *
4389188 AAAAATAT-TTTTTTTCAAATTTATTCTT
1 AAAAAT-TGATACTTTCAACTTT-TCCCT
4389216 AAGGAAAATTGATACTTTCAACTTTTCCCT
1 -A--AAAATTGATACTTTCAACTTTTCCCT
4389246 AAAAAT
1 AAAAAT
4389252 ATTTTTTTTG
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
27 21 0.46
28 4 0.09
29 2 0.04
30 4 0.09
31 15 0.33
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.43
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTCCCT
Found at i:4389260 original size:117 final size:119
Alignment explanation
Indices: 4389041--4389514 Score: 626
Period size: 117 Copynumber: 4.0 Consensus size: 119
4389031 TTTTTTTTAG
* *
4389041 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATA-TTTTTTTGGAAATTTCGATTT-TCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTTGAAATTT--ATTTCTTAAGG
* * ***
4389103 AAAATTGATACTTTCAATTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTATAA
63 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTATAA
* *
4389160 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTCAAATTTA-TTCTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTTAAGGAAA
* * *
4389223 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTATAA
* *
4389277 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTACTTC-TGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTTAAGGAAA
* *
4389341 ATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
66 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTATAA
*
4389393 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTATTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTT-TTTT-GAAATTTA--TTTC--TTA
*
4389458 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTT-AGAATTT-TTTAT
60 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGAAAATTTATTTAT
4389515 TTTTATTTAA
Statistics
Matches: 319, Mismatches: 22, Indels: 23
0.88 0.06 0.06
Matches are distributed among these distances:
116 63 0.20
117 93 0.29
118 59 0.18
119 46 0.14
120 6 0.02
123 37 0.12
124 4 0.01
125 5 0.02
126 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTATAA
Found at i:4389353 original size:176 final size:176
Alignment explanation
Indices: 4389041--4389502 Score: 623
Period size: 176 Copynumber: 2.6 Consensus size: 176
4389031 TTTTTTTTAG
4389041 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATA-TTTTTTTGGAAATTTCGATTT-TCAAGG
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGGAAATTT--ATTTCT-AAGG
* *** *
4389103 AAAATTGATACTTTCAA-TTTTTCCTCAAAAA-CCCTTTTTTTGAAAATTTATTTATAAGAAAAA
62 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATATTTTTTTGAAAATTTACTTATAAGAAAAA
* *
4389166 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCAAATTTA-TTCTTAA
126 TTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGCAAATTTATTTC-TAA
4389218 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
* * * *
4389283 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTG-AAATTTACTTCTGAGGAAAATTGAT
66 TTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAAATTTACTTATAAGAAAAATTGAT
*
4389347 ACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
131 ACTTTCAACTTTTCCCCAAAAATATTTTTTGCAAATTTATTTCTAA
*
4389393 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTATTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTT-TTTTGGAAATTTA--TTTC---TA
*
4389458 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTT
59 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
4389503 AGAATTTTTT
Statistics
Matches: 258, Mismatches: 14, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
175 50 0.19
176 81 0.31
177 60 0.23
178 18 0.07
179 4 0.02
182 45 0.17
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (176 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTCTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAAATTTACTTATAAGAAAAATTGAT
ACTTTCAACTTTTCCCCAAAAATATTTTTTGCAAATTTATTTCTAA
Found at i:4389611 original size:8 final size:7
Alignment explanation
Indices: 4389581--4389648 Score: 66
Period size: 7 Copynumber: 9.3 Consensus size: 7
4389571 CTAATCTAAT
4389581 AAATAAA
1 AAATAAA
4389588 AAATAAA
1 AAATAAA
4389595 AAATAAAA
1 AAAT-AAA
*
4389603 TAAACAAA
1 -AAATAAA
*
4389611 TAAACAAA
1 -AAATAAA
*
4389619 GAAATAAT
1 -AAATAAA
4389627 AAA-AAA
1 AAATAAA
4389633 AAATAAA
1 AAATAAA
4389640 AAATAAA
1 AAATAAA
4389647 AA
1 AA
4389649 CCTGGAGCGG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
6 5 0.09
7 26 0.49
8 19 0.36
9 3 0.06
ACGTcount: A:0.82, C:0.03, G:0.01, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:4390004 original size:19 final size:20
Alignment explanation
Indices: 4389960--4390005 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4389950 GAACACCGGT
*
4389960 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
*
4389980 GTCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
4389999 GCCGGAA
1 GCCGGAA
4390006 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:4390098 original size:31 final size:31
Alignment explanation
Indices: 4390058--4390127 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
4390048 ACTGGACTGG
* *
4390058 TCGCCGGAAACTTC-AATGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAT-TTCGCCGAAATT-T
4390090 T-GCCGGAAAATTCAAATTTCGCCGAAATTT
1 TCGCCGGAAAATTCAAATTTCGCCGAAATTT
4390120 TCGCCGGA
1 TCGCCGGA
4390128 TTCTGGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 28 0.82
32 4 0.12
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAATTTCGCCGAAATTT
Found at i:4390805 original size:23 final size:22
Alignment explanation
Indices: 4390779--4390826 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
4390769 ATATTTATTA
* *
4390779 AATTTGTTCATAAATATTAAATG
1 AATTTATTCACAAATA-TAAATG
*
4390802 AATTTATTCACGAATATAAATG
1 AATTTATTCACAAATATAAATG
4390824 AAT
1 AAT
4390827 AAAACATATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (22 bp):
AATTTATTCACAAATATAAATG
Found at i:4391870 original size:3 final size:3
Alignment explanation
Indices: 4391862--4391896 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4391852 AAAAAGTGCT
4391862 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4391897 CATTGTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4395672 original size:21 final size:20
Alignment explanation
Indices: 4395648--4395716 Score: 50
Period size: 21 Copynumber: 3.3 Consensus size: 20
4395638 CAAATTTGTG
4395648 TTTTTGTTTTTGTTTATTTTA
1 TTTTTGTTTTTGTTT-TTTTA
**
4395669 TTTTAT-TTTTTGGTTTTTAGA
1 TTTT-TGTTTTT-GTTTTTTTA
** *
4395690 TTTTAATTTTAGTTTGTTTTA
1 TTTTTGTTTTTGTTT-TTTTA
4395711 TTTTTG
1 TTTTTG
4395717 GTCAAAAAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 4 0.11
21 27 0.75
22 5 0.14
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (20 bp):
TTTTTGTTTTTGTTTTTTTA
Done.