Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 14 of 230
Found at i:3819955 original size:39 final size:39
Alignment explanation
Indices: 3819826--3819966 Score: 153
Period size: 39 Copynumber: 3.6 Consensus size: 39
3819816 GACTTCGAGT
* * * *
3819826 CGATGAGACACTGGGTGTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTAC-TTCGATT-ATC
* * *
3819867 CGATGAGACACTAGGTGTC-AA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTC-GATTATC
*
3819904 CGATGAGACACTGGGTGTCAAATTATTACTTCAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGATTATC
*
3819943 CGATGAGGCACTGGGTGTCAAATT
1 CGATGAGACACTGGGTGTCAAATT
3819967 GGTGTGTTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
37 21 0.25
38 8 0.10
39 29 0.35
40 8 0.10
41 18 0.21
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGATTATC
Found at i:3820661 original size:22 final size:22
Alignment explanation
Indices: 3820636--3820682 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
3820626 GGTATCAATG
*
3820636 AGGGTACATTGGTTAGACACCT
1 AGGGTACATTGCTTAGACACCT
*
3820658 AGGGTACATTGCTTAGGCACCT
1 AGGGTACATTGCTTAGACACCT
3820680 AGG
1 AGG
3820683 ATGTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (22 bp):
AGGGTACATTGCTTAGACACCT
Found at i:3822961 original size:50 final size:49
Alignment explanation
Indices: 3822886--3823023 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 49
3822876 ATAGAACATA
* *
3822886 CAAAATGAAATCTAACGTCTAATATAATGATCTTCATGGTACTTTTACCG
1 CAAAATGAAATCTATCGTCAAATATAATGATC-TCATGGTACTTTTACCG
3822936 CAAAATGAAATCTATCGTCAAATATAATG-----A---T-C--TTACCG
1 CAAAATGAAATCTATCGTCAAATATAATGATCTCATGGTACTTTTACCG
3822974 CAAAATGAAATCTATCGTCAAATATAATGATCTCCATGGTACTTTTACCG
1 CAAAATGAAATCTATCGTCAAATATAATGATCT-CATGGTACTTTTACCG
3823024 TGATAAATCT
Statistics
Matches: 74, Mismatches: 2, Indels: 24
0.74 0.02 0.24
Matches are distributed among these distances:
38 35 0.47
40 1 0.01
41 1 0.01
44 2 0.03
47 1 0.01
48 1 0.01
50 33 0.45
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (49 bp):
CAAAATGAAATCTATCGTCAAATATAATGATCTCATGGTACTTTTACCG
Found at i:3822977 original size:20 final size:21
Alignment explanation
Indices: 3822951--3823006 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 21
3822941 TGAAATCTAT
3822951 CGTCAAATATAATGATCTTAC
1 CGTCAAATATAATGATCTTAC
*
3822972 CG-CAAA-ATGAA--ATC-TAT
1 CGTCAAATAT-AATGATCTTAC
3822989 CGTCAAATATAATGATCT
1 CGTCAAATATAATGATCT
3823007 CCATGGTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 4 0.14
20 9 0.32
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (21 bp):
CGTCAAATATAATGATCTTAC
Found at i:3822995 original size:18 final size:18
Alignment explanation
Indices: 3822936--3822995 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
3822926 ACTTTTACCG
3822936 CAAAATGAAATCTATCGT
1 CAAAATGAAATCTATCGT
*
3822954 CAAATAT-AATGATCTTACCG-
1 CAAA-ATGAA--ATC-TATCGT
3822974 CAAAATGAAATCTATCGT
1 CAAAATGAAATCTATCGT
3822992 CAAA
1 CAAA
3822996 TATAATGATC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
17 4 0.12
18 13 0.38
19 4 0.12
20 9 0.26
21 4 0.12
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (18 bp):
CAAAATGAAATCTATCGT
Found at i:3827352 original size:6 final size:6
Alignment explanation
Indices: 3827341--3827371 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
3827331 CCTTTGAGGT
3827341 TTCATC TTCATC TTCATC TTCATC TTCATC T
1 TTCATC TTCATC TTCATC TTCATC TTCATC T
3827372 ATGCAATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
TTCATC
Found at i:3848263 original size:18 final size:17
Alignment explanation
Indices: 3848236--3848272 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
3848226 TAGTAAAAAT
*
3848236 ATAATTTTATTATTTTA
1 ATAATTTTATTATTATA
3848253 ATAATTTTTATTATTATA
1 ATAA-TTTTATTATTATA
3848271 AT
1 AT
3848273 TTTTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATAATTTTATTATTATA
Found at i:3848271 original size:15 final size:16
Alignment explanation
Indices: 3848235--3848277 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
3848225 ATAGTAAAAA
3848235 TATAA-TTTTATTATTT
1 TATAATTTTTATTA-TT
3848251 TAATAATTTTTATTA-T
1 T-ATAATTTTTATTATT
3848267 TATAATTTTTA
1 TATAATTTTTA
3848278 AATAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.40
16 3 0.12
17 4 0.16
18 8 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATAATTTTTATTATT
Found at i:3852404 original size:11 final size:11
Alignment explanation
Indices: 3852390--3852416 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
3852380 AATATTAAAA
3852390 ATATATAGAAC
1 ATATATAGAAC
3852401 ATATATAGAAC
1 ATATATAGAAC
3852412 ATATA
1 ATATA
3852417 CAATACGTAC
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:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (11 bp):
ATATATAGAAC
Found at i:3852650 original size:26 final size:27
Alignment explanation
Indices: 3852602--3852663 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
3852592 AATATATATA
*
3852602 ATAATAATATAAAAAGTAGATAA-AAT
1 ATAATAATATAAAAAGTAAATAAGAAT
*
3852628 ATAATGATATAAAAA-TAAAATAAGAAT
1 ATAATAATATAAAAAGT-AAATAAGAAT
3852655 A-AAGTAATA
1 ATAA-TAATA
3852664 GGTAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.03
26 21 0.70
27 8 0.27
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (27 bp):
ATAATAATATAAAAAGTAAATAAGAAT
Found at i:3853961 original size:23 final size:21
Alignment explanation
Indices: 3853909--3853966 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
3853899 GGGTTTGTAA
* *
3853909 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
3853931 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
3853953 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
3853967 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:3854884 original size:72 final size:73
Alignment explanation
Indices: 3854504--3855111 Score: 861
Period size: 72 Copynumber: 8.4 Consensus size: 73
3854494 ATATTGAGCC
* * * * *
3854504 CAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAACAAAAACT-AAAGATACCTCAACATG
1 CAACTCATTTCTCGCAATATGAGTTGAAT-TTTGAAAAGCAGAAATTGAAA-ATACCTCAAC--G
*
3854567 TGAAC-TGAGGCT
62 TG-TCTTGAGGCT
* * * * *
3854579 CAACTTACTTT-TCGCAATATGAGTTGATTGTTTTGACAA-CAGAAATTGAAATTACCTCAGCGT
1 CAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAAGCAGAAATTGAAAATACCTCAACGT
**
3854642 GTCCCGAGGCT
63 GTCTTGAGGCT
* *
3854653 CAACTCATGTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTC
1 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
3854718 TTGAGGCT
66 TTGAGGCT
* *
3854726 CAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAACGTGTC
1 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
3854791 TTGAGGCT
66 TTGAGGCT
*
3854799 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTC
1 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
3854863 TTGAGGCT
66 TTGAGGCT
3854871 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAA-TG-AAATACCTCAACGTGTC
1 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
3854934 -TGA-G-T
66 TTGAGGCT
3854939 CAACTCA-TTCTCGCAATATGAGTTGAA-TTTGAAAAGCA-AAATTGAAAATACCTCAACGTGTC
1 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
3855001 TTGAGGCT
66 TTGAGGCT
*
3855009 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTC
1 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
3855073 TTGAGGCT
66 TTGAGGCT
3855081 CAACTCATTTCTCGCAATATGAGTTG-ATTTT
1 CAACTCATTTCTCGCAATATGAGTTGAATTTT
3855112 CCTTAGAAAG
Statistics
Matches: 488, Mismatches: 28, Indels: 38
0.88 0.05 0.07
Matches are distributed among these distances:
65 3 0.01
66 13 0.03
67 37 0.08
68 11 0.02
69 2 0.00
70 11 0.02
71 43 0.09
72 145 0.30
73 144 0.30
74 31 0.06
75 21 0.04
76 20 0.04
77 7 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (73 bp):
CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTC
TTGAGGCT
Found at i:3855047 original size:210 final size:217
Alignment explanation
Indices: 3854504--3855111 Score: 932
Period size: 210 Copynumber: 2.8 Consensus size: 217
3854494 ATATTGAGCC
* * * *
3854504 CAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACT-AAAGATACCTCAACATGT
1 CAACTCATTTCTCGCAATATGAATTGAAT-TTGAAAAGCAAAAATTGAAA-ATACCTCAAC--GT
* * * *
3854568 GAAC-TGAGGCTCAACTTACTTT-TCGCAATATGAGTTGATTGTTTTGACAACAGAAATTGAAAT
62 G-TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAT
* ** *
3854631 TACCTCAGCGTGTCCCGAGGCTCAACTCATGTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAA
123 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAA
*
3854696 ATTGAAAATACCTCAATGTGTCTTGAGGCT
188 ATTGAAAATACCTCAACGTGTCTTGAGGCT
3854726 CAACTCATTTCTCGCAATATGAATTGAATTTTGAAAAGCAAAAATTGAAAATACCTCAACGTGTC
1 CAACTCATTTCTCGCAATATGAATTGAA-TTTGAAAAGCAAAAATTGAAAATACCTCAACGTGTC
3854791 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
65 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
3854856 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAA-TG-AA
130 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAA
3854919 ATACCTCAACGTGTC-TGA-G-T
195 ATACCTCAACGTGTCTTGAGGCT
*
3854939 CAACTCA-TTCTCGCAATATGAGTTGAATTTGAAAAGC-AAAATTGAAAATACCTCAACGTGTCT
1 CAACTCATTTCTCGCAATATGAATTGAATTTGAAAAGCAAAAATTGAAAATACCTCAACGTGTCT
3855002 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
66 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
3855067 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT
131 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
3855112 CCTTAGAAAG
Statistics
Matches: 368, Mismatches: 14, Indels: 21
0.91 0.03 0.05
Matches are distributed among these distances:
209 5 0.01
210 131 0.36
211 10 0.03
212 19 0.05
213 8 0.02
214 1 0.00
215 3 0.01
216 16 0.04
217 2 0.01
218 83 0.23
219 4 0.01
220 32 0.09
222 50 0.14
223 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (217 bp):
CAACTCATTTCTCGCAATATGAATTGAATTTGAAAAGCAAAAATTGAAAATACCTCAACGTGTCT
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA
TACCTCAACGTGTCTTGAGGCT
Found at i:3883336 original size:24 final size:21
Alignment explanation
Indices: 3883309--3883351 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 21
3883299 TATAGGGTAC
3883309 AATATAGGTATTTCACAATATTAA
1 AATATA-GTATTT-A-AATATTAA
3883333 AATATAGTATTTAAATATT
1 AATATAGTATTTAAATATT
3883352 TACAACAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 6 0.32
24 6 0.32
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
AATATAGTATTTAAATATTAA
Found at i:3884748 original size:115 final size:116
Alignment explanation
Indices: 3884545--3884779 Score: 418
Period size: 115 Copynumber: 2.0 Consensus size: 116
3884535 TTAAGTTTGC
3884545 TTAATGAAATGTTCCTTTTTTCGACAAATCATAAGTGTTTTCATCCGTTTTACGACCTGAAATTA
1 TTAATGAAATGTTCCTTTTTTCGACAAATCATAAGTGTTTTCATCCGTTTTACGACCTGAAATTA
* *
3884610 ATCCTATTTAAACTAGAAGAATATTCAAGTGATGCACTCCAGATATCAAAA
66 ATCCTATTCAAACCAGAAGAATATTCAAGTGATGCACTCCAGATATCAAAA
*
3884661 TTAATGAAATGTT-CTTTTTTCGACAAATCATAAGTGTTTTCATCCGTTTTACGACCTTAAATTA
1 TTAATGAAATGTTCCTTTTTTCGACAAATCATAAGTGTTTTCATCCGTTTTACGACCTGAAATTA
* *
3884725 ATCCTATTCAAACCAGAAGAATATTCAAGTGATGCACTCCCGATATCAGAA
66 ATCCTATTCAAACCAGAAGAATATTCAAGTGATGCACTCCAGATATCAAAA
3884776 TTAA
1 TTAA
3884780 AACAACTTTG
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
115 101 0.89
116 13 0.11
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (116 bp):
TTAATGAAATGTTCCTTTTTTCGACAAATCATAAGTGTTTTCATCCGTTTTACGACCTGAAATTA
ATCCTATTCAAACCAGAAGAATATTCAAGTGATGCACTCCAGATATCAAAA
Found at i:3894067 original size:20 final size:19
Alignment explanation
Indices: 3894031--3894086 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
3894021 TTGATCTCAA
* *
3894031 GAAATTAAAAACAAAAATT
1 GAAAATAAAATCAAAAATT
3894050 GAAAATAAAATCATAAAATT
1 GAAAATAAAATCA-AAAATT
*
3894070 AAAAATAAAAT-AAAAAT
1 GAAAATAAAATCAAAAAT
3894087 AAAAAAGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.15
19 12 0.36
20 16 0.48
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
GAAAATAAAATCAAAAATT
Found at i:3894078 original size:6 final size:6
Alignment explanation
Indices: 3894036--3894091 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
3894026 CTCAAGAAAT
* * *
3894036 TAAAAA CAAAAA TTGAAAA TAAAATCA TAAAAT TAAAAA T-AAAA TAAAAA
1 TAAAAA TAAAAA -TAAAAA TAAAA--A TAAAAA TAAAAA TAAAAA TAAAAA
3894086 TAAAAA
1 TAAAAA
3894092 AGGAAACTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.12
6 25 0.62
7 4 0.10
8 6 0.15
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:3894091 original size:12 final size:12
Alignment explanation
Indices: 3894036--3894091 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 12
3894026 CTCAAGAAAT
*
3894036 TAAAAACAAAAA
1 TAAAAATAAAAA
*
3894048 TTGAAAATAAAATCA
1 -TAAAAATAAAA--A
*
3894063 TAAAATTAAAAA
1 TAAAAATAAAAA
3894075 T-AAAATAAAAA
1 TAAAAATAAAAA
3894086 TAAAAA
1 TAAAAA
3894092 AGGAAACTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
11 10 0.29
12 6 0.17
13 9 0.26
14 9 0.26
15 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:3897517 original size:11 final size:11
Alignment explanation
Indices: 3897501--3897525 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3897491 TTGAGTTAGC
3897501 TAAAAATAGTT
1 TAAAAATAGTT
3897512 TAAAAATAGTT
1 TAAAAATAGTT
3897523 TAA
1 TAA
3897526 TGAATCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (11 bp):
TAAAAATAGTT
Found at i:3901411 original size:173 final size:173
Alignment explanation
Indices: 3901102--3901443 Score: 521
Period size: 173 Copynumber: 2.0 Consensus size: 173
3901092 TTCGAAATTG
* *
3901102 CTATTATGTTGATGATGCCATAAAGCAGTGTTAATGTTGCTTGAAGGAAAAGCGAGTCTCTCCCC
1 CTATTATGTTGATGATGCCATAAAGCAGTGTTAATGTGGCTTGAAGGAAAAGAGAGTCTCTCCCC
* *
3901167 TGAGATGTATCTATTCTGCTGGAAGGAGCAGTCATATACTAAAATATGAGGTCATAGTGGAATCA
66 TGAGATGTATCTAATCTGCTGGAAGGAGCAGTCAAATACTAAAATATGAGGTCATAGTGGAATCA
3901232 AATGTCATCCTATAGCGTTCATGAGATGTTTCTATTGTAATCA
131 AATGTCATCCTATAGCGTTCATGAGATGTTTCTATTGTAATCA
*
3901275 CTATTATGTTGATGATGCCATAAATTG-A-TGTTTATGTGGCTTGAACGGAAAA-AGAGTCTCTC
1 CTATTATGTTGATGATGCCATAAA--GCAGTGTTAATGTGGCTTGAA-GGAAAAGAGAGTCTCTC
* * *
3901337 TCCTGAGATGTCTCTAATCTGCTGTAAGGAGCAGTCAAATACTAAAATATGAGGGTCATAGT-GA
63 CCCTGAGATGTATCTAATCTGCTGGAAGGAGCAGTCAAATACTAAAATATGA-GGTCATAGTGGA
* * *
3901401 ATCGAATGTCATCCTATAGTGTTCATGAGGTGTTTCTATTGTA
127 ATCAAATGTCATCCTATAGCGTTCATGAGATGTTTCTATTGTA
3901444 TATATTTAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
173 137 0.89
174 16 0.10
175 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (173 bp):
CTATTATGTTGATGATGCCATAAAGCAGTGTTAATGTGGCTTGAAGGAAAAGAGAGTCTCTCCCC
TGAGATGTATCTAATCTGCTGGAAGGAGCAGTCAAATACTAAAATATGAGGTCATAGTGGAATCA
AATGTCATCCTATAGCGTTCATGAGATGTTTCTATTGTAATCA
Found at i:3904494 original size:17 final size:19
Alignment explanation
Indices: 3904461--3904495 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
3904451 ATTGTTTGGA
3904461 TATTATATAACTTTTGTTT
1 TATTATATAACTTTTGTTT
3904480 TATTAT-TAA-TTTTGTT
1 TATTATATAACTTTTGTT
3904496 ATTACTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (19 bp):
TATTATATAACTTTTGTTT
Found at i:3911268 original size:28 final size:26
Alignment explanation
Indices: 3911216--3911268 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
3911206 TATAAAATAA
*
3911216 TTTTTTTTAAAAAATTGAATAATGAT
1 TTTTTTTTAAAAAATTGAAAAATGAT
3911242 TTTTTTATTAAAACAATAT-AAAAATGA
1 TTTTTT-TTAAAA-AAT-TGAAAAATGA
3911269 AATTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.26
27 6 0.26
28 10 0.43
29 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (26 bp):
TTTTTTTTAAAAAATTGAAAAATGAT
Found at i:3925425 original size:5 final size:5
Alignment explanation
Indices: 3925403--3925436 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
3925393 ATAATAAATG
*
3925403 TTAAT TTTAT TCTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT T-TAAT TTAAT TTAAT TTAAT TTA
3925437 TTCTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:3925433 original size:15 final size:16
Alignment explanation
Indices: 3925403--3925436 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3925393 ATAATAAATG
*
3925403 TTAATTTTATTCTAAT
1 TTAATTTAATTCTAAT
3925419 TTAATTTAATT-TAAT
1 TTAATTTAATTCTAAT
3925434 TTA
1 TTA
3925437 TTCTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTAATTCTAAT
Found at i:3930324 original size:38 final size:38
Alignment explanation
Indices: 3930280--3930356 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
3930270 ACTAATGGAA
3930280 TTTTTAACAAAAGCACCAATTTACTCCTTCAACTAATT
1 TTTTTAACAAAAGCACCAATTTACTCCTTCAACTAATT
3930318 TTTTTAACAAAAGCACCAATTTACTCCTTCAACTAATT
1 TTTTTAACAAAAGCACCAATTTACTCCTTCAACTAATT
3930356 T
1 T
3930357 ACTCATTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (38 bp):
TTTTTAACAAAAGCACCAATTTACTCCTTCAACTAATT
Found at i:3932085 original size:6 final size:6
Alignment explanation
Indices: 3932074--3932098 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3932064 ATCATATTAC
3932074 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
3932099 AATATTAAAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:3933387 original size:13 final size:14
Alignment explanation
Indices: 3933363--3933399 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
3933353 ATGTTAATGA
3933363 TTAAATTAAAATTT
1 TTAAATTAAAATTT
3933377 TTAAA-TAAAA-TT
1 TTAAATTAAAATTT
*
3933389 TTAATTTAAAA
1 TTAAATTAAAA
3933400 AATATAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAATTAAAATTT
Found at i:3936324 original size:28 final size:27
Alignment explanation
Indices: 3936295--3936371 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
3936285 TGTATTTGTA
3936295 AAAAAATATTAATAGTTTTAATAAAAT
1 AAAAAATATTAATAGTTTTAATAAAAT
* * * * *
3936322 -AAAAAT-TTAAAAATATGTATTAGAATT
1 AAAAAATATTAATAGT-TTTAATA-AAAT
3936349 AAAAAATATTAATAGTTTTAATA
1 AAAAAATATTAATAGTTTTAATA
3936372 GACACATGTC
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
25 6 0.16
26 11 0.30
27 3 0.08
28 11 0.30
29 6 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (27 bp):
AAAAAATATTAATAGTTTTAATAAAAT
Found at i:3936369 original size:19 final size:19
Alignment explanation
Indices: 3936295--3936369 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
3936285 TGTATTTGTA
*
3936295 AAAAAATATTAATAGTTTT
1 AAAAAATATTAATAGATTT
3936314 AATAAAATA--AA-A-ATTT
1 AA-AAAATATTAATAGATTT
* *
3936330 -AAAAATATGTATTAGAATT
1 AAAAAATAT-TAATAGATTT
*
3936349 AAAAAATATTAATAGTTTT
1 AAAAAATATTAATAGATTT
3936368 AA
1 AA
3936370 TAGACACATG
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 3 0.07
17 2 0.05
18 3 0.07
19 14 0.33
20 14 0.33
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAAAAATATTAATAGATTT
Found at i:3936373 original size:28 final size:28
Alignment explanation
Indices: 3936295--3936373 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
3936285 TGTATTTGTA
3936295 AAAAAATATTAATAGTTTTAATA-AAAT
1 AAAAAATATTAATAGTTTTAATAGAAAT
* * * * *
3936322 -AAAAAT-TTAAAAATATGTATTAGAATT
1 AAAAAATATTAATAGT-TTTAATAGAAAT
3936349 AAAAAATATTAATAGTTTTAATAGA
1 AAAAAATATTAATAGTTTTAATAGA
3936374 CACATGTCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
25 6 0.15
26 11 0.28
27 3 0.08
28 13 0.33
29 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (28 bp):
AAAAAATATTAATAGTTTTAATAGAAAT
Found at i:3938645 original size:31 final size:31
Alignment explanation
Indices: 3938606--3938681 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
3938596 TTAATATAAC
*
3938606 ATTTGGTACCTAAACTTGACA-TTTATTTCTA
1 ATTTGGTACCTAAACTTGACACTTT-TTCCTA
* * * *
3938637 TTTTGGTACTTGATCTTGACACTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTCCTA
*
3938668 ATTTGGAACCTAAA
1 ATTTGGTACCTAAA
3938682 AGTTTTTGGC
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (31 bp):
ATTTGGTACCTAAACTTGACACTTTTTCCTA
Found at i:3948934 original size:89 final size:85
Alignment explanation
Indices: 3948773--3948971 Score: 204
Period size: 89 Copynumber: 2.3 Consensus size: 85
3948763 GTTTATCTGC
* * ** * *
3948773 AAACACTGGTGATTTATCCACAAACTTACTGGCAGCTTTTATCTGCAAATTCGTTGCGCATTAAC
1 AAACATTGGTGGTTTATCCAC-AACTTACTGGCAGCTTTTATCTGCAAACCCATTGCG-ATTAAA
* *
3948838 CTGCTGGCAGCGTATTAACCTA
64 CTACTGGCAACGTATTAACCTA
* *
3948860 TAAACATTGGTGGTTTATCCACAACTTTTATTGGCAGCTTTTATCTGCAAACCCATTGTG-TTCA
1 -AAACATTGGTGGTTTATCCACAAC--TTACTGGCAGCTTTTATCTGCAAACCCATTGCGATT-A
3948924 CAACTACTGGCAACGTATTAACCTA
62 -AACTACTGGCAACGTATTAACCTA
* *
3948949 CAACACTT-GTGGTTCATCCACAA
1 AAACA-TTGGTGGTTTATCCACAA
3948972 TCTGGAGTGT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
87 5 0.05
88 38 0.40
89 51 0.54
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (85 bp):
AAACATTGGTGGTTTATCCACAACTTACTGGCAGCTTTTATCTGCAAACCCATTGCGATTAAACT
ACTGGCAACGTATTAACCTA
Found at i:3950657 original size:22 final size:22
Alignment explanation
Indices: 3950632--3950675 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3950622 ACAAGTATTG
3950632 TATTGAAATTTAAAAT-AAAATA
1 TATTGAAATTT-AAATCAAAATA
* *
3950654 TATTTAGATTTAAATCAAAATA
1 TATTGAAATTTAAATCAAAATA
3950676 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TATTGAAATTTAAATCAAAATA
Found at i:3953155 original size:27 final size:27
Alignment explanation
Indices: 3953125--3953222 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 27
3953115 TTTTAACTTG
*
3953125 ATTTTATTATATTTTTAGCTTTTAAAA
1 ATTTTATTATATTTTTAGATTTTAAAA
* * **
3953152 ATTTTATTTTATTTTTA-TTTTTAAGT
1 ATTTTATTATATTTTTAGATTTTAAAA
* *
3953178 A-TTTA-TAGATTTTATAGATTTTTAAA
1 ATTTTATTATATTTT-TAGATTTTAAAA
3953204 ATTTCTATT-TATTTTTAGA
1 ATTT-TATTATATTTTTAGA
3953223 ATCTTCTAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
24 6 0.11
25 6 0.11
26 13 0.24
27 22 0.40
28 7 0.13
29 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (27 bp):
ATTTTATTATATTTTTAGATTTTAAAA
Found at i:3953990 original size:29 final size:29
Alignment explanation
Indices: 3953920--3953984 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
3953910 GTATTTTTAT
* *
3953920 AAAATATCCAATACGGTACTTGTACTTTG
1 AAAATGTCCAATGCGGTACTTGTACTTTG
3953949 AAAATGTCCAATGCGGTACTTGTACTTTG
1 AAAATGTCCAATGCGGTACTTGTACTTTG
3953978 AAAATGT
1 AAAATGT
3953985 TTAATGTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (29 bp):
AAAATGTCCAATGCGGTACTTGTACTTTG
Found at i:3953996 original size:29 final size:29
Alignment explanation
Indices: 3953920--3953998 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
3953910 GTATTTTTAT
* * *
3953920 AAAATATCCAATACGGTACTTGTACTTTG
1 AAAATGTCCAATGCAGTACTTGTACTTTG
*
3953949 AAAATGTCCAATGCGGTACTTGTACTTTG
1 AAAATGTCCAATGCAGTACTTGTACTTTG
** *
3953978 AAAATGTTTAATGTAGTACTT
1 AAAATGTCCAATGCAGTACTT
3953999 ATGTTTTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (29 bp):
AAAATGTCCAATGCAGTACTTGTACTTTG
Found at i:3958774 original size:3 final size:3
Alignment explanation
Indices: 3958768--3958814 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
3958758 AGTGTTGTTT
3958768 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
3958815 CTCCTCTAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:3975552 original size:89 final size:89
Alignment explanation
Indices: 3975364--3975570 Score: 274
Period size: 90 Copynumber: 2.3 Consensus size: 89
3975354 CTCTAGCCCT
* * *
3975364 CAAACTTTTTCAAAAACAGCAATTAAGCCCCTGCTTTTTTTTGCACTCACTTGGGCACTTGAACT
1 CAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCACTCAATTGGGCACTTGAACT
* *
3975429 TTCAAAATGCATAAAAAAGGCCTT
66 TTCAAAAGGCATAAAAAAGGCCTC
* * * *
3975453 TAAACTTTTTCAAAAAAATCAATTAAGCCCCTACTTTTCTTTTTG-ACTTAATTGGGTACTTGAA
1 CAAACTTTTTCAAAAAAAGCAATTAAGCCCCTAC-TTT-TTTTTGCACTCAATTGGGCACTTGAA
*
3975517 CTTTCAAAAGGCATCAAAAAGGTCC-C
64 CTTTCAAAAGGCATAAAAAAGG-CCTC
*
3975543 CAAACTTTTCCAAAAAAAGCAATTAAGC
1 CAAACTTTTTCAAAAAAAGCAATTAAGC
3975571 TCCTGTTTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
89 30 0.29
90 64 0.63
91 8 0.08
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (89 bp):
CAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTGCACTCAATTGGGCACTTGAACT
TTCAAAAGGCATAAAAAAGGCCTC
Found at i:3975748 original size:20 final size:20
Alignment explanation
Indices: 3975721--3975769 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3975711 TTTAATATTT
3975721 ATTA-AAAATTAGGAAAAAA
1 ATTATAAAATTAGGAAAAAA
* * *
3975740 ATTATAAAAATCGTAAAAAA
1 ATTATAAAATTAGGAAAAAA
3975760 ATTATAAAAT
1 ATTATAAAAT
3975770 ATATTTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
ATTATAAAATTAGGAAAAAA
Found at i:3976018 original size:21 final size:19
Alignment explanation
Indices: 3975968--3976032 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
3975958 TTTTTGATGC
*
3975968 ATTTTATAATTTTTATAAA
1 ATTTTATAATTTTTTTAAA
* *
3975987 ATTTTACAATTTTTTTACA
1 ATTTTATAATTTTTTTAAA
3976006 ATTTCTAATAATTTTTTTAATA
1 ATTT-T-ATAATTTTTTTAA-A
3976028 ATTTT
1 ATTTT
3976033 TATTATAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 20 0.53
20 1 0.03
21 12 0.32
22 5 0.13
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTATAATTTTTTTAAA
Found at i:3976285 original size:21 final size:21
Alignment explanation
Indices: 3976241--3976285 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3976231 TTAATTGTCT
**
3976241 TTTTTTGAAAAAGTTTGAGGG
1 TTTTTTGAAAAAGTTTGAAAG
* *
3976262 TTTTTTGATAAATTTTGAAAG
1 TTTTTTGAAAAAGTTTGAAAG
3976283 TTT
1 TTT
3976286 AAGTACCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTTTTGAAAAAGTTTGAAAG
Found at i:3976340 original size:90 final size:87
Alignment explanation
Indices: 3976198--3976446 Score: 279
Period size: 90 Copynumber: 2.8 Consensus size: 87
3976188 GATGCATTTG
* *
3976198 TTAAGTACCCAATTCAGT-GAAAAAAA-TAAGGGCTTAATTGTCTTTTTTTGAAAAAGTTTGAGG
1 TTAAGTACCCAATTGAGTGGAAAAAAAGTAAAGGCTTAATTG-CTTTTTTTGAAAAAGTTTGAGG
3976261 GTTTTTTGATAAATTTTGAAAGT
65 GTTTTTTGATAAATTTTGAAAGT
* ** * *
3976284 TTAAGTACCCAATTGAGTGAGAAAAGAAAGTAATGATTTAATTGCTTTTTTCTG-AAAGGTTTGT
1 TTAAGTACCCAATTGAGTG-GAAAA-AAAGTAAAGGCTTAATTGCTTTTTT-TGAAAAAGTTTGA
*
3976348 GGGCTTTTTTGATATATTTTGAAAGT
63 GGG-TTTTTTGATAAATTTTGAAAGT
* * * * * *
3976374 TCAAGTACTCAATCGATTGCGAAAATAAAGCAAAGGCTTAATTACTTTTTTTGAAAAAGTTTGAG
1 TTAAGTACCCAATTGAGTG-GAAAA-AAAGTAAAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAG
*
3976439 GGCTTTTT
64 GGTTTTTT
3976447 ACACCCTTAA
Statistics
Matches: 135, Mismatches: 21, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
86 17 0.13
88 5 0.04
89 28 0.21
90 85 0.63
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (87 bp):
TTAAGTACCCAATTGAGTGGAAAAAAAGTAAAGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGG
TTTTTTGATAAATTTTGAAAGT
Found at i:3986552 original size:18 final size:17
Alignment explanation
Indices: 3986521--3986555 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3986511 TTTAAATTGA
*
3986521 TTAAAAATCGAAATTAT
1 TTAAAAATCAAAATTAT
3986538 TTAAAAATCCAAAATTAT
1 TTAAAAAT-CAAAATTAT
3986556 CTGATCCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAAATCAAAATTAT
Found at i:3989474 original size:17 final size:18
Alignment explanation
Indices: 3989445--3989493 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
3989435 CATTTTTACC
3989445 AATT-TTTTAA-ATAAAAA
1 AATTATTTTAATAT-AAAA
3989462 AATTATTTTAATATAAAA
1 AATTATTTTAATATAAAA
*
3989480 AAGATATTTTAATA
1 AA-TTATTTTAATA
3989494 GTTTTTCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 12 0.43
19 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AATTATTTTAATATAAAA
Found at i:3989477 original size:19 final size:19
Alignment explanation
Indices: 3989445--3989493 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3989435 CATTTTTACC
3989445 AATT-TTTTAA-ATAAAAA
1 AATTATTTTAATATAAAAA
3989462 AATTATTTTAATATAAAAA
1 AATTATTTTAATATAAAAA
3989481 AGA-TATTTTAATA
1 A-ATTATTTTAATA
3989494 GTTTTTCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 18 0.62
20 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTATTTTAATATAAAAA
Found at i:3989828 original size:26 final size:27
Alignment explanation
Indices: 3989776--3989837 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
3989766 AAAAATAACT
3989776 AAAATATTATAACTTTTTTTTTATTTACC
1 AAAATATTATAAC--TTTTTTTATTTACC
*
3989805 AAAATATTATAAC-TTTTTTATTTACT
1 AAAATATTATAACTTTTTTTATTTACC
3989831 AAAATAT
1 AAAATAT
3989838 ACAAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 19 0.59
29 13 0.41
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTACC
Found at i:3990241 original size:19 final size:19
Alignment explanation
Indices: 3990217--3990280 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
3990207 ATTAAAATAG
3990217 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
3990236 TTTAATGTAATAAAT-TAT
1 TTTAATTTAATAACTCTAT
* *
3990254 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
3990273 TTTAATTT
1 TTTAATTT
3990281 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:3990548 original size:18 final size:19
Alignment explanation
Indices: 3990509--3990567 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
3990499 ATTTTATATT
3990509 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
3990528 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
3990546 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
3990565 TTA
1 TTA
3990568 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:3994548 original size:42 final size:43
Alignment explanation
Indices: 3994485--3994620 Score: 188
Period size: 42 Copynumber: 3.2 Consensus size: 43
3994475 TAACTTTTGT
*
3994485 GGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
1 GGCGCTTA-GTAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
*
3994529 GTCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
1 GGCGCTTAGTAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
** *
3994571 GGCGCTT-GTTCAAAAACGCCGCTAAA-ATTAGTGTTCTTTAGC
1 GGCGCTTAGTAAAAAAACGCCGCTAAAGATCA-TGTTCTTTAGC
3994613 GGCGCTTA
1 GGCGCTTA
3994621 TTTCACAAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
41 4 0.05
42 72 0.87
44 7 0.08
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (43 bp):
GGCGCTTAGTAAAAAAACGCCGCTAAAGATCATGTTCTTTAGC
Found at i:3995053 original size:12 final size:12
Alignment explanation
Indices: 3995024--3995063 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
3995014 TTTTGAACCT
* *
3995024 CTGCTTCTATTG
1 CTGCTTCTCTCG
*
3995036 CAGCTTCTCTCG
1 CTGCTTCTCTCG
3995048 CTGCTTCTCTCG
1 CTGCTTCTCTCG
3995060 CTGC
1 CTGC
3995064 GGCCTCTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.17, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:3995074 original size:21 final size:21
Alignment explanation
Indices: 3995048--3995116 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
3995038 GCTTCTCTCG
*
3995048 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
3995069 CTGCTTGTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
3995090 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
3995111 CTGCTT
1 CTGCTT
3995117 TAAGTTGCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.42, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:4000693 original size:18 final size:18
Alignment explanation
Indices: 4000672--4000732 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
4000662 TGTATGCCCC
*
4000672 ATGTAAGTAATGTAAGCT
1 ATGTAAGTAATGTAAGAT
4000690 ATGTAAGTAATGTAAGAT
1 ATGTAAGTAATGTAAGAT
* * * *
4000708 ATTTAATTTATGTAAGTT
1 ATGTAAGTAATGTAAGAT
4000726 ATGTAAG
1 ATGTAAG
4000733 ATATTTAATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (18 bp):
ATGTAAGTAATGTAAGAT
Found at i:4000702 original size:27 final size:27
Alignment explanation
Indices: 4000672--4000763 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
4000662 TGTATGCCCC
4000672 ATGTAAG-TAATGTAAGCTATGTAAGTA
1 ATGTAAGAT-ATGTAAGCTATGTAAGTA
* ** *
4000699 ATGTAAGATATTTAATTTATGTAAGTT
1 ATGTAAGATATGTAAGCTATGTAAGTA
* ** * *
4000726 ATGTAAGATATTTAATTTATGTAAATT
1 ATGTAAGATATGTAAGCTATGTAAGTA
*
4000753 ATGCAAGATAT
1 ATGTAAGATAT
4000764 TTAATTTACT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.41
Consensus pattern (27 bp):
ATGTAAGATATGTAAGCTATGTAAGTA
Found at i:4000721 original size:36 final size:36
Alignment explanation
Indices: 4000682--4001498 Score: 449
Period size: 36 Copynumber: 22.7 Consensus size: 36
4000672 ATGTAAGTAA
* * * ** * *
4000682 TGTAAGCTATGTAAGTAATGTAAGATATTTAATTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* *
4000718 TGTAAGTTATGTAAGATATTTAATTTATGTAAATTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * * * *
4000754 TGCAAGATATTTAATTTACTTAATTTATGTAAATTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * * * * *
4000790 TGCAAGATATTTAATTTATGTAAGTTATGTAAATTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * * *
4000826 CT-TAATTTATGTAAGTTATGTAAGTTATTTAATTTA
1 -TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * ** *
4000862 CT-TAATTTATGTAAGTTATTCAAGATATTTAAGTTA
1 -TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* *
4000898 TGTAAGTTATGTAAATTACTTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * *
4000934 TGTAAGTTATTTAATTTACTTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * * *
4000970 T-TCAAGATATTTAAGTTATGTAAGTTAT-TCAAGATA
1 TGT-AAGTTATGTAAGTTATTTAATTTATGT-AAGTTA
* * * ** * *
4001006 TTTAATTTATGTAAGTTATGTAAGATATTTAATTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * *
4001042 TGTAAATTATGCAAGATATTTAATTTACT-TAATTTA
1 TGTAAGTTATGTAAGTTATTTAATTTA-TGTAAGTTA
* *
4001078 TGTAAGTTATTTAA-TTAACTTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTT-ATTTAATTTATGTAAGTTA
* * * * * *
4001114 TGCAAGATAT-TAATTTATGTAAGTTATGTAAATTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * ** * *
4001149 CT-TAATTTATGTAAGTTATGTAAGATATTTAATTTA
1 -TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * ** * *
4001185 CT-TAATTTATGTAAGTTATTCAAGATATTTAATTTA
1 -TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* *
4001221 TGTAAGTTATGTAAATTACTTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * *
4001257 TGTAAGATATTTAATTTACTTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * * * *
4001293 T-TCAAGATATTTAAGTTATATGAGTTATGTAAATTA
1 TGT-AAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * * * *
4001329 CT-TAATTTATGTAAGTTATGTAAGTTATTTAATTTA
1 -TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
* * *
4001365 CT-TAATTTATGTAAGTTATTTAATTAACT-TAATTTA
1 -TGTAAGTTATGTAAGTTATTTAATTTA-TGTAAGTTA
* * *
4001401 TGTAAGTTCTGCAAGATATTTAATTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
** * * *
4001437 -CCAAGAATTACT-TAATTTATGTAAGTTATGTAAGTTA
1 TGTAAG--TTA-TGTAAGTTATTTAATTTATGTAAGTTA
* * * *
4001474 TTTAATTTCTGTAAGTTATGTAATT
1 TGTAAGTTATGTAAGTTATTTAATT
4001499 AACCAAATGT
Statistics
Matches: 634, Mismatches: 124, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
35 36 0.06
36 566 0.89
37 29 0.05
38 3 0.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (36 bp):
TGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTA
Found at i:4000764 original size:27 final size:27
Alignment explanation
Indices: 4000689--4001496 Score: 573
Period size: 27 Copynumber: 27.6 Consensus size: 27
4000679 TAATGTAAGC
*
4000689 TATGTAAGTAATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
4000716 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* *
4000743 TATGTAAATTATGCAAGATATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
* *
4000779 TATGTAAATTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
4000806 TATGTAAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
4000833 TATGTAAGTTATGTAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
*
4000869 TATGTAAGTTAT-TCAAGATATTTAAGT
1 TATGTAAGTTATGT-AAGATATTTAATT
*
4000896 TATGTAAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
4000923 TATGTAAGTTATGTAAGTTATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
*
4000959 TATGTAAGTTAT-TCAAGATATTTAAGT
1 TATGTAAGTTATGT-AAGATATTTAATT
4000986 TATGTAAGTTAT-TCAAGATATTTAATT
1 TATGTAAGTTATGT-AAGATATTTAATT
4001013 TATGTAAGTTATGTAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
* *
4001040 TATGTAAATTATGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
4001067 TACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TA-TGTAAGTTATGTAAG--A--T-A-T---TTAATT
*
4001103 TATGTAAGTTATGCAAGATA-TTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
4001129 TATGTAAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
4001156 TATGTAAGTTATGTAAGATATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
4001192 TATGTAAGTTAT-TCAAGATATTTAATT
1 TATGTAAGTTATGT-AAGATATTTAATT
*
4001219 TATGTAAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
4001246 TATGTAAGTTATGTAAGATATTTAATTTACTTAATT
1 TATGTAAGTTATGTAAG--A--T-A--T--TTAATT
*
4001282 TATGTAAGTTAT-TCAAGATATTTAAGT
1 TATGTAAGTTATGT-AAGATATTTAATT
* * *
4001309 TATATGAGTTATGTAA-ATTACTTAATT
1 TATGTAAGTTATGTAAGA-TATTTAATT
*
4001336 TATGTAAGTTATGTAAGTTATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
4001363 TACT-TAATTTATGTAAGTTATTTAATTAACTTAATT
1 TA-TGTAAGTTATGTAAG--A--T-A-T---TTAATT
* *
4001399 TATGTAAGTTCTGCAAGATATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
** *
4001426 TATGTAAGTTA-CCAAGAATTACTTAATT
1 TATGTAAGTTATGTAAG-A-TATTTAATT
*
4001454 TATGTAAGTTATGTAAGTTATTTAATT
1 TATGTAAGTTATGTAAGATATTTAATT
*
4001481 TCTGTAAGTTATGTAA
1 TATGTAAGTTATGTAA
4001497 TTAACCAAAT
Statistics
Matches: 651, Mismatches: 45, Indels: 170
0.75 0.05 0.20
Matches are distributed among these distances:
25 1 0.00
26 31 0.05
27 387 0.59
28 25 0.04
29 10 0.02
30 5 0.01
31 18 0.03
32 14 0.02
33 2 0.00
34 8 0.01
35 6 0.01
36 144 0.22
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (27 bp):
TATGTAAGTTATGTAAGATATTTAATT
Found at i:4000801 original size:90 final size:90
Alignment explanation
Indices: 4000689--4001496 Score: 897
Period size: 90 Copynumber: 9.1 Consensus size: 90
4000679 TAATGTAAGC
* * *
4000689 TATGTAAGTAATGTAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAATTA
1 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTA
* *
4000754 TGCAAGATATTTAATTTACTTAATT
66 TGTAAGTTATTTAATTTACTTAATT
* *
4000779 TATGTAAATTATGCAAGATATTTAATTTATGTAAGTTATGTAA-ATTACTTAATTTATGTAAGTT
1 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAGA-TATTTAATTTATGTAAGTT
4000843 ATGTAAGTTATTTAATTTACTTAATT
65 ATGTAAGTTATTTAATTTACTTAATT
* * *
4000869 TATGTAAGTTATTCAAGATATTTAAGTTATGTAAGTTATGTAA-ATTACTTAATTTATGTAAGTT
1 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAGA-TATTTAATTTATGTAAGTT
4000933 ATGTAAGTTATTTAATTTACTTAATT
65 ATGTAAGTTATTTAATTTACTTAATT
* *
4000959 TATGTAAGTTATTCAAGATATTTAAGTTATGTAAGTTAT-TCAAGATATTTAATTTATGTAAGTT
1 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGT-AAGATATTTAATTTATGTAAGTT
4001023 ATGTAAG--A--T-A--T--TTAATT
65 ATGTAAGTTATTTAATTTACTTAATT
* * * * *
4001040 TATGTAAATTATGCAAGATATTTAATTTACT-TAATTTATGTAAGTTATTTAATTAACT-TAATT
1 TATGTAAGTTATGCAAGATATTTAATTTA-TGTAAGTTATGTAAGATATTTAATTTA-TGTAAGT
** **
4001103 TATGTAAGTTATGCAAGATA-TTAATT
64 TATGTAAGTTATTTAATTTACTTAATT
* * *
4001129 TATGTAAGTTATGTAA-ATTACTTAATTTATGTAAGTTATGTAAGATATTTAATTTACT-TAATT
1 TATGTAAGTTATGCAAGA-TATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA-TGTAAGT
* ** *
4001192 TATGTAAGTTATTCAAGATATTTAATT
64 TATGTAAGTTATTTAATTTACTTAATT
* * *
4001219 TATGTAAGTTATGTAA-ATTACTTAATTTATGTAAGTTATGTAAGATATTTAATTTACT-TAATT
1 TATGTAAGTTATGCAAGA-TATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA-TGTAAGT
* ** * *
4001282 TATGTAAGTTATTCAAGATATTTAAGT
64 TATGTAAGTTATTTAATTTACTTAATT
* * * * * *
4001309 TATATGAGTTATGTAA-ATTACTTAATTTATGTAAGTTATGTAAGTTATTTAATTTACT-TAATT
1 TATGTAAGTTATGCAAGA-TATTTAATTTATGTAAGTTATGTAAGATATTTAATTTA-TGTAAGT
*
4001372 TATGTAAGTTATTTAATTAACTTAATT
64 TATGTAAGTTATTTAATTTACTTAATT
* ** *
4001399 TATGTAAGTTCTGCAAGATATTTAATTTATGTAAGTTA-CCAAGAATTACTTAATTTATGTAAGT
1 TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAG-A-TATTTAATTTATGTAAGT
*
4001463 TATGTAAGTTATTTAATTT-CTGTAAGT
64 TATGTAAGTTATTTAATTTACT-TAATT
4001490 TATGTAA
1 TATGTAA
4001497 TTAACCAAAT
Statistics
Matches: 648, Mismatches: 48, Indels: 43
0.88 0.06 0.06
Matches are distributed among these distances:
81 64 0.10
82 3 0.00
83 2 0.00
85 1 0.00
86 2 0.00
88 4 0.01
89 83 0.13
90 444 0.69
91 45 0.07
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (90 bp):
TATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTA
TGTAAGTTATTTAATTTACTTAATT
Found at i:4001462 original size:55 final size:56
Alignment explanation
Indices: 4001386--4001491 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 56
4001376 TAAGTTATTT
*
4001386 AATTAACTTAATTTATGTAAGTTCTGCAAGATATTTAATTTATGTAAGTTACCAAG
1 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
* * *
4001442 AATT-ACTTAATTTATGTAAGTTATGTAAGTTATTTAATTTCTGTAAGTTA
1 AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTA
4001492 TGTAATTAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 42 0.91
56 4 0.09
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (56 bp):
AATTAACTTAATTTATGTAAGTTATGCAAGATATTTAATTTATGTAAGTTACCAAG
Found at i:4002142 original size:14 final size:14
Alignment explanation
Indices: 4002123--4002156 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4002113 CTCCATGGAA
*
4002123 ATATTTTTAATTAG
1 ATATTTTTAATTAC
4002137 ATA-TTTTAATTAC
1 ATATTTTTAATTAC
4002150 ATATTTT
1 ATATTTT
4002157 AATAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
ATATTTTTAATTAC
Found at i:4002145 original size:13 final size:13
Alignment explanation
Indices: 4002127--4002159 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4002117 ATGGAAATAT
*
4002127 TTTTAATTAGATA
1 TTTTAATTACATA
4002140 TTTTAATTACATA
1 TTTTAATTACATA
4002153 TTTTAAT
1 TTTTAAT
4002160 AAACATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (13 bp):
TTTTAATTACATA
Found at i:4005117 original size:115 final size:114
Alignment explanation
Indices: 4004912--4005178 Score: 281
Period size: 115 Copynumber: 2.3 Consensus size: 114
4004902 GGTTAAGACC
* * * * *
4004912 AAAACTCTGCGTTTTGGTTAATA-CATTTTCCGGCGCTTATCAAAAAGCGCCGCTAATACAATGC
1 AAAACGCTGCGTTTTGGTGAATATC-TTTTGCGGCGCTTATAAAAAAGCGCCGCTAATACAATAC
* *** *
4004976 TATAGCGGCGATTTCTCGTGAACGCCACTAATTCCAGTATACATCAAG-A
65 TATAGCGGCGATATCTCAAAAACGCCACTAATTCCAATATACATCAAGTA
* * *
4005025 CTTAAACGCTGCGTTTTTGTGAATATCTTTTGCGGCGCTTATAAAAAAGCGCCGCTAATA-ATCT
1 --AAAACGCTGCGTTTTGGTGAATATCTTTTGCGGCGCTTATAAAAAAGCGCCGCTAATACA-AT
* * * *
4005089 ACTTTAGCGGCGATATC-CAAAAAGCGCCACTAATTCTAATATACCTCATGTA
63 ACTATAGCGGCGATATCTCAAAAA-CGCCACTAATTCCAATATACATCAAGTA
* * *
4005141 AAAACGCAGCGTTTTGGTGAGTATATTTTGCGGCGCTT
1 AAAACGCTGCGTTTTGGTGAATATCTTTTGCGGCGCTT
4005179 CTGCACAAAC
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
114 37 0.29
115 87 0.69
116 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (114 bp):
AAAACGCTGCGTTTTGGTGAATATCTTTTGCGGCGCTTATAAAAAAGCGCCGCTAATACAATACT
ATAGCGGCGATATCTCAAAAACGCCACTAATTCCAATATACATCAAGTA
Found at i:4007311 original size:17 final size:17
Alignment explanation
Indices: 4007289--4007323 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4007279 TTCATGCTAC
*
4007289 TTTTTTTAAATTTTGTA
1 TTTTTTTAAATGTTGTA
*
4007306 TTTTTTTTAATGTTGTA
1 TTTTTTTAAATGTTGTA
4007323 T
1 T
4007324 AATTTGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTTTTTAAATGTTGTA
Found at i:4017855 original size:25 final size:24
Alignment explanation
Indices: 4017827--4017875 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4017817 ATTTTTACTA
*
4017827 TTTACCAAAAAAAGGTAAATAAATT
1 TTTAACAAAAAAA-GTAAATAAATT
* *
4017852 TTTAATAGAAAAAGTAAATAAATT
1 TTTAACAAAAAAAGTAAATAAATT
4017876 GATTGAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (24 bp):
TTTAACAAAAAAAGTAAATAAATT
Found at i:4018075 original size:21 final size:23
Alignment explanation
Indices: 4018051--4018097 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
4018041 ACCAAACAAT
4018051 AAATAAACATA-TAA-TCTAGAA
1 AAATAAACATACTAAGTCTAGAA
* *
4018072 AAATAAATATACTAAGTTTAGAA
1 AAATAAACATACTAAGTCTAGAA
4018095 AAA
1 AAA
4018098 AACCACATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 3 0.14
23 9 0.41
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (23 bp):
AAATAAACATACTAAGTCTAGAA
Found at i:4020152 original size:20 final size:20
Alignment explanation
Indices: 4020124--4020161 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4020114 GAAATAAATA
4020124 ATATACAATATATTTTTTTT
1 ATATACAATATATTTTTTTT
* *
4020144 ATATTCAATGTATTTTTT
1 ATATACAATATATTTTTT
4020162 GAACTATTAT
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:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
ATATACAATATATTTTTTTT
Found at i:4024134 original size:16 final size:16
Alignment explanation
Indices: 4024115--4024146 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4024105 CATTTAAGCT
*
4024115 ATTTTAAATTTATAAA
1 ATTTTAAATTAATAAA
4024131 ATTTTAAATTAATAAA
1 ATTTTAAATTAATAAA
4024147 GGTAGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTTAAATTAATAAA
Found at i:4029341 original size:13 final size:13
Alignment explanation
Indices: 4029323--4029350 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4029313 AATTCGTGCG
4029323 TAATTTTATAACC
1 TAATTTTATAACC
4029336 TAATTTTATAACC
1 TAATTTTATAACC
4029349 TA
1 TA
4029351 TAAATTTACG
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:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTATAACC
Found at i:4036462 original size:14 final size:14
Alignment explanation
Indices: 4036443--4036471 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4036433 TAGATGTGGC
4036443 TTATTATGCGTATT
1 TTATTATGCGTATT
4036457 TTATTATGCGTATT
1 TTATTATGCGTATT
4036471 T
1 T
4036472 GGATAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TTATTATGCGTATT
Found at i:4038469 original size:51 final size:51
Alignment explanation
Indices: 4038409--4038522 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
4038399 AAATGTTGCA
* * * *
4038409 GACTGAATTTGTTAAA-CTAAAACTAAATTGACAGAATGTATAAA-TGTTATG
1 GACTAAATTTGTTAAATC-AAAACCAAATTGAAAGAATGTATAAACT-TTAAG
* *
4038460 GACTAAATTTGTTAAATCAAGACCAAATTGAAAGAATGTGTAAACTTTAAG
1 GACTAAATTTGTTAAATCAAAACCAAATTGAAAGAATGTATAAACTTTAAG
4038511 GACTAAATTTGT
1 GACTAAATTTGT
4038523 CAGTATATCA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 53 0.96
52 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (51 bp):
GACTAAATTTGTTAAATCAAAACCAAATTGAAAGAATGTATAAACTTTAAG
Found at i:4041662 original size:11 final size:11
Alignment explanation
Indices: 4041646--4041670 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4041636 GACACACAAC
4041646 GATGAAGGTGA
1 GATGAAGGTGA
4041657 GATGAAGGTGA
1 GATGAAGGTGA
4041668 GAT
1 GAT
4041671 AAGTTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (11 bp):
GATGAAGGTGA
Found at i:4061319 original size:208 final size:210
Alignment explanation
Indices: 4060953--4061371 Score: 635
Period size: 208 Copynumber: 2.0 Consensus size: 210
4060943 TTTGGTCTCT
* * *
4060953 ACCTCTTCCTTCGTGCATGCGTGCAATGGATTTGAAGACAACCTCAAAGTTATGATGTTTCCATA
1 ACCTCTTCCTTCGTGCACGCGTGCAATGGATTCGAAGACAACCTC-AAGTTATGATGTTCCCATA
*
4061018 TTTGATAAACAGTGGGACCATATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGTGAGTTGC
65 TTTGATAAACAGTGGGACCATATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGTGAGTTAC
* * *
4061083 AAGATAATAAACAAAGCAACAATTTAAAAGATTCGATAGAAAGGGAAGGTAATATTCTTCAAAGT
130 AAGATAATAAACAAAGCAACAATTTAAAAGATTCGATAAAAAGGAAAGGCAATATTCTTCAAAGT
*
4061148 AGGTTGAATATATTCA
195 AGGTTGAAGATATTCA
* *
4061164 ACCTC-TCCTTCGTGCACGTGTGCAATGGATTCGAAGACAATCTC-AGTTATGATGTTCCCATAT
1 ACCTCTTCCTTCGTGCACGCGTGCAATGGATTCGAAGACAACCTCAAGTTATGATGTTCCCATAT
* * *
4061227 TTGATAAATAGTGGGACCATATAAACTTAACTCTAGGTCTCCAAGTATTTGGATAGTGAGTTACG
66 TTGATAAACAGTGGGACCATATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGTGAGTTACA
* * * * * * *
4061292 AGATAATAACCAATGCGACAATTTAAAAGGTTTGATAAAAAGGAAAGGCAATATTTTTCGAAGTA
131 AGATAATAAACAAAGCAACAATTTAAAAGATTCGATAAAAAGGAAAGGCAATATTCTTCAAAGTA
4061357 GGTTGAAGATATTCA
196 GGTTGAAGATATTCA
4061372 CCATTGGAGA
Statistics
Matches: 188, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
208 148 0.79
210 35 0.19
211 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (210 bp):
ACCTCTTCCTTCGTGCACGCGTGCAATGGATTCGAAGACAACCTCAAGTTATGATGTTCCCATAT
TTGATAAACAGTGGGACCATATAAACTTAACTCTAGGTCTCCAAATATTTGGATAGTGAGTTACA
AGATAATAAACAAAGCAACAATTTAAAAGATTCGATAAAAAGGAAAGGCAATATTCTTCAAAGTA
GGTTGAAGATATTCA
Found at i:4079417 original size:16 final size:16
Alignment explanation
Indices: 4079395--4079434 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
4079385 AACTTGAAAG
4079395 ACTTGAACCCAAAACA
1 ACTTGAACCCAAAACA
*
4079411 GCTTGAA-CCAAAACA
1 ACTTGAACCCAAAACA
4079426 ACTTGAACC
1 ACTTGAACC
4079435 TGGAATTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.45, C:0.30, G:0.10, T:0.15
Consensus pattern (16 bp):
ACTTGAACCCAAAACA
Found at i:4081485 original size:120 final size:119
Alignment explanation
Indices: 4081332--4081637 Score: 416
Period size: 123 Copynumber: 2.5 Consensus size: 119
4081322 AGAGGCAAGC
* **
4081332 TACCAGGTGAT-AGTTTTGGTGGTGGTGAGTATGAAGGTGATGAAGATTTTGGTGGTTTTGCTGC
1 TACCTGGTGATGA-TTTTGGTGGTGG-GAGTATGAAGGTGATGAAGATTTTGGTGGTTTTGCCCC
*
4081396 TCCTGGTGGTGTTTTACTAATGTATGGTCCTGGTGCAGCAGCTGGCGGTGGTACTT
64 TCCTGGTGGTGTGTTACTAATGTATGGTCCTGGTGCAGCAGCTGGCGGTGGTACTT
* *
4081452 TACCTGGTGGTGATTTTGGTGGTGGCGAGTATGAAGGTGACGACGAAGATTTTGGTGGTTTTGCC
1 TACCTGGTGATGATTTTGGTGGTGG-GAGTATGAAGGT---GATGAAGATTTTGGTGGTTTTGCC
* * *
4081517 CCTGCTGGTGGTGTGTTGCTACTGTATGGTCCTGGTGCAGCAGCTGGCGGTGGTACTT
62 CCTCCTGGTGGTGTGTTACTAATGTATGGTCCTGGTGCAGCAGCTGGCGGTGGTACTT
* *
4081575 TACCTGGTGATGATTTTGGTGGTGAAGGAAAGTGTGGAGGTGATGAAGATTTTGGTGGTTTTG
1 TACCTGGTGATGATTTTGGTGGTG--GG--AGTATGAAGGTGATGAAGATTTTGGTGGTTTTG
4081638 TTGGTGGTGA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
120 33 0.20
121 1 0.01
123 119 0.73
124 1 0.01
125 1 0.01
126 9 0.05
ACGTcount: A:0.16, C:0.11, G:0.38, T:0.35
Consensus pattern (119 bp):
TACCTGGTGATGATTTTGGTGGTGGGAGTATGAAGGTGATGAAGATTTTGGTGGTTTTGCCCCTC
CTGGTGGTGTGTTACTAATGTATGGTCCTGGTGCAGCAGCTGGCGGTGGTACTT
Found at i:4082870 original size:63 final size:63
Alignment explanation
Indices: 4082803--4082945 Score: 200
Period size: 63 Copynumber: 2.3 Consensus size: 63
4082793 GGTCTGATGC
*
4082803 ATGTTGAAGC-ATGTAA-AACAATATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
1 ATGTTGAAGCAAT-TAATAA-AAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
* * *
4082866 ATGTTTAAGCAATTAATTAGAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
1 ATGTTGAAGCAATTAATAAAAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
**
4082929 ATGTTTTAGCAATTAAT
1 ATGTTGAAGCAATTAAT
4082946 TAGAGATACT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
63 70 0.96
64 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (63 bp):
ATGTTGAAGCAATTAATAAAAGATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTA
Found at i:4082946 original size:63 final size:63
Alignment explanation
Indices: 4082825--4082953 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
4082815 GTAAAACAAT
4082825 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
1 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
*
4082888 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTTAGCAATTAATTAGAG
1 ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
4082951 ATA
1 ATA
4082954 CTTGATAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (63 bp):
ATAACCCCATTTCGAAACAGGAAACCTTGTTATTATAAGTAATGTTTAAGCAATTAATTAGAG
Found at i:4088502 original size:13 final size:14
Alignment explanation
Indices: 4088470--4088502 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
4088460 TTGTTATAAC
4088470 TAAA-TTAATTTAA
1 TAAATTTAATTTAA
4088483 TAAATTTAATTT-A
1 TAAATTTAATTTAA
4088496 TAAATTT
1 TAAATTT
4088503 TGTAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAATTTAATTTAA
Found at i:4095177 original size:11 final size:11
Alignment explanation
Indices: 4095161--4095215 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
4095151 TTATATATTA
4095161 AATAAAATAAT
1 AATAAAATAAT
4095172 AATAAAATAAT
1 AATAAAATAAT
* *
4095183 AA-AATAT-CT
1 AATAAAATAAT
* *
4095192 CATTAAAATATT
1 -AATAAAATAAT
4095204 AATAAAATAAT
1 AATAAAATAAT
4095215 A
1 A
4095216 TTTATCTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
9 1 0.03
10 5 0.15
11 27 0.79
12 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:4095207 original size:32 final size:32
Alignment explanation
Indices: 4095163--4095257 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 32
4095153 ATATATTAAA
*
4095163 TAAAATAATAATAAAATAATAAAATATCTCAT
1 TAAAATATTAATAAAATAATAAAATATCTCAT
** *
4095195 TAAAATATTAATAAAATAAT-ATTTATCTAAT
1 TAAAATATTAATAAAATAATAAAATATCTCAT
4095226 T-AAATAATT-ATAAAATATCATCAAAATATCTC
1 TAAAAT-ATTAATAAAATA--AT-AAAATATCTC
4095258 TAATATCATC
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 12 0.24
31 12 0.24
32 21 0.41
34 6 0.12
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
TAAAATATTAATAAAATAATAAAATATCTCAT
Found at i:4097243 original size:24 final size:24
Alignment explanation
Indices: 4097202--4097247 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
4097192 GAAAACAAAA
4097202 TTTCTTTTTGGTGATTTTTTTTTG
1 TTTCTTTTTGGTGATTTTTTTTTG
4097226 TTTC-TTTTGGTGATTTTTTTTT
1 TTTCTTTTTGGTGATTTTTTTTT
4097248 CTCTTATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.04, C:0.04, G:0.15, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTGGTGATTTTTTTTTG
Found at i:4097258 original size:20 final size:22
Alignment explanation
Indices: 4097210--4097259 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4097200 AATTTCTTTT
* *
4097210 TGGTGATTTTTTTTTGTTTCTTT
1 TGGTGA-TTTTTTTTGTCTCTTA
4097233 TGGTGATTTTTTTT-TCTCTTA
1 TGGTGATTTTTTTTGTCTCTTA
4097254 T-GTGAT
1 TGGTGAT
4097260 GTTTAAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 6 0.24
22 8 0.32
23 6 0.24
ACGTcount: A:0.08, C:0.06, G:0.18, T:0.68
Consensus pattern (22 bp):
TGGTGATTTTTTTTGTCTCTTA
Found at i:4100203 original size:16 final size:14
Alignment explanation
Indices: 4100166--4100204 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
4100156 TTCTGCATTT
4100166 TTACAAAAATAATA
1 TTACAAAAATAATA
*
4100180 TTAAAAAAATAATTAA
1 TTACAAAAATAA-T-A
4100196 TTACAAAAA
1 TTACAAAAA
4100205 AAGAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.52
15 1 0.05
16 9 0.43
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (14 bp):
TTACAAAAATAATA
Found at i:4107634 original size:26 final size:27
Alignment explanation
Indices: 4107595--4107645 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
4107585 GAATATATAA
4107595 TAAATATATATTTTATTTTTAAAATTT
1 TAAATATATATTTTATTTTTAAAATTT
*
4107622 TAAA-ATATTTTTTATTTTTAAAAT
1 TAAATATATATTTTATTTTTAAAAT
4107646 AAATTTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TAAATATATATTTTATTTTTAAAATTT
Found at i:4114462 original size:5 final size:5
Alignment explanation
Indices: 4114452--4114481 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
4114442 TGTTTACACC
4114452 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
4114482 ATCAATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:4115361 original size:7 final size:7
Alignment explanation
Indices: 4115351--4115379 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4115341 ATCAATCTAC
4115351 AAAAAAG
1 AAAAAAG
4115358 -AAAAAG
1 AAAAAAG
4115364 AAAAAAG
1 AAAAAAG
4115371 AAAAAAG
1 AAAAAAG
4115378 AA
1 AA
4115380 TATCATAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4115369 original size:13 final size:13
Alignment explanation
Indices: 4115351--4115375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4115341 ATCAATCTAC
4115351 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
4115364 AAAAAAGAAAAA
1 AAAAAAGAAAAA
4115376 AGAATATCAT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:4127424 original size:24 final size:24
Alignment explanation
Indices: 4127392--4127441 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4127382 AGGGATCCAC
4127392 TTATTATGATATAAACTAATATGG
1 TTATTATGATATAAACTAATATGG
4127416 TTATTATGATATAAACTAATATGG
1 TTATTATGATATAAACTAATATGG
4127440 TT
1 TT
4127442 TTACTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (24 bp):
TTATTATGATATAAACTAATATGG
Found at i:4131268 original size:10 final size:10
Alignment explanation
Indices: 4131253--4131285 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
4131243 CCTTTTAAAA
4131253 AATAATTTTT
1 AATAATTTTT
4131263 AATAATTTTT
1 AATAATTTTT
4131273 AATAATTTTT
1 AATAATTTTT
4131283 AAT
1 AAT
4131286 CTTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATAATTTTT
Found at i:4132006 original size:21 final size:20
Alignment explanation
Indices: 4131965--4132006 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
4131955 ATAAAGAAAA
*
4131965 TAAAAAATATATTTATTAAT
1 TAAAAAATATATTTATGAAT
4131985 TAAATAAATATATATTA-GAAT
1 TAAA-AAATATAT-TTATGAAT
4132006 T
1 T
4132007 CCTTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAAAAAATATATTTATGAAT
Found at i:4132285 original size:21 final size:21
Alignment explanation
Indices: 4132261--4132302 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4132251 AGTAAATTAC
4132261 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
4132282 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
4132303 CGAGATGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:4132791 original size:17 final size:18
Alignment explanation
Indices: 4132769--4132810 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
4132759 TATAATTTAG
*
4132769 ATATAAAATATACTA-AA
1 ATATAAAATAAACTAGAA
4132786 ATATAAAATAAACTAGAA
1 ATATAAAATAAACTAGAA
4132804 A-ATAAAA
1 ATATAAAA
4132811 ATGGAGTCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (18 bp):
ATATAAAATAAACTAGAA
Found at i:4132899 original size:21 final size:20
Alignment explanation
Indices: 4132851--4132917 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 20
4132841 TACTATATTA
4132851 ATATAAAAGAAATATAACTAAGAT
1 ATATAAAA-AAA-ATAA-TAA-AT
* *
4132875 ATA-AAAAAAGATATTAAAT
1 ATATAAAAAAAATAATAAAT
*
4132894 ATAT-AAATAAATAATAAAT
1 ATATAAAAAAAATAATAAAT
4132913 ATATA
1 ATATA
4132918 TATATATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 21 0.58
20 3 0.08
21 3 0.08
22 2 0.06
23 4 0.11
24 3 0.08
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (20 bp):
ATATAAAAAAAATAATAAAT
Found at i:4132916 original size:19 final size:19
Alignment explanation
Indices: 4132889--4132927 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4132879 AAAAAGATAT
4132889 TAAATATATAAATAAATAA
1 TAAATATATAAATAAATAA
* *
4132908 TAAATATATATATATATAA
1 TAAATATATAAATAAATAA
4132927 T
1 T
4132928 TAAAATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATAAATAAATAA
Found at i:4143224 original size:243 final size:243
Alignment explanation
Indices: 4142796--4143236 Score: 740
Period size: 243 Copynumber: 1.8 Consensus size: 243
4142786 GCTTCACCGG
* *
4142796 ACATGAACGAAATAATGGAAGTTCGTCAAACATATCTATACCAGCTGACTCGAGGGGGAATTGTT
1 ACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGGGGAATTGTT
*
4142861 AGAACTTAGTCAGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGGAAGTCTATTGCTTA
66 AGAACTTAGTCAGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGAAAGTCTATTGCTTA
*
4142926 AACTAATGTTATTATTGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCAA
131 AACTAATGTTATTAATGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCAA
4142991 ATAAATACACAGATATTGCAAATCTGTCTATTAGAAGGGATTCACAAT
196 ATAAATACACAGATATTGCAAATCTGTCTATTAGAAGGGATTCACAAT
* *
4143039 ACATGAACTAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGGGTAATTGTT
1 ACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGGGGAATTGTT
* * * * * * *
4143104 AGAGCTTAG-CTGGTTTGTAAAACAACCCTACCCTGTAGTAGATCAGGCAGAAAGTCTGTTGCTT
66 AGAACTTAGTC-AGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGAAAGTCTATTGCTT
*
4143168 AAACTAATGTTATTAATGTCAAGTATTGCTCTACAAATATCAAGGCAATTAGACAATGCTGCCCA
130 AAACTAATGTTATTAATGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCA
4143233 AATA
195 AATA
4143237 TATATATATT
Statistics
Matches: 183, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
242 1 0.01
243 182 0.99
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (243 bp):
ACATGAACGAAATAATGAAAGTTCATCAAACATATCTATACCAGCTGACTCGAGGGGGAATTGTT
AGAACTTAGTCAGCTTCTAAAACAACCCTACCCTGTACTAGATCAGACAGAAAGTCTATTGCTTA
AACTAATGTTATTAATGTCAAGTATTGCTCTACAAACATCAAGGCAATTAGACAATGCTGCCCAA
ATAAATACACAGATATTGCAAATCTGTCTATTAGAAGGGATTCACAAT
Found at i:4155229 original size:100 final size:100
Alignment explanation
Indices: 4155056--4155256 Score: 357
Period size: 100 Copynumber: 2.0 Consensus size: 100
4155046 ACACACGTCC
* *
4155056 GTGTCTGAGGCCGTGTGGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCGTGTAACTCTC
1 GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCATGTAACTCTC
*
4155121 TAACTTGGGTTACACAGCTAGCCATACGTTCGTGT
66 TAACTTGGGTTACACAGCCAGCCATACGTTCGTGT
*
4155156 GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGGCCATGTAACTCTC
1 GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCATGTAACTCTC
*
4155221 TAACTTGGGTTACACGGCCAGCCATACGTTCGTGT
66 TAACTTGGGTTACACAGCCAGCCATACGTTCGTGT
4155256 G
1 G
4155257 CCAAGTCGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.27
Consensus pattern (100 bp):
GTGTCTGAGGCCGTGTAGGCATTCGATGTAAGGCACACGGTCGTGTCTCAGCCCATGTAACTCTC
TAACTTGGGTTACACAGCCAGCCATACGTTCGTGT
Found at i:4156520 original size:26 final size:26
Alignment explanation
Indices: 4156491--4156552 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
4156481 ATAAGAGCCA
* *
4156491 TAATTAGGAGGTTCACAAAGAACTTT
1 TAATTAGGAGGCTCACAAAGAACCTT
* * *
4156517 TAATTAGGAAGCTCACGAAGAGCCTT
1 TAATTAGGAGGCTCACAAAGAACCTT
*
4156543 TAATCAGGAG
1 TAATTAGGAG
4156553 CTCCGGATAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (26 bp):
TAATTAGGAGGCTCACAAAGAACCTT
Found at i:4162483 original size:19 final size:19
Alignment explanation
Indices: 4162461--4162531 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
4162451 AAATATATAC
*
4162461 ATTTTGGAATTTTATAAAT
1 ATTTTTGAATTTTATAAAT
4162480 A-TTTT-AATTTT-TAAAATT
1 ATTTTTGAATTTTAT-AAA-T
*
4162498 ATTTTTGAATTTTTTAAA-
1 ATTTTTGAATTTTATAAAT
4162516 ATTATTTGAATTTTAT
1 ATT-TTTGAATTTTAT
4162532 TTTTGTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.02
17 9 0.20
18 8 0.18
19 16 0.36
20 9 0.20
21 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
ATTTTTGAATTTTATAAAT
Found at i:4162513 original size:21 final size:19
Alignment explanation
Indices: 4162470--4162529 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 19
4162460 CATTTTGGAA
*
4162470 TTTTATAAA-TATTTTAA-T
1 TTTTA-AAATTATTTGAATT
4162488 TTTTAAAATTATTTTTGAATT
1 TTTTAAAATTA--TTTGAATT
4162509 TTTTAAAATTATTTGAATT
1 TTTTAAAATTATTTGAATT
4162528 TT
1 TT
4162530 ATTTTTGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 3 0.08
18 7 0.19
19 10 0.27
20 5 0.14
21 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTAAAATTATTTGAATT
Found at i:4162633 original size:9 final size:9
Alignment explanation
Indices: 4162614--4162653 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
4162604 CACAAATATG
*
4162614 TTATTCAAA
1 TTATTCGAA
*
4162623 TTATTTGAA
1 TTATTCGAA
*
4162632 TTATTCGAG
1 TTATTCGAA
4162641 TTATTCGAA
1 TTATTCGAA
4162650 TTAT
1 TTAT
4162654 AAAATTCAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (9 bp):
TTATTCGAA
Found at i:4164153 original size:19 final size:20
Alignment explanation
Indices: 4164113--4164155 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
4164103 TCATTTTCAA
*
4164113 TTTAATTTTTGTTAGTTATT
1 TTTAATATTTGTTAGTTATT
4164133 TTTAATATTT-TTAG-TATT
1 TTTAATATTTGTTAGTTATT
4164151 TTTAA
1 TTTAA
4164156 AGGTAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 4 0.18
20 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTAATATTTGTTAGTTATT
Found at i:4169275 original size:337 final size:338
Alignment explanation
Indices: 4168798--4169992 Score: 1124
Period size: 358 Copynumber: 3.4 Consensus size: 338
4168788 ATGGACATAG
* * * *
4168798 TTCTTTCTTTTCCATGTTTGCCATTCCTTAAAACAACAAGCACTTGTCTAGGGCATACAGACTAA
1 TTCTTTCTTTTCCATGTATGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAA
* * *
4168863 ATAGACTCACACCACCGTATTTTCATTAAAAAGAAAACAACAAATCTCTCAAAGTTACTAGATCT
66 ATAGACTCACACCACC-TATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTACTAGATCT
* * *
4168928 TAATTTTAGGGTATGATTTGGT-A-AC-A-G-AATTATCGAAATGTAAAATTACTTATTACATCA
130 TAAATTTAGGGTGTGATTTGGTAAGACTATGAAATTATCGAAATATAAAATTACTTATTACATCA
* * * **
4168988 TGGGCTCAAAGTAATCTTTGAAATCTAAATGTAAAAATATTATTAAGAAATCTTACATTACCTTT
195 TGGGCTCAAAGTAATATTTAAAATCCAAACATAAAAATATTATTAAGAAATCTTACATTACCTTT
*
4169053 GACAATGTAAGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATC
260 GACAATATAAGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATC
***
4169118 ACCGGAGTTCTTTC
325 AAAAGAGTTCTTTC
* * *
4169132 TTTTCTTTTCTTTTCCATGTATGCCATTACTTAAAACAACAAGTACTTGCCTAGGGTATATAGAC
1 --TTC-TTTCTTTTCCATGTATGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGAC
* * * *
4169197 CAAATAGACTCACACCATCCTATTTCCATTAAGAAGAAAATGACAAATCCCTTAAAGTTACTAAA
63 CAAATAGACTCACACCA-CCTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTACTAGA
*
4169262 TATTAAATTTAGGGTGTGATTTGGTTAAGGGAAAATAAGACTATCTCTGATAACATAATTATCGA
127 TCTTAAATTTAGGGTGTGA--T--TT---GG----TAAGACTA----TG-----A-AATTATCGA
* *
4169327 AATATAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCCAAACATAAAAATGTT
171 AATATAAAATTACTTATTACATCATGGGCTCAAAGTAATATTTAAAATCCAAACATAAAAATATT
** * * *
4169392 ATTCCGAAATCTTACATTACCTTTGACAATATGAGATTATTGAATCATATCTTTTTAAACCTAAC
236 ATTAAGAAATCTTACATTACCTTTGACAATATAAGATTATTGAACCATATCTTTCTAAACCTAAC
*
4169457 AAATTTGAATGGCAAGAGAACATTAAAAGAGTTCTTTC
301 AAATTTGAATGGCAAGAGAACATCAAAAGAGTTCTTTC
* * * *
4169495 TTCTTT-TTTT-CATGTGTGTCAGTCCTTAAAACAATAAGCACTTGCCTAGGGCATATAGACCAA
1 TTCTTTCTTTTCCATGTATGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAA
*
4169558 ATAGACTCACACCACTCTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTATTAGATCT
66 ATAGACTCACACCAC-CTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTACTAGATCT
* *
4169623 TAAATTTAGGGTGTGATTTGGTTAAGGTAAAATAAAGTTATCTCTGATAACACAATTATTGAAAT
130 TAAATTTAGGGTGTGA--T--TT--GG-----T-AAG--A---CT-AT--GA-AATTATCGAAAT
* * * * * *
4169688 GTAAAATTACTTATTACATTATAGGCTCAAAGTAATATTTAAAATCTAAACGTAAAAATGTTATT
174 ATAAAATTACTTATTACATCATGGGCTCAAAGTAATATTTAAAATCCAAACATAAAAATATTATT
** *** * * *
4169753 CTGAAATCTTACATTACCTTTGACAATGCGAGATTATTAAAACATATCTTTCTAAACCTTACAAA
239 AAGAAATCTTACATTACCTTTGACAATATAAGATTATTGAACCATATCTTTCTAAACCTAACAAA
* *
4169818 TTTGAATGGAAAGAGAACATCAACGAA-ATTCTTTCTTTTC
304 TTTGAATGGCAAGAGAACATCAA--AAGA---GTTC-TTTC
* * * * *
4169858 TTTTCTTTTCTTTTCCACGTGTGTCATTCCTTAAAACAACAAGCACTTGTCTAGGGC-T-TAAAC
1 --TTC-TTTCTTTTCCATGTATGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGAC
* * ** * * * *
4169921 CAAATAGACTCATCA-C-CCAATTTTCATT--AAA-AAATTGACAAATCTCTCAAACTTATTGGA
63 CAAATAGACTCA-CACCACCTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTACTAGA
4169981 TCTTAAATTTAG
127 TCTTAAATTTAG
4169993 AGGATAATTT
Statistics
Matches: 730, Mismatches: 78, Indels: 77
0.82 0.09 0.09
Matches are distributed among these distances:
336 3 0.00
337 123 0.17
338 2 0.00
339 1 0.00
341 2 0.00
344 2 0.00
348 1 0.00
349 1 0.00
350 2 0.00
351 1 0.00
356 1 0.00
357 4 0.01
358 283 0.39
359 8 0.01
360 5 0.01
361 41 0.06
362 6 0.01
363 163 0.22
364 11 0.02
365 5 0.01
366 20 0.03
367 7 0.01
368 38 0.05
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (338 bp):
TTCTTTCTTTTCCATGTATGCCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAA
ATAGACTCACACCACCTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTACTAGATCTT
AAATTTAGGGTGTGATTTGGTAAGACTATGAAATTATCGAAATATAAAATTACTTATTACATCAT
GGGCTCAAAGTAATATTTAAAATCCAAACATAAAAATATTATTAAGAAATCTTACATTACCTTTG
ACAATATAAGATTATTGAACCATATCTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCA
AAAGAGTTCTTTC
Found at i:4169695 original size:358 final size:363
Alignment explanation
Indices: 4168949--4170094 Score: 1491
Period size: 358 Copynumber: 3.2 Consensus size: 363
4168939 TATGATTTGG
* * *
4168949 TAACAGAATTATCGAAATGTAAAATTACTTATTACATCATGGGCTCAAAGTAATCTTTGAAATCT
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
* * * * *
4169014 AAATGTAAAAATATTATTAAGAAATCTTACATTACCTTTGACAATGTAAGATTATTGAACCATAT
66 AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAAACATAT
***
4169079 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCACCGGAGTTCTTTCTTTTCTTTTCTT
131 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAAAAGAGTTCTTTC-TTTCTTTTCTT
* * * * *
4169144 TTCCATGTATGCCATTACTTAAAACAACAAGTACTTGCCTAGGGTATATAGACCAAATAGACTCA
195 TTCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCA
* * * * *
4169209 CACCA-TCCTATTTCCATTAAGAAGAAAATGACAAATCCCTTAAAGTTACTAAATATTAAATTTA
260 CACCACT-CTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTAAATTTA
*
4169273 GGGTGTGATTTGGTTAAGGGAAAAT-AAGACTATCTCTGA
324 GGGTGTGATTTGGTTAAGGGAAAATAAAGATTATCTCTGA
* * *
4169312 TAACATAATTATCGAAATATAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCC
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
* * * *
4169377 AAACATAAAAATGTTATTCCGAAATCTTACATTACCTTTGACAATATGAGATTATTGAATCATAT
66 AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAAACATAT
* *
4169442 CTTTTTAAACCTAACAAATTTGAATGGCAAGAGAACATTAAAAGAGTTCTTTC-TTC-TTT-TTT
131 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAAAAGAGTTCTTTCTTTCTTTTCTTT
* *
4169504 T-CATGTGTGTCAGTCCTTAAAACAATAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCAC
196 TCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCAC
*
4169568 ACCACTCTATTTCCATTAAAAAGAAAACGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGG
261 ACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGG
*
4169633 GTGTGATTTGGTTAAGGTAAAATAAAG-TTATCTCTGA
326 GTGTGATTTGGTTAAGGGAAAATAAAGATTATCTCTGA
* * *
4169670 TAACACAATTATTGAAATGTAAAATTACTTATTACATTATAGGCTCAAAGTAATATTTAAAATCT
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
* * *
4169735 AAACGTAAAAATGTTATTCTGAAATCTTACATTACCTTTGACAATGCGAGATTATTAAAACATAT
66 AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAAACATAT
* * *
4169800 CTTTCTAAACCTTACAAATTTGAATGGAAAGAGAACATCAACGAA-ATTCTTTCTTTTCTTTTCT
131 CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAA--AAGA---GTTC-TTTC-TTTCT
* * *
4169864 TTTCTTTTCCACGTGTGTCATTCCTTAAAACAACAAGCACTTGTCTAGGGC-T-TAAACCAAATA
189 TTTCTTTTCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATA
* * * * * *
4169927 GACTCATCA-C-C-CAATTTTCATT--AAA-AAATTGACAAATCTCTCAAACTTATTGGATCTTA
254 GACTCA-CACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTA
* * * *
4169986 AATTTAGAGG-ATAATTTGGTTAAGGGAAAA-ATAAGATGATCTGTGA
318 AATTTAG-GGTGTGATTTGGTTAAGGGAAAATA-AAGATTATCTCTGA
* * * * * *
4170032 TTACAGAATTATCAAAATGTAAAATTACTTATTATATTATGGGCTCAAAATAATTTTTGAAAT
1 TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAAT
4170095 TCTTATATTA
Statistics
Matches: 690, Mismatches: 76, Indels: 35
0.86 0.09 0.04
Matches are distributed among these distances:
358 300 0.43
359 9 0.01
360 6 0.01
361 59 0.09
362 70 0.10
363 168 0.24
364 9 0.01
365 4 0.01
366 20 0.03
367 7 0.01
368 38 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (363 bp):
TAACAGAATTATCGAAATGTAAAATTACTTATTACATTATGGGCTCAAAGTAATATTTAAAATCT
AAACGTAAAAATGTTATTCAGAAATCTTACATTACCTTTGACAATGTGAGATTATTGAAACATAT
CTTTCTAAACCTAACAAATTTGAATGGCAAGAGAACATCAAAAGAGTTCTTTCTTTCTTTTCTTT
TCCATGTGTGTCATTCCTTAAAACAACAAGCACTTGCCTAGGGCATATAGACCAAATAGACTCAC
ACCACTCTATTTCCATTAAAAAGAAAATGACAAATCTCTTAAAGTTATTAGATCTTAAATTTAGG
GTGTGATTTGGTTAAGGGAAAATAAAGATTATCTCTGA
Found at i:4172243 original size:17 final size:17
Alignment explanation
Indices: 4172223--4172258 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
4172213 TCTCTCTTCA
*
4172223 TTTTTTCTCTTTTT-CT
1 TTTTTTTTCTTTTTCCT
4172239 TTTTTTTTCTTTTTCCT
1 TTTTTTTTCTTTTTCCT
4172256 TTT
1 TTT
4172259 CATCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCCT
Found at i:4172244 original size:16 final size:16
Alignment explanation
Indices: 4172223--4172270 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
4172213 TCTCTCTTCA
4172223 TTTTTTCTCTTTTTCT
1 TTTTTTCTCTTTTTCT
*
4172239 TTTTTTTTCTTTTTC-
1 TTTTTTCTCTTTTTCT
*
4172254 -CTTTTCATCTTTTTCT
1 TTTTTTC-TCTTTTTCT
4172270 T
1 T
4172271 CTTTCACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 14 0.54
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTCTTTTTCT
Found at i:4172275 original size:16 final size:15
Alignment explanation
Indices: 4172224--4172276 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
4172214 CTCTCTTCAT
4172224 TTTTTC-TCTTTTTC
1 TTTTTCATCTTTTTC
**
4172238 TTTTTTTTTCTTTTTC
1 -TTTTTCATCTTTTTC
*
4172254 CTTTTCATCTTTTTC
1 TTTTTCATCTTTTTC
4172269 TTCTTTCA
1 TT-TTTCA
4172277 CATTTTTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTCATCTTTTTC
Found at i:4178311 original size:21 final size:22
Alignment explanation
Indices: 4178285--4178333 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
4178275 GATATATGTG
4178285 ATATTTAATATAA-CA-TTTTAA
1 ATATTTAAT-TAATCATTTTTAA
*
4178306 ATATTTTATTAATCATTTTTAA
1 ATATTTAATTAATCATTTTTAA
4178328 A-ATTTA
1 ATATTTA
4178334 TAGTTATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTTAATTAATCATTTTTAA
Found at i:4181948 original size:20 final size:20
Alignment explanation
Indices: 4181925--4181989 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
4181915 ATTGTTACTT
4181925 TATTTATATATTTATAATTA
1 TATTTATATATTTATAATTA
* * *
4181945 TATTTATCTTTTTGTAATTA
1 TATTTATATATTTATAATTA
*
4181965 TATGCTTTTATA-TTATAATTTA
1 TAT--TTATATATTTATAA-TTA
4181987 TAT
1 TAT
4181990 AGAAATTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
20 20 0.57
21 5 0.14
22 10 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TATTTATATATTTATAATTA
Found at i:4191292 original size:127 final size:127
Alignment explanation
Indices: 4191043--4191296 Score: 447
Period size: 127 Copynumber: 2.0 Consensus size: 127
4191033 AATTCATCTC
4191043 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATATAAAAAATATGGGTAAAT
1 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATAT-AAAAATATGGGTAAAT
* *
4191108 TTAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACTTATGTTTGAAATGTTAT
65 TTAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACATATATTTGAAATGTTAT
4191171 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATAT-AAAATATGGGTAAATT
1 CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATATAAAAATATGGGTAAATT
* *
4191235 GTAAAAATAGTCACTTTTATTTGTCTCAGGTTATATTTTAGTCACATATATTTGAAATGTTA
66 -TAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACATATATTTGAAATGTTA
4191297 CGTCATTGTT
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
126 16 0.13
127 57 0.47
128 48 0.40
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (127 bp):
CTTCACCAATTTTATCAATGATTGGAAAAAATAAATCGAATAGGATATAAAAATATGGGTAAATT
TAAAAATAGTCACTTTTATTTGTCTCAGATTACATTTTAGTCACATATATTTGAAATGTTAT
Found at i:4195619 original size:21 final size:22
Alignment explanation
Indices: 4195586--4195629 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4195576 TTTTCCATTG
* *
4195586 TCTTCTGCTTCTCCCTTTGTTT
1 TCTTCTGCTTCTCCATTTCTTT
4195608 TCTTCT-CTTCTCCATTTCTTT
1 TCTTCTGCTTCTCCATTTCTTT
4195629 T
1 T
4195630 AATTTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.02, C:0.32, G:0.05, T:0.61
Consensus pattern (22 bp):
TCTTCTGCTTCTCCATTTCTTT
Found at i:4196062 original size:20 final size:20
Alignment explanation
Indices: 4196020--4196062 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4196010 ATTTACCCAA
* *
4196020 ATTATTAGTATTATTATTAT
1 ATTAGTAGTATTATAATTAT
4196040 ATTAGTAGTATTTATAATT-T
1 ATTAGTAGTA-TTATAATTAT
4196060 ATT
1 ATT
4196063 TAAATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
ATTAGTAGTATTATAATTAT
Found at i:4204742 original size:142 final size:142
Alignment explanation
Indices: 4204486--4204758 Score: 546
Period size: 142 Copynumber: 1.9 Consensus size: 142
4204476 CTTTAAGCCA
4204486 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
1 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
4204551 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATATTGTGCCGAT
66 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATATTGTGCCGAT
4204616 ACTGTTACTGTT
131 ACTGTTACTGTT
4204628 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
1 AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
4204693 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATATTGTGCCGAT
66 CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATATTGTGCCGAT
4204758 A
131 A
4204759 GTGGGGCTTG
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 131 1.00
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (142 bp):
AAATTCTATCAGCTCGCATCTAATCCGTTACCGGTGTTTCCTCCTCGAGTTTGTAGTCTTAAATA
CTGTAAATGTGATTGAAGTTGGCACTTCACTATTATTGATACTGTTACTGTTATATTGTGCCGAT
ACTGTTACTGTT
Found at i:4207737 original size:31 final size:31
Alignment explanation
Indices: 4207671--4207752 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
4207661 TGTTGATGTA
*
4207671 GAGGACTTAATTGATTTTTT-ATTAATTTAC
1 GAGGGCTTAATTGATTTTTTAATTAATTTAC
* *
4207701 GAGGGCTTAATTTATTTTTTAATTATTTTA-
1 GAGGGCTTAATTGATTTTTTAATTAATTTAC
4207731 GAAGGGCTTAATTGATTTTTTA
1 G-AGGGCTTAATTGATTTTTTA
4207753 CGTATTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
30 19 0.41
31 27 0.59
ACGTcount: A:0.28, C:0.05, G:0.16, T:0.51
Consensus pattern (31 bp):
GAGGGCTTAATTGATTTTTTAATTAATTTAC
Found at i:4208201 original size:29 final size:28
Alignment explanation
Indices: 4208118--4208210 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 28
4208108 TTTCAAAAAT
* * * *
4208118 TTTTTATAATCTTTTATTAATTTTTGTTG
1 TTTTTATAATATTTT-TTAATATTTCTTA
* *
4208147 TTTTTATATAAATTTTTTTATCATTTCTTA
1 TTTTTATA-ATATTTTTTAAT-ATTTCTTA
4208177 TTTTTATAATATTTATTTAATATTTTCATTA
1 TTTTTATAATATTT-TTTAATA-TTTC-TTA
4208208 TTT
1 TTT
4208211 CATAACATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
29 18 0.35
30 27 0.53
31 6 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTTTATAATATTTTTTAATATTTCTTA
Found at i:4208259 original size:9 final size:9
Alignment explanation
Indices: 4208223--4208306 Score: 53
Period size: 10 Copynumber: 8.9 Consensus size: 9
4208213 TAACATATTA
4208223 ATAATATTTT
1 ATAAT-TTTT
**
4208233 ATAAAATTT
1 ATAATTTTT
*
4208242 AGTAGTTTTT
1 A-TAATTTTT
4208252 ATAA-TTTT
1 ATAATTTTT
4208260 ATAATTTTT
1 ATAATTTTT
* *
4208269 ATGATATTTG
1 ATAAT-TTTT
*
4208279 ATAATTTTG
1 ATAATTTTT
*
4208288 GTAGATTTTCT
1 ATA-ATTTT-T
4208299 ATAATTTT
1 ATAATTTT
4208307 CAAAAGTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
8 8 0.14
9 20 0.35
10 27 0.47
11 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.57
Consensus pattern (9 bp):
ATAATTTTT
Found at i:4208267 original size:17 final size:18
Alignment explanation
Indices: 4208223--4208286 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
4208213 TAACATATTA
*
4208223 ATAATATTTTATAAAATTT
1 ATAAT-TTTTATAAATTTT
*
4208242 AGTAGTTTTTAT-AATTTT
1 A-TAATTTTTATAAATTTT
* *
4208260 ATAATTTTTATGATATTTG
1 ATAATTTTTAT-AAATTTT
4208279 ATAATTTT
1 ATAATTTT
4208287 GGTAGATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 9 0.24
18 6 0.16
19 19 0.51
20 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
ATAATTTTTATAAATTTT
Found at i:4211599 original size:36 final size:33
Alignment explanation
Indices: 4211559--4211663 Score: 92
Period size: 36 Copynumber: 3.1 Consensus size: 33
4211549 ATAACACCAA
*
4211559 TAAATTTTAAAAAATAAACATATTATCAATTAAATT
1 TAAATTTTAAAAAATAAA-ATA-TAT-AAATAAATT
* *
4211595 TAAATATTAAAAATTAAAA-A-ATAAATAAA-T
1 TAAATTTTAAAAAATAAAATATATAAATAAATT
*
4211625 TAAATTCTT-AAAAATAAAAATATATTAACTAAATT
1 TAAATT-TTAAAAAAT-AAAATATA-TAAATAAATT
4211660 TAAA
1 TAAA
4211664 ATTTGAGGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
30 11 0.19
31 12 0.21
32 3 0.05
33 1 0.02
34 8 0.14
35 6 0.11
36 16 0.28
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (33 bp):
TAAATTTTAAAAAATAAAATATATAAATAAATT
Found at i:4220055 original size:23 final size:22
Alignment explanation
Indices: 4220029--4220079 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
4220019 TTTTTAAAAC
*
4220029 TTTAAATCTTGTCTAAAAGATAT
1 TTTAAATCTTGTATAAAA-ATAT
* * *
4220052 TTTAATTGTTTTATAAAAATAT
1 TTTAAATCTTGTATAAAAATAT
4220074 TTTAAA
1 TTTAAA
4220080 CTTTCAATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (22 bp):
TTTAAATCTTGTATAAAAATAT
Found at i:4225732 original size:17 final size:16
Alignment explanation
Indices: 4225709--4225749 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4225699 ATAGTAAAAA
4225709 TATAATTTTAT-TATT
1 TATAATTTTATATATT
4225724 TCAATAA-TTTATATATT
1 T--ATAATTTTATATATT
4225741 TATAATTTT
1 TATAATTTT
4225750 TAAAAGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 9 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:4228638 original size:16 final size:16
Alignment explanation
Indices: 4228612--4228665 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
4228602 TTTGGTTCGC
*
4228612 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
4228628 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
4228644 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
4228660 TGTAAT
1 TGTAAT
4228666 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:4228916 original size:16 final size:16
Alignment explanation
Indices: 4228879--4228920 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4228869 TTAATCATAT
*
4228879 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4228895 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4228910 TTAAAATATAT
1 TTAAAATATAT
4228921 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4228927 original size:14 final size:15
Alignment explanation
Indices: 4228888--4228929 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4228878 TTTAAACATA
*
4228888 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4228903 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4228917 A-TATAATTTAATA
1 ATTATAATTAAATA
4228930 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4229027 original size:120 final size:120
Alignment explanation
Indices: 4228882--4229316 Score: 798
Period size: 120 Copynumber: 3.6 Consensus size: 120
4228872 ATCATATTTA
4228882 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
4228947 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
4229002 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
4229067 TATTCTTATATGTATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
* *
4229122 AACATAATTATTATTAAATATTTTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* * *
4229187 TATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
* *
4229242 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAATTTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
4229307 TATTCTTATA
66 TATTCTTATA
4229317 ACAAAAATTC
Statistics
Matches: 306, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 306 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
Done.