Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 86 of 130
Found at i:16964117 original size:43 final size:43
Alignment explanation
Indices: 16964019--16964183 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 43
16964009 AGGCAAAATG
* * * * * * * *
16964019 TTTCACATTTTCAATAGTTGTCAAGCTTATACTTAGATAAGTC
1 TTTCAAATTTTCAAAAGTTGTCGAGCTTCTATTTAAACAAGCC
* * * * *
16964062 TTTCACACTTTCAAAAGTTGTCGAGCCTCTATTTAAAGATGCC
1 TTTCAAATTTTCAAAAGTTGTCGAGCTTCTATTTAAACAAGCC
* * * * *
16964105 TTTTAAATTTTCAAAAGTTGTTGAACTTTTACTTAAACAAGCC
1 TTTCAAATTTTCAAAAGTTGTCGAGCTTCTATTTAAACAAGCC
* *
16964148 TTTCAAATTTTCAAAAATTTATCGAGCTTCTATTTA
1 TTTCAAATTTTC-AAAAGTTGTCGAGCTTCTATTTA
16964184 GCTTGCTTTT
Statistics
Matches: 94, Mismatches: 27, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
43 77 0.82
44 17 0.18
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (43 bp):
TTTCAAATTTTCAAAAGTTGTCGAGCTTCTATTTAAACAAGCC
Found at i:16964734 original size:19 final size:20
Alignment explanation
Indices: 16964712--16964754 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
16964702 AAAATTTTGG
**
16964712 AATAATGAATGAATAAA-TA
1 AATAATGAAAAAATAAATTA
16964731 AATAATGAAAAAATAAATTA
1 AATAATGAAAAAATAAATTA
16964751 AATA
1 AATA
16964755 TTATCAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
AATAATGAAAAAATAAATTA
Found at i:16964737 original size:15 final size:15
Alignment explanation
Indices: 16964719--16964748 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16964709 TGGAATAATG
*
16964719 AATGAATAAATAAAT
1 AATGAAAAAATAAAT
16964734 AATGAAAAAATAAAT
1 AATGAAAAAATAAAT
16964749 TAAATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AATGAAAAAATAAAT
Found at i:16964842 original size:20 final size:18
Alignment explanation
Indices: 16964811--16964847 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
16964801 TCATGCAAAA
16964811 AAAATTTAAAATATTTTT
1 AAAATTTAAAATATTTTT
16964829 AAAATGTTAGAAATATTTT
1 AAAAT-TTA-AAATATTTT
16964848 AGAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
AAAATTTAAAATATTTTT
Found at i:16965011 original size:21 final size:22
Alignment explanation
Indices: 16964971--16965011 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16964961 ATTTTTCTAG
*
16964971 TAAAATAAATAAAATGACAAAA
1 TAAAATAAATAAAATCACAAAA
*
16964993 TAAAA-AAATAAAGTCACAA
1 TAAAATAAATAAAATCACAA
16965012 GTGGTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (22 bp):
TAAAATAAATAAAATCACAAAA
Found at i:16968316 original size:52 final size:51
Alignment explanation
Indices: 16968215--16968317 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
16968205 TATAATCATA
* **
16968215 TAAACTTACCTATTAAGAATTTTTTTTTTTTAGAATTTTTCTTCTGCAAGT
1 TAAACTTACCTATTAAGAATTTGTTCATTTTAGAATTTTTCTTCTGCAAGT
*
16968266 TAAACTTGCCTATTAAGAATCTTGTTCATTTTAGAATTCTTT-TTCTGCAAGT
1 TAAACTTACCTATTAAGAAT-TTGTTCATTTTAGAATT-TTTCTTCTGCAAGT
16968318 CTTCATATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 19 0.41
52 24 0.52
53 3 0.07
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.50
Consensus pattern (51 bp):
TAAACTTACCTATTAAGAATTTGTTCATTTTAGAATTTTTCTTCTGCAAGT
Found at i:16969391 original size:48 final size:48
Alignment explanation
Indices: 16969320--16969416 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
16969310 ATAGATTATG
*
16969320 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTTTAC
1 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
16969368 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
1 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
16969416 T
1 T
16969417 CTAACAAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (48 bp):
TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
Found at i:16972271 original size:32 final size:32
Alignment explanation
Indices: 16972230--16972314 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 32
16972220 CGTAATCATG
* *
16972230 GGAGTCACTAAGTACTACACAGTAGAGTCGTA
1 GGAGTCACTAAGTACTACACAGTAGAGCCATA
* * ** * *
16972262 GGAGTCACTAAATGCTACATGGTGGAGCCATG
1 GGAGTCACTAAGTACTACACAGTAGAGCCATA
16972294 GGAGTCACTAAGTACTACACA
1 GGAGTCACTAAGTACTACACA
16972315 ATGATCTGAT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (32 bp):
GGAGTCACTAAGTACTACACAGTAGAGCCATA
Found at i:16976967 original size:18 final size:17
Alignment explanation
Indices: 16976926--16976971 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
16976916 TGTTTCGGTT
*
16976926 TTAATTGAATTAATTTA
1 TTAATTGATTTAATTTA
*
16976943 TCAAATTGATTTAATTTGA
1 T-TAATTGATTTAATTT-A
16976962 TTAATTGATT
1 TTAATTGATT
16976972 AGTCATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.88
19 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (17 bp):
TTAATTGATTTAATTTA
Found at i:16977072 original size:20 final size:21
Alignment explanation
Indices: 16977032--16977076 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
16977022 TTAATTTTAA
* *
16977032 TTAATTGAATTAATTAAAATT
1 TTAATTGAAATAATAAAAATT
16977053 TTAATTGAAAT-ATAAAAATT
1 TTAATTGAAATAATAAAAATT
16977073 TTAA
1 TTAA
16977077 ATATAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TTAATTGAAATAATAAAAATT
Found at i:16977243 original size:15 final size:16
Alignment explanation
Indices: 16977213--16977246 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
16977203 AATTATGAGT
16977213 TTAAAATATAATTTTA
1 TTAAAATATAATTTTA
*
16977229 TTAAAATGT-ATTTTA
1 TTAAAATATAATTTTA
16977244 TTA
1 TTA
16977247 TTTGATTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAAATATAATTTTA
Found at i:16978470 original size:24 final size:24
Alignment explanation
Indices: 16978429--16978479 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
16978419 TAGGTTTTGG
* *
16978429 ATTTAATTATTAGAAAAAGAATTT
1 ATTTAATTATTAGAAAAAAAATAT
*
16978453 ATTTGATT-TTAGAAAAAAAAATAT
1 ATTTAATTATTAG-AAAAAAAATAT
16978477 ATT
1 ATT
16978480 ATAAAAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (24 bp):
ATTTAATTATTAGAAAAAAAATAT
Found at i:16978520 original size:6 final size:7
Alignment explanation
Indices: 16978501--16978525 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16978491 TGAATTGAAG
16978501 ATAAAAA
1 ATAAAAA
16978508 ATAAAAA
1 ATAAAAA
16978515 ATAAAAA
1 ATAAAAA
16978522 ATAA
1 ATAA
16978526 TGATTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:16985795 original size:16 final size:15
Alignment explanation
Indices: 16985774--16985803 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16985764 TTATTATCAT
16985774 TAATATTAATCAATTA
1 TAATATTAAT-AATTA
16985790 TAATATTAATAATT
1 TAATATTAATAATT
16985804 TAAATTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATTAATAATTA
Found at i:16985921 original size:16 final size:16
Alignment explanation
Indices: 16985900--16985949 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
16985890 GTAATGAATC
16985900 TGAAATAGACCATAAA
1 TGAAATAGACCATAAA
*
16985916 TGAAAT-GA--AT--T
1 TGAAATAGACCATAAA
16985927 TGAAATAGACCATAAA
1 TGAAATAGACCATAAA
16985943 TGAAATA
1 TGAAATA
16985950 ATCATTCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 6 0.22
12 2 0.07
13 2 0.07
14 2 0.07
15 2 0.07
16 13 0.48
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (16 bp):
TGAAATAGACCATAAA
Found at i:16985922 original size:27 final size:27
Alignment explanation
Indices: 16985892--16985952 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
16985882 ATTTATTCGT
16985892 AATGAATCTGAAATAGACCATAAATGA
1 AATGAATCTGAAATAGACCATAAATGA
*
16985919 AATGAATTTGAAATAGACCATAAATGA
1 AATGAATCTGAAATAGACCATAAATGA
16985946 AAT-AATC
1 AATGAATC
16985953 ATTCCATCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (27 bp):
AATGAATCTGAAATAGACCATAAATGA
Found at i:16989413 original size:11 final size:11
Alignment explanation
Indices: 16989378--16989414 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
16989368 GAAAAAGAAT
16989378 AAAAGAATAAA
1 AAAAGAATAAA
*
16989389 AAGAGAAATAAA
1 AAAAG-AATAAA
16989401 AAAAGAATAAA
1 AAAAGAATAAA
16989412 AAA
1 AAA
16989415 TCGATGGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (11 bp):
AAAAGAATAAA
Found at i:16990973 original size:23 final size:24
Alignment explanation
Indices: 16990947--16990991 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
16990937 TTTTTCAAAA
* *
16990947 GAAAACTTTTAACTTTT-GGATAT
1 GAAAACTATAAACTTTTCGGATAT
*
16990970 GAAACCTATAAACTTTTCGGAT
1 GAAAACTATAAACTTTTCGGAT
16990992 GAGAATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (24 bp):
GAAAACTATAAACTTTTCGGATAT
Found at i:16991077 original size:45 final size:45
Alignment explanation
Indices: 16990772--16991106 Score: 171
Period size: 45 Copynumber: 7.4 Consensus size: 45
16990762 AAAAAAAACC
* * * * *
16990772 TTTGAAACTTTGGATGTAAATCTTTAAAATTTTTTTAATGTGAATA
1 TTTGAAATTTTGGATGTGAATCTCTAAAA-TTTTTTAATGAGAATT
** * * * *
16990818 TTTGAAATTTTAAATGTGAAGCCCAAAAATTTTTCAGATGAGAATT
1 TTTGAAATTTTGGATGTGAATCTCTAAAATTTTTTA-ATGAGAATT
* * * * *
16990864 TTTGAAATTTTGGTTGTGAAATAT-TAAAGTTTTTAAATGTGAATT
1 TTTGAAATTTTGGATGTG-AATCTCTAAAATTTTTTAATGAGAATT
* ** ** * * * *
16990909 TTTGGAATTTTCTATGCAAATTTCT--AATTTTTTCAAAAGAAAACT
1 TTTGAAATTTTGGATGTGAATCTCTAAAATTTTTT--AATGAGAATT
* * * *** *
16990954 TTT-AACTTTTGGATATGAAAC-CTATAAACTTTTCGGATGAGAATA
1 TTTGAAATTTTGGATGTGAATCTCTA-AAA-TTTTTTAATGAGAATT
* * * *
16990999 TTTGAAATTTTGGTTGTGAAATAT-TAAAGTTTTTTAATGTGAATT
1 TTTGAAATTTTGGATGTG-AATCTCTAAAATTTTTTAATGAGAATT
* * * * *
16991044 TTTGAAATTTTCGATATGAATCTCTAAAATTTTTGAATGAAAATC
1 TTTGAAATTTTGGATGTGAATCTCTAAAATTTTTTAATGAGAATT
*
16991089 TTTG-AATTTTGGAGGTGA
1 TTTGAAATTTTGGATGTGA
16991107 GCCTTAAAAT
Statistics
Matches: 203, Mismatches: 73, Indels: 28
0.67 0.24 0.09
Matches are distributed among these distances:
43 8 0.04
44 28 0.14
45 90 0.44
46 67 0.33
47 10 0.05
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (45 bp):
TTTGAAATTTTGGATGTGAATCTCTAAAATTTTTTAATGAGAATT
Found at i:16991099 original size:135 final size:134
Alignment explanation
Indices: 16990848--16991101 Score: 361
Period size: 135 Copynumber: 1.9 Consensus size: 134
16990838 GCCCAAAAAT
*
16990848 TTTTCAGATGAGAATTTTTGAAATTTTGGTTGTGAAATATTAAAGTTTTTAAATGTGAATTTTTG
1 TTTTCAGATGAGAATATTTGAAATTTTGGTTGTGAAATATTAAAGTTTTTAAATGTGAATTTTTG
* * * *
16990913 GAATTTTCTATGCAAATTTCTAATTTTTTCAAAAGAAAACTTTTAACTTTTGGATATGAAACCTA
66 AAATTTTCTATG-AAATCTCTAAATTTTTCAAAAGAAAACTTTGAACTTTTGGATATGAAACCTA
16990978 TAAAC
130 TAAAC
* *
16990983 TTTTCGGATGAGAATATTTGAAATTTTGGTTGTGAAATATTAAAGTTTTTTAATGTGAATTTTTG
1 TTTTCAGATGAGAATATTTGAAATTTTGGTTGTGAAATATTAAAGTTTTTAAATGTGAATTTTTG
* *
16991048 AAATTTTCGATATG-AATCTCTAAAATTTTT-GAATGAAAATCTTTGAA-TTTTGGA
66 AAATTTTC--TATGAAATCTCT-AAATTTTTCAAAAGAAAA-CTTTGAACTTTTGGA
16991102 GGTGAGCCTT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
135 89 0.84
136 13 0.12
137 4 0.04
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (134 bp):
TTTTCAGATGAGAATATTTGAAATTTTGGTTGTGAAATATTAAAGTTTTTAAATGTGAATTTTTG
AAATTTTCTATGAAATCTCTAAATTTTTCAAAAGAAAACTTTGAACTTTTGGATATGAAACCTAT
AAAC
Found at i:16991250 original size:17 final size:18
Alignment explanation
Indices: 16991215--16991262 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
16991205 AAATGTTTAC
*
16991215 AATTCTTGC-AAACCTGA
1 AATTCTTGCGAATCCTGA
16991232 AATTCTTGCGAATCC-GA
1 AATTCTTGCGAATCCTGA
16991249 AAGTT-TTGCGAATC
1 AA-TTCTTGCGAATC
16991263 TTTCAATTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (18 bp):
AATTCTTGCGAATCCTGA
Found at i:16991499 original size:17 final size:17
Alignment explanation
Indices: 16991473--16991520 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
16991463 CAAAACTTGA
16991473 AATC-TTGTGAATCTGG
1 AATCTTTGTGAATCTGG
**
16991489 AATCTTTGTGAATAGGG
1 AATCTTTGTGAATCTGG
* *
16991506 AACCTTTGAGAATCT
1 AATCTTTGTGAATCT
16991521 TGAGACATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (17 bp):
AATCTTTGTGAATCTGG
Found at i:16991587 original size:18 final size:18
Alignment explanation
Indices: 16991566--16991602 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16991556 CTTAGAAACC
16991566 TTACAAATCTAAAAATCT
1 TTACAAATCTAAAAATCT
* *
16991584 TTACGAATCTTAAAATCT
1 TTACAAATCTAAAAATCT
16991602 T
1 T
16991603 GGAATCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (18 bp):
TTACAAATCTAAAAATCT
Found at i:16993171 original size:2 final size:2
Alignment explanation
Indices: 16993166--16993190 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16993156 TTTTTTGTTT
16993166 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16993191 TAAAACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16993497 original size:17 final size:17
Alignment explanation
Indices: 16993458--16993498 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
16993448 TTCTTCTTTA
16993458 TGAATTTAAAATTTTTG
1 TGAATTTAAAATTTTTG
16993475 TGGAATTTAAAATTTTTG
1 T-GAATTTAAAATTTTTG
16993493 TGAATT
1 TGAATT
16993499 CTATCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (17 bp):
TGAATTTAAAATTTTTG
Found at i:17003668 original size:43 final size:42
Alignment explanation
Indices: 17003606--17003750 Score: 139
Period size: 43 Copynumber: 3.4 Consensus size: 42
17003596 AGGCAAAATG
* * * *
17003606 TTTCACATTTTCAATAGTTGTCAAGCTTATACTTAAATAAGTC
1 TTTCAAATTTTCAAAAGTTGTCAAGCTT-TACTTAAACAAGCC
* * * ***
17003649 TTTCACATTTTCAAAAGTTGTCGAGCCTTTATTTAAAGGTGCC
1 TTTCAAATTTTCAAAAGTTGTCAAG-CTTTACTTAAACAAGCC
* *
17003692 TTTTAAATTTTCAAAAGTTGTTGAA-CTTTTACTTAAACAAGCC
1 TTTCAAATTTTCAAAAGTTG-TCAAGC-TTTACTTAAACAAGCC
17003735 TTTCAAATTTTCAAAA
1 TTTCAAATTTTCAAAA
17003751 ATTTATTGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.01
43 77 0.93
44 5 0.06
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.41
Consensus pattern (42 bp):
TTTCAAATTTTCAAAAGTTGTCAAGCTTTACTTAAACAAGCC
Found at i:17004205 original size:21 final size:23
Alignment explanation
Indices: 17004181--17004233 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
17004171 GAAAAATTGA
*
17004181 TATTTTT-ATTT-TTTAATTTAT
1 TATTTTTCATTTATTCAATTTAT
*
17004202 TATTTATTCCATTTATTCCATTTAT
1 TATTT-TT-CATTTATTCAATTTAT
17004227 TATTTTT
1 TATTTTT
17004234 TTATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 2 0.08
24 6 0.23
25 13 0.50
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTTTCATTTATTCAATTTAT
Found at i:17004217 original size:9 final size:9
Alignment explanation
Indices: 17004203--17004227 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
17004193 TTAATTTATT
17004203 ATTTATTCC
1 ATTTATTCC
17004212 ATTTATTCC
1 ATTTATTCC
17004221 ATTTATT
1 ATTTATT
17004228 ATTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTATTCC
Found at i:17004339 original size:19 final size:20
Alignment explanation
Indices: 17004317--17004359 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
17004307 AAAATTTTGG
**
17004317 AATAATGAATGAATAAA-TA
1 AATAATGAAAAAATAAATTA
17004336 AATAATGAAAAAATAAATTA
1 AATAATGAAAAAATAAATTA
17004356 AATA
1 AATA
17004360 TTATCAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (20 bp):
AATAATGAAAAAATAAATTA
Found at i:17004342 original size:15 final size:15
Alignment explanation
Indices: 17004324--17004353 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17004314 TGGAATAATG
*
17004324 AATGAATAAATAAAT
1 AATGAAAAAATAAAT
17004339 AATGAAAAAATAAAT
1 AATGAAAAAATAAAT
17004354 TAAATATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AATGAAAAAATAAAT
Found at i:17008804 original size:52 final size:52
Alignment explanation
Indices: 17008720--17008818 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
17008710 TATAATCATA
* * *
17008720 CAAACTTGCCTATTAAGAATCCTTCTCCTTTTAAAATTCTTTTTCTATAAGT
1 CAAACTTGCCTATTAAAAATCATTCTCCTTTTAAAATTCTTATTCTATAAGT
* *
17008772 CAAACTTGCCTATTAAAAATTCATT-TCTTTTTATAATTCTTATTCTA
1 CAAACTTGCCTATTAAAAA-TCATTCTCCTTTTAAAATTCTTATTCTA
17008819 CAAATCTTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
52 37 0.90
53 4 0.10
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.46
Consensus pattern (52 bp):
CAAACTTGCCTATTAAAAATCATTCTCCTTTTAAAATTCTTATTCTATAAGT
Found at i:17009228 original size:48 final size:48
Alignment explanation
Indices: 17009157--17009253 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
17009147 ATAGATTATG
*
17009157 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTTTAC
1 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
17009205 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
1 TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
17009253 T
1 T
17009254 CTAACAAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (48 bp):
TTTAGTGATTATTTAAATAGAATAGGTTCTAATCAATCTCCTTTATAC
Found at i:17012104 original size:32 final size:32
Alignment explanation
Indices: 17012063--17012145 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
17012053 GTAATCGTGG
* *
17012063 GAGTCACTAAGTACTACACAGTAGAGTCGTAA
1 GAGTCACTAAGTGCTACACAGTAGAGTCATAA
* ** *
17012095 GAGTCACTAAATGCTACATGGTAGAGTCATAG
1 GAGTCACTAAGTGCTACACAGTAGAGTCATAA
*
17012127 GAATCACTAAGTGCTACAC
1 GAGTCACTAAGTGCTACAC
17012146 GATGGTCTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (32 bp):
GAGTCACTAAGTGCTACACAGTAGAGTCATAA
Found at i:17016852 original size:42 final size:42
Alignment explanation
Indices: 17016789--17016880 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
17016779 TTTTAACTGA
*
17016789 ATTAATTTATCGAATCGATTTAATTTGATTAATTGATTAGTC
1 ATTAATTTATCGAATCAATTTAATTTGATTAATTGATTAGTC
17016831 ATTAATTTATCGAATCAATTTAATTTGATTAATTGATTAGTC
1 ATTAATTTATCGAATCAATTTAATTTGATTAATTGATTAGTC
17016873 ATTGAATT
1 ATT-AATT
17016881 AATTTCGGTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 44 0.92
43 4 0.08
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.48
Consensus pattern (42 bp):
ATTAATTTATCGAATCAATTTAATTTGATTAATTGATTAGTC
Found at i:17016969 original size:20 final size:21
Alignment explanation
Indices: 17016929--17016973 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
17016919 TTAATTTTAA
* *
17016929 TTAATTGAATTAATTAAAATT
1 TTAATTGAAATAATAAAAATT
17016950 TTAATTGAAAT-ATAAAAATT
1 TTAATTGAAATAATAAAAATT
17016970 TTAA
1 TTAA
17016974 ATATAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TTAATTGAAATAATAAAAATT
Found at i:17018562 original size:2 final size:2
Alignment explanation
Indices: 17018522--17018547 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17018512 TTAACCATAG
17018522 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
17018548 GTTCGCACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17025665 original size:16 final size:15
Alignment explanation
Indices: 17025644--17025673 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17025634 TTATTATCAT
17025644 TAATATTAATCAATTA
1 TAATATTAAT-AATTA
17025660 TAATATTAATAATT
1 TAATATTAATAATT
17025674 TAAATTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATTAATAATTA
Found at i:17025791 original size:16 final size:16
Alignment explanation
Indices: 17025770--17025819 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
17025760 GTAATGAATC
17025770 TGAAATAGACCATAAA
1 TGAAATAGACCATAAA
*
17025786 TGAAAT-GA--AT--T
1 TGAAATAGACCATAAA
17025797 TGAAATAGACCATAAA
1 TGAAATAGACCATAAA
17025813 TGAAATA
1 TGAAATA
17025820 ATCATTCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 6 0.22
12 2 0.07
13 2 0.07
14 2 0.07
15 2 0.07
16 13 0.48
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (16 bp):
TGAAATAGACCATAAA
Found at i:17025792 original size:27 final size:27
Alignment explanation
Indices: 17025762--17025822 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
17025752 ATTTATTCGT
17025762 AATGAATCTGAAATAGACCATAAATGA
1 AATGAATCTGAAATAGACCATAAATGA
*
17025789 AATGAATTTGAAATAGACCATAAATGA
1 AATGAATCTGAAATAGACCATAAATGA
17025816 AAT-AATC
1 AATGAATC
17025823 ATTCCATCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (27 bp):
AATGAATCTGAAATAGACCATAAATGA
Found at i:17031981 original size:3 final size:3
Alignment explanation
Indices: 17031973--17031998 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17031963 TTTAATATAT
17031973 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
17031999 TAAAACTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:17032104 original size:21 final size:21
Alignment explanation
Indices: 17032063--17032104 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17032053 AAAAATGTGT
*
17032063 TAAATTAAAAATATATCTTTA
1 TAAATTAAAAATAAATCTTTA
* *
17032084 TAAATTATAAATAAATTTTTA
1 TAAATTAAAAATAAATCTTTA
17032105 GAATTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTAAAAATAAATCTTTA
Found at i:17033513 original size:79 final size:79
Alignment explanation
Indices: 17033373--17033524 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 79
17033363 AACAAAATTT
* **
17033373 GATAATGTTTGATTTGTTCATATCCTAGGGAGAAAACTAGCCACAAATTTTTTATTTTTTCCCAC
1 GATAATGTTTGATTTGTTCATATCCTAGGGAGAAAACTAGCCAAAAATTTTTTATCCTTTCCCAC
17033438 AATGAAAATAAACC
66 AATGAAAATAAACC
* *
17033452 GATAATGTTTGATTTGTTTATATCCCTAGGGAG-AAGCTAGCCAAAAATTTTTGT-TCCTTTCCC
1 GATAATGTTTGATTTGTTCATAT-CCTAGGGAGAAAACTAGCCAAAAATTTTT-TATCCTTTCCC
17033515 ACAATGAAAA
64 ACAATGAAAA
17033525 AAAAAAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 56 0.85
80 10 0.15
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (79 bp):
GATAATGTTTGATTTGTTCATATCCTAGGGAGAAAACTAGCCAAAAATTTTTTATCCTTTCCCAC
AATGAAAATAAACC
Found at i:17034834 original size:24 final size:24
Alignment explanation
Indices: 17034807--17034855 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17034797 GCAGCCTGGC
17034807 TGGGTCACCCAAGACTTGTCTCGA
1 TGGGTCACCCAAGACTTGTCTCGA
17034831 TGGGTCACCCAAGACTTGTCTCGA
1 TGGGTCACCCAAGACTTGTCTCGA
17034855 T
1 T
17034856 ACTATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (24 bp):
TGGGTCACCCAAGACTTGTCTCGA
Found at i:17036175 original size:10 final size:9
Alignment explanation
Indices: 17036160--17036210 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 9
17036150 TGTTCTCGCC
17036160 TTTTTTCTT
1 TTTTTTCTT
17036169 GTTTTTTACTT
1 -TTTTTT-CTT
17036180 TTCTTTTCTT
1 TT-TTTTCTT
*
17036190 TTTTTTTTT
1 TTTTTTCTT
17036199 TTTTTTCATT
1 TTTTTTC-TT
17036209 TT
1 TT
17036211 ATATATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 12 0.33
10 17 0.47
11 7 0.19
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:17038339 original size:16 final size:16
Alignment explanation
Indices: 17038318--17038349 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17038308 TGCGAAGTTT
17038318 CTATTTAAATTCTCCA
1 CTATTTAAATTCTCCA
*
17038334 CTATTTAAATTTTCCA
1 CTATTTAAATTCTCCA
17038350 TAATGGTGAA
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:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (16 bp):
CTATTTAAATTCTCCA
Found at i:17040035 original size:32 final size:32
Alignment explanation
Indices: 17039966--17040037 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
17039956 TTTGGTCATT
**
17039966 TGCATTGTCATATTATTTATTTATTTGGCTTTG
1 TGCATT-TCATATTATTTATTTATTTAACTTTG
* *
17039999 TGCATTTCATATTGTTTGTTTATTTAAC-TTG
1 TGCATTTCATATTATTTATTTATTTAACTTTG
17040030 ATGCATTT
1 -TGCATTT
17040038 GCATTAAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.09
32 25 0.74
33 6 0.18
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (32 bp):
TGCATTTCATATTATTTATTTATTTAACTTTG
Found at i:17043009 original size:14 final size:15
Alignment explanation
Indices: 17042990--17043027 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
17042980 AAAATTGTGT
*
17042990 TACTATATGTA-ATA
1 TACTATATATATATA
17043004 TACTATATATATATA
1 TACTATATATATATA
17043019 TA-TATATAT
1 TACTATATAT
17043028 CAAGCACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (15 bp):
TACTATATATATATA
Found at i:17044855 original size:162 final size:160
Alignment explanation
Indices: 17044642--17045809 Score: 920
Period size: 162 Copynumber: 7.2 Consensus size: 160
17044632 TATTATTCTA
* ** * *
17044642 TTTTAACAGTTTAGAT-GACTTCAATACATGATATTAAACTTGTTCGAATGATTGAATTTGGTTT
1 TTTTAACAGTTTAGATAG-CTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGGTTT
* * * ** *
17044706 CCACGACTGATATGTGTGAAAATGTTATCGTGCATATCTTTTAATAACTTTGTTACACATTTAAA
65 CCATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTTTT-ATAACTTTTTTACACA-TTAAA
17044771 GGGCAAAAATATAAATTTGTAGTTATATTTATG
128 GGGCAAAAATATAAATTTGTAGTTATATTTATG
* * * * * * * *
17044804 TTTTAACAATTTAGATAGCTTAAATATATGATATCAAACTTTTTTGAATGATTAAACTTGGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGGTTTC
* * * * ** **
17044869 CATGATTGATAGGTGTGAAAAAGTTACTAG-TTATGTTTGTTTAGCACTTTTTTATTCATTAAAA
66 CATGATTGATATGTGTGAAAAAGTTA-TCGTTTATATCT-TTTATAACTTTTTTACACATT-AAA
* ** *
17044933 GGTC-AAAATGCAAATTTGTATTTATTATTCTA--
128 GGGCAAAAATATAAATTTGTAGTTA-TATT-TATG
* * * * *
17044965 TTTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTATTCAAATTATTGAACTTAGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGGTTTC
* * * * * * * * *
17045030 CATGGTTTATATGTGTGAAAATGTTACCGTGTATGTTTTTTTATGACTTTTTTACGCCATTAAAG
66 CATGATTGATATGTGTGAAAAAGTTATCGTTTAT-ATCTTTTATAACTTTTTTAC-ACATTAAAG
* *
17045095 GGGAAAAATATAAAATTGTAG-TATATTTATG
129 GGCAAAAATATAAATTTGTAGTTATATTTATG
* * * * * *
17045126 TTTTAATAGTTTAGATAGCTTAAATACATTATATTAAACTTTTTTGAATAATTGAACTTGGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGGTTTC
* ** *
17045191 CATGATTGATAGGTGTGAAAAAGTTA-CTGTTTATATCTATTTAGCACTTTTTTATGC-CGTTAA
66 CATGATTGATATGTGTGAAAAAGTTATC-GTTTATATCT-TTTATAACTTTTTTA--CACATTAA
* * * ** *
17045254 AAGGCCAACATGCAAATTTAT-GTTTATTATTT-TG
127 AGGGCAAAAATATAAATTTGTAG-TTA-TATTTATG
* * * * * *
17045288 TTTTAATAGTTTAGATAGTTTCAATATATGATATTAAACTTGTTCAAATAATTGAACTTGATTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTG-GTTT
* * * *
17045353 CACA-G-TTGATATGTGTGAAAATGTTATTGTTTATGTCTTTT-TAAGATTTTGTTACACCATTA
65 C-CATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTTTTATAA-CTTTT-TTACA-CATTA
* *
17045415 AAGGGCAAAAATATAATTTTGTAGTTATTTTTATG
126 AAGGGCAAAAATATAAATTTGTAGTTATATTTATG
* * *
17045450 TTTTTACAATTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTAGTTTC
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGGTTTC
* * * * * * *
17045515 CAAGATTGATATATGTGAAAAAGGTACCGTTTATATCTTTTTTAGACTTTATTATTC-CACT-AA
66 CATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTTTTATA-ACTTT-TT-TACACATTAAA
* * **
17045578 GGGTAAAAATATAATTTTACAGTTATATTTATG
128 GGGCAAAAATATAAATTTGTAGTTATATTTATG
* * * *
17045611 TTTTAACAGTTTAGGTAACTTAAATACATGATATTAAACTTATTTAAATTATTGAACTTGGTTTT
1 TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGG-TTT
* * * * * * ** *
17045676 CACA-GTTTGATATATATGAATAAGTTA-AGATTTATGTCTGTTTAGGACTTTTTGTA-ACGTTT
65 C-CATGATTGATATGTGTGAAAAAGTTATCG-TTTATATCT-TTTATAACTTTTT-TACAC-ATT
* ** *
17045738 AAA-GGTAAAAATATAAATTTACAATTATTATTCTA--
125 AAAGGGCAAAAATATAAATTTGTAGTTA-TATT-TATG
* *
17045773 TTTTAACAGTTTAGATAGCTCTTATTACATGATATTA
1 TTTTAACAGTTTAGATAGCT-TCAATACATGATATTA
17045810 CATGTGTCCA
Statistics
Matches: 808, Mismatches: 154, Indels: 87
0.77 0.15 0.08
Matches are distributed among these distances:
159 2 0.00
160 13 0.02
161 339 0.42
162 396 0.49
163 50 0.06
164 8 0.01
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (160 bp):
TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTGGTTTC
CATGATTGATATGTGTGAAAAAGTTATCGTTTATATCTTTTATAACTTTTTTACACATTAAAGGG
CAAAAATATAAATTTGTAGTTATATTTATG
Found at i:17045095 original size:323 final size:324
Alignment explanation
Indices: 17044494--17045809 Score: 1354
Period size: 323 Copynumber: 4.1 Consensus size: 324
17044484 AATTTGTAGT
* * * * ** * *
17044494 TAGCTTAAATAAATGATATTAAACTTTTTCAAATGATTGAACTTGATTTTTACGATTGATATGTG
1 TAGCTTAAATACATGATATTAAACTTTTTTAAATAATTGAACTTGGTTTCCATGATTGATAGGTG
* * * * * *
17044559 TGAAAAAAGTTATTA-TTTATGTCTATTTAGCATTTTTTTGTGTCGTTAAAAGGCCAAAACGCAA
66 TG-AAAAAGTTACTAGTTTATATCTATTTAGCACTTTTTTATGTCATTAAAAGGCCAAAATGCAA
* * *
17044623 ATTTTTGTTTATTATTCTATTTTAACAGTTTAGAT-GACTTCAATACATGATATTAAACTTGTTC
130 ATTTATATTTATTATTCTATTTTAACAGTTTAGATAG-CTTCAATACATGATATTAAACTTATTC
* * * * ** * * * *
17044687 GAATGATTGAATTTGGTTTCCACGACTGATATGTGTGAAAATGTTATCGTGCATATCTTTTAATA
194 AAATTATTGAACTTGGTTTTCACGGTTGATATGTGTGAAAATGTTATCGTGTATGTCTTTTTATG
* *
17044752 ACTTTGTTACACATTTAAAGGGCAAAAATATAAATTTGTAGTTATATTTATGTTTTAACAATTTA
259 ACTTTTTTACCCA-TTAAAGGGCAAAAATATAAATTTGTAGTTATATTTATGTTTTAACAATTTA
17044817 GA
323 GA
* * * * *
17044819 TAGCTTAAATATATGATATCAAACTTTTTTGAATGATTAAACTTGGTTTCCATGATTGATAGGTG
1 TAGCTTAAATACATGATATTAAACTTTTTTAAATAATTGAACTTGGTTTCCATGATTGATAGGTG
* * * *
17044884 TGAAAAAGTTACTAG-TTATGTTTGTTTAGCACTTTTTTAT-TCATTAAAAGGTCAAAATGCAAA
66 TGAAAAAGTTACTAGTTTATATCTATTTAGCACTTTTTTATGTCATTAAAAGGCCAAAATGCAAA
* *
17044947 TTTGTATTTATTATTCTATTTTAATAGTTTAGATAGCTTCAATACATGATATTAAACTTATTCAA
131 TTTATATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTCAA
* * * * *
17045012 ATTATTGAACTTAGTTTTCATGGTTTATATGTGTGAAAATGTTACCGTGTATGTTTTTTTATGAC
196 ATTATTGAACTTGGTTTTCACGGTTGATATGTGTGAAAATGTTATCGTGTATGTCTTTTTATGAC
* * * *
17045077 TTTTTTACGCCATTAAAGGGGAAAAATATAAAATTGTAG-TATATTTATGTTTTAATAGTTTAGA
261 TTTTTTAC-CCATTAAAGGGCAAAAATATAAATTTGTAGTTATATTTATGTTTTAACAATTTAGA
* * *
17045141 TAGCTTAAATACATTATATTAAACTTTTTTGAATAATTGAACTTGGTTTTCATGATTGATAGGTG
1 TAGCTTAAATACATGATATTAAACTTTTTTAAATAATTGAACTTGGTTTCCATGATTGATAGGTG
* * *
17045206 TGAAAAAGTTACT-GTTTATATCTATTTAGCACTTTTTTATGCCGTTAAAAGGCCAACATGCAAA
66 TGAAAAAGTTACTAGTTTATATCTATTTAGCACTTTTTTATGTCATTAAAAGGCCAAAATGCAAA
* * * * * * *
17045270 TTTATGTTTATTATTTTGTTTTAATAGTTTAGATAGTTTCAATATATGATATTAAACTTGTTCAA
131 TTTATATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTCAA
* * * * * *
17045335 ATAATTGAACTTGATTTTCACAGTTGATATGTGTGAAAATGTTATTGTTTATGTCTTTTTAAGA-
196 ATTATTGAACTTGGTTTTCACGGTTGATATGTGTGAAAATGTTATCGTGTATGTCTTTTTATGAC
* * *
17045399 TTTTGTTACACCATTAAAGGGCAAAAATATAATTTTGTAGTTATTTTTATGTTTTTACAATTTAG
261 TTTT-TTAC-CCATTAAAGGGCAAAAATATAAATTTGTAGTTATATTTATGTTTTAACAATTTAG
17045464 A
324 A
* * * * **
17045465 TAGCTTCAATACATGATATTAAACTTATTTAAATAATTGAACTTAGTTTCCAAGATTGATATATG
1 TAGCTTAAATACATGATATTAAACTTTTTTAAATAATTGAACTTGGTTTCCATGATTGATAGGTG
* * * * * * ** **
17045530 TGAAAAAGGTAC-CGTTTATATCTTTTTTAG-ACTTTATTAT-TCCACT-AAGGGTAAAAATATA
66 TGAAAAAGTTACTAGTTTATATC-TATTTAGCACTTTTTTATGT-CATTAAAAGGCCAAAATGCA
* * * * * *
17045591 ATTTTACAGTTA-TATT-TATGTTTTAACAGTTTAGGTAACTTAAATACATGATATTAAACTTAT
129 AATTTATATTTATTATTCTA--TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTAT
* * * * * * *
17045654 TTAAATTATTGAACTTGGTTTTCACAGTTTGATATATATGAATAA-GTTA-AGATTTATGTCTGT
192 TCAAATTATTGAACTTGGTTTTCAC-GGTTGATATGTGTGAA-AATGTTATCG-TGTATGTCTTT
* * ** * ** *
17045717 TTAGGACTTTTTGTAACGTTTAAA-GGTAAAAATATAAATTTACAATTATTATTCTA--TTTTAA
254 TTATGACTTTTT-TACCCATTAAAGGGCAAAAATATAAATTTGTAGTTA-TATT-TATGTTTTAA
*
17045779 CAGTTTAGA
316 CAATTTAGA
* *
17045788 TAGCTCTTATTACATGATATTA
1 TAGCT-TAAATACATGATATTA
17045810 CATGTGTCCA
Statistics
Matches: 833, Mismatches: 138, Indels: 41
0.82 0.14 0.04
Matches are distributed among these distances:
321 2 0.00
322 125 0.15
323 435 0.52
324 198 0.24
325 73 0.09
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (324 bp):
TAGCTTAAATACATGATATTAAACTTTTTTAAATAATTGAACTTGGTTTCCATGATTGATAGGTG
TGAAAAAGTTACTAGTTTATATCTATTTAGCACTTTTTTATGTCATTAAAAGGCCAAAATGCAAA
TTTATATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTATTCAA
ATTATTGAACTTGGTTTTCACGGTTGATATGTGTGAAAATGTTATCGTGTATGTCTTTTTATGAC
TTTTTTACCCATTAAAGGGCAAAAATATAAATTTGTAGTTATATTTATGTTTTAACAATTTAGA
Found at i:17045966 original size:87 final size:87
Alignment explanation
Indices: 17045820--17045992 Score: 240
Period size: 87 Copynumber: 2.0 Consensus size: 87
17045810 CATGTGTCCA
* * * * * *
17045820 ATCATTATTGTCATGTTTGATACGCATAAATAAGTTATGATTGATGTGTGTTTAACAATAATAGT
1 ATCATTATTGTCACGCTTGATAAGCATAAATAAGTTATGACTAATGTGTGTTTAACAATAATAAT
*
17045885 ATTTTTTATGTAGGAGATTGAT
66 ATTTTTTATATAGGAGATTGAT
* *
17045907 ATCATTGTTGTCACGCTTGATAAGTATAAATAAGTTAT-AGCTAATGTGTGTTTAACAATAATAA
1 ATCATTATTGTCACGCTTGATAAGCATAAATAAGTTATGA-CTAATGTGTGTTTAACAATAATAA
*
17045971 TGTTTTTTATATAGGAGATTGA
65 TATTTTTTATATAGGAGATTGA
17045993 GTTGGGTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
86 1 0.01
87 74 0.99
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (87 bp):
ATCATTATTGTCACGCTTGATAAGCATAAATAAGTTATGACTAATGTGTGTTTAACAATAATAAT
ATTTTTTATATAGGAGATTGAT
Found at i:17048533 original size:26 final size:26
Alignment explanation
Indices: 17048487--17048536 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
17048477 TCTTTATGCA
*
17048487 TAATTATGGTAAAAGCATTAGTACTT
1 TAATTATGATAAAAGCATTAGTACTT
* *
17048513 TAATTATGATAATAGCTTTAGTAC
1 TAATTATGATAAAAGCATTAGTAC
17048537 CTTATCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (26 bp):
TAATTATGATAAAAGCATTAGTACTT
Found at i:17049292 original size:25 final size:25
Alignment explanation
Indices: 17049266--17049313 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
17049256 AGAGTTGCCA
*
17049266 AAAAAT-AAAGCAAAAAACAAAAAC
1 AAAAATAAAAACAAAAAACAAAAAC
17049290 AAAAATAAAAACAAAAAACAAAAA
1 AAAAATAAAAACAAAAAACAAAAA
17049314 AAGAGATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.04
Consensus pattern (25 bp):
AAAAATAAAAACAAAAAACAAAAAC
Found at i:17049293 original size:5 final size:6
Alignment explanation
Indices: 17049278--17049313 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
17049268 AAATAAAGCA
*
17049278 AAAAAC AAAAAC AAAAAT AAAAAC AAAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC AAAAA
17049314 AAGAGATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:17049293 original size:12 final size:13
Alignment explanation
Indices: 17049276--17049313 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
17049266 AAAAATAAAG
17049276 CAAAAAACAAAAA
1 CAAAAAACAAAAA
*
17049289 C-AAAAATAAAAA
1 CAAAAAACAAAAA
17049301 CAAAAAACAAAAA
1 CAAAAAACAAAAA
17049314 AAGAGATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (13 bp):
CAAAAAACAAAAA
Found at i:17049299 original size:19 final size:19
Alignment explanation
Indices: 17049278--17049313 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17049268 AAATAAAGCA
17049278 AAAAAC-AAAAACAAAAAT
1 AAAAACAAAAAACAAAAAT
17049296 AAAAACAAAAAACAAAAA
1 AAAAACAAAAAACAAAAA
17049314 AAGAGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (19 bp):
AAAAACAAAAAACAAAAAT
Found at i:17050777 original size:9 final size:9
Alignment explanation
Indices: 17050759--17050819 Score: 77
Period size: 9 Copynumber: 6.8 Consensus size: 9
17050749 GTATAAATTT
17050759 CATGCATTG
1 CATGCATTG
*
17050768 CATACATTG
1 CATGCATTG
* *
17050777 CACGCATTT
1 CATGCATTG
17050786 CATGCATTG
1 CATGCATTG
*
17050795 CATTCATTG
1 CATGCATTG
*
17050804 CATGCATTT
1 CATGCATTG
17050813 CATGCAT
1 CATGCAT
17050820 CACATTCATT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (9 bp):
CATGCATTG
Found at i:17050825 original size:27 final size:27
Alignment explanation
Indices: 17050755--17050829 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
17050745 TATGGTATAA
*
17050755 ATTTCATGCATTGCATACATTGCACGC
1 ATTTCATGCATTGCATTCATTGCACGC
*
17050782 ATTTCATGCATTGCATTCATTGCATGC
1 ATTTCATGCATTGCATTCATTGCACGC
**
17050809 ATTTCATGCATCACATTCATT
1 ATTTCATGCATTGCATTCATT
17050830 CCATATGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (27 bp):
ATTTCATGCATTGCATTCATTGCACGC
Found at i:17051097 original size:22 final size:21
Alignment explanation
Indices: 17051050--17051118 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
17051040 TCTTTCAGGA
* * *
17051050 ATGATATATAAGACTTCTGAGC
1 ATGATTTATAAAACTTC-GAGT
17051072 ATGATTTATAAAACTTTCGAGT
1 ATGATTTATAAAAC-TTCGAGT
*
17051094 ATGATCTTTTAAAACCTTCGAGT
1 ATGAT-TTATAAAA-CTTCGAGT
17051117 AT
1 AT
17051119 CTTTTTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 20 0.50
23 19 0.47
24 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (21 bp):
ATGATTTATAAAACTTCGAGT
Found at i:17051113 original size:23 final size:22
Alignment explanation
Indices: 17051050--17051118 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
17051040 TCTTTCAGGA
* * *
17051050 ATGATATATAAGA-CTTCTGAGC
1 ATGATTTATAAAACCTTC-GAGT
*
17051072 ATGATTTATAAAACTTTCGAGT
1 ATGATTTATAAAACCTTCGAGT
*
17051094 ATGATCTTTTAAAACCTTCGAGT
1 ATGAT-TTATAAAACCTTCGAGT
17051117 AT
1 AT
17051119 CTTTTTAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (22 bp):
ATGATTTATAAAACCTTCGAGT
Found at i:17051901 original size:12 final size:12
Alignment explanation
Indices: 17051884--17051908 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17051874 GATTTTTAAA
17051884 AAAACTAAATTT
1 AAAACTAAATTT
17051896 AAAACTAAATTT
1 AAAACTAAATTT
17051908 A
1 A
17051909 GTCAAACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAACTAAATTT
Found at i:17053248 original size:23 final size:25
Alignment explanation
Indices: 17053222--17053267 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
17053212 ATTGCAAGTT
17053222 TAGGCC-CATTCAAGAAG-CAATTC
1 TAGGCCTCATTCAAGAAGACAATTC
*
17053245 TAGGCCTGATTCAAGAAGACAAT
1 TAGGCCTCATTCAAGAAGACAAT
17053268 CTTAATGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (25 bp):
TAGGCCTCATTCAAGAAGACAATTC
Found at i:17054663 original size:54 final size:54
Alignment explanation
Indices: 17054594--17054704 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
17054584 AATTTATACG
* *
17054594 TTATAACATAAATAATATTGTTAAATTAATTTTATTACTTTTAAGTAACACCCA
1 TTATAACATAAATAATATTATTAAATTAATTTTATTACTTTCAAGTAACACCCA
* * * *
17054648 TTATGACATATATAATATTATTGAATTAATTTTATTACTTTCAAGTAGCACCCA
1 TTATAACATAAATAATATTATTAAATTAATTTTATTACTTTCAAGTAACACCCA
17054702 TTA
1 TTA
17054705 CTTTTTTGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (54 bp):
TTATAACATAAATAATATTATTAAATTAATTTTATTACTTTCAAGTAACACCCA
Found at i:17055583 original size:17 final size:16
Alignment explanation
Indices: 17055562--17055600 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
17055552 AATTACTAAT
17055562 ATAAAAAAAAAGAAAA
1 ATAAAAAAAAAGAAAA
* *
17055578 AGTAAATAAAAATAAAA
1 A-TAAAAAAAAAGAAAA
17055595 ATAAAA
1 ATAAAA
17055601 GATATAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (16 bp):
ATAAAAAAAAAGAAAA
Found at i:17055607 original size:21 final size:21
Alignment explanation
Indices: 17055560--17055608 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
17055550 AAAATTACTA
17055560 ATATAAAAAAAAAGAAAAAGT
1 ATATAAAAAAAAAGAAAAAGT
*
17055581 AAATAAAAATAAAA-ATAAAAG-
1 ATATAAAAA-AAAAGA-AAAAGT
17055602 ATATAAA
1 ATATAAA
17055609 TCCATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (21 bp):
ATATAAAAAAAAAGAAAAAGT
Found at i:17056083 original size:34 final size:33
Alignment explanation
Indices: 17056036--17056112 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 33
17056026 GCCTTAACTA
* **
17056036 TATATTAAACTATAT-TATATATATTTTTAAAATT
1 TATATTTAACTATATATAT-TATATTAATAAAA-T
*
17056070 TATATTTATCTATATATATTATATTAATAAAAT
1 TATATTTAACTATATATATTATATTAATAAAAT
17056103 TATTATTTAA
1 TA-TATTTAA
17056113 TATCTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.08
34 30 0.83
35 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (33 bp):
TATATTTAACTATATATATTATATTAATAAAAT
Found at i:17057038 original size:21 final size:22
Alignment explanation
Indices: 17057012--17057053 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17057002 ACCCTGTATA
*
17057012 ATTTTTT-TTTTTAGTTTTTTC
1 ATTTTTTCTTTTCAGTTTTTTC
*
17057033 ATTTTTTCTTTTCATTTTTTT
1 ATTTTTTCTTTTCAGTTTTTT
17057054 GGTGTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.81
Consensus pattern (22 bp):
ATTTTTTCTTTTCAGTTTTTTC
Found at i:17057053 original size:14 final size:13
Alignment explanation
Indices: 17057028--17057052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17057018 TTTTTTAGTT
17057028 TTTTCATTTTTTC
1 TTTTCATTTTTTC
17057041 TTTTCATTTTTT
1 TTTTCATTTTTT
17057053 TGGTGTTTTA
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:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCATTTTTTC
Found at i:17066112 original size:29 final size:27
Alignment explanation
Indices: 17066074--17066155 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 27
17066064 ATTTTATCAC
17066074 TTTAT-TTAAAAAATTTTTTATTTTT-A
1 TTTATATTAAAAAA-TTTTTATTTTTAA
*
17066100 TATTATATCTAAATAAGTTTTTATTCTTTAA
1 T-TTATAT-TAAA-AAATTTTTATT-TTTAA
17066131 TTTATATTCAAATAAATTTTTATTT
1 TTTATATT-AAA-AAATTTTTATTT
17066156 CAAACAAGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 1 0.02
29 14 0.30
30 25 0.53
31 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTATATTAAAAAATTTTTATTTTTAA
Found at i:17066234 original size:30 final size:29
Alignment explanation
Indices: 17066184--17066301 Score: 107
Period size: 30 Copynumber: 4.0 Consensus size: 29
17066174 ATGTTAAGAG
17066184 TTTATTTAGATATA-AATTAAAAATTAAAAA
1 TTTATTTA-A-ATACAATTAAAAATTAAAAA
* *
17066214 TTAATTTAAATACAATTTAAAATTTAAAAA
1 TTTATTTAAATACAA-TTAAAAATTAAAAA
* * **
17066244 TTTATTTGAGTATA-AAGTAAATTTTAAAAA
1 TTTATTT-A-AATACAATTAAAAATTAAAAA
17066274 TTTATTTAAATACAA-TAAAAATATAAAA
1 TTTATTTAAATACAATTAAAAAT-TAAAA
17066302 GTGCACTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
28 11 0.15
29 11 0.15
30 45 0.62
31 3 0.04
32 3 0.04
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (29 bp):
TTTATTTAAATACAATTAAAAATTAAAAA
Found at i:17070428 original size:19 final size:18
Alignment explanation
Indices: 17070393--17070438 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
17070383 ACATTGTCCC
17070393 TGATAAAAAAATTAAAAG
1 TGATAAAAAAATTAAAAG
* *
17070411 TGATACAAAAATTAAAAA
1 TGATAAAAAAATTAAAAG
*
17070429 TGGTAAAAAA
1 TGATAAAAAA
17070439 TCAAAGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.22
Consensus pattern (18 bp):
TGATAAAAAAATTAAAAG
Found at i:17077583 original size:17 final size:17
Alignment explanation
Indices: 17077546--17077629 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
17077536 AATCTAACTG
* **
17077546 AATTATATATATTTTTT
1 AATTATATATATATTAA
17077563 AATTATATATATATTAA
1 AATTATATATATATTAA
* *
17077580 AATTTTATTTTTATATTAA
1 AA--TTATATATATATTAA
*
17077599 AATCTACTTAAATATATTAA
1 AAT-TA--TATATATATTAA
*
17077619 AATAATATATA
1 AATTATATATA
17077630 AAATTAATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
17 22 0.42
18 2 0.04
19 16 0.31
20 12 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTATATATATATTAA
Found at i:17077587 original size:19 final size:19
Alignment explanation
Indices: 17077565--17077601 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17077555 TATTTTTTAA
17077565 TTATATATATATTAAAATT
1 TTATATATATATTAAAATT
* *
17077584 TTATTTTTATATTAAAAT
1 TTATATATATATTAAAAT
17077602 CTACTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATATATTAAAATT
Found at i:17077627 original size:13 final size:14
Alignment explanation
Indices: 17077609--17077654 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
17077599 AATCTACTTA
17077609 AATATATTAAAA-T
1 AATATATTAAAATT
17077622 AATATA-TAAAATT
1 AATATATTAAAATT
*
17077635 AATAAATTAATAAATT
1 AATATATT-A-AAATT
17077651 AATA
1 AATA
17077655 AATCAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 5 0.18
13 12 0.43
14 1 0.04
15 1 0.04
16 9 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:17077643 original size:8 final size:8
Alignment explanation
Indices: 17077630--17077674 Score: 63
Period size: 8 Copynumber: 5.4 Consensus size: 8
17077620 ATAATATATA
17077630 AAATTAAT
1 AAATTAAT
17077638 AAATTAAT
1 AAATTAAT
17077646 AAATTAAT
1 AAATTAAT
*
17077654 AAATCAAATT
1 AAAT-TAA-T
17077664 AAATTAAT
1 AAATTAAT
17077672 AAA
1 AAA
17077675 ATTTAATTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 24 0.73
9 4 0.12
10 5 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTAAT
Found at i:17077736 original size:32 final size:32
Alignment explanation
Indices: 17077654--17077736 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 32
17077644 ATAAATTAAT
* * *
17077654 AAATCAAATTAAA-TTAAT-AAAATTTAATTC
1 AAATTAAATTAAATTTTATAAAAATTTAATTA
* * * * *
17077684 GATTTGAATTGAATTATATAAAAATTTAATTA
1 AAATTAAATTAAATTTTATAAAAATTTAATTA
17077716 AAATTAAATTAAATTTTATAA
1 AAATTAAATTAAATTTTATAA
17077737 TTTTATAATA
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
30 8 0.21
31 3 0.08
32 27 0.71
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (32 bp):
AAATTAAATTAAATTTTATAAAAATTTAATTA
Found at i:17081071 original size:16 final size:16
Alignment explanation
Indices: 17081045--17081082 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17081035 TATTGGATAT
17081045 TTCATAGTTTACTTAAA
1 TTCA-AGTTTACTTAAA
*
17081062 TTCAAGTTTATTTAAA
1 TTCAAGTTTACTTAAA
17081078 TTCAA
1 TTCAA
17081083 AAGGACATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (16 bp):
TTCAAGTTTACTTAAA
Found at i:17088324 original size:13 final size:13
Alignment explanation
Indices: 17088302--17088337 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
17088292 AAATTCTATC
17088302 TAAATTTAATATA
1 TAAATTTAATATA
* *
17088315 TAAATATAATATT
1 TAAATTTAATATA
17088328 TAAATTTAAT
1 TAAATTTAAT
17088338 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATTTAATATA
Found at i:17093265 original size:875 final size:879
Alignment explanation
Indices: 17091205--17093397 Score: 2586
Period size: 877 Copynumber: 2.5 Consensus size: 879
17091195 TATAGTTCAA
* * *
17091205 CTAATTATCTACATCCACGGATGAGAGAGAAAATTCACTATAAATGTAAAGATTGCAATGAATAC
1 CTAATTGTCTACATCCACGGATGAGAGAGAAAATTCACTATAAATGTAAAGATTACAATGAGTAC
* * * * *
17091270 AAAACACCATAAACAAATACTAATATCGAGTCCTTGAAACAATCCTAGTTTCTTTGCTCCCTAGT
66 AAAACACCATAAACAAACACTAATTTCGAGCCCTTGAAACAATCCTAGTTTCTATGCTCCTTAGT
* * * * * *
17091335 CTATAACCTATGAAATATCCTTTAT-ATAATGTAACTAGTGTTTTCTT-GAACAAACTGTTTTTC
131 ATATAACCTTTGAAATATCCTTTATCCT-ATGTAACTAGTGTTTT-TTCAAATAAACTTTTTTTC
* * * *
17091398 ACATCTATACAAACTTATC-TCTTATATA-AAGATCTTATAACTCTATCTTATAATTCTAAAAGT
194 ACATCTATACAAACCTATCTTC-CATATAGAA-ATCTTATAACTTTATCTCATAATTCTAAAAGT
* * * * ** *
17091461 TAATAATCACTTCATATTTATAAAGCTCCATTACTTGATTATCAATAATTCCTATTTACTAAGAA
257 TAATAATTACTTCATATTTATAAAACTCCATTACTTGATCACCAATAATTTTTATTTATTAAGAA
* *
17091526 CTTTTACTCATTAAGAATATTTATCCTTAAATAAACTTAATTATCAAGTAATTCTTTAACTAATA
322 CTTTTACCCATTAAGAATATTTATCCTTAAATAAACTTAATTACCAAGTAATTCTTTAACTAATA
* * * * * *
17091591 GAATTTTATTGGAATTCAAACTG-TTTCCTAACTAGAATTTGAATCAA-ATCTAACAAATCTTTA
387 GAATTTTACTGAAATTCAAACTGATTT-CTAATTAAAATTTGAATCAATATATAACAAATCTCTA
* * * *
17091654 CCTTAAAACAAATTTTACCACAACATTTACATTCAAGAAATTTCGACTACATATAATCGAATTAG
451 CCTTAAAACAAATTTTACCACAACATTGACATTCAAGAAATTTCGACTACACATAATCGAATCAA
* * * ** * * *
17091719 TCTTACTCCACCTAATTTAAACAAGTTGGTTAATACTTGTGTGCAGCCAATTCAACTTTACCCGG
516 TCTTACTCCACCTAATTCAAACAAGATGGTCAATACTCATGTACAGCCAAATCAACTTAACCCGG
* *
17091784 TTGACTCCTCCTGTAACTAATGCCTTGTTGCAACATATCTTCTCTTACATATTTTCAATCTCATA
581 TTGACTCCTCCTGTAACTAACGCCTTGTTGCAACATATCTTCTCTTACATATTCTCAATCTCATA
* **
17091849 AATACAATCTACAATAACAAATCCCCTTTTACAATTGATGTGGGATAACCTCAATAATCTCCCAT
646 AACACAATCTACAATAACAAATCCCCTTCCACAATTGATGTGGGATAACCTCAATAATCTCCCAT
* * * * *
17091914 TTCACACATAGGGCTATAAGGGAAAGCTTCTATGCCCAGCTCATGAGGAGATGTAGGTAACTTGG
711 TTCACACATAGGGCTATAAGGGAAAGCTTCTATACCCAACTCACGAAGAGATGTAGGCAACTTGG
* * ** *
17091979 CTATAATTCCACTTGTTAGGATTTTTTAAGCAAAAATAAATTCTTCAATGAGATCAACACGAAAT
776 CTATAATACCACTTGTTAGGATTTCTTAAGCAAAAATAAATTCCACAATAAGATCAACACGAAAT
* * * * * *
17092044 AAATCACATGTAAGAGACAATGTTTAACGTGATTTAGAT
841 AAACCACATGCAAAAGACAATATTTAACATGATTTAGAC
* * * *
17092083 C-AATTGCCTAAATCCATGGATGAGAGAGAAAATTCACTATAAATGTAGAGATTACAATGAGTAC
1 CTAATTGTCTACATCCACGGATGAGAGAGAAAATTCACTATAAATGTAAAGATTACAATGAGTAC
* * *
17092147 AAAACACCATAAACAAACATTAATCTT-GAACTCC-TGAAACAATCCTAG-TTCTTATGCTCCTC
66 AAAACACCATAAACAAACACTAAT-TTCGAGC-CCTTGAAACAATCCTAGTTTC-TATGCTCCTT
* * * * * * *
17092209 ACTGTATAA-CTTATGAAATATCTTTTATCCCATGCAATTGGTGTTTTTTCAAATAAACTCTTTT
128 AGTATATAACCTT-TGAAATATCCTTTATCCTATGTAACTAGTGTTTTTTCAAATAAACT-TTTT
* * * * * * *
17092273 TT-ATATCTTTACAAACCTTTCTCCCATATAGAGATC-TAGTAACTTTCTCACATAATTCTAAAA
191 TTCACATCTATACAAACCTATCTTCCATATAGAAATCTTA-TAACTTTATCTCATAATTCTAAAA
* * *
17092336 GTTAATACTTACTTTATATTTATAAAACTCCATAACTTGATCACCAATAATTTTTATTTATTAAG
255 GTTAATAATTACTTCATATTTATAAAACTCCATTACTTGATCACCAATAATTTTTATTTATTAAG
*
17092401 AACTCTTACCCATTAAGAATATTTATCCTTAAATAAACTTAATTACCAAGTAATTCTTTAACTAA
320 AACTTTTACCCATTAAGAATATTTATCCTTAAATAAACTTAATTACCAAGTAATTCTTTAACTAA
* *
17092466 TAGAATTTTACTGAAATTCAAACTGATTTCTAATTATAATTTGAGTCAATATATAACAAATCTCT
385 TAGAATTTTACTGAAATTCAAACTGATTTCTAATTAAAATTTGAATCAATATATAACAAATCTCT
* * * * * * *
17092531 ACCTTGACACAAATTTTACTACAACATTGACCTTTAAGAAATTTCGACTACACATGATTGAATCA
450 ACCTTAAAACAAATTTTACCACAACATTGACATTCAAGAAATTTCGACTACACATAATCGAATCA
** * * * *
17092596 ATACTTACTCCATTTGATTCAAACAAGATGGTCAATACTCATGTATAGCCAAATGAACTTAACCT
515 AT-CTTACTCCACCTAATTCAAACAAGATGGTCAATACTCATGTACAGCCAAATCAACTTAACCC
* * * * *
17092661 GGTTGACT-CTATCTGTAACTAACGTC-TGTTGCAACAT-T-TTCTCTTGCAT-GTCTCTGATCT
579 GGTTGACTCCT-CCTGTAACTAACGCCTTGTTGCAACATATCTTCTCTTACATATTCTC-AATCT
* * * * *
17092721 CATGAACACAATCTGCAATAATAAATTCGCTTCCACAATTGATGTGGGATAACCTCAATAATCTC
642 CATAAACACAATCTACAATAACAAATCCCCTTCCACAATTGATGTGGGATAACCTCAATAATCTC
* * * * ** * * * *
17092786 CCTCTTTCACACATTGGGTTGT-AGGGTGGAGCTTCTATACTCAACTCACGAAGAGGTTTTGGCA
707 CC-ATTTCACACATAGGGCTATAAGGG-AAAGCTTCTATACCCAACTCACGAAGAGATGTAGGCA
* *
17092850 ACTTGGC-CTGATACCACTTGTT-GAGATTTCTTAAGCAAAAATAAATTCCACAATAAGATCAAC
770 ACTTGGCTATAATACCACTTGTTAG-GATTTCTTAAGCAAAAATAAATTCCACAATAAGATCAAC
* ** *
17092913 ATGAAATAAACCACATGCAAAAGGTAATATTTAACATGA-TTCGAC
834 ACGAAATAAACCACATGCAAAAGACAATATTTAACATGATTTAGAC
* * * * * *
17092958 CTAATTGTCTACATTCACGGATGAGAGA-AAAA-TCTACTATGAACGTAAAAACTACAAAGAGTA
1 CTAATTGTCTACATCCACGGATGAGAGAGAAAATTC-ACTATAAATGTAAAGATTACAATGAGTA
* *
17093021 TAAAACACCATAAACAAACACTAATTTCGAGCCCTTGAAACAATCCTAGTTTCCATGCTCCTTAG
65 CAAAACACCATAAACAAACACTAATTTCGAGCCCTTGAAACAATCCTAGTTTCTATGCTCCTTAG
* * * *
17093086 TATATAACCTTTGGAATACCCTTTATCCTATATAACCAGTGTTTTTTCAAATAAACTTTTTTTCA
130 TATATAACCTTTGAAATATCCTTTATCCTATGTAACTAGTGTTTTTTCAAATAAACTTTTTTTCA
** * * *
17093151 CATCCCTATAAACCTATCTTCCATATAGAAATCTTATAACTTTTTCTCATAATTCTAAAAGTTAC
195 CATCTATACAAACCTATCTTCCATATAGAAATCTTATAACTTTATCTCATAATTCTAAAAGTTAA
* * *
17093216 CAATTACTTCATATTTATAAATCTCCATTACTTGATCACCAAGAATTTTTATTTATTAAGAACTT
260 TAATTACTTCATATTTATAAAACTCCATTACTTGATCACCAATAATTTTTATTTATTAAGAACTT
** * * *
17093281 TTACGTATTAAGAATATTTATCTTTAAATAAATTTAATTACCAAGTAATTCTTTAACT-ATAAAA
325 TTACCCATTAAGAATATTTATCCTTAAATAAACTTAATTACCAAGTAATTCTTTAACTAATAGAA
* *
17093345 TTTTACT-AGAATTCAAATTGA-TTCATAATTAAAATTTGAATCAATATTTAACA
390 TTTTACTGA-AATTCAAACTGATTTC-TAATTAAAATTTGAATCAATATATAACA
17093398 CAACAATTAG
Statistics
Matches: 1105, Mismatches: 182, Indels: 60
0.82 0.14 0.04
Matches are distributed among these distances:
873 4 0.00
874 60 0.05
875 292 0.26
876 194 0.18
877 391 0.35
878 96 0.09
879 68 0.06
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (879 bp):
CTAATTGTCTACATCCACGGATGAGAGAGAAAATTCACTATAAATGTAAAGATTACAATGAGTAC
AAAACACCATAAACAAACACTAATTTCGAGCCCTTGAAACAATCCTAGTTTCTATGCTCCTTAGT
ATATAACCTTTGAAATATCCTTTATCCTATGTAACTAGTGTTTTTTCAAATAAACTTTTTTTCAC
ATCTATACAAACCTATCTTCCATATAGAAATCTTATAACTTTATCTCATAATTCTAAAAGTTAAT
AATTACTTCATATTTATAAAACTCCATTACTTGATCACCAATAATTTTTATTTATTAAGAACTTT
TACCCATTAAGAATATTTATCCTTAAATAAACTTAATTACCAAGTAATTCTTTAACTAATAGAAT
TTTACTGAAATTCAAACTGATTTCTAATTAAAATTTGAATCAATATATAACAAATCTCTACCTTA
AAACAAATTTTACCACAACATTGACATTCAAGAAATTTCGACTACACATAATCGAATCAATCTTA
CTCCACCTAATTCAAACAAGATGGTCAATACTCATGTACAGCCAAATCAACTTAACCCGGTTGAC
TCCTCCTGTAACTAACGCCTTGTTGCAACATATCTTCTCTTACATATTCTCAATCTCATAAACAC
AATCTACAATAACAAATCCCCTTCCACAATTGATGTGGGATAACCTCAATAATCTCCCATTTCAC
ACATAGGGCTATAAGGGAAAGCTTCTATACCCAACTCACGAAGAGATGTAGGCAACTTGGCTATA
ATACCACTTGTTAGGATTTCTTAAGCAAAAATAAATTCCACAATAAGATCAACACGAAATAAACC
ACATGCAAAAGACAATATTTAACATGATTTAGAC
Found at i:17093827 original size:15 final size:16
Alignment explanation
Indices: 17093807--17093863 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
17093797 ATTATTTTTT
17093807 AATTTAATATA-ATAA
1 AATTTAATATATATAA
17093822 AATTTAATATTATATAA
1 AATTTAATA-TATATAA
*
17093839 TAAATTAATTAATATATAA
1 -AATTTAA-T-ATATATAA
17093858 AATTTA
1 AATTTA
17093864 TTATTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 9 0.26
16 2 0.06
17 4 0.11
18 11 0.31
19 8 0.23
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAATATATATAA
Found at i:17093829 original size:20 final size:20
Alignment explanation
Indices: 17093804--17093863 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
17093794 CAAATTATTT
17093804 TTTAATTTAATATAATAAAA
1 TTTAATTTAATATAATAAAA
17093824 TTTAATATT-ATATAAT-AAA
1 TTTAAT-TTAATATAATAAAA
17093843 -TTAA-TTAATAT-ATAAAA
1 TTTAATTTAATATAATAAAA
17093860 TTTA
1 TTTA
17093864 TTATTATATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
16 4 0.11
17 7 0.19
18 7 0.19
19 3 0.08
20 13 0.36
21 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATTTAATATAATAAAA
Found at i:17093961 original size:26 final size:27
Alignment explanation
Indices: 17093910--17093966 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
17093900 AAATTTTATC
*
17093910 ATTATATAATAAATTAATAAATAAA-T
1 ATTATATAATAAACTAATAAATAAATT
* *
17093936 ATTATATTATGAACTAA-AAATAAAATT
1 ATTATATAATAAACTAATAAAT-AAATT
17093963 ATTA
1 ATTA
17093967 CTTATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 17 0.65
27 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
ATTATATAATAAACTAATAAATAAATT
Found at i:17095092 original size:2 final size:2
Alignment explanation
Indices: 17095085--17095113 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17095075 GGTTAGCATA
17095085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17095114 AAATAACAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17098273 original size:60 final size:58
Alignment explanation
Indices: 17098202--17098344 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 58
17098192 TCAATGATTC
** * *
17098202 TCTTAAAATAAAAATTTTTTTAAAAA-TATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TCTTAAAATAAAAA--TTTCAAAAAAGTACTTTCGAAGAAAAGTTGAAAGTATCAATTTT
* *
17098261 TCTTAAAAATAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAGTTGAAAGTATCAATTTT
1 TCTT-AAAATAAAAATTTCAAAAAA-GTACTTTCGAAGAAAAGTTGAAAGTATCAATTTT
17098321 TCTTGAAAAT-AAAATTTCAAAAAA
1 TCTT-AAAATAAAAATTTCAAAAAA
17098345 AAAAAGATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 8 0.11
59 17 0.23
60 48 0.66
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (58 bp):
TCTTAAAATAAAAATTTCAAAAAAGTACTTTCGAAGAAAAGTTGAAAGTATCAATTTT
Found at i:17098402 original size:75 final size:77
Alignment explanation
Indices: 17098265--17098422 Score: 200
Period size: 76 Copynumber: 2.1 Consensus size: 77
17098255 AATTTTTCTT
* * *
17098265 AAAAATAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA
1 AAAAAAAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAATTGAAAGTATCAATTTCTCTTGAAAA
17098330 TAAAA-TTTCAA
66 TAAAATTTTCAA
* * *
17098341 AAAAAAAAAGATTTCAAAAAA-GTATTTTTGA-GAAACAATTGAAAGT-GCTAATTATCT-TTGA
1 AAAAAAAAAGATTTCAAAAAAGGTACTTTCGAGGAAA-AATTGAAAGTATC-AATT-TCTCTTGA
17098402 AAATAAAATTTTCAA
63 AAATAAAATTTTCAA
17098417 AAAAAA
1 AAAAAA
17098423 CATTTTTAAG
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
74 5 0.07
75 33 0.46
76 34 0.47
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (77 bp):
AAAAAAAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAATTGAAAGTATCAATTTCTCTTGAAAA
TAAAATTTTCAA
Found at i:17098494 original size:58 final size:59
Alignment explanation
Indices: 17098352--17098568 Score: 227
Period size: 58 Copynumber: 3.7 Consensus size: 59
17098342 AAAAAAAAGA
* * *
17098352 TTTCAAAAAAGTATTTTTGA-GAAACAATTGAAAGT-GCTAA-TTATCTTTGAAAATAAAAT
1 TTTCAAAAAAGCATTTTTGAGGAAA-AATTGAAAGTATC-AATTTTTC-TTGAAAATAAAAT
* * *
17098411 TTTCAAAAAAAACATTTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTG-AAATAAAAT
1 TTTC-AAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAAT
*
17098470 TTTCAAAAAAGCATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAT
1 TTTCAAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAAT-AAAAT
* * * *
17098530 TTT--AAAATGC---TTTAAAGAAAAGTTGAAAGTATCAATTTT
1 TTTCAAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTT
17098569 CGTTGTATAA
Statistics
Matches: 139, Mismatches: 13, Indels: 16
0.83 0.08 0.10
Matches are distributed among these distances:
55 27 0.19
58 47 0.34
59 21 0.15
60 35 0.25
61 9 0.06
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTCAAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAAT
Found at i:17098613 original size:15 final size:15
Alignment explanation
Indices: 17098593--17098622 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17098583 ATGAATTTTT
17098593 TAAAATAAAATAACA
1 TAAAATAAAATAACA
17098608 TAAAATAAAATAACA
1 TAAAATAAAATAACA
17098623 AAAGAGATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAATAAAATAACA
Found at i:17099892 original size:19 final size:21
Alignment explanation
Indices: 17099868--17099906 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
17099858 AAACAACTTA
17099868 AATCATGA-TT-CATATCTAT
1 AATCATGATTTACATATCTAT
17099887 AATCATGATTTACATATCTA
1 AATCATGATTTACATATCTA
17099907 AACCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
AATCATGATTTACATATCTAT
Found at i:17101108 original size:79 final size:78
Alignment explanation
Indices: 17100996--17101145 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 78
17100986 GTTTTCACTA
* * * * **
17100996 TTTTATCCCATAAAAATACCTCACAAATATGAGTTTAAGTGTCTCTTTATATACTATATCGTATA
1 TTTTATCCCACAAAAAAACCTCACAAATATGAGTTTAAATATCTAATTATATACTATATCGTATA
17101061 CTCACACTTGATC
66 CTCACACTTGATC
* * * *
17101074 TTTTATCCCACAAAAAAAGCTTCATAAATATGAGTTTAAATATTTAATTATATACTATATTGTAT
1 TTTTATCCCACAAAAAAA-CCTCACAAATATGAGTTTAAATATCTAATTATATACTATATCGTAT
*
17101139 CCTCACA
65 ACTCACA
17101146 TTTAACCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
78 16 0.27
79 44 0.73
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (78 bp):
TTTTATCCCACAAAAAAACCTCACAAATATGAGTTTAAATATCTAATTATATACTATATCGTATA
CTCACACTTGATC
Found at i:17103966 original size:17 final size:18
Alignment explanation
Indices: 17103944--17103977 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17103934 TTTTCGGCAT
17103944 TCAAA-TTTCAATCAACC
1 TCAAATTTTCAATCAACC
17103961 TCAAATTTTCAATCAAC
1 TCAAATTTTCAATCAAC
17103978 ATTTAAGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (18 bp):
TCAAATTTTCAATCAACC
Found at i:17104390 original size:38 final size:40
Alignment explanation
Indices: 17104317--17104409 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 40
17104307 GATTGGATGG
*
17104317 GGTGGGGA-GGATTGGGTGTGGTGGGGTGTTGGGGGG-AA
1 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGGCAA
17104355 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGGCAA
1 GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGGCAA
*
17104395 GGTGGAGAGGGATTG
1 GGTGGGGAGGGATTG
17104410 ATGAGGGTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 8 0.16
39 27 0.53
40 16 0.31
ACGTcount: A:0.13, C:0.01, G:0.63, T:0.23
Consensus pattern (40 bp):
GGTGGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGGCAA
Found at i:17104683 original size:20 final size:20
Alignment explanation
Indices: 17104645--17104682 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17104635 GATTGTGTTA
*
17104645 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
17104665 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
17104683 TTTTGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:17111680 original size:3 final size:3
Alignment explanation
Indices: 17111672--17111700 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17111662 CTTCAAATGC
17111672 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
17111701 TTTTGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17112122 original size:30 final size:30
Alignment explanation
Indices: 17112068--17112125 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
17112058 AATTAGATTC
*
17112068 TTAAATATTTATTTTCGTCAAATTAAACTT
1 TTAAATATATATTTTCGTCAAATTAAACTT
*
17112098 TTAAATATATATTTTTGCTC-AATTAAAC
1 TTAAATATATATTTTCG-TCAAATTAAAC
17112126 CATTGATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.48
Consensus pattern (30 bp):
TTAAATATATATTTTCGTCAAATTAAACTT
Found at i:17115509 original size:22 final size:23
Alignment explanation
Indices: 17115481--17115523 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17115471 TAATTTTAAG
*
17115481 TTTAATT-TATTAAATTTAAAAA
1 TTTAATTAGATTAAATTTAAAAA
17115503 TTTAATTAGATTAAATTTAAA
1 TTTAATTAGATTAAATTTAAA
17115524 TAAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAATTAGATTAAATTTAAAAA
Found at i:17115907 original size:12 final size:12
Alignment explanation
Indices: 17115874--17115959 Score: 58
Period size: 12 Copynumber: 7.5 Consensus size: 12
17115864 CTTTGTTTAA
17115874 AAATTA-TTA-T
1 AAATTATTTATT
17115884 AATATT-TTTATT
1 AA-ATTATTTATT
*
17115896 CAATTATTTATT
1 AAATTATTTATT
* **
17115908 AAATTAATTACA
1 AAATTATTTATT
17115920 AAATTA-TTA-T
1 AAATTATTTATT
17115930 AATATT-TTTATT
1 AA-ATTATTTATT
**
17115942 AAATTACATATT
1 AAATTATTTATT
17115954 AAATTA
1 AAATTA
17115960 ATTACATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 4 0.07
11 21 0.35
12 35 0.58
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
AAATTATTTATT
Found at i:17115923 original size:46 final size:46
Alignment explanation
Indices: 17115873--17115965 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
17115863 ACTTTGTTTA
* **
17115873 AAAATTATTATAATATTTTTATTCAATTATTTATTAAATTAATTAC
1 AAAATTATTATAATATTTTTATTAAATTACATATTAAATTAATTAC
17115919 AAAATTATTATAATATTTTTATTAAATTACATATTAAATTAATTAC
1 AAAATTATTATAATATTTTTATTAAATTACATATTAAATTAATTAC
17115965 A
1 A
17115966 TAAAACTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (46 bp):
AAAATTATTATAATATTTTTATTAAATTACATATTAAATTAATTAC
Found at i:17115964 original size:16 final size:16
Alignment explanation
Indices: 17115943--17115990 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
17115933 ATTTTTATTA
17115943 AATTACATATTAAATT
1 AATTACATATTAAATT
17115959 AATTACATA--AAACTT
1 AATTACATATTAAA-TT
**
17115974 AATTATGTATTAAATT
1 AATTACATATTAAATT
17115990 A
1 A
17115991 TTATAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.11
15 9 0.33
16 12 0.44
17 3 0.11
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (16 bp):
AATTACATATTAAATT
Found at i:17118230 original size:12 final size:12
Alignment explanation
Indices: 17118199--17118232 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17118189 TATATTTATG
*
17118199 TAATCAACTAAA
1 TAATCAATTAAA
*
17118211 TAATCAATTGAA
1 TAATCAATTAAA
17118223 TAATCAATTA
1 TAATCAATTA
17118233 TTATATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (12 bp):
TAATCAATTAAA
Found at i:17119745 original size:18 final size:18
Alignment explanation
Indices: 17119718--17119753 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
17119708 AACTTATTTT
17119718 TTAATAAAATT-TTAAAA
1 TTAATAAAATTATTAAAA
17119735 TTAACTAAAATTATTAAAA
1 TTAA-TAAAATTATTAAAA
17119754 AAATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAATAAAATTATTAAAA
Found at i:17120915 original size:3 final size:3
Alignment explanation
Indices: 17120888--17120952 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
17120878 TCCTCTCATT
*
17120888 TTA TT- TTA TT- TTA TT- TTA -AA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
17120932 TAA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
17120953 AACAAAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 7 0.13
3 45 0.87
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:17123012 original size:30 final size:30
Alignment explanation
Indices: 17122978--17123043 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
17122968 TTTTTTTTCC
*
17122978 TTTTTTTAGATTTTCTTAATTTT-TGAGCT
1 TTTTTTTAAATTTTCTTAATTTTATGAGCT
* * **
17123007 TTTTTTTAAATTTTTTTAGTTTTATGATTT
1 TTTTTTTAAATTTTCTTAATTTTATGAGCT
17123037 TTTTTTT
1 TTTTTTT
17123044 TTAAACTCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.73
Consensus pattern (30 bp):
TTTTTTTAAATTTTCTTAATTTTATGAGCT
Found at i:17123045 original size:16 final size:15
Alignment explanation
Indices: 17123006--17123048 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
17122996 ATTTTTGAGC
17123006 TTTTTTTTAAATTTT
1 TTTTTTTTAAATTTT
* *
17123021 TTTAGTTTTATGATTTT
1 TTT-TTTTTA-AATTTT
17123038 TTTTTTTTAAA
1 TTTTTTTTAAA
17123049 CTCCTCTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTTTTTAAATTTT
Found at i:17123243 original size:46 final size:46
Alignment explanation
Indices: 17123050--17123407 Score: 253
Period size: 46 Copynumber: 7.6 Consensus size: 46
17123040 TTTTTTAAAC
* ** *
17123050 TCCTCTTAA-CAAAGGTTTCACAACTTTTGAAAATAAAATTTGCAAGA
1 TCCT-TTAAGCAAAGGCTTCACAACTTTTGAAAAT-AAATTTAAAAGT
* * * * * *
17123097 TCCTTTACGTAAAAGCTTAACAACTTTTGAAAACAAATTTTTAAAA-C
1 TCCTTTAAGCAAAGGCTTCACAACTTTTGAAAATAAA--TTTAAAAGT
* *
17123144 TCTTTTAAGCAAAGGC-TCAGCAATTTTTGAAATTGAAAGTAAATTTAAAAGT
1 TCCTTTAAGCAAAGGCTTCA-CAACTTTTG--A---AAA-TAAATTTAAAAGT
* *
17123196 TCCTTTAAGCAAAGGC-TCTATAATTTTTGAAAATAAATTTAAAAGT
1 TCCTTTAAGCAAAGGCTTC-ACAACTTTTGAAAATAAATTTAAAAGT
* * * * * * *
17123242 TCTTTTAAACAAAGGCTTTACAATTTTTTAAAAATTAATATAAAAGT
1 TCCTTTAAGCAAAGGCTTCACAA-CTTTTGAAAATAAATTTAAAAGT
* * *
17123289 TCTTTTAAGCAAAAGCTTCACAACTTTT-AAAAGTAAATTTAAAA-A
1 TCCTTTAAGCAAAGGCTTCACAACTTTTGAAAA-TAAATTTAAAAGT
* * * *
17123334 CCCTTTTAAGCAAAGGCTTCATAACTTTTGAAAATATATTTAAAAGC
1 TCC-TTTAAGCAAAGGCTTCACAACTTTTGAAAATAAATTTAAAAGT
* *
17123381 TCATTTAAGCAAAGAC-TCAACAACTTT
1 TCCTTTAAGCAAAGGCTTC-ACAACTTT
17123408 AAAAATTTCA
Statistics
Matches: 249, Mismatches: 43, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
45 7 0.03
46 103 0.41
47 93 0.37
48 5 0.02
49 1 0.00
50 1 0.00
51 7 0.03
52 28 0.11
53 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (46 bp):
TCCTTTAAGCAAAGGCTTCACAACTTTTGAAAATAAATTTAAAAGT
Found at i:17123547 original size:99 final size:99
Alignment explanation
Indices: 17123402--17123609 Score: 238
Period size: 99 Copynumber: 2.1 Consensus size: 99
17123392 AAGACTCAAC
* * * ** *
17123402 AACTTT-AAAAATTTCATCCCAAAAAGCTACTTTAAGCAAAGGCTCAATAACTTTAAAAATCTCA
1 AACTTTAAAAAATCTAATCCCAAAAAGCTACTTTAAACAAAAACTCAACAACTTTAAAAATCTCA
* * * * * *
17123466 AATTTGAAAAGCTCTTCTTAAACAGAGGTTTTGT
66 AATTTAAAAAACTCCTCTTAAACAGAAGCTTTGA
* * * *
17123500 AACTTTAAAAAATCTAATCCTAAAAAGCTCCTTTAAACAAAAACTCAACAATTTTAAAAATTTCA
1 AACTTTAAAAAATCTAATCCCAAAAAGCTACTTTAAACAAAAACTCAACAACTTTAAAAATCTCA
** *
17123565 TCTTTAAAAAACTCCTCTTAAATAGAAGCTTTGA
66 AATTTAAAAAACTCCTCTTAAACAGAAGCTTTGA
17123599 AACTTTAAAAA
1 AACTTTAAAAA
17123610 TCTCATCTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
98 6 0.07
99 84 0.93
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (99 bp):
AACTTTAAAAAATCTAATCCCAAAAAGCTACTTTAAACAAAAACTCAACAACTTTAAAAATCTCA
AATTTAAAAAACTCCTCTTAAACAGAAGCTTTGA
Found at i:17124101 original size:9 final size:9
Alignment explanation
Indices: 17124087--17124141 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
17124077 TCTTGGCTTT
17124087 TTTTTTTCA
1 TTTTTTTCA
17124096 TTTTTTTC-
1 TTTTTTTCA
17124104 TTGGCTTCTTT-A
1 TT---TT-TTTCA
17124116 TTTTTTTTCA
1 -TTTTTTTCA
17124126 TTTTTTTCA
1 TTTTTTTCA
17124135 TTTTTTT
1 TTTTTTT
17124142 ATCTCTCCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
8 2 0.05
9 27 0.69
10 3 0.08
11 2 0.05
12 3 0.08
13 2 0.05
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.78
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:17124683 original size:4 final size:4
Alignment explanation
Indices: 17124664--17124714 Score: 50
Period size: 4 Copynumber: 12.2 Consensus size: 4
17124654 TCAATCTGAG
* *
17124664 TCTT TCCTT T-TT TCTT TCTT TCTT TTTT TCTTT TCTTT TCTT ACTT TCTT
1 TCTT T-CTT TCTT TCTT TCTT TCTT TCTT TC-TT TC-TT TCTT TCTT TCTT
17124714 T
1 T
17124715 AAACTATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 3 0.08
4 24 0.60
5 13 0.32
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:17124685 original size:16 final size:17
Alignment explanation
Indices: 17124664--17124701 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
17124654 TCAATCTGAG
17124664 TCTTTCCTTTTTTC-TT
1 TCTTTCCTTTTTTCTTT
*
17124680 TCTTTCTTTTTTTCTTT
1 TCTTTCCTTTTTTCTTT
17124697 TCTTT
1 TCTTT
17124702 TCTTACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTTCCTTTTTTCTTT
Found at i:17124698 original size:13 final size:13
Alignment explanation
Indices: 17124664--17124714 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
17124654 TCAATCTGAG
*
17124664 TCTTTCCTT-TTT
1 TCTTTCTTTCTTT
17124676 TCTTTCTTTCTTT
1 TCTTTCTTTCTTT
17124689 T-TTTCTTTTCTTT
1 TCTTTC-TTTCTTT
*
17124702 TCTTACTTTCTTT
1 TCTTTCTTTCTTT
17124715 AAACTATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 12 0.35
13 19 0.56
14 3 0.09
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTCTTTCTTT
Found at i:17124796 original size:17 final size:17
Alignment explanation
Indices: 17124774--17124820 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
17124764 GAACTAGTAT
17124774 ATTTTTTTCTTTTTTAG
1 ATTTTTTTCTTTTTTAG
*
17124791 ATTTTTTTGTTTTTTAG
1 ATTTTTTTCTTTTTTAG
*
17124808 --TTTTATCTTTTTT
1 ATTTTTTTCTTTTTT
17124821 TTTATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 11 0.41
17 16 0.59
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.79
Consensus pattern (17 bp):
ATTTTTTTCTTTTTTAG
Found at i:17124829 original size:18 final size:17
Alignment explanation
Indices: 17124778--17124835 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
17124768 TAGTATATTT
17124778 TTTTCTTTTTTAGATTTT-
1 TTTT-TTTTTTAG-TTTTA
*
17124796 TTTGTTTTTTAGTTTTA
1 TTTTTTTTTTAGTTTTA
*
17124813 TCTTTTTTTTTATTTTTA
1 T-TTTTTTTTTAGTTTTA
17124831 TTTTT
1 TTTTT
17124836 GTGTTCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 4 0.11
17 13 0.37
18 18 0.51
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTAGTTTTA
Found at i:17125874 original size:32 final size:32
Alignment explanation
Indices: 17125831--17125952 Score: 97
Period size: 32 Copynumber: 3.8 Consensus size: 32
17125821 TTCTAAGCGA
*
17125831 TGCCAGCTAAATTAAGCTTAAATCTTTATATG
1 TGCCAACTAAATTAAGCTTAAATCTTTATATG
* * *
17125863 TGCCAATTAAA-TAGAGCTTGAATC-TTATCCTTG
1 TGCCAACTAAATTA-AGCTTAAATCTTTAT--ATG
* * *
17125896 TGCCAACTAAATTAGGTTTAAATCTTCATA-G
1 TGCCAACTAAATTAAGCTTAAATCTTTATATG
* * *
17125927 CTGCTAGCTAAATCAAGCTTAAATCT
1 -TGCCAACTAAATTAAGCTTAAATCT
17125953 CATCTCTTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
31 7 0.10
32 38 0.55
33 19 0.28
34 5 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TGCCAACTAAATTAAGCTTAAATCTTTATATG
Found at i:17128607 original size:18 final size:18
Alignment explanation
Indices: 17128575--17128617 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
17128565 TTCTTGTTTT
*
17128575 CTTTTCTCTTTTTTTTTAC
1 CTTTT-TCTTCTTTTTTAC
*
17128594 CTTTTTCTTCTTTTTTTC
1 CTTTTTCTTCTTTTTTAC
17128612 CTTTTT
1 CTTTTT
17128618 ACAAACCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (18 bp):
CTTTTTCTTCTTTTTTAC
Found at i:17129977 original size:14 final size:15
Alignment explanation
Indices: 17129955--17129994 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
17129945 TTGGTTTTTA
*
17129955 TATTATTTTTATATT
1 TATTATTTTAATATT
17129970 TA-TATTTTAATATT
1 TATTATTTTAATATT
17129984 TATTATTTTAA
1 TATTATTTTAA
17129995 ATGGTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTATTTTAATATT
Found at i:17137189 original size:60 final size:58
Alignment explanation
Indices: 17137118--17137260 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 58
17137108 TCAATGATTC
** * *
17137118 TCTTAAAATAAAAATTTTTTTAAAAA-TATTTTTGAAGAAAAGTTGAAAGTATCAATTTT
1 TCTTAAAATAAAAA--TTTCAAAAAAGTACTTTCGAAGAAAAGTTGAAAGTATCAATTTT
* *
17137177 TCTTAAAAATAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAGTTGAAAGTATCAATTTT
1 TCTT-AAAATAAAAATTTCAAAAAA-GTACTTTCGAAGAAAAGTTGAAAGTATCAATTTT
17137237 TCTTGAAAAT-AAAATTTCAAAAAA
1 TCTT-AAAATAAAAATTTCAAAAAA
17137261 AAAAAGATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 8 0.11
59 17 0.23
60 48 0.66
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (58 bp):
TCTTAAAATAAAAATTTCAAAAAAGTACTTTCGAAGAAAAGTTGAAAGTATCAATTTT
Found at i:17137318 original size:75 final size:77
Alignment explanation
Indices: 17137181--17137338 Score: 200
Period size: 76 Copynumber: 2.1 Consensus size: 77
17137171 AATTTTTCTT
* * *
17137181 AAAAATAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAA
1 AAAAAAAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAATTGAAAGTATCAATTTCTCTTGAAAA
17137246 TAAAA-TTTCAA
66 TAAAATTTTCAA
* * *
17137257 AAAAAAAAAGATTTCAAAAAA-GTATTTTTGA-GAAACAATTGAAAGT-GCTAATTATCT-TTGA
1 AAAAAAAAAGATTTCAAAAAAGGTACTTTCGAGGAAA-AATTGAAAGTATC-AATT-TCTCTTGA
17137318 AAATAAAATTTTCAA
63 AAATAAAATTTTCAA
17137333 AAAAAA
1 AAAAAA
17137339 CATTTTTAAG
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
74 5 0.07
75 33 0.46
76 34 0.47
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (77 bp):
AAAAAAAAAGATTTCAAAAAAGGTACTTTCGAGGAAAAATTGAAAGTATCAATTTCTCTTGAAAA
TAAAATTTTCAA
Found at i:17137410 original size:58 final size:59
Alignment explanation
Indices: 17137268--17137484 Score: 227
Period size: 58 Copynumber: 3.7 Consensus size: 59
17137258 AAAAAAAAGA
* * *
17137268 TTTCAAAAAAGTATTTTTGA-GAAACAATTGAAAGT-GCTAA-TTATCTTTGAAAATAAAAT
1 TTTCAAAAAAGCATTTTTGAGGAAA-AATTGAAAGTATC-AATTTTTC-TTGAAAATAAAAT
* * *
17137327 TTTCAAAAAAAACATTTTTAAGGAAAAATTAAAAGTATCAATTTTTCTTG-AAATAAAAT
1 TTTC-AAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAAT
*
17137386 TTTCAAAAAAGCATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAT
1 TTTCAAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAAT-AAAAT
* * * *
17137446 TTT--AAAATGC---TTTAAAGAAAAGTTGAAAGTATCAATTTT
1 TTTCAAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTT
17137485 CGTTGTATAA
Statistics
Matches: 139, Mismatches: 13, Indels: 16
0.83 0.08 0.10
Matches are distributed among these distances:
55 27 0.19
58 47 0.34
59 21 0.15
60 35 0.25
61 9 0.06
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTCAAAAAAGCATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAAAT
Found at i:17137529 original size:15 final size:15
Alignment explanation
Indices: 17137509--17137538 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
17137499 ATGAATTTTT
17137509 TAAAATAAAATAACA
1 TAAAATAAAATAACA
17137524 TAAAATAAAATAACA
1 TAAAATAAAATAACA
17137539 AAAGAGATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAATAAAATAACA
Found at i:17138804 original size:19 final size:21
Alignment explanation
Indices: 17138780--17138818 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
17138770 AAACAACTTA
17138780 AATCATGA-TT-CATATCTAT
1 AATCATGATTTACATATCTAT
17138799 AATCATGATTTACATATCTA
1 AATCATGATTTACATATCTA
17138819 AACCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (21 bp):
AATCATGATTTACATATCTAT
Found at i:17140023 original size:79 final size:78
Alignment explanation
Indices: 17139911--17140060 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 78
17139901 GTTTTCACTA
* * * * **
17139911 TTTTATCCCATAAAAATACCTCACAAATATGAGTTTAAGTGTCTCTTTATATACTATATCGTATA
1 TTTTATCCCACAAAAAAACCTCACAAATATGAGTTTAAATATCTAATTATATACTATATCGTATA
17139976 CTCACACTTGATC
66 CTCACACTTGATC
* * * *
17139989 TTTTATCCCACAAAAAAAGCTTCATAAATATGAGTTTAAATATTTAATTATATACTATATTGTAT
1 TTTTATCCCACAAAAAAA-CCTCACAAATATGAGTTTAAATATCTAATTATATACTATATCGTAT
*
17140054 CCTCACA
65 ACTCACA
17140061 TTTAACCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
78 16 0.27
79 44 0.73
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (78 bp):
TTTTATCCCACAAAAAAACCTCACAAATATGAGTTTAAATATCTAATTATATACTATATCGTATA
CTCACACTTGATC
Found at i:17143261 original size:38 final size:38
Alignment explanation
Indices: 17143212--17143298 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
17143202 ATTGGATGGG
*
17143212 GGGGA-GGATTGGGTGTGGTGGGGTGTTGGGGGAAGGT
1 GGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGAAGGT
17143249 GGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGAAGGT
1 GGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGAAGGT
*
17143287 GGAGAGGGATTG
1 GGGGAGGGATTG
17143299 ATGGGGTGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 5 0.11
38 42 0.89
ACGTcount: A:0.14, C:0.00, G:0.63, T:0.23
Consensus pattern (38 bp):
GGGGAGGGATTGGGTGTGGTGGGATGTTGGGGGAAGGT
Done.