Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 112 of 113
Found at i:21989171 original size:14 final size:14
Alignment explanation
Indices: 21989152--21989201 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
21989142 AATTACTAAA
*
21989152 ATTTTAATATTAAT
1 ATTTTAATAATAAT
*
21989166 ATTTTAATAAAAAT
1 ATTTTAATAATAAT
*
21989180 ATTTCAATAATAAT
1 ATTTTAATAATAAT
21989194 A-TTTAATA
1 ATTTTAATA
21989202 TCAAAATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
13 6 0.19
14 25 0.81
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:21989188 original size:28 final size:25
Alignment explanation
Indices: 21989149--21989201 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
21989139 GAAAATTACT
*
21989149 AAAATTTTAATATTAATATTTTAATA
1 AAAATTTTAATAATAATA-TTTAATA
21989175 AAAATATTTCAATAATAATATTTAATA
1 AAAAT-TTT-AATAATAATATTTAATA
21989202 TCAAAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 10 0.42
28 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AAAATTTTAATAATAATATTTAATA
Found at i:21989419 original size:22 final size:21
Alignment explanation
Indices: 21989370--21989419 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
21989360 ATTCACAATA
* *
21989370 ATATTTTATATTAAAAATATT
1 ATATATTAAATTAAAAATATT
21989391 -TATTATTAAATTATAAAATATT
1 ATA-TATTAAATTA-AAAATATT
21989413 ATATATT
1 ATATATT
21989420 TATTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 2 0.08
21 8 0.33
22 12 0.50
23 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATATTAAATTAAAAATATT
Found at i:21989840 original size:29 final size:29
Alignment explanation
Indices: 21989794--21989862 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
21989784 TATCATATTA
*
21989794 ATTAAAAA-TTTTATAATTTAAATATCAT
1 ATTAAAAATTTTTAAAATTTAAATATCAT
*
21989822 TTTAAAAATTTTTAAAATTTAAATATCAT
1 ATTAAAAATTTTTAAAATTTAAATATCAT
*
21989851 ATTAAATATTTT
1 ATTAAAAATTTT
21989863 ACGATATATC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 7 0.19
29 29 0.81
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTAAAAATTTTTAAAATTTAAATATCAT
Found at i:21990274 original size:31 final size:30
Alignment explanation
Indices: 21990239--21990299 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
21990229 CCTTTGTTAG
* *
21990239 GTAATAATATTAAGTAAATATATTTTTATAT
1 GTAATAATATTAAATAAAGATA-TTTTATAT
21990270 GTAATAATATTAAATAAAGATATTTTATAT
1 GTAATAATATTAAATAAAGATATTTTATAT
21990300 TTTATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (30 bp):
GTAATAATATTAAATAAAGATATTTTATAT
Found at i:21990514 original size:72 final size:72
Alignment explanation
Indices: 21990404--21990651 Score: 240
Period size: 71 Copynumber: 3.5 Consensus size: 72
21990394 TGTTATATTA
* * * * *
21990404 AAAAATTTGATATTTGCTAAAA-TTATAAAATTTCAAAAATAAAATTTTATCGTTCATTATGTTT
1 AAAAATATGATTTTTGTTAAAATTTA-AAAATTTTAAAAATAAAATTTTATCATTCATTATGTTT
21990468 TTTATCTT
65 TTTATCTT
* *
21990476 AACAATATGATTTTTGTTAAAATTTAAAAATTTTAAAAATAAAATTTTAAT-ATTCATTACG-TT
1 AAAAATATGATTTTTGTTAAAATTTAAAAATTTTAAAAATAAAATTTT-ATCATTCATTATGTTT
21990539 TTTAT-TT
65 TTTATCTT
* * * *** * *
21990546 AAAAAATATGGTTTATATTAAAATTTTGGAATTTTAAAAATAAAA-TTTAACATTTATTACT-TT
1 -AAAAATATGATTTTTGTTAAAATTTAAAAATTTTAAAAATAAAATTTTATCATTCATTA-TGTT
*
21990609 TTTAATCTT
64 TTTTATCTT
* *
21990618 AAAAACATAATTTTTGTTAAAATTCT-AAAATTTT
1 AAAAATATGATTTTTGTTAAAATT-TAAAAATTTT
21990652 GACATTTATT
Statistics
Matches: 143, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
69 1 0.01
70 12 0.08
71 75 0.52
72 50 0.35
73 5 0.03
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (72 bp):
AAAAATATGATTTTTGTTAAAATTTAAAAATTTTAAAAATAAAATTTTATCATTCATTATGTTTT
TTATCTT
Found at i:21990568 original size:71 final size:72
Alignment explanation
Indices: 21990356--21990651 Score: 223
Period size: 71 Copynumber: 4.1 Consensus size: 72
21990346 TCTTAAAAAC
* * * * ** * * * *
21990356 AAAAATTTTAAAGATAAAGTTTTAAAATCCACAACATTTGTTATATTAAAAAATTTGATATT-TG
1 AAAAATTTTAAAAATAAAATTTTAATATTCATTACGTTT-TTATCTTAAAAAATATGAT-TTATA
*
21990420 CTAAAA-TT
64 TTAAAATTT
* * * * *
21990428 ATAAAATTTCAAAAATAAAATTTT-ATCGTTCATTATGTTTTTTATCTT-AACAATATGATTTTT
1 A-AAAATTTTAAAAATAAAATTTTAAT-ATTCATTACG-TTTTTATCTTAAAAAATATGATTTAT
*
21990491 GTTAAAATTT
63 ATTAAAATTT
*
21990501 AAAAATTTTAAAAATAAAATTTTAATATTCATTACGTTTTTAT-TTAAAAAATATGGTTTATATT
1 AAAAATTTTAAAAATAAAATTTTAATATTCATTACGTTTTTATCTTAAAAAATATGATTTATATT
21990565 AAAATTT
66 AAAATTT
*** * * * * *
21990572 TGGAATTTTAAAAATAAAA-TTTAACATTTATTACTTTTTTAATCTTAAAAACATA--ATTTTTG
1 AAAAATTTTAAAAATAAAATTTTAATATTCATTACGTTTTT-ATCTTAAAAA-ATATGATTTATA
21990634 TTAAAATTCT
64 TTAAAATT-T
21990644 -AAAATTTT
1 AAAAATTTT
21990652 GACATTTATT
Statistics
Matches: 181, Mismatches: 32, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
70 20 0.11
71 66 0.36
72 55 0.30
73 37 0.20
74 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (72 bp):
AAAAATTTTAAAAATAAAATTTTAATATTCATTACGTTTTTATCTTAAAAAATATGATTTATATT
AAAATTT
Found at i:21990662 original size:58 final size:58
Alignment explanation
Indices: 21990586--21990711 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 58
21990576 ATTTTAAAAA
*
21990586 TAAAA-TTTAACATTTATTAC-TTTTTTAATCTTAAAAACATAATTTTTGTTAAAATTC
1 TAAAATTTTAACATTTATTACATTTTTT-ATCTTAAAAACATAATTTTTATTAAAATTC
* * * *
21990643 TAAAATTTTGACATTTATTACATTTTTTATCTTAAAAATATGATTTTTATTAAAATTT
1 TAAAATTTTAACATTTATTACATTTTTTATCTTAAAAACATAATTTTTATTAAAATTC
21990701 TAAAATTTTAA
1 TAAAATTTTAA
21990712 AAATATAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
57 5 0.08
58 50 0.82
59 6 0.10
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (58 bp):
TAAAATTTTAACATTTATTACATTTTTTATCTTAAAAACATAATTTTTATTAAAATTC
Found at i:21990768 original size:16 final size:16
Alignment explanation
Indices: 21990749--21990809 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
21990739 CACAATTAAT
21990749 ATTTAAAATAATTTTA
1 ATTTAAAATAATTTTA
*
21990765 ATTTCAAATAA-TTTA
1 ATTTAAAATAATTTTA
***
21990780 ATATTATTGT-ATTTTA
1 AT-TTAAAATAATTTTA
*
21990796 ATTTCAAATAATTT
1 ATTTAAAATAATTT
21990810 AATACTATTT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
15 10 0.30
16 23 0.70
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTAAAATAATTTTA
Found at i:21990797 original size:31 final size:31
Alignment explanation
Indices: 21990759--21990818 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
21990749 ATTTAAAATA
*
21990759 ATTTTAATTTCAAATAATTTAATATTATTGT
1 ATTTTAATTTCAAATAATTTAATACTATTGT
21990790 ATTTTAATTTCAAATAATTTAATACTATT
1 ATTTTAATTTCAAATAATTTAATACTATT
21990819 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTTAATTTCAAATAATTTAATACTATTGT
Found at i:21994679 original size:2 final size:2
Alignment explanation
Indices: 21994672--21994712 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
21994662 GTCCCGCCCT
*
21994672 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TA TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21994713 AAAAGAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:21995624 original size:77 final size:77
Alignment explanation
Indices: 21995486--21995634 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 77
21995476 CATTTAATAT
* * * ** * *
21995486 TTTTTTGGTTGTCATTGCAAACCATCTAAAGACCTAGGTTTGACTCACCAAATATGCAAGATTAT
1 TTTTTTGGTTGTCATTGCAAACAATCTAAAGACCGAGATTCAACTCACCAAACATGAAAGATTAT
21995551 TATTATTATTAA
66 TATTATTATTAA
* * **
21995563 TTTTTTGGTTGTCATTGTAAACAATCTAAAGACCGAGATTCAACTCATCTGACATGAAAGATTAT
1 TTTTTTGGTTGTCATTGCAAACAATCTAAAGACCGAGATTCAACTCACCAAACATGAAAGATTAT
21995628 TATTATT
66 TATTATT
21995635 TTTTTGGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (77 bp):
TTTTTTGGTTGTCATTGCAAACAATCTAAAGACCGAGATTCAACTCACCAAACATGAAAGATTAT
TATTATTATTAA
Found at i:21995879 original size:15 final size:15
Alignment explanation
Indices: 21995859--21995888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21995849 AACTGTTATT
*
21995859 TTTATTTTTTATTTA
1 TTTATTTTATATTTA
21995874 TTTATTTTATATTTA
1 TTTATTTTATATTTA
21995889 AGGCTGCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTATATTTA
Found at i:22002186 original size:2 final size:2
Alignment explanation
Indices: 22002179--22002207 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22002169 TTTCTTAGAT
22002179 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22002208 TTTTTTTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22005900 original size:22 final size:22
Alignment explanation
Indices: 22005874--22005919 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
22005864 GCTGATTTTA
* * *
22005874 TTTGATTAATTATCAAATTAAT
1 TTTGATCAATTACCAAAATAAT
22005896 TTTGATCAATTACCAAAATAAT
1 TTTGATCAATTACCAAAATAAT
22005918 TT
1 TT
22005920 CGAAGAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (22 bp):
TTTGATCAATTACCAAAATAAT
Found at i:22006147 original size:21 final size:20
Alignment explanation
Indices: 22006122--22006186 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
22006112 TTTTCATCTC
*
22006122 AATTCATATTATCTTTCTAGA
1 AATTCATATTCTCTTTCTA-A
*
22006143 AATTCATATTCTCTCTCTAAA
1 AATTCATATTCTCTTTCT-AA
22006164 AATTCAT-TATCTCTTTCTAA
1 AATTCATAT-TCTCTTTCTAA
22006184 AAT
1 AAT
22006187 CAAACCAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 6 0.15
21 32 0.82
22 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTCATATTCTCTTTCTAA
Found at i:22007954 original size:19 final size:19
Alignment explanation
Indices: 22007918--22007956 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22007908 CTAATATATT
* *
22007918 AAAAATAATTTTTCAATAG
1 AAAAAGAATTTATCAATAG
*
22007937 AAAAAGAATTTATGAATAG
1 AAAAAGAATTTATCAATAG
22007956 A
1 A
22007957 TTAATAAATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAAAGAATTTATCAATAG
Found at i:22029395 original size:12 final size:12
Alignment explanation
Indices: 22029378--22029403 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22029368 TAAGTGTTGG
22029378 CTGTTGCTGATT
1 CTGTTGCTGATT
22029390 CTGTTGCTGATT
1 CTGTTGCTGATT
22029402 CT
1 CT
22029404 CATTGCAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.19, G:0.23, T:0.50
Consensus pattern (12 bp):
CTGTTGCTGATT
Found at i:22030705 original size:2 final size:2
Alignment explanation
Indices: 22030700--22030747 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
22030690 CTCCACTCAC
22030700 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22030742 CT CT CT
1 CT CT CT
22030748 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:22030906 original size:3 final size:3
Alignment explanation
Indices: 22030898--22030933 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22030888 GTCCATTCCG
22030898 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22030934 GAATTTAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22033043 original size:26 final size:25
Alignment explanation
Indices: 22032995--22033044 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
22032985 AAAATTTAAA
*
22032995 AAATTTATTAAATAATAATATTGAC
1 AAATTTATTAAATAATAAAATTGAC
* *
22033020 AAATATTATTTAATATTAAAATTGA
1 AAAT-TTATTAAATAATAAAATTGA
22033045 TTATATATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATTTATTAAATAATAAAATTGAC
Found at i:22033367 original size:16 final size:16
Alignment explanation
Indices: 22033346--22033385 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
22033336 ATGTTATAGC
*
22033346 TATATATATAATTAAT
1 TATATATAAAATTAAT
*
22033362 TATATATAAAATTACT
1 TATATATAAAATTAAT
22033378 T-TATATAA
1 TATATATAA
22033386 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATAAAATTAAT
Found at i:22033678 original size:25 final size:22
Alignment explanation
Indices: 22033620--22033666 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22033610 CTAGGAAGCT
22033620 TTTAAATA-TATCAAAAAATTTTC
1 TTTAAATACT-TC-AAAAATTTTC
*
22033643 TTTATATACTTCAAAAATTTTC
1 TTTAAATACTTCAAAAATTTTC
22033665 TT
1 TT
22033667 CTAAGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 12 0.55
23 9 0.41
24 1 0.05
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAAATACTTCAAAAATTTTC
Found at i:22033905 original size:34 final size:34
Alignment explanation
Indices: 22033846--22033915 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
22033836 TGGGTATTCA
*
22033846 AAGAATTATATTGCATTCTTCAAAATGAATTTTC
1 AAGAATTATATTGCATTCTTCAAAATCAATTTTC
* * *
22033880 AAGAGTTATATTGTATTC-TCAAAAATCTATTTTC
1 AAGAATTATATTGCATTCTTC-AAAATCAATTTTC
22033914 AA
1 AA
22033916 AAATACATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (34 bp):
AAGAATTATATTGCATTCTTCAAAATCAATTTTC
Found at i:22037062 original size:7 final size:7
Alignment explanation
Indices: 22037052--22037087 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
22037042 TGTTTTTTTT
22037052 TTTTATA
1 TTTTATA
22037059 TTTTATA
1 TTTTATA
22037066 TTTTATA
1 TTTTATA
22037073 -TTT-T-
1 TTTTATA
22037077 TTTTATA
1 TTTTATA
22037084 TTTT
1 TTTT
22037088 GTACTTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
5 4 0.15
6 4 0.15
7 18 0.69
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTATA
Found at i:22037559 original size:35 final size:34
Alignment explanation
Indices: 22037504--22037577 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 34
22037494 TTATTTTTCA
*
22037504 TGAAAAATCTTTTATTAAAAA-ATTTTTTCTAAGTGTT
1 TGAAAAA-CTTTTATGAAAAATA-TTTTTCT--GTGTT
22037541 TGAAAAA-TTTTATGAAAAATATTTTTCTGTGTT
1 TGAAAAACTTTTATGAAAAATATTTTTCTGTGTT
22037574 TGAA
1 TGAA
22037578 TGAGTATAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 9 0.26
35 18 0.51
36 1 0.03
37 7 0.20
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (34 bp):
TGAAAAACTTTTATGAAAAATATTTTTCTGTGTT
Found at i:22038087 original size:24 final size:25
Alignment explanation
Indices: 22038033--22038096 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
22038023 ACATAGAACG
*
22038033 TAATAGATAGATAACCCATGATAACA
1 TAATAGATAGATAACCCA-CATAACA
22038059 TAATAGATAGATAACCTC-CA-AACA
1 TAATAGATAGATAACC-CACATAACA
22038083 TAATAGATAGATAA
1 TAATAGATAGATAA
22038097 ATAATCCATG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 18 0.50
25 1 0.03
26 16 0.44
27 1 0.03
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (25 bp):
TAATAGATAGATAACCCACATAACA
Found at i:22042830 original size:23 final size:23
Alignment explanation
Indices: 22042803--22042848 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22042793 ATGGCTTCTC
* *
22042803 AAAGATATTTCATTCTTTAGGTT
1 AAAGATATTTCACTCTTCAGGTT
22042826 AAAGATATTTCACTCTTCAGGTT
1 AAAGATATTTCACTCTTCAGGTT
22042849 GAGTTTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
AAAGATATTTCACTCTTCAGGTT
Found at i:22043624 original size:26 final size:26
Alignment explanation
Indices: 22043593--22043644 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
22043583 AATTCATTAG
*
22043593 CTCGACCATTACTGTGGCACATCATT
1 CTCGACCATTAATGTGGCACATCATT
22043619 CTCGACCATTAATGTGGCACATCATT
1 CTCGACCATTAATGTGGCACATCATT
22043645 TTAGATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (26 bp):
CTCGACCATTAATGTGGCACATCATT
Found at i:22050835 original size:30 final size:30
Alignment explanation
Indices: 22050794--22050851 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
22050784 ATTCAAACAC
*
22050794 ATAAAATTATATTACTAGA-CACACGATTGG
1 ATAAAACTATATTACTA-ACCACACGATTGG
*
22050824 ATAAAACTATATTCCTAACCACACGATT
1 ATAAAACTATATTACTAACCACACGATT
22050852 AAATACTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (30 bp):
ATAAAACTATATTACTAACCACACGATTGG
Found at i:22051701 original size:73 final size:72
Alignment explanation
Indices: 22051606--22051741 Score: 218
Period size: 73 Copynumber: 1.9 Consensus size: 72
22051596 ATAACGTTTG
* * * *
22051606 TAAGATAAAAATGTAATTTTTATTGAAAATATGAAAAAAATATTTTTTAAAATTTAATAAAGATG
1 TAAGATAAAAATGTAATTTTTATTAAAAATATGAAAAAAATATTTTTCAAAATTCAACAAAGATG
22051671 ATATTTT
66 ATATTTT
*
22051678 TAAGATAAAAAATGTAATTTTTATTAAAAATATGAAAAGAATATTTTTCAAAATTCAACAAAGA
1 TAAGAT-AAAAATGTAATTTTTATTAAAAATATGAAAAAAATATTTTTCAAAATTCAACAAAGA
22051742 CGGTGCTTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 6 0.10
73 52 0.90
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (72 bp):
TAAGATAAAAATGTAATTTTTATTAAAAATATGAAAAAAATATTTTTCAAAATTCAACAAAGATG
ATATTTT
Found at i:22051762 original size:73 final size:73
Alignment explanation
Indices: 22051612--22051761 Score: 203
Period size: 73 Copynumber: 2.1 Consensus size: 73
22051602 TTTGTAAGAT
* * * * * **
22051612 AAAAATGTAATTTTTATTGAAAATATGAAAAAAATATTTTTTAAAATTTAATAAAGATGATATTT
1 AAAAATGTAATTTTTATTAAAAATATGAAAAAAATATTTTTCAAAATTCAACAAAGACGATAGCT
*
22051677 TTAAGATA
66 TTAAAATA
* *
22051685 AAAAATGTAATTTTTATTAAAAATATGAAAAGAATATTTTTCAAAATTCAACAAAGACGGT-GCT
1 AAAAATGTAATTTTTATTAAAAATATGAAAAAAATATTTTTCAAAATTCAACAAAGACGATAGCT
22051749 TTAAAATA
66 TTAAAATA
22051757 AAAAA
1 AAAAA
22051762 ACATTGTCTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 13 0.19
73 54 0.81
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (73 bp):
AAAAATGTAATTTTTATTAAAAATATGAAAAAAATATTTTTCAAAATTCAACAAAGACGATAGCT
TTAAAATA
Found at i:22051763 original size:186 final size:185
Alignment explanation
Indices: 22051398--22051807 Score: 441
Period size: 186 Copynumber: 2.2 Consensus size: 185
22051388 ACACATAGTG
* * *
22051398 TTTGTTGAAAAGACAATGTTTCTAAGATAAAAATATAATCTTTTATTTAAAAAATGAAAAATATA
1 TTTGTTGAAAAGACAACGTTT-TAAGATAAAAATATAATCTTTTATTGAAAAAATGAAAAAAATA
*
22051463 TTTTTCAAAATTAAATAAAAATAACAAATTTAAGATAAAAATGCAGTTTTTATTGAAAAACATAA
65 TTTTTCAAAATTAAATAAAAATAACAAATTTAAGATAAAAATGCAATTTTTATTGAAAAACATAA
* * * * * *
22051528 AATACAAAATTTTAGAATTTAATAAAGAAGACATTTCTAAGATAAAAAACATGGTA
130 AAGACAAAATTTTAAAATTCAACAAAGAAGACACTTCTAAAATAAAAAACATGGTA
* * *
22051584 TTTGTTGAAAAGATAACGTTTGTAAGATAAAAATGTAAT-TTTTATTGAAAATATGAAAAAAATA
1 TTTGTTGAAAAGACAACGTTT-TAAGATAAAAATATAATCTTTTATTGAAAAAATGAAAAAAATA
* * * * * ** * *
22051648 TTTTTTAAAATTTAATAAAGATGATATTTTTAAGATAAAAAATGTAATTTTTATT-AAAAATATG
65 TTTTTCAAAATTAAATAAAAATAACAAATTTAAGAT-AAAAATGCAATTTTTATTGAAAAACAT-
* * * *** * *
22051712 AAAAGA-ATATTTTTCAAAATTCAACAAAGACGGTGCTT-TAAAATAAAAAAACATTGTC
128 AAAAGACAAAATTTT-AAAATTCAACAAAGAAGACACTTCTAAAAT-AAAAAACATGGTA
* *
22051770 TTTGTTGAAAAGACAACGATTTTAAAATAAAAACATAA
1 TTTGTTGAAAAGACAACG-TTTTAAGATAAAAATATAA
22051808 AATTTGTTAA
Statistics
Matches: 184, Mismatches: 35, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
185 69 0.38
186 112 0.61
187 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.34
Consensus pattern (185 bp):
TTTGTTGAAAAGACAACGTTTTAAGATAAAAATATAATCTTTTATTGAAAAAATGAAAAAAATAT
TTTTCAAAATTAAATAAAAATAACAAATTTAAGATAAAAATGCAATTTTTATTGAAAAACATAAA
AGACAAAATTTTAAAATTCAACAAAGAAGACACTTCTAAAATAAAAAACATGGTA
Found at i:22053684 original size:18 final size:18
Alignment explanation
Indices: 22053658--22053692 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22053648 TATTTTTTTA
*
22053658 AAGTCTAAAATCTTATAG
1 AAGTATAAAATCTTATAG
*
22053676 AAGTATAAAATTTTATA
1 AAGTATAAAATCTTATA
22053693 TATTTTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATAAAATCTTATAG
Found at i:22054416 original size:22 final size:22
Alignment explanation
Indices: 22054366--22054417 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
22054356 ATTTTTTATA
** *
22054366 AATTAAAAAATTTATTGAATAT
1 AATTAAAAAATTTATAAAAAAT
*
22054388 AATTTAAAAATTTTATAAAAAAT
1 AA-TTAAAAAATTTATAAAAAAT
22054411 AATTAAA
1 AATTAAA
22054418 TGGTATCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATTAAAAAATTTATAAAAAAT
Found at i:22062558 original size:18 final size:18
Alignment explanation
Indices: 22062535--22062570 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22062525 TATATAATTT
* *
22062535 TTCTTTTTTTTTTTTCTC
1 TTCTTTTCTTTTCTTCTC
22062553 TTCTTTTCTTTTCTTCTC
1 TTCTTTTCTTTTCTTCTC
22062571 CTGCCAACCA
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTCTTTTCTTTTCTTCTC
Found at i:22062828 original size:12 final size:13
Alignment explanation
Indices: 22062803--22062836 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
22062793 GAAAAGGAAT
22062803 GAGGAAAAACAAA
1 GAGGAAAAACAAA
22062816 GAGGAAAAA-AAA
1 GAGGAAAAACAAA
22062828 GAGGAAAAA
1 GAGGAAAAA
22062837 GGAATGACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (13 bp):
GAGGAAAAACAAA
Found at i:22063503 original size:130 final size:130
Alignment explanation
Indices: 22063270--22063528 Score: 475
Period size: 130 Copynumber: 2.0 Consensus size: 130
22063260 TGTTAATGGA
*
22063270 TTCAAAAATCAATGTTTCATTGGAGACAATTATTCACAAATTATTCAGATTTCAATAATTAAATG
1 TTCAAAAATCAATGTTTCATTAGAGACAATTATTCACAAATTATTCAGATTTCAATAATTAAATG
22063335 AATTTTTAGATTCAAATAAGGAAGTATGGTAAATAAATAATTTGAATGGTCATGGATACAGATTG
66 AATTTTTAGATTCAAATAAGGAAGTATGGTAAATAAATAATTTGAATGGTCATGGATACAGATTG
22063400 TTCAAAAATCAATGTTTCATTAGAGACAATTATTCACAAATTATTCAGATTTCAATAATTAAATG
1 TTCAAAAATCAATGTTTCATTAGAGACAATTATTCACAAATTATTCAGATTTCAATAATTAAATG
**
22063465 AATTTTTAGATTCAAATAAGGAAGTATGGGT-GGTAAATAATTTGAATGGTCATGGATACAGATT
66 AATTTTTAGATTCAAATAAGGAAGTAT-GGTAAATAAATAATTTGAATGGTCATGGATACAGATT
22063529 CGTATTCAAG
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
130 122 0.98
131 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (130 bp):
TTCAAAAATCAATGTTTCATTAGAGACAATTATTCACAAATTATTCAGATTTCAATAATTAAATG
AATTTTTAGATTCAAATAAGGAAGTATGGTAAATAAATAATTTGAATGGTCATGGATACAGATTG
Found at i:22063647 original size:30 final size:31
Alignment explanation
Indices: 22063611--22063669 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
22063601 ATCACTTTCA
22063611 CTCTAGTGC-AGGTCTAGATTCAGAAATACG
1 CTCTAGTGCAAGGTCTAGATTCAGAAATACG
22063641 CTCTAGTGCAAGGTCTAGATTCAGAAATA
1 CTCTAGTGCAAGGTCTAGATTCAGAAATA
22063670 ACCTTAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
CTCTAGTGCAAGGTCTAGATTCAGAAATACG
Found at i:22063708 original size:30 final size:30
Alignment explanation
Indices: 22063672--22063731 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
22063662 CAGAAATAAC
*
22063672 CTTAAAGAGGCTAAGTATAATGCTGGCATG
1 CTTAAAGAGGCTAAGTATAATGCTAGCATG
22063702 CTTAAAGAGGCTAAGTATAATGCTAGCATG
1 CTTAAAGAGGCTAAGTATAATGCTAGCATG
22063732 TAATACCAAT
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:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (30 bp):
CTTAAAGAGGCTAAGTATAATGCTAGCATG
Found at i:22069715 original size:2 final size:2
Alignment explanation
Indices: 22069708--22069749 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
22069698 ATTGAAAAAT
22069708 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
22069750 GATTGATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22070003 original size:24 final size:24
Alignment explanation
Indices: 22069971--22070026 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
22069961 ATAAATTTCT
*
22069971 TAAAT-TTTATTACTT-TATTTATG
1 TAAATCTTTA-TACTTGTATTTATA
* *
22069994 TAAGTCTTTATATTTGTATTTATA
1 TAAATCTTTATACTTGTATTTATA
22070018 TAAATCTTT
1 TAAATCTTT
22070027 TATATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (24 bp):
TAAATCTTTATACTTGTATTTATA
Found at i:22070038 original size:25 final size:24
Alignment explanation
Indices: 22069984--22070038 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
22069974 ATTTTATTAC
* *
22069984 TTTATTTATGTAAGTCTTTATATT
1 TTTATTTATATAAATCTTTATATT
*
22070008 TGTATTTATATAAATCTTTTATATT
1 TTTATTTATATAAATC-TTTATATT
22070033 TTTATT
1 TTTATT
22070039 GTACTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (24 bp):
TTTATTTATATAAATCTTTATATT
Found at i:22071596 original size:17 final size:17
Alignment explanation
Indices: 22071570--22071604 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22071560 GCCATGTATA
*
22071570 TATACGTGTATAAAACT
1 TATACATGTATAAAACT
22071587 TATACATGTATAAAACT
1 TATACATGTATAAAACT
22071604 T
1 T
22071605 GGTCAGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (17 bp):
TATACATGTATAAAACT
Found at i:22076592 original size:11 final size:12
Alignment explanation
Indices: 22076577--22076617 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
22076567 GTATTTAATT
22076577 TTTTTAGTTTAA
1 TTTTTAGTTTAA
*
22076589 TTTTTGGTTTAA
1 TTTTTAGTTTAA
22076601 TTTTT-GTTT--
1 TTTTTAGTTTAA
22076610 TTTTTAGT
1 TTTTTAGT
22076618 AAAAAAAGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 5 0.19
10 2 0.07
11 4 0.15
12 16 0.59
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (12 bp):
TTTTTAGTTTAA
Found at i:22077231 original size:17 final size:17
Alignment explanation
Indices: 22077203--22077238 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
22077193 CTTATTTTTA
22077203 TATTTATTGCATGATATT
1 TATTTATTGCATGA-ATT
22077221 TATTT-TTGCATGAATT
1 TATTTATTGCATGAATT
22077237 TA
1 TA
22077239 CATGACTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.56
Consensus pattern (17 bp):
TATTTATTGCATGAATT
Found at i:22077260 original size:20 final size:18
Alignment explanation
Indices: 22077235--22077271 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22077225 TTTGCATGAA
22077235 TTTACATGACTAATATTATC
1 TTTACATGA-TAAT-TTATC
22077255 TTTACATGATAATTTAT
1 TTTACATGATAATTTAT
22077272 TTGGCTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (18 bp):
TTTACATGATAATTTATC
Found at i:22077362 original size:20 final size:20
Alignment explanation
Indices: 22077306--22077416 Score: 58
Period size: 20 Copynumber: 5.6 Consensus size: 20
22077296 TAATTATGTA
*
22077306 ATTTGATTGCATGATTATTAAT
1 ATTTAATTGCATGATTA-T-AT
* *
22077328 ATATGTATTTACATGATTATAT
1 AT-T-TAATTGCATGATTATAT
22077350 ATTTAATTGCATG--T-T-T
1 ATTTAATTGCATGATTATAT
*
22077366 A--T--TTGCATGGTTTATAT
1 ATTTAATTGCAT-GATTATAT
*
22077383 ATTATTATTTGCATGATTATAT
1 A-T-TTAATTGCATGATTATAT
22077405 ATTTAATTGCAT
1 ATTTAATTGCAT
22077417 TTTTATTTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 28
0.66 0.07 0.27
Matches are distributed among these distances:
12 6 0.09
13 1 0.01
14 1 0.01
15 1 0.01
16 3 0.04
17 3 0.04
18 1 0.01
20 17 0.25
21 3 0.04
22 14 0.20
23 8 0.12
24 11 0.16
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTAATTGCATGATTATAT
Found at i:22077398 original size:55 final size:55
Alignment explanation
Indices: 22077333--22077493 Score: 245
Period size: 55 Copynumber: 3.0 Consensus size: 55
22077323 TTAATATATG
*
22077333 TATTTACATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTAT
1 TATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTAT
* * *
22077388 TATTTGCATGATTATATATTTAATTGCATTTTTATTTGCATGGTTTGTATATTTT
1 TATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTAT
** *
22077443 TATTTGTGTGATTATATCTTTAATTGCATGTTTA-TTGCAT-GTTTATATATT
1 TATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATT
22077494 TAATTGCATA
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 10 0.10
54 6 0.06
55 81 0.84
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (55 bp):
TATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGGTTTATATATTAT
Found at i:22077405 original size:22 final size:23
Alignment explanation
Indices: 22077364--22077407 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
22077354 AATTGCATGT
*
22077364 TTATTTGCATGGTTTATATATTA
1 TTATTTGCATGGATTATATATTA
22077387 TTATTTGCAT-GATTATATATT
1 TTATTTGCATGGATTATATATT
22077408 TAATTGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (23 bp):
TTATTTGCATGGATTATATATTA
Found at i:22077422 original size:20 final size:22
Alignment explanation
Indices: 22077368--22077422 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
22077358 GCATGTTTAT
*
22077368 TTGCATGGTTTATATATTATTAT
1 TTGCAT-GTTTATATATTATTAA
*
22077391 TTGCATGATTATATA-T-TTAA
1 TTGCATGTTTATATATTATTAA
*
22077411 TTGCATTTTTAT
1 TTGCATGTTTAT
22077423 TTGCATGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.46
21 1 0.04
22 8 0.29
23 6 0.21
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.56
Consensus pattern (22 bp):
TTGCATGTTTATATATTATTAA
Found at i:22077632 original size:17 final size:16
Alignment explanation
Indices: 22077587--22077647 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
22077577 TTATTTATTA
22077587 TTATTGCATGATTTTATAT
1 TTATTGCATGA---TATAT
*
22077606 TTATTACATGATATAT
1 TTATTGCATGATATAT
22077622 GTTATTGCATGATAT-T
1 -TTATTGCATGATATAT
*
22077638 TGATTGCATG
1 TTATTGCATG
22077648 TTTCTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
15 9 0.24
16 6 0.16
17 13 0.34
19 10 0.26
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (16 bp):
TTATTGCATGATATAT
Found at i:22077692 original size:14 final size:14
Alignment explanation
Indices: 22077675--22077701 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22077665 TGCATAATTG
22077675 TGTGATTATATTTA
1 TGTGATTATATTTA
22077689 TGTGATTATATTT
1 TGTGATTATATTT
22077702 GGTTGCATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TGTGATTATATTTA
Found at i:22077797 original size:18 final size:18
Alignment explanation
Indices: 22077776--22077824 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
22077766 ACATTATTTA
22077776 ATATTATTGCATGATAAT
1 ATATTATTGCATGATAAT
*
22077794 ATA-T-TTGCATGATATT
1 ATATTATTGCATGATAAT
* *
22077810 ATATAATTACATGAT
1 ATATTATTGCATGAT
22077825 TGTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 14 0.54
17 1 0.04
18 11 0.42
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (18 bp):
ATATTATTGCATGATAAT
Found at i:22080145 original size:14 final size:14
Alignment explanation
Indices: 22080126--22080164 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
22080116 TTGAGTTGTC
22080126 AAAAAGGAAAGAAA-
1 AAAAAGGAAA-AAAT
22080140 AAAAAGGAAAAAAT
1 AAAAAGGAAAAAAT
22080154 AAAAA-GAAAAA
1 AAAAAGGAAAAA
22080165 TAAGAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (14 bp):
AAAAAGGAAAAAAT
Found at i:22080539 original size:22 final size:22
Alignment explanation
Indices: 22080508--22080556 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
22080498 TGAAAATTAC
22080508 GAAAACAAGAAA-AGAAAGAAATA
1 GAAAACAAGAAATAG-AAGAAA-A
22080531 GAAAA-AAGAAATAGAAGAAAA
1 GAAAACAAGAAATAGAAGAAAA
22080552 GAAAA
1 GAAAA
22080557 TTGAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 12 0.48
23 7 0.28
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (22 bp):
GAAAACAAGAAATAGAAGAAAA
Found at i:22080553 original size:14 final size:13
Alignment explanation
Indices: 22080522--22080596 Score: 71
Period size: 13 Copynumber: 5.5 Consensus size: 13
22080512 ACAAGAAAAG
22080522 AAAGAAATAGAAA
1 AAAGAAATAGAAA
22080535 AAAGAAATAGAAGA
1 AAAGAAATAGAA-A
*
22080549 AAAGAAAATTGAAA
1 AAAG-AAATAGAAA
*
22080563 AATGATAAT-GAAA
1 AAAGA-AATAGAAA
* *
22080576 AATGAAAAAAGAAA
1 AAAG-AAATAGAAA
22080590 AAAGAAA
1 AAAGAAA
22080597 GATGGAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 26 0.49
14 20 0.38
15 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (13 bp):
AAAGAAATAGAAA
Found at i:22080579 original size:7 final size:7
Alignment explanation
Indices: 22080548--22080607 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
22080538 GAAATAGAAG
22080548 AAAA-GA
1 AAAATGA
*
22080554 AAATTGA
1 AAAATGA
22080561 AAAATG-
1 AAAATGA
*
22080567 ATAATGA
1 AAAATGA
22080574 AAAATGA
1 AAAATGA
*
22080581 AAAAAGA
1 AAAATGA
*
22080588 AAAAAGA
1 AAAATGA
* *
22080595 AAGATGG
1 AAAATGA
22080602 AAAATG
1 AAAATG
22080608 TGAAAAGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
6 8 0.19
7 35 0.81
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (7 bp):
AAAATGA
Found at i:22080859 original size:8 final size:8
Alignment explanation
Indices: 22080846--22080883 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
22080836 TATCTTAGTC
22080846 AAAAAGAA
1 AAAAAGAA
22080854 AAAAAGAA
1 AAAAAGAA
22080862 AAAAA-AA
1 AAAAAGAA
22080869 GAAAAAGGAA
1 -AAAAA-GAA
22080879 AAAAA
1 AAAAA
22080884 TTGAATGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 2 0.07
8 18 0.67
9 5 0.19
10 2 0.07
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:22080873 original size:17 final size:18
Alignment explanation
Indices: 22080846--22080883 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
22080836 TATCTTAGTC
22080846 AAAAAGAAAAAAAGAAAA
1 AAAAAGAAAAAAAGAAAA
*
22080864 AAAAAG-AAAAAGGAAAA
1 AAAAAGAAAAAAAGAAAA
22080881 AAA
1 AAA
22080884 TTGAATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAAA
Found at i:22082215 original size:36 final size:36
Alignment explanation
Indices: 22082135--22082235 Score: 114
Period size: 36 Copynumber: 2.8 Consensus size: 36
22082125 CTTTAATGCA
* *
22082135 AATCTCTAAGATTTTTTAATGTGAATTTTGAATATG
1 AATCTCTAAGATTTTTTAATGTAAATCTTGAATATG
* *
22082171 AATCTCTAAAATTTTTTAATGTAAATCTTGAATGT-
1 AATCTCTAAGATTTTTTAATGTAAATCTTGAATATG
* * * *
22082206 TAGCTTCTAAGATGTTTAAATGTAAATCTT
1 AATC-TCTAAGATTTTTTAATGTAAATCTT
22082236 AAGGGTAAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 2 0.04
36 53 0.96
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (36 bp):
AATCTCTAAGATTTTTTAATGTAAATCTTGAATATG
Found at i:22082353 original size:17 final size:17
Alignment explanation
Indices: 22082331--22082387 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
22082321 TTTTAGAATT
*
22082331 ATTTTGGGCTTTTGTGA
1 ATTTTGGGCCTTTGTGA
*
22082348 ATTTTGGGACCTTTGAGA
1 ATTTTGGG-CCTTTGTGA
* * *
22082366 ATCTTGGACCTTTATGA
1 ATTTTGGGCCTTTGTGA
22082383 ATTTT
1 ATTTT
22082388 TGAACTTTGG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (17 bp):
ATTTTGGGCCTTTGTGA
Found at i:22082908 original size:44 final size:42
Alignment explanation
Indices: 22082799--22082971 Score: 181
Period size: 42 Copynumber: 4.1 Consensus size: 42
22082789 GATATCTCAT
* ** *
22082799 TTTATTTTTTCAAAATTTTAAAGCCTCAGGTGT-GAGGAACAA
1 TTTATTTTTTCAAAATTTCAAAGCCTCAATTGTGGAGGAGC-A
* * *
22082841 TTTATTTTTCCAAAATTTCAAAGCTTCAGTTGTGGAGGAGCA
1 TTTATTTTTTCAAAATTTCAAAGCCTCAATTGTGGAGGAGCA
*
22082883 TTGTATTTTTTCAAAAGTTGCAAAGCCTCAATTGTGG-GAGAGCA
1 TT-TATTTTTTCAAAA-TTTCAAAGCCTCAATTGTGGAG-GAGCA
* * *
22082927 TTTA-TTTTTCAAAAGTTTCAAAGCTTTAATTGTGGGGGAGCA
1 TTTATTTTTTCAAAA-TTTCAAAGCCTCAATTGTGGAGGAGCA
22082969 TTT
1 TTT
22082972 TGTTTTTTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
42 68 0.60
43 22 0.19
44 24 0.21
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (42 bp):
TTTATTTTTTCAAAATTTCAAAGCCTCAATTGTGGAGGAGCA
Found at i:22082930 original size:86 final size:85
Alignment explanation
Indices: 22082796--22082979 Score: 230
Period size: 86 Copynumber: 2.2 Consensus size: 85
22082786 TCAGATATCT
** *
22082796 CATTTTATTTTTTCAAAATTTTAAAGCCTCAGGTGTGAGGAACAATTTATTTTTCCAAAA-TTTC
1 CATTTTATTTTTTCAAAATTGCAAAGCCTCAAGTGTGAGGAACAATTTATTTTT-CAAAAGTTTC
*
22082860 AAAGCTTCAGTTGTGGAGGAG
65 AAAGCTTCAATTGTGGAGGAG
* *
22082881 CATTGTATTTTTTCAAAAGTTGCAAAGCCTCAATTGTG-GGAGAGC-ATTTATTTTTCAAAAGTT
1 CATTTTATTTTTTCAAAA-TTGCAAAGCCTCAAGTGTGAGGA-A-CAATTTATTTTTCAAAAGTT
* *
22082944 TCAAAGCTTTAATTGTGGGGGAG
63 TCAAAGCTTCAATTGTGGAGGAG
*
22082967 CATTTTGTTTTTT
1 CATTTTATTTTTT
22082980 TTTTTTTTTG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
85 25 0.29
86 59 0.69
87 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (85 bp):
CATTTTATTTTTTCAAAATTGCAAAGCCTCAAGTGTGAGGAACAATTTATTTTTCAAAAGTTTCA
AAGCTTCAATTGTGGAGGAG
Found at i:22084006 original size:20 final size:20
Alignment explanation
Indices: 22083983--22084020 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
22083973 ATTTGATTGG
22083983 ATGATTATTAATATATTTGC
1 ATGATTATTAATATATTTGC
22084003 ATGATTATTAATATATTT
1 ATGATTATTAATATATTT
22084021 ATTTGCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.53
Consensus pattern (20 bp):
ATGATTATTAATATATTTGC
Found at i:22084023 original size:24 final size:24
Alignment explanation
Indices: 22083960--22084033 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
22083950 TGTTTTAATG
*
22083960 ATTAATATATTTAATTTG-ATTGGATG
1 ATTAATATATTT-ATTTGCA-T-GATT
* *
22083986 ATTATTA-ATATATTTGCATGATT
1 ATTAATATATTTATTTGCATGATT
22084009 ATTAATATATTTATTTGCATGATT
1 ATTAATATATTTATTTGCATGATT
22084033 A
1 A
22084034 CATGTTTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 9 0.22
24 22 0.54
25 4 0.10
26 6 0.15
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (24 bp):
ATTAATATATTTATTTGCATGATT
Found at i:22084131 original size:54 final size:53
Alignment explanation
Indices: 22083996--22084155 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 53
22083986 ATTATTAATA
* * * *
22083996 TATTTGCAT-GATTATTAATATATTTATTTGCATGATTACATGTTTAATTGCATT
1 TATTTGCATGGTTTA-T-ATATTTTTATTTGCATGATTATATATTTAATTGCATT
* * *
22084050 TTTTTGCATGGTTTATATATTATTATTTGGATGATTATATATTTAATTGCATAT
1 TATTTGCATGGTTTATATATTTTTATTTGCATGATTATATATTTAATTGCAT-T
* **
22084104 TATTTGCATGGTTTATGTATTTTTATTTTTATGATTATATATTTAATTGCAT
1 TATTTGCATGGTTTATATATTTTTATTTGCATGATTATATATTTAATTGCAT
22084156 GTGTAGTTGC
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 31 0.34
54 57 0.62
55 4 0.04
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.56
Consensus pattern (53 bp):
TATTTGCATGGTTTATATATTTTTATTTGCATGATTATATATTTAATTGCATT
Found at i:22084250 original size:18 final size:17
Alignment explanation
Indices: 22084208--22084253 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 17
22084198 ATGTGCATGA
22084208 TTGCATGATTATATTTG
1 TTGCATGATTATATTTG
22084225 -TG--TGATTATATTTGG
1 TTGCATGATTATATTT-G
22084240 TTGCATGATTATAT
1 TTGCATGATTATAT
22084254 ATTTAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 4 0.16
18 9 0.36
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (17 bp):
TTGCATGATTATATTTG
Found at i:22084337 original size:16 final size:15
Alignment explanation
Indices: 22084311--22084380 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 15
22084301 TGCATTATTG
22084311 AATATTATTGCATGAT
1 AATATT-TTGCATGAT
22084327 AATATCTTTGCATGAT
1 AATAT-TTTGCATGAT
*
22084343 ATTATATATTTACATGATT
1 A--ATAT-TTTGCATGA-T
*
22084362 ATTATTATTGCATGAT
1 AATATT-TTGCATGAT
22084378 AAT
1 AAT
22084381 TAATACATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 19 0.43
17 11 0.25
18 12 0.27
19 2 0.05
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
AATATTTTGCATGAT
Found at i:22086871 original size:99 final size:99
Alignment explanation
Indices: 22086690--22086883 Score: 264
Period size: 99 Copynumber: 2.0 Consensus size: 99
22086680 AGCACTACCA
* * * *
22086690 GTACAAAAATGCATCTCTTACGCCTTTAATGATAACTCTACGTTGTGTGTTGCCTTACATGCAAG
1 GTACAAAAATGCATCTCTTACACCCTTAATGATAACTCTACCTGGTGTGTTGCCTTACATGCAAG
*
22086755 CAAAAAGCTGTTAGTGGCAATAAATAGCTTGCTT
66 CAAAAAGCTATTAGTGGCAATAAATAGCTTGCTT
* * * * *
22086789 GTACAAAAATGCATCTCTTTCACCCTTAGTGATAGCTTTACCTGGTGTGTTGCCTTGCATGCAAG
1 GTACAAAAATGCATCTCTTACACCCTTAATGATAACTCTACCTGGTGTGTTGCCTTACATGCAAG
* *
22086854 CAAAACA-CTATTGGTGGCAATTAATAGCTT
66 CAAAA-AGCTATTAGTGGCAATAAATAGCTT
22086884 ATTGAATTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 81 0.99
100 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (99 bp):
GTACAAAAATGCATCTCTTACACCCTTAATGATAACTCTACCTGGTGTGTTGCCTTACATGCAAG
CAAAAAGCTATTAGTGGCAATAAATAGCTTGCTT
Found at i:22091362 original size:32 final size:29
Alignment explanation
Indices: 22091326--22091406 Score: 72
Period size: 32 Copynumber: 2.6 Consensus size: 29
22091316 ATCAATTTTC
22091326 TTTTTTTTTTTATTTTTTAAGTCTTAGGTATA
1 TTTTTTTTTTTATTTTTT---TCTTAGGTATA
* * * *
22091358 TTTTTGTATTTATTTTATTTCTTTGGTGTA
1 TTTTTTTTTTTATTTT-TTTCTTAGGTATA
22091388 TTTATTATTTTTTATTTTT
1 TTT-TT-TTTTTTATTTTT
22091407 AAAAAATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
30 12 0.30
31 3 0.08
32 23 0.57
33 2 0.05
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (29 bp):
TTTTTTTTTTTATTTTTTTCTTAGGTATA
Found at i:22092736 original size:12 final size:12
Alignment explanation
Indices: 22092701--22092744 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
22092691 AATTTTTATC
*
22092701 TTATTTATTTTA
1 TTATTTGTTTTA
22092713 TTTATCTTGTTTTA
1 -TTAT-TTGTTTTA
*
22092727 TTATTTGTTTTG
1 TTATTTGTTTTA
22092739 TTATTT
1 TTATTT
22092745 ATTTAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 13 0.46
13 8 0.29
14 7 0.25
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (12 bp):
TTATTTGTTTTA
Found at i:22093218 original size:217 final size:219
Alignment explanation
Indices: 22092963--22093359 Score: 663
Period size: 218 Copynumber: 1.8 Consensus size: 219
22092953 GTGAGAATTG
22092963 TTTTTTCAAAACTTGGTTAAAATGATAAAAAAGTTTAGATAAAAATTTCAATATCAATAATGGA-
1 TTTTTTCAAAACTTGGTTAAAATGATAAAAAAGTTTAGATAAAAATTTCAATATCAATAATGGAT
* ****
22093027 ATTTATTTTCAAGAAAAAATAAAAATAAGAAAATTTAGAAGTAATTTTGGAATTAGACTTTAAAC
66 ATTTATTATCAAGAAAAAATAAAAATAAGAAAATTTAGAAGTAATTCCAAAATTAGACTTTAAAC
*
22093092 ATTTTCCATAAAATATTTAATGAATTAGATGATAAAGTCTCTTA-AAAAATGATATTTGGTAAAT
131 ATTTTCCATAAAACATTTAATGAATTAGATGATAAAGTCTCTTAGAAAAATGATATTTGGTAAAT
22093156 TTCTATGTGAGAATTGTTTTTTTT
196 TTCTATGTGAGAATTGTTTTTTTT
* * * *
22093180 TTTTTTCTAAATTTGGTTAAAATGATAAAGAAGTTTAGATAAAAATTTCAATATGAATAATGGAT
1 TTTTTTCAAAACTTGGTTAAAATGATAAAAAAGTTTAGATAAAAATTTCAATATCAATAATGGAT
22093245 ATTTATTATCAAGAAAAAATAAAAATAAGAAAATTTAGAAGTAATTCCAAAATTAGACTTTAAAC
66 ATTTATTATCAAGAAAAAATAAAAATAAGAAAATTTAGAAGTAATTCCAAAATTAGACTTTAAAC
* * *
22093310 ATTTTTCATAAAACATTTAATGAATTATATGATAGAGTCTCTTAGAAAAA
131 ATTTTCCATAAAACATTTAATGAATTAGATGATAAAGTCTCTTAGAAAAA
22093360 AAAAGAGATT
Statistics
Matches: 165, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
217 60 0.36
218 100 0.61
219 5 0.03
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.38
Consensus pattern (219 bp):
TTTTTTCAAAACTTGGTTAAAATGATAAAAAAGTTTAGATAAAAATTTCAATATCAATAATGGAT
ATTTATTATCAAGAAAAAATAAAAATAAGAAAATTTAGAAGTAATTCCAAAATTAGACTTTAAAC
ATTTTCCATAAAACATTTAATGAATTAGATGATAAAGTCTCTTAGAAAAATGATATTTGGTAAAT
TTCTATGTGAGAATTGTTTTTTTT
Found at i:22096868 original size:15 final size:16
Alignment explanation
Indices: 22096836--22096873 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
22096826 AATATATATG
22096836 AAATAATAAAATATTA
1 AAATAATAAAATATTA
22096852 AAATATATAAAA-A-TA
1 AAATA-ATAAAATATTA
22096867 AAATAAT
1 AAATAAT
22096874 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 7 0.33
16 6 0.29
17 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAAAATATTA
Found at i:22097841 original size:21 final size:22
Alignment explanation
Indices: 22097815--22097863 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
22097805 TAAATATCAC
22097815 ATTTTTAATT-TAAAAAATATT
1 ATTTTTAATTCTAAAAAATATT
**
22097836 ATTTTTTGTTCTAAAAAATATT
1 ATTTTTAATTCTAAAAAATATT
*
22097858 TTTTTT
1 ATTTTT
22097864 CAAAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTTAATTCTAAAAAATATT
Found at i:22098075 original size:20 final size:19
Alignment explanation
Indices: 22098052--22098091 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22098042 TTTTCAATAT
*
22098052 AAATTTCATTTTTATTTTAA
1 AAATATCATTTTT-TTTTAA
*
22098072 AAATATGATTTTTTTTTAA
1 AAATATCATTTTTTTTTAA
22098091 A
1 A
22098092 TTTTAATCGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATATCATTTTTTTTTAA
Found at i:22113416 original size:13 final size:13
Alignment explanation
Indices: 22113400--22113441 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22113390 TTTTATTTTA
22113400 TTTTTATTAAATT
1 TTTTTATTAAATT
*
22113413 TTTTTATTAATTT
1 TTTTTATTAAATT
22113426 TTATTTGA-TAAATT
1 TT-TTT-ATTAAATT
22113440 TT
1 TT
22113442 GTAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 14 0.56
14 10 0.40
15 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTTATTAAATT
Found at i:22114988 original size:1 final size:1
Alignment explanation
Indices: 22114982--22115009 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
22114972 TGAGTTGAGG
22114982 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
22115010 AATTAAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22115575 original size:18 final size:18
Alignment explanation
Indices: 22115549--22115588 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
22115539 CTAGTGTGAT
*
22115549 CTTGGTCTTGTGGTTGAA
1 CTTGATCTTGTGGTTGAA
22115567 CTTGATCTTGTGGTTGAA
1 CTTGATCTTGTGGTTGAA
22115585 CTTG
1 CTTG
22115589 GTTTGATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.12, G:0.30, T:0.45
Consensus pattern (18 bp):
CTTGATCTTGTGGTTGAA
Found at i:22116541 original size:17 final size:17
Alignment explanation
Indices: 22116497--22116554 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
22116487 CTTAAGAACT
* *
22116497 AAAACTTACTAAATAT-
1 AAAAATTACTAAAAATA
* *
22116513 AGAAATTACTAAAAATG
1 AAAAATTACTAAAAATA
*
22116530 AAAAATTGCTAAAAATA
1 AAAAATTACTAAAAATA
22116547 AAAAATTA
1 AAAAATTA
22116555 AACAATAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 13 0.38
17 21 0.62
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAATTACTAAAAATA
Found at i:22120240 original size:22 final size:22
Alignment explanation
Indices: 22120212--22120261 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
22120202 TTTTGTTGAA
*
22120212 GGCCCAAGTTATGGCCAAGGGT
1 GGCCCAAGTCATGGCCAAGGGT
*
22120234 GGCCCAAGTCATGGCCAATGGT
1 GGCCCAAGTCATGGCCAAGGGT
*
22120256 AGCCCA
1 GGCCCA
22120262 TTCCACCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (22 bp):
GGCCCAAGTCATGGCCAAGGGT
Found at i:22121686 original size:193 final size:193
Alignment explanation
Indices: 22121357--22121714 Score: 637
Period size: 193 Copynumber: 1.9 Consensus size: 193
22121347 GAAAATTACG
* *
22121357 GGTTTTTTATTTTTTAAAAGAAAAGAAAAAATGAAGTAATGTTTTAAAAAGAGAAAAAGAGACGT
1 GGTTTTTTATTTTCTAAAAGAAAAGAAAAAATGAAGTAATGTTTGAAAAAGAGAAAAAGAGACGT
22121422 TATTTCAAAAATGTGTATATATACACACATTTTAAAAATAACATCTCTTTTTCTCTTTTTCAAAC
66 TATTTCAAAAATGTGTATATATACACACATTTTAAAAATAACATCTCTTTTTCTCTTTTTCAAAC
22121487 ATTACTTCATTTTTCATTATATATATATATATATAACTTTAGGTTCTATAAATATTTATTGCA
131 ATTACTTCATTTTTCATTATATATATATATATATAACTTTAGGTTCTATAAATATTTATTGCA
*
22121550 GGTTTTTTATTTTCTAAAA-AAAAGGGAAAAATGAAGTAATGTTTGAAAAAGAGAAAAAGAGACG
1 GGTTTTTTATTTTCTAAAAGAAAA-GAAAAAATGAAGTAATGTTTGAAAAAGAGAAAAAGAGACG
* * *
22121614 TTATTTTAAAAATGTGTATATATACACACATTTTAAAAATAACGTCTCTTTTTTTCTTTTTCAAA
65 TTATTTCAAAAATGTGTATATATACACACATTTTAAAAATAACATCTCTTTTTCTCTTTTTCAAA
*
22121679 CATTACTTCTTTTTTCATTATATATATATATATATA
130 CATTACTTCATTTTTCATTATATATATATATATATA
22121715 TGTATATATA
Statistics
Matches: 157, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
192 4 0.03
193 153 0.97
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (193 bp):
GGTTTTTTATTTTCTAAAAGAAAAGAAAAAATGAAGTAATGTTTGAAAAAGAGAAAAAGAGACGT
TATTTCAAAAATGTGTATATATACACACATTTTAAAAATAACATCTCTTTTTCTCTTTTTCAAAC
ATTACTTCATTTTTCATTATATATATATATATATAACTTTAGGTTCTATAAATATTTATTGCA
Found at i:22121845 original size:16 final size:17
Alignment explanation
Indices: 22121826--22121863 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22121816 TTTAAAAAAC
*
22121826 AAAAAAT-AAAAAAATA
1 AAAAAATGAAAAAAAGA
*
22121842 AAAAAATGAAGAAAAGA
1 AAAAAATGAAAAAAAGA
22121859 AAAAA
1 AAAAA
22121864 TAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAAAAATGAAAAAAAGA
Found at i:22122171 original size:25 final size:25
Alignment explanation
Indices: 22122136--22122184 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22122126 TAATACGAAA
*
22122136 CCAAATAAAAC-CTTAAAAGGAAACC
1 CCAAATAAAACTC-TAAAAAGAAACC
*
22122161 CCAAATGAAACTCTAAAAAGAAAC
1 CCAAATAAAACTCTAAAAAGAAAC
22122185 TCTAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.57, C:0.22, G:0.08, T:0.12
Consensus pattern (25 bp):
CCAAATAAAACTCTAAAAAGAAACC
Found at i:22123330 original size:16 final size:16
Alignment explanation
Indices: 22123311--22123363 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
22123301 AATATATAAC
22123311 ATCATGCAAATATATT
1 ATCATGCAAATATATT
*
22123327 ATCATGCAATAATATAAAAT
1 ATCATGC-A-AATAT--ATT
22123347 ATCATGCAAATATATT
1 ATCATGCAAATATATT
22123363 A
1 A
22123364 ATAACCATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 10 0.32
17 1 0.03
18 10 0.32
19 1 0.03
20 9 0.29
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (16 bp):
ATCATGCAAATATATT
Found at i:22123361 original size:20 final size:20
Alignment explanation
Indices: 22123259--22123387 Score: 89
Period size: 18 Copynumber: 6.7 Consensus size: 20
22123249 CAAGAATGTT
* *
22123259 ATGCAAATATATTAATTATC
1 ATGCAAATATATAAAATATC
*
22123279 ATGC-AATA-ATAACA-ATC
1 ATGCAAATATATAAAATATC
* *
22123296 ATGTAAATATAT--AACATC
1 ATGCAAATATATAAAATATC
22123314 ATGCAAATATAT----TATC
1 ATGCAAATATATAAAATATC
22123330 ATGC-AATAATATAAAATATC
1 ATGCAAAT-ATATAAAATATC
*
22123350 ATGCAAATATATTAATAACCATTC
1 ATGCAAATATA-TAA-AA-TA-TC
22123374 ATGCAAATATATAA
1 ATGCAAATATATAA
22123388 TCATGAAATC
Statistics
Matches: 88, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
15 3 0.03
16 11 0.12
17 7 0.08
18 21 0.24
19 6 0.07
20 15 0.17
21 6 0.07
22 2 0.02
23 4 0.05
24 13 0.15
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
ATGCAAATATATAAAATATC
Found at i:22123664 original size:33 final size:32
Alignment explanation
Indices: 22123621--22123797 Score: 122
Period size: 32 Copynumber: 6.1 Consensus size: 32
22123611 TGAATAAATT
* *
22123621 AATAATCATGCAATT-AATAATTTAAATCATGCA
1 AATAAACATGCAATTAAAT-ATAT-AATCATGCA
22123654 AATAAACATGCAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
22123686 AAT----A-GTAA-T--ATATA-AATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
* **
22123709 AATAAATATGCAATTGGATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
* *
22123741 AAT----A-GTAA-T--ATATA-AACCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
*
22123764 AATAAACATGTAATTAAATATATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCA
22123796 AA
1 AA
22123798 ATAATATATA
Statistics
Matches: 118, Mismatches: 7, Indels: 39
0.72 0.04 0.24
Matches are distributed among these distances:
23 23 0.19
24 10 0.08
26 2 0.02
27 8 0.07
28 9 0.08
29 2 0.02
31 10 0.08
32 34 0.29
33 17 0.14
34 3 0.03
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (32 bp):
AATAAACATGCAATTAAATATATAATCATGCA
Found at i:22123683 original size:20 final size:20
Alignment explanation
Indices: 22123655--22123717 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
22123645 AATCATGCAA
* *
22123655 ATAAACATGCAATTAAATAT
1 ATAATCATGCAAATAAATAT
22123675 ATAATCATGCAAATAGTAATAT
1 ATAATCATGCAAATA--AATAT
22123697 ATAAATCATGCAAATAAATAT
1 AT-AATCATGCAAATAAATAT
22123718 GCAATTGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 13 0.34
21 5 0.13
22 7 0.18
23 13 0.34
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (20 bp):
ATAATCATGCAAATAAATAT
Found at i:22123707 original size:23 final size:21
Alignment explanation
Indices: 22123655--22123717 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 21
22123645 AATCATGCAA
*
22123655 ATAAA-CATGCAATTAAATAT
1 ATAAATCATGCAAATAAATAT
22123675 AT-AATCATGCAAATAGTAATAT
1 ATAAATCATGCAAATA--AATAT
22123697 ATAAATCATGCAAATAAATAT
1 ATAAATCATGCAAATAAATAT
22123718 GCAATTGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 2 0.05
20 11 0.29
21 5 0.13
22 7 0.18
23 13 0.34
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (21 bp):
ATAAATCATGCAAATAAATAT
Found at i:22123714 original size:55 final size:55
Alignment explanation
Indices: 22123622--22123872 Score: 366
Period size: 55 Copynumber: 4.6 Consensus size: 55
22123612 GAATAAATTA
*
22123622 ATAATCATGCAATTAATAAT-T-TAAATCATGCAAATAAACATGCAATTAAATAT
1 ATAATCATGCAAATAATAATATATAAATCATGCAAATAAACATGCAATTAAATAT
* * **
22123675 ATAATCATGCAAATAGTAATATATAAATCATGCAAATAAATATGCAATTGGATAT
1 ATAATCATGCAAATAATAATATATAAATCATGCAAATAAACATGCAATTAAATAT
* * *
22123730 ATAATCATGCAAATAGTAATATATAAACCATGCAAATAAACATGTAATTAAATAT
1 ATAATCATGCAAATAATAATATATAAATCATGCAAATAAACATGCAATTAAATAT
* *
22123785 ATAATCATGC-AA-AATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
1 ATAATCATGCAAATAATAATATATAAATCATGCAAATAAACATGCAATTAAATAT
* *
22123838 ATAATCATGCAAACAATAATACATAAATCATGCAA
1 ATAATCATGCAAATAATAATATATAAATCATGCAA
22123873 TCATGTGAAT
Statistics
Matches: 178, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
53 64 0.36
54 5 0.03
55 109 0.61
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (55 bp):
ATAATCATGCAAATAATAATATATAAATCATGCAAATAAACATGCAATTAAATAT
Found at i:22123734 original size:108 final size:107
Alignment explanation
Indices: 22123622--22123872 Score: 378
Period size: 108 Copynumber: 2.3 Consensus size: 107
22123612 GAATAAATTA
*
22123622 ATAATCATGCAATTAATAAT-TTAAATCATGCAAATAAACATGCAATTAAATATATAATCATGCA
1 ATAATCATGCAAATAATAATATTAAATCATGCAAATAAACATGCAATTAAATATATAATCATGCA
* **
22123686 AATAGTAATATATAAATCATGCAAATAAATATGCAATTGGATAT
66 AA-A-TAATATATAAATCATGCAAATAAATATGCAACTAAATAT
* * *
22123730 ATAATCATGCAAATAGTAATATATAAACCATGCAAATAAACATGTAATTAAATATATAATCATGC
1 ATAATCATGCAAATAATAATAT-TAAATCATGCAAATAAACATGCAATTAAATATATAATCATGC
22123795 AAAATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
65 AAAATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
* *
22123838 ATAATCATGCAAACAATAATACATAAATCATGCAA
1 ATAATCATGCAAATAATAATA-TTAAATCATGCAA
22123873 TCATGTGAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
108 84 0.65
109 2 0.02
110 43 0.33
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (107 bp):
ATAATCATGCAAATAATAATATTAAATCATGCAAATAAACATGCAATTAAATATATAATCATGCA
AAATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
Found at i:22123793 original size:20 final size:19
Alignment explanation
Indices: 22123778--22123825 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
22123768 AACATGTAAT
22123778 TAAATATATAATCATGCAA
1 TAAATATATAATCATGCAA
*
22123797 AATAATATATAAATCATGCAAA
1 TA-AATATAT-AATCATGC-AA
22123819 TAAATAT
1 TAAATAT
22123826 GCAACTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 13 0.54
22 3 0.12
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (19 bp):
TAAATATATAATCATGCAA
Found at i:22123813 original size:21 final size:19
Alignment explanation
Indices: 22123780--22123825 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
22123770 CATGTAATTA
22123780 AATATATAATCATGCAAAAT
1 AATATATAATCATGC-AAAT
22123800 AATATATAAATCATGCAAAT
1 AATATAT-AATCATGCAAAT
22123820 AA-ATAT
1 AATATAT
22123826 GCAACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (19 bp):
AATATATAATCATGCAAAT
Found at i:22123847 original size:20 final size:20
Alignment explanation
Indices: 22123779--22123872 Score: 62
Period size: 20 Copynumber: 4.9 Consensus size: 20
22123769 ACATGTAATT
22123779 AAATATATAATCATGCAA-A
1 AAATATATAATCATGCAACA
22123798 ATAATATATAAATCATG---C-
1 A-AATATAT-AATCATGCAACA
*
22123816 -AA-ATA-AAT-ATGCAACT
1 AAATATATAATCATGCAACA
22123832 AAATATATAATCATGCAAACA
1 AAATATATAATCATGC-AACA
*
22123853 ATAATACATAAATCATGCAA
1 A-AATATAT-AATCATGCAA
22123873 TCATGTGAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 25
0.69 0.02 0.29
Matches are distributed among these distances:
12 3 0.05
13 3 0.05
15 4 0.07
16 2 0.03
17 2 0.03
18 3 0.05
19 4 0.07
20 11 0.19
21 11 0.19
22 8 0.14
23 8 0.14
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (20 bp):
AAATATATAATCATGCAACA
Found at i:22123893 original size:55 final size:54
Alignment explanation
Indices: 22123614--22123910 Score: 251
Period size: 55 Copynumber: 5.5 Consensus size: 54
22123604 ACACAAATGA
* *
22123614 ATAAAT-TAATAATCATGCAATTAATAAT-T-TAAATCATGCAAATAAACATG-CAAT
1 ATAAATAT-ATAATCATGCAA-AAATAATATATAAATCATGCAAAT--ACATGTGAAT
* * *
22123668 -TAAATATATAATCATGCAAATAGTAATATATAAATCATGCAAATAAATATGCAAT
1 ATAAATATATAATCATGCAAA-AATAATATATAAATCATGCAAATACATGTG-AAT
** * *
22123723 -TGGATATATAATCATGCAAATAGTAATATATAAACCATGCAAATAAACATGT-AAT
1 ATAAATATATAATCATGCAAA-AATAATATATAAATCATGCAAAT--ACATGTGAAT
* *
22123778 -TAAATATATAATCATGC-AAAATAATATATAAATCATGCAAATAAATATGCAA-
1 ATAAATATATAATCATGCAAAAATAATATATAAATCATGCAAATACATGTG-AAT
* *
22123830 CTAAATATATAATCATGCAAACAATAATACATAAATCATGC-AAT-CATGTGAAT
1 ATAAATATATAATCATGCAAA-AATAATATATAAATCATGCAAATACATGTGAAT
*
22123883 A-ATAATATATAAACCATGCAAAATATAA
1 ATA-AATATAT-AATCATGCAAAA-ATAA
22123911 AAATAAAAGT
Statistics
Matches: 205, Mismatches: 21, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
51 4 0.02
52 3 0.01
53 77 0.38
54 23 0.11
55 94 0.46
57 4 0.02
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (54 bp):
ATAAATATATAATCATGCAAAAATAATATATAAATCATGCAAATACATGTGAAT
Found at i:22123893 original size:108 final size:106
Alignment explanation
Indices: 22123622--22123907 Score: 337
Period size: 108 Copynumber: 2.7 Consensus size: 106
22123612 GAATAAATTA
** * * *
22123622 ATAATCATGCAATTAATAAT--TTAAATCATGCAAATAAACATGCAATTAAATATATAATCATGC
1 ATAATCATGCAAACAATAATACATAAACCATGCAAAT--ACATGTAATTAAATATATAATCATGC
* **
22123685 AAATAGTAATATATAAATCATGCAAATAAATATGCAATTGGATAT
64 AAA-A-TAATATATAAATCATGCAAATAAATATGCAACTAAATAT
* * *
22123730 ATAATCATGCAAATAGTAATATATAAACCATGCAAATAAACATGTAATTAAATATATAATCATGC
1 ATAATCATGCAAACAATAATACATAAACCATGCAAAT--ACATGTAATTAAATATATAATCATGC
22123795 AAAATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
64 AAAATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
* * *
22123838 ATAATCATGCAAACAATAATACATAAATCATGC-AAT-CATGTGAATAATAATATATAAACCATG
1 ATAATCATGCAAACAATAATACATAAACCATGCAAATACATGT-AATTA-AATATAT-AATCATG
22123901 CAAAATA
63 CAAAATA
22123908 TAAAAATAAA
Statistics
Matches: 159, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
104 5 0.03
105 4 0.03
106 7 0.04
107 16 0.10
108 83 0.52
109 1 0.01
110 43 0.27
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (106 bp):
ATAATCATGCAAACAATAATACATAAACCATGCAAATACATGTAATTAAATATATAATCATGCAA
AATAATATATAAATCATGCAAATAAATATGCAACTAAATAT
Found at i:22124897 original size:42 final size:40
Alignment explanation
Indices: 22124762--22124912 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 40
22124752 TTGGCAGAGG
* * * *
22124762 TTTGAAACTTTAGAAAAAATAAAATGCTCCCCAACAATTAAGAC
1 TTTGAAACTTTTG--AAAATAAAATGCTCCCCTAC-ATTGAG-T
* *
22124806 CTTGAAACATTTGAAAAATAAAATGCTCTCCCATA-ATTGAAGT
1 TTTGAAACTTTTG-AAAATAAAATGCTC-CCC-TACATTG-AGT
22124849 TTTGAAACTTTTGAAAATAAAATGCTCCCCTACAGTTGAGT
1 TTTGAAACTTTTGAAAATAAAATGCTCCCCTACA-TTGAGT
*
22124890 TTATGAAACTTTTGAAAAAAAAA
1 TT-TGAAACTTTTGAAAATAAAA
22124913 ATGTTTTTTC
Statistics
Matches: 92, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
40 2 0.02
41 9 0.10
42 36 0.39
43 29 0.32
44 15 0.16
45 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (40 bp):
TTTGAAACTTTTGAAAATAAAATGCTCCCCTACATTGAGT
Found at i:22125021 original size:42 final size:41
Alignment explanation
Indices: 22124762--22125128 Score: 275
Period size: 43 Copynumber: 8.6 Consensus size: 41
22124752 TTGGCAGAGG
22124762 TTTGAAACTTTAGAAAAAATAAAATGCTCCCCAACAATT-AAGAC
1 TTTGAAACTTT-G-AAAAATAAAATGCTCCCC-ACAATTGAAG-C
* * *
22124806 CTTGAAACATTTGAAAAATAAAATGCTCTCCCATAATTGAAGT
1 TTTGAAAC-TTTGAAAAATAAAATGCTC-CCCACAATTGAAGC
* *
22124849 TTTGAAACTTTTG-AAAATAAAATGCTCCCCTACAGTTG-AGT
1 TTTGAAAC-TTTGAAAAATAAAATGCTCCCC-ACAATTGAAGC
* * *** * * *
22124890 TTATGAAACTTTTGAAAAAAAAAATGTTTTTTCACCACT-AGGGC
1 TT-TGAAAC-TTTGAAAAATAAAATG-CTCCCCACAATTGA-AGC
* *
22124934 -TTGAAAGCTTTTG--AAATAAAATGC-CCCATACAATTGAGGC
1 TTTGAAA-C-TTTGAAAAATAAAATGCTCCC-CACAATTGAAGC
* *
22124974 TTTGAAACATTGAAAAATAAAATGCTCTCCCACAATTAAAGC
1 TTTGAAACTTTGAAAAATAAAATGCTC-CCCACAATTGAAGC
*
22125016 TTTGAAACTTTGAAAAAAAATATATTGCTCCCCCACAATTGAAGC
1 TTTGAAACTTTGAAAAATAA-A-A-TGCT-CCCCACAATTGAAGC
* *
22125061 TTTGAAACTTTGAAAAAATAAAATGC-CCCCTTACAACTGAGGC
1 TTTGAAACTTTG-AAAAATAAAATGCTCCCC--ACAATTGAAGC
22125104 TTTGAAACTTTGAAGAAATAAAATG
1 TTTGAAACTTTGAA-AAATAAAATG
22125129 AGACATATGA
Statistics
Matches: 263, Mismatches: 35, Indels: 51
0.75 0.10 0.15
Matches are distributed among these distances:
39 3 0.01
40 8 0.03
41 39 0.15
42 65 0.25
43 88 0.33
44 19 0.07
45 33 0.13
46 8 0.03
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (41 bp):
TTTGAAACTTTGAAAAATAAAATGCTCCCCACAATTGAAGC
Found at i:22125503 original size:18 final size:18
Alignment explanation
Indices: 22125480--22125516 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22125470 GCGAATGCAA
22125480 TGCAAAAGATTCAAGATT
1 TGCAAAAGATTCAAGATT
22125498 TGCAAAAGATTCAAGATT
1 TGCAAAAGATTCAAGATT
22125516 T
1 T
22125517 ATAAAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (18 bp):
TGCAAAAGATTCAAGATT
Found at i:22125549 original size:36 final size:35
Alignment explanation
Indices: 22125509--22125594 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
22125499 GCAAAAGATT
*
22125509 CAAGATTTATAAAGTTTTCAA-AGTTCGTAAAGGTTC-
1 CAAGATTTATAAAG-TTTCAAGA-TTCATAAAGG-TCG
**
22125545 CAAGATTTGCCAAAGTTTCAAGATTCATAAAGGTCG
1 CAAGATTT-ATAAAGTTTCAAGATTCATAAAGGTCG
*
22125581 CAAGATTTGTAAAG
1 CAAGATTTATAAAG
22125595 GTCTCGAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
35 6 0.14
36 31 0.74
37 5 0.12
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (35 bp):
CAAGATTTATAAAGTTTCAAGATTCATAAAGGTCG
Found at i:22125568 original size:18 final size:17
Alignment explanation
Indices: 22125484--22125569 Score: 57
Period size: 18 Copynumber: 4.8 Consensus size: 17
22125474 ATGCAATGCA
* *
22125484 AAAGATTCAAGATTTGCA
1 AAAGTTTCAAGATTT-CT
* *
22125502 AAAGATTCAAGATTTAT
1 AAAGTTTCAAGATTTCT
*
22125519 AAAGTTTTCAA-AGTTCGT
1 AAAG-TTTCAAGATTTC-T
* *
22125537 AAAGGTTCCAAGATTTGCC
1 AAA-GTTTCAAGATTT-CT
22125556 AAAGTTTCAAGATT
1 AAAGTTTCAAGATT
22125570 CATAAAGGTC
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.13
18 39 0.72
19 7 0.13
20 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (17 bp):
AAAGTTTCAAGATTTCT
Found at i:22125584 original size:18 final size:18
Alignment explanation
Indices: 22125563--22125615 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
22125553 GCCAAAGTTT
22125563 CAAGATTCATAAAGGTCG
1 CAAGATTCATAAAGGTCG
** *
22125581 CAAGATTTGTAAAGGTCT
1 CAAGATTCATAAAGGTCG
*
22125599 CGAA-ATACATAAAGGTC
1 C-AAGATTCATAAAGGTC
22125616 CCAAATAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (18 bp):
CAAGATTCATAAAGGTCG
Found at i:22125593 original size:54 final size:54
Alignment explanation
Indices: 22125491--22125596 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
22125481 GCAAAAGATT
* * **
22125491 CAAGATTTGCAAAAGATTCAAGATTTATAAAGTTTTCAAAGTTCGTAAAGGTTC
1 CAAGATTTGCAAAAGATTCAAGATTCATAAAGGTCGCAAAGTTCGTAAAGGTTC
* * *
22125545 CAAGATTTGCCAAAGTTTCAAGATTCATAAAGGTCGC-AAGATTTGTAAAGGT
1 CAAGATTTGCAAAAGATTCAAGATTCATAAAGGTCGCAAAG-TTCGTAAAGGT
22125597 CTCGAAATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.07
54 41 0.93
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (54 bp):
CAAGATTTGCAAAAGATTCAAGATTCATAAAGGTCGCAAAGTTCGTAAAGGTTC
Found at i:22125768 original size:35 final size:36
Alignment explanation
Indices: 22125683--22125774 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 36
22125673 ATATCCAAAT
** * * *
22125683 ATTCACATTTGAAAATCTTAGAAGTTCACCGTTAAG
1 ATTCACATTAAAAAATCTTAGAAGCTCAACATTAAG
** * *
22125719 ATTTGCATTCAAAAATCTTAGAAGCT-AACATTCAG
1 ATTCACATTAAAAAATCTTAGAAGCTCAACATTAAG
*
22125754 ATTCACATTAAAAAATTTTAG
1 ATTCACATTAAAAAATCTTAG
22125775 CGATTCATAT
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
35 23 0.52
36 21 0.48
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (36 bp):
ATTCACATTAAAAAATCTTAGAAGCTCAACATTAAG
Found at i:22127031 original size:10 final size:10
Alignment explanation
Indices: 22127016--22127049 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22127006 GATAATCAGC
22127016 AAAGAAAAAA
1 AAAGAAAAAA
22127026 AAAGAAAAAA
1 AAAGAAAAAA
*
22127036 AAAGAAAAGA
1 AAAGAAAAAA
22127046 AAAG
1 AAAG
22127050 GAAGAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:22127062 original size:6 final size:5
Alignment explanation
Indices: 22127016--22127049 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
22127006 GATAATCAGC
* *
22127016 AAAGA AAAAA AAAGA AAAAA AAAGA AAAGA AAAG
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAG
22127050 GAAGAGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:22131230 original size:7 final size:7
Alignment explanation
Indices: 22131215--22131720 Score: 283
Period size: 7 Copynumber: 70.1 Consensus size: 7
22131205 TCAAACTTAT
22131215 GGTTTAG
1 GGTTTAG
*
22131222 GGTTGAG
1 GGTTTAG
22131229 GGTTTTAG
1 GG-TTTAG
*
22131237 GATTTAG
1 GGTTTAG
*
22131244 GGTTGAG
1 GGTTTAG
22131251 GGTTTTAG
1 GG-TTTAG
* *
22131259 GATTTAT
1 GGTTTAG
22131266 GG-TTAG
1 GGTTTAG
22131272 GGTTTAG
1 GGTTTAG
* * *
22131279 AGTTCAA
1 GGTTTAG
22131286 GGTTTAG
1 GGTTTAG
22131293 GGTATTTTTAG
1 GG----TTTAG
22131304 GGTTTGAG
1 GGTTT-AG
*
22131312 GG-TTAA
1 GGTTTAG
* *
22131318 AGATT-G
1 GGTTTAG
22131324 GTGTTTAG
1 G-GTTTAG
22131332 GGTTTCA-
1 GGTTT-AG
* * *
22131339 AGATTGG
1 GGTTTAG
22131346 GGTTTAG
1 GGTTTAG
22131353 GGTTTTAG
1 GG-TTTAG
22131361 GGTTT-G
1 GGTTTAG
*
22131367 AGGTTTGG
1 -GGTTTAG
22131375 GGTTTCA-
1 GGTTT-AG
*
22131382 AGTTTAAG
1 GGTTT-AG
*
22131390 GTTTTAG
1 GGTTTAG
*
22131397 GGTTTGAA
1 GGTTT-AG
22131405 GGTTTCAG
1 GGTTT-AG
**
22131413 ATTTTAG
1 GGTTTAG
22131420 GGTTTAG
1 GGTTTAG
*
22131427 AGTTTAG
1 GGTTTAG
** * *
22131434 GAATCAA
1 GGTTTAG
* *
22131441 GGTTAAT
1 GGTTTAG
* *
22131448 GGATTAA
1 GGTTTAG
22131455 GGTTTAG
1 GGTTTAG
*
22131462 GGTTAAG
1 GGTTTAG
22131469 GGTTTAG
1 GGTTTAG
*
22131476 GG-TTAA
1 GGTTTAG
*
22131482 GGTTTAA
1 GGTTTAG
* *
22131489 GATTTTG
1 GGTTTAG
* *
22131496 GATTTTGG
1 G-GTTTAG
*
22131504 GGTTAAG
1 GGTTTAG
*
22131511 GTTTTA-
1 GGTTTAG
22131517 GGTTTAG
1 GGTTTAG
*
22131524 GATTTAAG
1 GGTTT-AG
*
22131532 GTTTTAG
1 GGTTTAG
*
22131539 GGTTTAA
1 GGTTTAG
22131546 GGTTT-G
1 GGTTTAG
*
22131552 GCGTTTGG
1 G-GTTTAG
*
22131560 GGTTTGG
1 GGTTTAG
22131567 GGTTTAGG
1 GGTTTA-G
22131575 GGTTTAG
1 GGTTTAG
22131582 GGTTTAG
1 GGTTTAG
*
22131589 GGGTTAG
1 GGTTTAG
*
22131596 GGGTTAGG
1 GGTTTA-G
22131604 GGTTTTAG
1 GG-TTTAG
22131612 GGTTTAG
1 GGTTTAG
22131619 GGTTTAG
1 GGTTTAG
22131626 GGTTTAG
1 GGTTTAG
22131633 GGTTTAG
1 GGTTTAG
22131640 GGTTTAG
1 GGTTTAG
*
22131647 GATTTAG
1 GGTTTAG
22131654 GGTTTAG
1 GGTTTAG
22131661 GGTTTAG
1 GGTTTAG
*
22131668 GGTTTCG
1 GGTTTAG
*
22131675 AGTTTTAG
1 -GGTTTAG
22131683 GGTTTTAG
1 GG-TTTAG
22131691 GGTTTAG
1 GGTTTAG
22131698 GGTTTAAG
1 GGTTT-AG
* *
22131706 AGATTAG
1 GGTTTAG
22131713 GGTTTAG
1 GGTTTAG
22131720 G
1 G
22131721 ACTTAATTTT
Statistics
Matches: 381, Mismatches: 87, Indels: 62
0.72 0.16 0.12
Matches are distributed among these distances:
6 19 0.05
7 271 0.71
8 81 0.21
9 3 0.01
11 7 0.02
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:22131242 original size:22 final size:22
Alignment explanation
Indices: 22131217--22131276 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
22131207 AAACTTATGG
22131217 TTTAGGGTTGAGGGTTTTAGGA
1 TTTAGGGTTGAGGGTTTTAGGA
22131239 TTTAGGGTTGAGGGTTTTAGGA
1 TTTAGGGTTGAGGGTTTTAGGA
*
22131261 TTTATGGTT-AGGGTTT
1 TTTAGGGTTGAGGGTTT
22131277 AGAGTTCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (22 bp):
TTTAGGGTTGAGGGTTTTAGGA
Found at i:22131391 original size:21 final size:21
Alignment explanation
Indices: 22131326--22131424 Score: 81
Period size: 22 Copynumber: 4.5 Consensus size: 21
22131316 AAAGATTGGT
* *
22131326 GTTTAGGGTTTCAAGATTGGG
1 GTTTAGGGTTTCAAGTTTGAG
* *
22131347 GTTTAGGGTTTTAGGGTTTGAG
1 GTTTAGGGTTTCA-AGTTTGAG
* *
22131369 GTTTGGGGTTTCAAGTTTAAG
1 GTTTAGGGTTTCAAGTTTGAG
* *
22131390 GTTTTAGGGTTTGAAGGTTTCAG
1 G-TTTAGGGTTTCAA-GTTTGAG
*
22131413 ATTTTAGGGTTT
1 -GTTTAGGGTTT
22131425 AGAGTTTAGG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 19 0.31
22 27 0.44
23 16 0.26
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.44
Consensus pattern (21 bp):
GTTTAGGGTTTCAAGTTTGAG
Found at i:22131902 original size:13 final size:13
Alignment explanation
Indices: 22131884--22131908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22131874 ATTGTTCGGT
22131884 AAAAAAAAAATTG
1 AAAAAAAAAATTG
22131897 AAAAAAAAAATT
1 AAAAAAAAAATT
22131909 ACAAAGGCTC
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAAAAAAATTG
Found at i:22132150 original size:43 final size:41
Alignment explanation
Indices: 22132033--22132168 Score: 139
Period size: 43 Copynumber: 3.2 Consensus size: 41
22132023 GAAACTTTTG
* *
22132033 AAATAAAATGCCCCTACAATTGAGGCTTTGAAACATTGAAAA
1 AAATAAAATCCCCCTACAATTGAGGCTTTGAAACTTTG-AAA
* * ** *
22132075 AAATATATTGCGCCCCCGCAATTGAAGC-TTGAAACTTTGAAA
1 AAATAAAAT-C-CCCCTACAATTGAGGCTTTGAAACTTTGAAA
* *
22132117 AAATAAAATACCCCCTTACAACTGAGGCTTTGAAACTTTGAAG
1 AAATAAAAT-CCCCC-TACAATTGAGGCTTTGAAACTTTGAAA
22132160 AAATAAAAT
1 AAATAAAAT
22132169 GAGATATATG
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
41 4 0.05
42 26 0.35
43 32 0.43
44 13 0.17
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (41 bp):
AAATAAAATCCCCCTACAATTGAGGCTTTGAAACTTTGAAA
Found at i:22132549 original size:18 final size:18
Alignment explanation
Indices: 22132526--22132564 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
22132516 AATGCAATGC
22132526 AAAAGATTCAAGATTCAT
1 AAAAGATTCAAGATTCAT
*
22132544 AAAAGATTCAAGATTTAT
1 AAAAGATTCAAGATTCAT
22132562 AAA
1 AAA
22132565 GTTTTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (18 bp):
AAAAGATTCAAGATTCAT
Found at i:22132571 original size:18 final size:17
Alignment explanation
Indices: 22132527--22132619 Score: 64
Period size: 18 Copynumber: 5.2 Consensus size: 17
22132517 ATGCAATGCA
*
22132527 AAAGATTCAAGATTCAT
1 AAAGTTTCAAGATTCAT
* *
22132544 AAAAGATTCAAGATTTAT
1 -AAAGTTTCAAGATTCAT
22132562 AAAGTTTTCAA-AGTTCAT
1 AAAG-TTTCAAGA-TTCAT
* *
22132580 AAAGGTTCCAAGATTTGC-C
1 AAA-GTTTCAAGA-TT-CAT
*
22132599 AAAGTTTCAAGATTCGT
1 AAAGTTTCAAGATTCAT
22132616 AAAG
1 AAAG
22132620 GTCCCAAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
16 1 0.02
17 11 0.18
18 41 0.67
19 7 0.11
20 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (17 bp):
AAAGTTTCAAGATTCAT
Found at i:22132607 original size:36 final size:37
Alignment explanation
Indices: 22132532--22132662 Score: 103
Period size: 36 Copynumber: 3.6 Consensus size: 37
22132522 ATGCAAAAGA
* * **
22132532 TTCAAGATTCATAAAAGAT-TCAAGATTT-ATAAAGTT
1 TTCAAGATTCAT-AAAGGTCCCAAGATTTGCCAAAGTT
*
22132568 TTCAA-AGTTCATAAAGGTTCCAAGATTTGCCAAAG-T
1 TTCAAGA-TTCATAAAGGTCCCAAGATTTGCCAAAGTT
* * *
22132604 TTCAAGATTCGTAAAGGTCCCAAGATTTG-TAAAGGT
1 TTCAAGATTCATAAAGGTCCCAAGATTTGCCAAAGTT
* *
22132640 CTCGAA-ATACATAAAGGTCCCAA
1 TTC-AAGATTCATAAAGGTCCCAA
22132663 ATAATTCTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
35 10 0.13
36 62 0.78
37 7 0.09
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (37 bp):
TTCAAGATTCATAAAGGTCCCAAGATTTGCCAAAGTT
Found at i:22132627 original size:18 final size:18
Alignment explanation
Indices: 22132606--22132662 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
22132596 GCCAAAGTTT
22132606 CAAGATTCGTAAAGGTCC
1 CAAGATTCGTAAAGGTCC
*
22132624 CAAGATTTGTAAAGGTCTC
1 CAAGATTCGTAAAGGTC-C
* * *
22132643 GAA-ATACATAAAGGTCC
1 CAAGATTCGTAAAGGTCC
22132660 CAA
1 CAA
22132663 ATAATTCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (18 bp):
CAAGATTCGTAAAGGTCC
Found at i:22134648 original size:14 final size:14
Alignment explanation
Indices: 22134629--22134678 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
22134619 TTACAATCAA
22134629 TTCTTTTTCTATTT
1 TTCTTTTTCTATTT
* *
22134643 TTCTTTTGCTCTTGT
1 TTCTTTTTCTATT-T
22134658 TTCTTTTTTCTATTT
1 TTC-TTTTTCTATTT
22134673 TT-TTTT
1 TTCTTTT
22134679 GGCAACTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.13
14 11 0.37
15 7 0.23
16 8 0.27
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.78
Consensus pattern (14 bp):
TTCTTTTTCTATTT
Found at i:22135613 original size:123 final size:123
Alignment explanation
Indices: 22135449--22135914 Score: 404
Period size: 131 Copynumber: 3.6 Consensus size: 123
22135439 TATTTATGTA
* *
22135449 GCAAAGATTACCCAAACAAATGAAATAATGTACATAGAAAAATGTTTACATGGATAAAAATGTGT
1 GCAAAGATT-CCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTAT
* * * *
22135514 ATGCAAATATATGT-ATGCAAT-GCATTCATATTCACAACTATATACAAAATTGAAAAG
65 ATGCAAATACATGTAATACAATAGAATTCATATTCACAACTATGTACAAAATTGAAAAG
*
22135571 GCAAAGATTGCCCTAAACAAAT-AATATAATATACATACAAAAATGTTTACATGGATAAAAATGT
1 GCAAAGATT-CCC-AAACAAATGAA-ATAATGTACATACAAAAATGTTTACATGGATAAAAATGT
* * * * * *
22135635 ATATACAAGTATATAATGCATAATAACAATAAGAATTCACATTCACAACTATGTAAAAAACTAAA
63 ATATGCAA--ATA-CATG--TAAT-ACAAT-AGAATTCATATTCACAACTATGTACAAAATTGAA
*
22135700 AAT
121 AAG
* * * * ** * **
22135703 GCAAATATTCTCCCAAGCCAATAAAATAATGTACATACAAAAATGGATAAAAATTTATATGCAAA
1 GCAAAGA-T-TCCCAAACAAATGAAATAATGTACATACAAAAAT-G-TTTACATGGATA---AAA
** * * * *
22135768 CACATGTATGC-AATACATAGTGAA-A-AATAAGAATTTATATCCAAAACTATGTACAAAATTGA
59 -ATGTATATGCAAATACAT-GT-AATACAAT-AGAATTCATATTCACAACTATGTACAAAATTGA
22135830 AAAG
120 AAAG
*
22135834 GCAAAGAATTTTCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTA
1 GCAAAG-A-TTCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTA
22135899 TATGCAAATACATGTA
64 TATGCAAATACATGTA
22135915 TGCAATACAT
Statistics
Matches: 271, Mismatches: 49, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
122 14 0.05
123 51 0.19
124 1 0.00
125 12 0.04
126 13 0.05
128 1 0.00
129 9 0.03
130 5 0.02
131 68 0.25
132 63 0.23
133 8 0.03
134 12 0.04
135 4 0.01
137 4 0.01
138 6 0.02
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (123 bp):
GCAAAGATTCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATAAAAATGTATA
TGCAAATACATGTAATACAATAGAATTCATATTCACAACTATGTACAAAATTGAAAAG
Found at i:22135931 original size:139 final size:137
Alignment explanation
Indices: 22135549--22135977 Score: 465
Period size: 139 Copynumber: 3.2 Consensus size: 137
22135539 TCATATTCAC
* * *
22135549 AACTATATACAAAATTGAAAAGGCAAAGATTGCCCTAAACAAATAATATAATATACATACAAAAA
1 AACTATGTACAAAATTGAAAAGGCAAAGATTTCCC-AAACAAATAA-ATAATGTACATACAAAAA
* * * * *
22135614 TGTTTACATGGATAAAAATGTATATACAAGT--A--TAT--AATGCATAAT-AACAATAAGAATT
64 TGTTTACATGGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATT
* * * *
22135672 CACATTCAC
129 TATATCCAA
* * * * * * *
22135681 AACTATGTAAAAAACTAAAAATGCAAATATTCTCCCAAGCCAATAAAATAATGTACATAC--AAA
1 AACTATGTACAAAATTGAAAAGGCAAAGATT-TCCCAAACAAAT-AAATAATGTACATACAAAAA
* *
22135744 -----A-ATGGATAAAAATTTATATGCAAACACATGTATGCAATACATAGTGAAAAATAAGAATT
64 TGTTTACATGGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATT
22135803 TATATCCAA
129 TATATCCAA
*
22135812 AACTATGTACAAAATTGAAAAGGCAAAGAATTTTCCAAACAAATGAAATAATGTACATACAAAAA
1 AACTATGTACAAAATTGAAAAGGCAAAG-ATTTCCCAAACAAAT-AAATAATGTACATACAAAAA
*
22135877 TGTTTACATGGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAACAAGAATT
64 TGTTTACATGGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATT
*
22135942 TATATCCAT
129 TATATCCAA
* *
22135951 AACTATGTGCAAAATTGAAAGGGCAAA
1 AACTATGTACAAAATTGAAAAGGCAAA
22135978 TGAAATAATG
Statistics
Matches: 243, Mismatches: 36, Indels: 29
0.79 0.12 0.09
Matches are distributed among these distances:
124 20 0.08
125 1 0.00
126 1 0.00
128 3 0.01
130 11 0.05
131 64 0.26
132 46 0.19
133 8 0.03
138 1 0.00
139 88 0.36
ACGTcount: A:0.51, C:0.13, G:0.11, T:0.26
Consensus pattern (137 bp):
AACTATGTACAAAATTGAAAAGGCAAAGATTTCCCAAACAAATAAATAATGTACATACAAAAATG
TTTACATGGATAAAAATGTATATGCAAATACATGTATGCAATACATAGTGAAAAATAAGAATTTA
TATCCAA
Found at i:22136359 original size:12 final size:12
Alignment explanation
Indices: 22136342--22136371 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
22136332 TAAGTGCCTT
22136342 AAAAAAAAG-GA
1 AAAAAAAAGTGA
22136353 AAAAAAAAGTGA
1 AAAAAAAAGTGA
22136365 AAAAAAA
1 AAAAAAA
22136372 GAAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGTGA
Found at i:22137618 original size:9 final size:9
Alignment explanation
Indices: 22137604--22137636 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
22137594 GGGAAGAACA
22137604 AAAAAAGAG
1 AAAAAAGAG
22137613 AAAAAAGA-
1 AAAAAAGAG
22137621 AAAAAAGTAG
1 AAAAAAG-AG
22137631 AAAAAA
1 AAAAAA
22137637 AAAGAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.32
9 9 0.41
10 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAAAGAG
Done.