Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 138 of 163
Found at i:37330558 original size:33 final size:33
Alignment explanation
Indices: 37330520--37330584 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
37330510 CAAATTCAAA
* * *
37330520 ATAAATTTAAAGTAAAAATTAATTTAAATTTTG
1 ATAAATTTAAACTAAAAATAAATTAAAATTTTG
*
37330553 ATAAATTTAAACTTAAAATAAATTAAAATTTT
1 ATAAATTTAAACTAAAAATAAATTAAAATTTT
37330585 AAAATTGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.42
Consensus pattern (33 bp):
ATAAATTTAAACTAAAAATAAATTAAAATTTTG
Found at i:37331043 original size:23 final size:23
Alignment explanation
Indices: 37331017--37331060 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
37331007 ATATACATAC
37331017 ATTAATAATGTCA-AAGATTATTA
1 ATTAATAA-GTCACAAGATTATTA
37331040 ATTAATAAGTCACAAGATTAT
1 ATTAATAAGTCACAAGATTAT
37331061 ATGGGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTAATAAGTCACAAGATTATTA
Found at i:37334688 original size:51 final size:51
Alignment explanation
Indices: 37334633--37334730 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
37334623 CATTTCCATT
* *
37334633 TTGGAGAAAACCATATTCATTTTCAAATGATTT-CATTTCTCCATTTTTATG
1 TTGGAGAAAACCATAATCATTTCCAAATG-TTTACATTTCTCCATTTTTATG
* * *
37334684 TTGGAGAAAATCTTAATCATTTCCAAATGTTTAATATTTCTCCATTT
1 TTGGAGAAAACCATAATCATTTCCAAATGTTT-ACATTTCTCCATTT
37334731 CACCATTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
50 3 0.08
51 25 0.62
52 12 0.30
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (51 bp):
TTGGAGAAAACCATAATCATTTCCAAATGTTTACATTTCTCCATTTTTATG
Found at i:37343176 original size:3 final size:3
Alignment explanation
Indices: 37343168--37343197 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37343158 GATTATCAGC
37343168 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37343198 GATGGCTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:37349560 original size:14 final size:15
Alignment explanation
Indices: 37349541--37349577 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
37349531 GTTTTTTTAC
37349541 ATAAATAATATAAA-
1 ATAAATAATATAAAT
37349555 ATAAATAA-ATAAAT
1 ATAAATAATATAAAT
37349569 ATAAA-AATA
1 ATAAATAATA
37349578 AGATAACAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAAATAATATAAAT
Found at i:37349869 original size:31 final size:34
Alignment explanation
Indices: 37349833--37349922 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 34
37349823 AAATTTTTAT
*
37349833 TATTTTGAAAGGTAAAAAATAAAAAAGT-A-ATA
1 TATTTTGAAAAGTAAAAAATAAAAAAGTAATATA
* * **
37349865 -ATTTTAAAAAGTAAAAAGTTGAAAAGTAATATA
1 TATTTTGAAAAGTAAAAAATAAAAAAGTAATATA
37349898 TTATTTTGAAAAGTAAAAAA-AAAAA
1 -TATTTTGAAAAGTAAAAAATAAAAA
37349923 GGCTTATGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
31 22 0.49
32 1 0.02
33 3 0.07
34 3 0.07
35 16 0.36
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (34 bp):
TATTTTGAAAAGTAAAAAATAAAAAAGTAATATA
Found at i:37349873 original size:15 final size:16
Alignment explanation
Indices: 37349854--37349895 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
37349844 GTAAAAAATA
* *
37349854 AAAAAGTAATAATTTT
1 AAAAAGTAATAAGTTG
*
37349870 AAAAAGTAAAAAGTTG
1 AAAAAGTAATAAGTTG
37349886 -AAAAGTAATA
1 AAAAAGTAATA
37349896 TATTATTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (16 bp):
AAAAAGTAATAAGTTG
Found at i:37358273 original size:45 final size:47
Alignment explanation
Indices: 37358223--37358327 Score: 178
Period size: 48 Copynumber: 2.3 Consensus size: 47
37358213 GAATAGATAA
*
37358223 ATAATAAAAATATA-AAAA-TTGATAAATACAATATTGAGATCATAT
1 ATAATAAAAATATATAAAACTTAATAAATACAATATTGAGATCATAT
37358268 ATAATAAAAAATATATAAAACTTAATAAATACAATATTGAGATCATAT
1 ATAAT-AAAAATATATAAAACTTAATAAATACAATATTGAGATCATAT
37358316 ATAATAAAAATA
1 ATAATAAAAATA
37358328 AGCCTAAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
45 5 0.09
46 9 0.16
47 11 0.20
48 31 0.55
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (47 bp):
ATAATAAAAATATATAAAACTTAATAAATACAATATTGAGATCATAT
Found at i:37361136 original size:21 final size:21
Alignment explanation
Indices: 37361112--37361175 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
37361102 TATATTATTA
* *
37361112 TTTTGGTGCTTTTTTTACTGT
1 TTTTGATGATTTTTTTACTGT
* *
37361133 TTTT-ATGTTATTTTTTATTG-
1 TTTTGATGAT-TTTTTTACTGT
37361153 TTTTGAT-ATTTTTTTACTGT
1 TTTTGATGATTTTTTTACTGT
37361173 TTT
1 TTT
37361176 GATTATTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 9 0.26
20 11 0.31
21 15 0.43
ACGTcount: A:0.11, C:0.05, G:0.12, T:0.72
Consensus pattern (21 bp):
TTTTGATGATTTTTTTACTGT
Found at i:37361164 original size:18 final size:19
Alignment explanation
Indices: 37361121--37361178 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
37361111 ATTTTGGTGC
* *
37361121 TTTTTTTACTGTTTTTATGT
1 TTTTTTTACTGTTTTGAT-A
*
37361141 TATTTTTTATTGTTTTGATA
1 T-TTTTTTACTGTTTTGATA
37361161 TTTTTTTACTGTTTTGAT
1 TTTTTTTACTGTTTTGAT
37361179 TATTGTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.48
20 2 0.06
21 15 0.45
ACGTcount: A:0.14, C:0.03, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTTTTACTGTTTTGATA
Found at i:37361167 original size:31 final size:33
Alignment explanation
Indices: 37361132--37361211 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
37361122 TTTTTTACTG
37361132 TTTTTA-TGTTATTTTTTATTGTTTT-GATATT-
1 TTTTTACTGTTATTTTTTATTGTTTTCG-TATTA
** *
37361163 TTTTTACTGTT-TTGATTATTGTTTTCGTGTTA
1 TTTTTACTGTTATTTTTTATTGTTTTCGTATTA
37361195 TTTTTACTGTTATTTTT
1 TTTTTACTGTTATTTTT
37361212 GTTACTGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 21 0.52
32 16 0.40
33 3 0.08
ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71
Consensus pattern (33 bp):
TTTTTACTGTTATTTTTTATTGTTTTCGTATTA
Found at i:37361193 original size:20 final size:19
Alignment explanation
Indices: 37361141--37361187 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
37361131 GTTTTTATGT
*
37361141 TATT-TTTTATTGTTTTGA
1 TATTGTTTTACTGTTTTGA
*
37361159 TATTTTTTTACTGTTTTGA
1 TATTGTTTTACTGTTTTGA
37361178 TTATTGTTTT
1 -TATTGTTTT
37361188 CGTGTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.16
19 13 0.52
20 8 0.32
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (19 bp):
TATTGTTTTACTGTTTTGA
Found at i:37361222 original size:12 final size:12
Alignment explanation
Indices: 37361205--37361239 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37361195 TTTTTACTGT
37361205 TATTTTTGTTAC
1 TATTTTTGTTAC
* *
37361217 TGTTTTTGTTGC
1 TATTTTTGTTAC
37361229 TATTTTTGTTA
1 TATTTTTGTTA
37361240 TTTTGCTACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (12 bp):
TATTTTTGTTAC
Found at i:37361265 original size:32 final size:33
Alignment explanation
Indices: 37361202--37361270 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
37361192 TTATTTTTAC
* * *
37361202 TGTTATTTTTGTTACTGTTTTTGTTGCTATTTT
1 TGTTATTTTTGCTACTATTTTGGTTGCTATTTT
*
37361235 TGTTA-TTTTGCTACTATTTTGGTTGTTATTTT
1 TGTTATTTTTGCTACTATTTTGGTTGCTATTTT
37361267 TGTT
1 TGTT
37361271 GTTTAGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 27 0.84
33 5 0.16
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.68
Consensus pattern (33 bp):
TGTTATTTTTGCTACTATTTTGGTTGCTATTTT
Found at i:37371039 original size:31 final size:28
Alignment explanation
Indices: 37370991--37371070 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 28
37370981 ATATCAAAAC
37370991 TATACATGAATTATGATTTAATGTGCAATTG
1 TATACATGAATT-TGATTT--TGTGCAATTG
* * *
37371022 TATATATGAACTTTGATTTTGTGTAATTT
1 TATACATGAA-TTTGATTTTGTGCAATTG
37371051 TATACATGAAATTTTGATTT
1 TATACATG-AA-TTTGATTT
37371071 GATCCAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 15 0.36
30 10 0.24
31 15 0.36
32 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (28 bp):
TATACATGAATTTGATTTTGTGCAATTG
Found at i:37377537 original size:21 final size:23
Alignment explanation
Indices: 37377500--37377541 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
37377490 CATATTATTT
37377500 TTTTTTAATTTTAAATATTTATA
1 TTTTTTAATTTTAAATATTTATA
37377523 TTTTTT-ATTTT-AATATTTA
1 TTTTTTAATTTTAAATATTTA
37377542 ATAATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTTAATTTTAAATATTTATA
Found at i:37377549 original size:21 final size:22
Alignment explanation
Indices: 37377502--37377551 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
37377492 TATTATTTTT
*
37377502 TTTTAATTTTAAATATTTATATT
1 TTTT-ATTTTAAATATTTATATA
37377525 TTTTATTTT-AATATTTA-ATAA
1 TTTTATTTTAAATATTTATAT-A
37377546 TTTTAT
1 TTTTAT
37377552 ACATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 14 0.56
22 5 0.20
23 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTATTTTAAATATTTATATA
Found at i:37377549 original size:22 final size:23
Alignment explanation
Indices: 37377501--37377549 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
37377491 ATATTATTTT
37377501 TTTTTAATTTTAAATATTTAT-A
1 TTTTTAATTTTAAATATTTATAA
*
37377523 TTTTTTATTTT-AATATTTAATAA
1 TTTTTAATTTTAAATATTT-ATAA
37377546 TTTT
1 TTTT
37377550 ATACATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTAATTTTAAATATTTATAA
Found at i:37377843 original size:15 final size:15
Alignment explanation
Indices: 37377825--37377862 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
37377815 TATCCAAATC
*
37377825 TATTTTTAAGCTTAA
1 TATTTTTAAGCTAAA
*
37377840 TATTTTT-ATCTAAA
1 TATTTTTAAGCTAAA
37377854 TATTTTTAA
1 TATTTTTAA
37377863 ATTTCGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (15 bp):
TATTTTTAAGCTAAA
Found at i:37401333 original size:30 final size:28
Alignment explanation
Indices: 37401298--37401361 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
37401288 TAGAAATGAA
* * *
37401298 AAATTGAGACATATAGAGTGATATGTGATG
1 AAATTGAGAAATA-AGAATGAAATG-GATG
*
37401328 AAATTGAGAAATAAGAATGAAATGGATT
1 AAATTGAGAAATAAGAATGAAATGGATG
37401356 AAATTG
1 AAATTG
37401362 GTTTGATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 9 0.30
29 9 0.30
30 12 0.40
ACGTcount: A:0.47, C:0.02, G:0.23, T:0.28
Consensus pattern (28 bp):
AAATTGAGAAATAAGAATGAAATGGATG
Found at i:37410147 original size:32 final size:34
Alignment explanation
Indices: 37410111--37410183 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 34
37410101 AATTAACTTT
* *
37410111 TTTTTAAGA-AAAGATTAA-TGAAATTTTCAAAG
1 TTTTTAAGAGAAAGATTAATTAAAATTTTCAAAA
* *
37410143 TTTTT-TGAGAAAGCTTAATTAAAATTTTCAAAA
1 TTTTTAAGAGAAAGATTAATTAAAATTTTCAAAA
*
37410176 ATTTTAAG
1 TTTTTAAG
37410184 GGTAAATTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
31 2 0.06
32 13 0.41
33 16 0.50
34 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (34 bp):
TTTTTAAGAGAAAGATTAATTAAAATTTTCAAAA
Found at i:37410154 original size:33 final size:33
Alignment explanation
Indices: 37410110--37410174 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
37410100 TAATTAACTT
*
37410110 TTTTTTAAGAAAAGATTAA-TGAAATTTTCAAAG
1 TTTTTTAAG-AAAGATTAATTAAAATTTTCAAAG
* *
37410143 TTTTTTGAGAAAGCTTAATTAAAATTTTCAAA
1 TTTTTTAAGAAAGATTAATTAAAATTTTCAAA
37410175 AATTTTAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.29
33 20 0.71
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.42
Consensus pattern (33 bp):
TTTTTTAAGAAAGATTAATTAAAATTTTCAAAG
Found at i:37410366 original size:16 final size:17
Alignment explanation
Indices: 37410345--37410387 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
37410335 CTGAGACGAG
37410345 AATAAATTT-TTAATTA
1 AATAAATTTATTAATTA
37410361 AATAAATTTAATTAATTA
1 AATAAATTT-ATTAATTA
37410379 AA-AAATTTA
1 AATAAATTTA
37410388 AATTAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAAATTTATTAATTA
Found at i:37410377 original size:18 final size:18
Alignment explanation
Indices: 37410345--37410396 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
37410335 CTGAGACGAG
37410345 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
37410361 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
37410379 AA-AAATTTAAATTAATTA
1 AATAAATTT-AATTAATTA
37410397 TACCTTGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.27
17 6 0.18
18 18 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:37413548 original size:18 final size:18
Alignment explanation
Indices: 37413525--37413573 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 18
37413515 TATGATGATA
37413525 TATATGTGATGAACAATG
1 TATATGTGATGAACAATG
37413543 TATATGTGAAATATGAACAATG
1 TATATGTG----ATGAACAATG
37413565 TATATGTGA
1 TATATGTGA
37413574 AATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
TATATGTGATGAACAATG
Found at i:37413558 original size:22 final size:22
Alignment explanation
Indices: 37413533--37413578 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
37413523 TATATATGTG
37413533 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
37413555 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
37413577 AT
1 AT
37413579 TATATGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGAACAATGTATATGTGAAAT
Found at i:37413740 original size:6 final size:6
Alignment explanation
Indices: 37413729--37413761 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
37413719 TGATCAAAAT
*
37413729 TGAAAG TGAAAG TGAAAG TGAAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
37413762 TATGAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (6 bp):
TGAAAG
Found at i:37413965 original size:37 final size:38
Alignment explanation
Indices: 37413865--37413967 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 38
37413855 GACCTTGAGT
* **
37413865 CGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTC---ACTTTACTTCGGATAGAGC
** * ** *
37413906 CGATGAGGTACTGGATACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
37413943 CGATGAGACACTGGGTGTCACTTTA
1 CGATGAGACACTGGGTGTCACTTTA
37413968 TTGCTTCGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 20 0.42
38 14 0.29
41 14 0.29
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
Found at i:37416905 original size:13 final size:13
Alignment explanation
Indices: 37416887--37416912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37416877 GCATGAGTTC
37416887 GGAATTTAAACCA
1 GGAATTTAAACCA
37416900 GGAATTTAAACCA
1 GGAATTTAAACCA
37416913 AGTTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
GGAATTTAAACCA
Found at i:37417891 original size:30 final size:30
Alignment explanation
Indices: 37417855--37417915 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
37417845 AGACATTCCA
37417855 GATTCATTTGGAACACATTCTGGAGTACCT
1 GATTCATTTGGAACACATTCTGGAGTACCT
37417885 GATTCATTTGGAACACATTCTGGAGTACCT
1 GATTCATTTGGAACACATTCTGGAGTACCT
37417915 G
1 G
37417916 CTGAAACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (30 bp):
GATTCATTTGGAACACATTCTGGAGTACCT
Found at i:37423660 original size:3 final size:3
Alignment explanation
Indices: 37423646--37423687 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
37423636 TTGTTTGGCA
*
37423646 TCT TCA TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
37423688 GTTAACTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:37424425 original size:18 final size:18
Alignment explanation
Indices: 37424399--37424443 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
37424389 ACATTTTAAT
*
37424399 TTATAATTTCAGGAATAA
1 TTATCATTTCAGGAATAA
*
37424417 TTATCATTTTAGGAATAA
1 TTATCATTTCAGGAATAA
*
37424435 CTATCATTT
1 TTATCATTT
37424444 TAAAGTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (18 bp):
TTATCATTTCAGGAATAA
Found at i:37424444 original size:18 final size:18
Alignment explanation
Indices: 37424404--37424445 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
37424394 TTAATTTATA
* *
37424404 ATTTCAGGAATAATTATC
1 ATTTTAGGAATAACTATC
37424422 ATTTTAGGAATAACTATC
1 ATTTTAGGAATAACTATC
37424440 ATTTTA
1 ATTTTA
37424446 AAGTTAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (18 bp):
ATTTTAGGAATAACTATC
Found at i:37425476 original size:13 final size:13
Alignment explanation
Indices: 37425458--37425504 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
37425448 ATGATGAAGC
37425458 TAAAAAAATTATG
1 TAAAAAAATTATG
* *
37425471 TAAAAATA-TATT
1 TAAAAAAATTATG
37425483 TATAAAAAATTGATG
1 TA-AAAAAATT-ATG
37425498 TAAAAAA
1 TAAAAAA
37425505 TAAATGAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 5 0.19
13 12 0.44
14 6 0.22
15 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (13 bp):
TAAAAAAATTATG
Found at i:37426888 original size:16 final size:16
Alignment explanation
Indices: 37426865--37426936 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
37426855 CGTTTGGTTC
*
37426865 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
*
37426881 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* * *
37426897 ACTGTAATGAAATATA
1 GCTGTAATGGAATAGA
37426913 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
37426929 GCTGTAAT
1 GCTGTAAT
37426937 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:37427173 original size:58 final size:55
Alignment explanation
Indices: 37427106--37427251 Score: 177
Period size: 58 Copynumber: 2.5 Consensus size: 55
37427096 AATTTTAATG
*
37427106 ATTATTATTAAATATAATTGAATAAAAATAT-TAATTTATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATT-AATAAAAATATGTAATTTA-ATAA-TAT-TTTTAACATA
*
37427164 ATTATTATTAAATATAATTTAATAAAATAATATGTAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAA-TTAAT-AAA-AATATGTAATTTAATAATATTTTTAACATA
*
37427222 ATTATTATTAAAATATGAATTAGTAAAAAT
1 ATTATTATT-AAATAT-AATTAATAAAAAT
37427252 TATAATATAT
Statistics
Matches: 79, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
57 3 0.04
58 41 0.52
59 18 0.23
60 10 0.13
61 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (55 bp):
ATTATTATTAAATATAATTAATAAAAATATGTAATTTAATAATATTTTTAACATA
Found at i:37435291 original size:21 final size:22
Alignment explanation
Indices: 37435262--37435303 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
37435252 TTTAATTTTG
* *
37435262 ATTATTGTTTTGT-TTTACTTA
1 ATTACTGTTTTATATTTACTTA
37435283 ATTACTGTTTTATATTTACTT
1 ATTACTGTTTTATATTTACTT
37435304 GTTAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (22 bp):
ATTACTGTTTTATATTTACTTA
Found at i:37435549 original size:65 final size:64
Alignment explanation
Indices: 37435447--37435576 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 64
37435437 TTAAAGCGTG
*
37435447 TATATATATATATATTTTTTGTGTTTTGATAAAGATAAGGATTTCAAAATTAAGAGATTGTTCA
1 TATATATATATATATTATTTGTGTTTTGATAAAGATAAGGATTTCAAAATTAAGAGATTGTTCA
37435511 TATATATATATATATATATTTGTGTTTTGATAAAGATAAGGATTTCAAAATTAAGAGATTGTTCA
1 TATATATATATATAT-TATTTGTGTTTTGATAAAGATAAGGATTTCAAAATTAAGAGATTGTTCA
37435576 T
1 T
37435577 TATTTCGTGA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 15 0.23
65 49 0.77
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (64 bp):
TATATATATATATATTATTTGTGTTTTGATAAAGATAAGGATTTCAAAATTAAGAGATTGTTCA
Found at i:37436813 original size:14 final size:14
Alignment explanation
Indices: 37436771--37436814 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
37436761 TTTTACATAA
*
37436771 ATAATACAAAAAAA
1 ATAATACAAAAAAT
* *
37436785 ATTATACACCAAAAT
1 ATAATACA-AAAAAT
37436800 ATAATACAAAAAAT
1 ATAATACAAAAAAT
37436814 A
1 A
37436815 AAATTAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.20
Consensus pattern (14 bp):
ATAATACAAAAAAT
Found at i:37440139 original size:28 final size:28
Alignment explanation
Indices: 37440086--37440143 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
37440076 CATTTTTCTG
*
37440086 TTGGAATTAATTAAGTTTATGATTGAAT
1 TTGGAATTAATTAAGTTTATAATTGAAT
**
37440114 TTGGAATTAATTTTGTTTA-AATTTGAAT
1 TTGGAATTAATTAAGTTTATAA-TTGAAT
37440142 TT
1 TT
37440144 ATTTAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.52
Consensus pattern (28 bp):
TTGGAATTAATTAAGTTTATAATTGAAT
Found at i:37440184 original size:26 final size:26
Alignment explanation
Indices: 37440135--37440184 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
37440125 TTTGTTTAAA
**
37440135 TTTGAATTTATTTAATAATTTTTATG
1 TTTGAATTTATTTAATAAGGTTTATG
*
37440161 TTTGAATTTATTTAATGAGGTTTA
1 TTTGAATTTATTTAATAAGGTTTA
37440185 GCAAATTACA
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:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (26 bp):
TTTGAATTTATTTAATAAGGTTTATG
Found at i:37440261 original size:6 final size:6
Alignment explanation
Indices: 37440250--37440290 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
37440240 ATACTTGCAT
*
37440250 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
37440291 TTTAATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:37442975 original size:16 final size:17
Alignment explanation
Indices: 37442947--37442978 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
37442937 AAAATTATCA
37442947 TAATTTATCTCTTCAAT
1 TAATTTATCTCTTCAAT
37442964 TAATTT-TCTCTTCAA
1 TAATTTATCTCTTCAA
37442979 AACAACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTTATCTCTTCAAT
Found at i:37443244 original size:17 final size:17
Alignment explanation
Indices: 37443224--37443257 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
37443214 TTTTACATGA
*
37443224 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
37443241 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
37443258 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Found at i:37443841 original size:20 final size:20
Alignment explanation
Indices: 37443816--37443853 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37443806 TAATGAGAAG
37443816 AATATATTATTTTAGTATAT
1 AATATATTATTTTAGTATAT
* *
37443836 AATATATTTTTTTTGTAT
1 AATATATTATTTTAGTAT
37443854 TATTTTAATA
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:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
AATATATTATTTTAGTATAT
Found at i:37446148 original size:18 final size:19
Alignment explanation
Indices: 37446111--37446149 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37446101 AAAAAATAAT
* *
37446111 AAAAAGGAAAATAATGTAA
1 AAAAAAGAAAAGAATGTAA
37446130 AAAAAAGAAAAGAAT-TAA
1 AAAAAAGAAAAGAATGTAA
37446148 AA
1 AA
37446150 CATATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAAAAGAAAAGAATGTAA
Found at i:37447022 original size:16 final size:18
Alignment explanation
Indices: 37447001--37447038 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37446991 AAGATTATAC
37447001 AAAACTT-CTAAA-AATG
1 AAAACTTACTAAATAATG
*
37447017 AAAACTTATTAAATAATG
1 AAAACTTACTAAATAATG
37447035 AAAA
1 AAAA
37447039 AAAGATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 4 0.21
18 8 0.42
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAACTTACTAAATAATG
Found at i:37472741 original size:16 final size:18
Alignment explanation
Indices: 37472721--37472763 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 18
37472711 GAAATTTTAT
37472721 TTAAAAAAAAT-TGAAAA
1 TTAAAAAAAATGTGAAAA
*
37472738 -T-AAAAATATGTGAAAA
1 TTAAAAAAAATGTGAAAA
37472754 TTAAAAAAAA
1 TTAAAAAAAA
37472764 AATCAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
15 7 0.33
16 7 0.33
17 1 0.05
18 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
TTAAAAAAAATGTGAAAA
Found at i:37473676 original size:18 final size:19
Alignment explanation
Indices: 37473637--37473677 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
37473627 ATTGTTTGCA
*
37473637 TATTGTATAATTTTTATTT
1 TATTGTATAATTTTTATAT
37473656 TATTGT-TAATTTTGT-TAT
1 TATTGTATAATTTT-TATAT
37473674 TATT
1 TATT
37473678 TTAGAGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (19 bp):
TATTGTATAATTTTTATAT
Found at i:37476291 original size:44 final size:44
Alignment explanation
Indices: 37476232--37476324 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
37476222 TGGCATTATC
* * * *
37476232 AGAGGCTTGCCCTCCTAGGATAAAGCTAGCCTGAAGTGGTGAAA
1 AGAGTCTTGCACTCCTAGGATAAAGCTAGCCTGAACTGATGAAA
*
37476276 AGAGTCTTGCACTCCTAGGATAAAGCTAGTCTGAACTGATGAAA
1 AGAGTCTTGCACTCCTAGGATAAAGCTAGCCTGAACTGATGAAA
37476320 AGAGT
1 AGAGT
37476325 TTATAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (44 bp):
AGAGTCTTGCACTCCTAGGATAAAGCTAGCCTGAACTGATGAAA
Found at i:37476790 original size:2 final size:2
Alignment explanation
Indices: 37476783--37476817 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
37476773 AATGATGGTT
37476783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37476818 TATTTACACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37477690 original size:26 final size:25
Alignment explanation
Indices: 37477649--37477705 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
37477639 CTAAACGATA
37477649 ATATTA-TTTTTAAAATT-TAAATTT
1 ATATTATTTTTTAAAATTAT-AATTT
*
37477673 ATATTATTTTCTTTAAATTATAATTT
1 ATATTATTTT-TTAAAATTATAATTT
*
37477699 ATCTTAT
1 ATATTAT
37477706 CTTTACACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.21
25 3 0.11
26 18 0.64
27 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
ATATTATTTTTTAAAATTATAATTT
Found at i:37481587 original size:21 final size:22
Alignment explanation
Indices: 37481549--37481593 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
37481539 CAACAAATGA
* *
37481549 TTTTAAAATTATTAAAATTGTT
1 TTTTAAAAATATTAAAATTATT
*
37481571 TTTTAAAAATA-TGAAATTATT
1 TTTTAAAAATATTAAAATTATT
37481592 TT
1 TT
37481594 AAAATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:37482312 original size:9 final size:9
Alignment explanation
Indices: 37482298--37482344 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
37482288 AATGATGATT
37482298 ATTTTAATA
1 ATTTTAATA
37482307 ATTTT-AT-
1 ATTTTAATA
37482314 ATTTTAAAATA
1 ATTTT--AATA
37482325 ATTTTAATA
1 ATTTTAATA
37482334 ATTTTAA-A
1 ATTTTAATA
37482342 ATT
1 ATT
37482345 ATTTATTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
7 5 0.15
8 6 0.18
9 16 0.47
10 2 0.06
11 5 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTTAATA
Found at i:37482326 original size:18 final size:20
Alignment explanation
Indices: 37482303--37482348 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
37482293 TGATTATTTT
37482303 AATAATTTT-AT-ATTTTAA
1 AATAATTTTAATAATTTTAA
37482321 AATAATTTTAATAATTTTAA
1 AATAATTTTAATAATTTTAA
*
37482341 AATTATTT
1 AATAATTT
37482349 ATTGATGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.36
19 2 0.08
20 14 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATAATTTTAATAATTTTAA
Found at i:37489375 original size:17 final size:17
Alignment explanation
Indices: 37489353--37489387 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37489343 CTAATCAATT
37489353 TCAGCGGATGACATCTA
1 TCAGCGGATGACATCTA
37489370 TCAGCGGATGACATCTA
1 TCAGCGGATGACATCTA
37489387 T
1 T
37489388 TCTCTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (17 bp):
TCAGCGGATGACATCTA
Found at i:37492399 original size:5 final size:5
Alignment explanation
Indices: 37492389--37492413 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37492379 TCCTGTTAAA
37492389 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
37492414 TATTAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:37493224 original size:3 final size:3
Alignment explanation
Indices: 37493216--37493247 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
37493206 GTTACATCTC
*
37493216 GGT GGT GGT GGT GGT GGT GGT GGT GGG GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
37493248 GAGAGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.72, T:0.28
Consensus pattern (3 bp):
GGT
Found at i:37493265 original size:5 final size:5
Alignment explanation
Indices: 37493255--37493284 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
37493245 TGGGAGAGGA
37493255 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
37493285 GTTAATATAA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:37498458 original size:7 final size:7
Alignment explanation
Indices: 37498446--37498472 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37498436 TGTCACAAAG
37498446 TTTTTCT
1 TTTTTCT
37498453 TTTTTCT
1 TTTTTCT
37498460 TTTTTCT
1 TTTTTCT
37498467 TTTTTC
1 TTTTTC
37498473 AATTTCTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:37505285 original size:25 final size:26
Alignment explanation
Indices: 37505256--37505305 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
37505246 AATGATTATT
*
37505256 ATTATTCTTAT-TA-AATTTTAATAAG
1 ATTATTATTATATATAA-TTTAATAAG
37505281 ATTATTATTATATATAATTTAATAA
1 ATTATTATTATATATAATTTAATAA
37505306 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 10 0.45
27 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTATTATTATATATAATTTAATAAG
Found at i:37508747 original size:160 final size:160
Alignment explanation
Indices: 37508483--37508802 Score: 631
Period size: 160 Copynumber: 2.0 Consensus size: 160
37508473 TGTCTTAGAA
37508483 ATGTAAAATTGAAGAGAAAATGAAATTAATGGTCAATTTACTCTTTCTTTACGTTACTTTCTCAT
1 ATGTAAAATTGAAGAGAAAATGAAATTAATGGTCAATTTACTCTTTCTTTACGTTACTTTCTCAT
37508548 TCTAAATTGATCCATTTTTTAGTGATATGCTGGATTTAGAACTAATGATACATGTTTGATTAAAA
66 TCTAAATTGATCCATTTTTTAGTGATATGCTGGATTTAGAACTAATGATACATGTTTGATTAAAA
37508613 TGATGCGTGTTTTTAGAACTAATGAATTTT
131 TGATGCGTGTTTTTAGAACTAATGAATTTT
37508643 ATGTAAAATTGAAGAGAAAATGAAATTAATGGTCAATTTACTCTTTCTTTACGTTACTTTCTCAT
1 ATGTAAAATTGAAGAGAAAATGAAATTAATGGTCAATTTACTCTTTCTTTACGTTACTTTCTCAT
37508708 TCTAAATTGATCCATTTTTTAGTGATATGCTGGATTTAGAACTAATGATACATGTTTGATTAAAA
66 TCTAAATTGATCCATTTTTTAGTGATATGCTGGATTTAGAACTAATGATACATGTTTGATTAAAA
*
37508773 TGATGCGTGTTTTTAGAACTAGTGAATTTT
131 TGATGCGTGTTTTTAGAACTAATGAATTTT
37508803 TTGTTTTGAG
Statistics
Matches: 159, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 159 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (160 bp):
ATGTAAAATTGAAGAGAAAATGAAATTAATGGTCAATTTACTCTTTCTTTACGTTACTTTCTCAT
TCTAAATTGATCCATTTTTTAGTGATATGCTGGATTTAGAACTAATGATACATGTTTGATTAAAA
TGATGCGTGTTTTTAGAACTAATGAATTTT
Found at i:37525275 original size:87 final size:84
Alignment explanation
Indices: 37525115--37525392 Score: 326
Period size: 87 Copynumber: 3.2 Consensus size: 84
37525105 GGATGCTCGA
*
37525115 GGGTAAAACGGTAATTTTGGACACTTTGGGGCAAAATGGTAATTTTTGGACACT-TAAGGGC-AA
1 GGGTAAAACGGTAATTTTGGACACTTCGGGGCAAAATGGTAATTTTTGGACACTGT--GGGCAAA
* *
37525178 AATGGTAATTTTCAGACGTTCAG
64 AAT-GTAATTTT-AGAAGTTTAG
*
37525201 GGGTAAAACGGTAATTTTGGACACTTCGAGGGCAAAATGGTAATTTTTGGATACTCGTGGGCAAA
1 GGGTAAAACGGTAATTTTGGACACTTCG-GGGCAAAATGGTAATTTTTGGACACT-GTGGGCAAA
* * * *
37525266 AATGCAATTTTTGGAAATTTGG
64 AATGTAA-TTTTAGAAGTTTAG
* * * *
37525288 GGGTAAAATGATAATTTTGGACACTTCGGGGGCAAAATGGTAATTTTTAGACACGTGTGGGTAAA
1 GGGTAAAACGGTAATTTTGGACACTTC-GGGGCAAAATGGTAATTTTTGGACAC-TGTGGGCAAA
*
37525353 AATGTAATTTTTGAAAGTTTAG
64 AATGTAATTTTAG-AAGTTTAG
*
37525375 GGGTAAAATGGTAATTTT
1 GGGTAAAACGGTAATTTT
37525393 TGAAAGTTCA
Statistics
Matches: 166, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
86 32 0.19
87 122 0.73
88 11 0.07
89 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (84 bp):
GGGTAAAACGGTAATTTTGGACACTTCGGGGCAAAATGGTAATTTTTGGACACTGTGGGCAAAAA
TGTAATTTTAGAAGTTTAG
Found at i:37525333 original size:58 final size:58
Alignment explanation
Indices: 37525099--37525394 Score: 228
Period size: 58 Copynumber: 5.1 Consensus size: 58
37525089 CAAAAATGCG
** * * *
37525099 ATTTTTGGATGCTCGAGGGTAAAACGGTAATTTTGGACACTT-TGGGGCAAAATGGTA
1 ATTTTTGGAAACTTGAGGGTAAAATGGTAATTTTGGACACTTCAGGGGCAAAATGGTA
* * * * * * *
37525156 ATTTTTGGACACTTAAGGGCAAAATGGTAATTTTCAGAC-GTTCAGGGGTAAAACGGTA
1 ATTTTTGGAAACTTGAGGGTAAAATGGTAATTTT-GGACACTTCAGGGGCAAAATGGTA
* * * *
37525214 A-TTTTGGACACTTCGAGGGCAAAATGGTAATTTTTGGATAC-TC-GTGGGCAAAAAT-GCA
1 ATTTTTGGAAACTT-GAGGGTAAAATGGTAA-TTTTGGACACTTCAG-GGGC-AAAATGGTA
* * * *
37525272 ATTTTTGGAAATTTGGGGGTAAAATGATAATTTTGGACACTTCGGGGGCAAAATGGTA
1 ATTTTTGGAAACTTGAGGGTAAAATGGTAATTTTGGACACTTCAGGGGCAAAATGGTA
* * * * * * * * *
37525330 ATTTTTAGACACGTGTGGGTAAAAAT-GTAATTTTTGAAAGTTTAGGGGTAAAATGGTA
1 ATTTTTGGAAACTTGAGGGT-AAAATGGTAATTTTGGACACTTCAGGGGCAAAATGGTA
37525388 ATTTTTG
1 ATTTTTG
37525395 AAAGTTCAAG
Statistics
Matches: 189, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
57 57 0.30
58 108 0.57
59 24 0.13
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (58 bp):
ATTTTTGGAAACTTGAGGGTAAAATGGTAATTTTGGACACTTCAGGGGCAAAATGGTA
Found at i:37525353 original size:29 final size:29
Alignment explanation
Indices: 37525115--37525394 Score: 184
Period size: 29 Copynumber: 9.7 Consensus size: 29
37525105 GGATGCTCGA
*
37525115 GGGTAAAACGGTAA-TTTTGGACACTT-T
1 GGGTAAAATGGTAATTTTTGGACACTTGT
* **
37525142 GGGGCAAAATGGTAATTTTTGGACACTTAA
1 -GGGTAAAATGGTAATTTTTGGACACTTGT
* ** *
37525172 GGGCAAAATGGTAATTTTCAGAC-GTTCAG-
1 GGGTAAAATGGTAATTTTTGGACACTT--GT
* *
37525201 GGGTAAAACGGTAA-TTTTGGACACTTCGA
1 GGGTAAAATGGTAATTTTTGGACACTT-GT
* * *
37525230 GGGCAAAATGGTAATTTTTGGATACTCGT
1 GGGTAAAATGGTAATTTTTGGACACTTGT
* * * * *
37525259 GGGCAAAAAT-GCAATTTTTGGAAATTTGG
1 GGG-TAAAATGGTAATTTTTGGACACTTGT
* *
37525288 GGGTAAAATGATAA-TTTTGGACACTTCGG
1 GGGTAAAATGGTAATTTTTGGACACTT-GT
* * *
37525317 GGGCAAAATGGTAATTTTTAGACACGTGT
1 GGGTAAAATGGTAATTTTTGGACACTTGT
* *
37525346 GGGTAAAAAT-GTAATTTTT-GAAAGTT-T
1 GGGT-AAAATGGTAATTTTTGGACACTTGT
37525373 AGGGGTAAAATGGTAATTTTTG
1 --GGGTAAAATGGTAATTTTTG
37525395 AAAGTTCAAG
Statistics
Matches: 198, Mismatches: 38, Indels: 30
0.74 0.14 0.11
Matches are distributed among these distances:
27 1 0.01
28 45 0.23
29 122 0.62
30 30 0.15
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGACACTTGT
Found at i:37525395 original size:29 final size:29
Alignment explanation
Indices: 37525115--37525541 Score: 157
Period size: 29 Copynumber: 14.7 Consensus size: 29
37525105 GGATGCTCGA
* * * *
37525115 GGGTAAAACGGTAATTTTGGACACTTT-G
1 GGGTAAAATGGTAATTTTTGAAAGTTTAG
* * * *
37525143 GGGCAAAATGGTAATTTTTGGACA-CTTAA
1 GGGTAAAATGGTAATTTTT-GAAAGTTTAG
* * * *
37525172 GGGCAAAATGGTAA-TTTTCAGACGTTCAG
1 GGGTAAAATGGTAATTTTTGA-AAGTTTAG
* * * * *
37525201 GGGTAAAACGGTAATTTTGGACA-CTTCG
1 GGGTAAAATGGTAATTTTTGAAAGTTTAG
* * * *
37525229 AGGGCAAAATGGTAATTTTTGGATACTCGT-G
1 -GGGTAAAATGGTAATTTTT-GAAAGT-TTAG
** * *
37525260 GGCAAAAAT-GCAATTTTTGGAAA-TTTGG
1 GGGTAAAATGGTAATTTTT-GAAAGTTTAG
* * * * **
37525288 GGGTAAAATGATAATTTTGGACACTTCGG
1 GGGTAAAATGGTAATTTTTGAAAGTTTAG
* * *
37525317 GGGCAAAATGGTAATTTTTAGACACGTGT--
1 GGGTAAAATGGTAATTTTT-GA-AAGTTTAG
37525346 GGGTAAAAAT-GTAATTTTTGAAAGTTTAG
1 GGGT-AAAATGGTAATTTTTGAAAGTTTAG
* *
37525375 GGGTAAAATGGTAATTTTTGAAAGTTCAA
1 GGGTAAAATGGTAATTTTTGAAAGTTTAG
* * * *
37525404 GGTTAAAAAT-GCAAGTTTAGAAAGTTT-G
1 GGGT-AAAATGGTAATTTTTGAAAGTTTAG
* * *
37525432 GGGTCAAAAT-ATGATTTTTGGAAAGTTCGAG
1 GGGT-AAAATGGTAATTTTT-GAAAGTT-TAG
* * * *
37525463 GGTTAAAAT-ATGATTTCTAGAAAGTTTAG
1 GGGTAAAATGGTAATTT-TTGAAAGTTTAG
*
37525492 GGGCCAAAAT-GTAATTTTTGGAAAGTTTAG
1 GGG-TAAAATGGTAATTTTT-GAAAGTTTAG
37525522 GGGTCAAAAT-GTAATTTTTG
1 GGGT-AAAATGGTAATTTTTG
37525542 GATAGTTCGG
Statistics
Matches: 299, Mismatches: 74, Indels: 51
0.71 0.17 0.12
Matches are distributed among these distances:
27 6 0.02
28 55 0.18
29 148 0.49
30 82 0.27
31 7 0.02
32 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGAAAGTTTAG
Found at i:37525411 original size:58 final size:58
Alignment explanation
Indices: 37525349--37525539 Score: 210
Period size: 58 Copynumber: 3.3 Consensus size: 58
37525339 CACGTGTGGG
* *
37525349 TAAAAATGTAATTTTTGAAAGTTTAGGGGTAAAATGGTAATTTTT-GAAAGTTCAAGGT
1 TAAAAATGTAATTTTAGAAAGTTTAGGGGTAAAAT-GTAATTTTTGGAAAGTTCAGGGT
* * * *
37525407 TAAAAATGCAAGTTTAGAAAGTTT-GGGGTCAAAATATGATTTTTGGAAAGTTCGAGGGT
1 TAAAAATGTAATTTTAGAAAGTTTAGGGGT-AAAATGTAATTTTTGGAAAGTTC-AGGGT
* * *
37525466 TAAAATATG--ATTTCTAGAAAGTTTAGGGGCCAAAATGTAATTTTTGGAAAGTTTAGGGG
1 TAAAA-ATGTAATTT-TAGAAAGTTTAGGGG-TAAAATGTAATTTTTGGAAAGTTCAGGGT
*
37525525 TCAAAATGTAATTTT
1 TAAAAATGTAATTTT
37525540 TGGATAGTTC
Statistics
Matches: 111, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
57 12 0.11
58 40 0.36
59 28 0.25
60 31 0.28
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.36
Consensus pattern (58 bp):
TAAAAATGTAATTTTAGAAAGTTTAGGGGTAAAATGTAATTTTTGGAAAGTTCAGGGT
Found at i:37525473 original size:30 final size:30
Alignment explanation
Indices: 37525423--37525568 Score: 129
Period size: 30 Copynumber: 4.9 Consensus size: 30
37525413 TGCAAGTTTA
*
37525423 GAAAGTTTG-GGGTCAAAATATGATTTTTG
1 GAAAGTTCGAGGGTCAAAATATGATTTTTG
* * *
37525452 GAAAGTTCGAGGGTTAAAATATGATTTCTA
1 GAAAGTTCGAGGGTCAAAATATGATTTTTG
* * * *
37525482 GAAAGTT-TAGGGGCCAAAATGTAATTTTTG
1 GAAAGTTCGA-GGGTCAAAATATGATTTTTG
* * *
37525512 GAAAGTT-TAGGGGTCAAAATGTAATTTTTG
1 GAAAGTTCGA-GGGTCAAAATATGATTTTTG
*
37525542 GATAGTTCG-GAGGTCAAAATATGATTT
1 GAAAGTTCGAG-GGTCAAAATATGATTT
37525569 CTAGACATTT
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
29 10 0.10
30 87 0.90
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (30 bp):
GAAAGTTCGAGGGTCAAAATATGATTTTTG
Found at i:37527268 original size:17 final size:16
Alignment explanation
Indices: 37527245--37527380 Score: 129
Period size: 17 Copynumber: 8.3 Consensus size: 16
37527235 GACTTTATTT
37527245 ATTTAAATTTAGAATAA
1 ATTTAAATTTA-AATAA
*
37527262 TTTTAAATTTAAAAATAA
1 ATTTAAATTT--AAATAA
**
37527280 AAATAAATTTAAATTAA
1 ATTTAAATTTAAA-TAA
37527297 ATTTAAATTTAAGATAA
1 ATTTAAATTTAA-ATAA
37527314 ATTTAAA--T---TAA
1 ATTTAAATTTAAATAA
37527325 ATTTAAATTTAAGATAA
1 ATTTAAATTTAA-ATAA
37527342 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
37527359 ATTTAATTTTAAAATAA
1 ATTTAAATTT-AAATAA
37527376 ATTTA
1 ATTTA
37527381 CAAAAAGTGG
Statistics
Matches: 101, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
11 10 0.10
13 1 0.01
15 1 0.01
16 3 0.03
17 70 0.69
18 15 0.15
19 1 0.01
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:37527272 original size:6 final size:6
Alignment explanation
Indices: 37527245--37527380 Score: 103
Period size: 6 Copynumber: 23.8 Consensus size: 6
37527235 GACTTTATTT
* ** **
37527245 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA AAATAA AAATAA ATTTAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
37527292 A-TTAA ATTTAA ATTTAA GA--TAA ATTTAA A-TTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * *
37527337 GA--TAA ATTTAA ATTTAA A-ATAA ATTTAA TTTTAA A-ATAA ATTTA
1 -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
37527381 CAAAAAGTGG
Statistics
Matches: 105, Mismatches: 12, Indels: 26
0.73 0.08 0.18
Matches are distributed among these distances:
4 3 0.03
5 26 0.25
6 72 0.69
7 4 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:37527320 original size:28 final size:28
Alignment explanation
Indices: 37527264--37527364 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
37527254 TAGAATAATT
* * *
37527264 TTAAATTTAAAAATAAAAATAAATTTAAA
1 TTAAATTT-AAATTTAAGATAAATTTAAA
37527293 TTAAATTTAAATTTAAGATAAATTTAAA
1 TTAAATTTAAATTTAAGATAAATTTAAA
37527321 TTAAATTTAAATTTAAGATAAATTTAAA
1 TTAAATTTAAATTTAAGATAAATTTAAA
*
37527349 TTTAAA-ATAAATTTAA
1 -TTAAATTTAAATTTAA
37527365 TTTTAAAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
28 54 0.81
29 13 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (28 bp):
TTAAATTTAAATTTAAGATAAATTTAAA
Found at i:37527376 original size:28 final size:28
Alignment explanation
Indices: 37527279--37527380 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 28
37527269 TTTAAAAATA
*
37527279 AAAATAAATTTAAATTAAATTTAAATTT
1 AAAATAAATTTAAATTAAATTTAATTTT
*
37527307 AAGATAAATTTAAATTAAATTTAAATTTAAGAT
1 AAAATAAATTTAAATTAAATTT-AATTT----T
* *
37527340 AAATTTAAATTTAAAATAAATTTAATTTT
1 AAA-ATAAATTTAAATTAAATTTAATTTT
37527369 AAAATAAATTTA
1 AAAATAAATTTA
37527381 CAAAAAGTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
28 29 0.47
29 8 0.13
33 8 0.13
34 17 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
AAAATAAATTTAAATTAAATTTAATTTT
Found at i:37527380 original size:11 final size:11
Alignment explanation
Indices: 37527264--37527364 Score: 80
Period size: 11 Copynumber: 8.9 Consensus size: 11
37527254 TAGAATAATT
37527264 TTAAATTTAAAA
1 TTAAATTT-AAA
* **
37527276 ATAAAAATAAA
1 TTAAATTTAAA
37527287 TTTAAA-TTAAA
1 -TTAAATTTAAA
37527298 TTTAAATTTAAGA
1 -TTAAATTTAA-A
37527311 -TAAATTTAAA
1 TTAAATTTAAA
37527321 TTAAATTTAAA
1 TTAAATTTAAA
* **
37527332 TTTAAGATAAA
1 TTAAATTTAAA
37527343 TTTAAATTTAAA
1 -TTAAATTTAAA
*
37527355 ATAAATTTAA
1 TTAAATTTAA
37527365 TTTTAAAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
10 1 0.01
11 49 0.68
12 21 0.29
13 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:37539245 original size:19 final size:19
Alignment explanation
Indices: 37539223--37539275 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
37539213 TTTATTTCTT
37539223 ATATT-AATTTCAATTTTAA
1 ATATTAAATTT-AATTTTAA
*
37539242 ATATTAAATTTATTTTTAA
1 ATATTAAATTTAATTTTAA
37539261 A-ATTTAAATTTAATT
1 ATA-TTAAATTTAATT
37539276 ATAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 1 0.03
19 24 0.80
20 5 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTAAATTTAATTTTAA
Found at i:37539284 original size:19 final size:19
Alignment explanation
Indices: 37539241--37539284 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
37539231 TTCAATTTTA
* *
37539241 AATA-TTAAATTTATTTTT
1 AATATTTAAATTTAATTAT
*
37539259 AAAATTTAAATTTAATTAT
1 AATATTTAAATTTAATTAT
37539278 AATATTT
1 AATATTT
37539285 TCTAATATTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTAAATTTAATTAT
Found at i:37540307 original size:22 final size:22
Alignment explanation
Indices: 37540254--37540319 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
37540244 CAATAAAAGA
37540254 AAAAAAAATTGGGGTTTTACAGG
1 AAAAAAAATT-GGGTTTTACAGG
* ** *
37540277 -GAATTAATTGGGTTTTATAGG
1 AAAAAAAATTGGGTTTTACAGG
*
37540298 AAAAAAAATTGAGTCTTTACAG
1 AAAAAAAATTGGGT-TTTACAG
37540320 AGATAATAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 11 0.34
22 15 0.47
23 6 0.19
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.32
Consensus pattern (22 bp):
AAAAAAAATTGGGTTTTACAGG
Found at i:37547736 original size:15 final size:13
Alignment explanation
Indices: 37547704--37547746 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 13
37547694 TTTAATGATA
37547704 AATAGTTTTATTTT
1 AATA-TTTTATTTT
37547718 AATATTTTATTAATT
1 AATATTTTATT--TT
37547733 AATATTTTCATTTT
1 AATATTTT-ATTTT
37547747 TTGTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 10 0.38
16 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (13 bp):
AATATTTTATTTT
Found at i:37548335 original size:22 final size:22
Alignment explanation
Indices: 37548307--37548398 Score: 116
Period size: 22 Copynumber: 4.1 Consensus size: 22
37548297 ATATACCATA
37548307 AAGGTAGACG-AAAACGTGCCAC
1 AAGGTAGA-GAAAAACGTGCCAC
37548329 AAGGTAGACG-AAAACGTGCCAC
1 AAGGTAGA-GAAAAACGTGCCAC
*
37548351 AAGGAAGAGAAAAAGCGTGCCAC
1 AAGGTAGAGAAAAA-CGTGCCAC
*
37548374 AAGATAGAGAAAAAACGTGCCAC
1 AAGGTAGAG-AAAAACGTGCCAC
37548397 AA
1 AA
37548399 AGGCAAATAA
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.02
22 33 0.52
23 25 0.39
24 5 0.08
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.08
Consensus pattern (22 bp):
AAGGTAGAGAAAAACGTGCCAC
Found at i:37548410 original size:23 final size:20
Alignment explanation
Indices: 37548317--37548412 Score: 66
Period size: 23 Copynumber: 4.2 Consensus size: 20
37548307 AAGGTAGACG
**
37548317 AAAACGTGCCACAAGGTAGACG
1 AAAACGTGCCACAAGG-A-AAA
37548339 AAAACGTGCCACAAGGAAGAGA
1 AAAACGTGCCACAAGGAA-A-A
*
37548361 AAAAGCGTGCCACAAGATAGAGAA
1 AAAA-CGTGCCACAAG---GAAAA
37548385 AAAACGTGCCACAAAGGCAAATA
1 AAAACGTGCCAC-AAGG-AAA-A
37548408 AAAAC
1 AAAAC
37548413 TAGAAGAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.02
21 2 0.03
22 22 0.36
23 25 0.41
24 8 0.13
25 1 0.02
26 2 0.03
ACGTcount: A:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (20 bp):
AAAACGTGCCACAAGGAAAA
Found at i:37560309 original size:2 final size:2
Alignment explanation
Indices: 37560302--37560356 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
37560292 TTTGATTTCT
37560302 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37560344 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
37560357 CTTACCTTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37560626 original size:41 final size:38
Alignment explanation
Indices: 37560526--37560629 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
37560516 TTCGAAGCAA
* *
37560526 TAAAGTGACACCCAGCGTCTCATCG-ACCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
37560563 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
37560601 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
37560630 CTCAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 20 0.39
38 11 0.22
40 2 0.04
41 18 0.35
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:37560752 original size:23 final size:24
Alignment explanation
Indices: 37560713--37560761 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
37560703 TAATAGGGAT
37560713 TTTCAATTTACAATTCA-TATCAC
1 TTTCAATTTACAATTCACTATCAC
* *
37560736 TTTCAATTCTA-ATTTCACTTTCAC
1 TTTCAATT-TACAATTCACTATCAC
37560760 TT
1 TT
37560762 CACTTTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTCAATTTACAATTCACTATCAC
Found at i:37562515 original size:42 final size:42
Alignment explanation
Indices: 37562463--37562546 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
37562453 CAATTGTACT
* **
37562463 CTATCACTGTTTCAAATCCGATTCAAGCACACGGATGTTACA
1 CTATCACTGTTCCAAATCCGATTCAAAAACACGGATGTTACA
* * * *
37562505 CTATTACTGTTCCAACTCCGGTTCAAAAACGCGGATGTTACA
1 CTATCACTGTTCCAAATCCGATTCAAAAACACGGATGTTACA
37562547 TTCACATTGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
CTATCACTGTTCCAAATCCGATTCAAAAACACGGATGTTACA
Found at i:37563593 original size:12 final size:12
Alignment explanation
Indices: 37563576--37563600 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37563566 AATTACTACA
37563576 TGAAATGATATG
1 TGAAATGATATG
37563588 TGAAATGATATG
1 TGAAATGATATG
37563600 T
1 T
37563601 ATAAATTGAG
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TGAAATGATATG
Found at i:37563782 original size:6 final size:6
Alignment explanation
Indices: 37563746--37563849 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
37563736 GACTTTGATT
* * * *
37563746 TTTAAG TTTAAA -TTAAT TTTAAA TTT-TA TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
37563790 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
37563839 -TTAAA TTTAAA
1 TTTAAA TTTAAA
37563850 AATAATATTA
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.05
5 18 0.23
6 49 0.63
7 2 0.03
8 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:37563783 original size:17 final size:16
Alignment explanation
Indices: 37563758--37563849 Score: 116
Period size: 17 Copynumber: 5.7 Consensus size: 16
37563748 TAAGTTTAAA
*
37563758 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
37563775 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
37563791 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
37563808 TT--ATTTAAATTTACT
1 TTAAATTTAAATTTA-T
*
37563823 TTAAATTTAAATTTAA
1 TTAAATTTAAATTTAT
37563839 TTAAATTTAAA
1 TTAAATTTAAA
37563850 AATAATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 18 0.27
17 35 0.52
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:37563840 original size:11 final size:11
Alignment explanation
Indices: 37563746--37563849 Score: 68
Period size: 11 Copynumber: 9.0 Consensus size: 11
37563736 GACTTTGATT
37563746 TTTAAGTTTAAA
1 TTTAA-TTTAAA
37563758 -TTAATTTTAAA
1 TTTAA-TTTAAA
* *
37563769 TTTTATTTAGA
1 TTTAATTTAAA
**
37563780 TTTAAATTTATC
1 TTT-AATTTAAA
*
37563792 TTAAATTTAAA
1 TTTAATTTAAA
37563803 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
37563817 TTTACTTTAAA
1 TTTAATTTAAA
37563828 TTTAAATTT-AA
1 TTT-AATTTAAA
*
37563839 TTAAATTTAAA
1 TTTAATTTAAA
37563850 AATAATATTA
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.07
11 42 0.58
12 14 0.19
14 11 0.15
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:37564867 original size:23 final size:22
Alignment explanation
Indices: 37564819--37564868 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
37564809 AGAAAGCAAA
*
37564819 AGAAAGAAAAAGGAAATGAAAT
1 AGAAAGAAAAAGGAAATGAAAG
*
37564841 AGAAGAGAAAAAGGGAAA-GAAGG
1 AGAA-AGAAAAA-GGAAATGAAAG
37564864 AGAAA
1 AGAAA
37564869 CGTTCAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.30, T:0.04
Consensus pattern (22 bp):
AGAAAGAAAAAGGAAATGAAAG
Found at i:37565620 original size:30 final size:29
Alignment explanation
Indices: 37565567--37565985 Score: 350
Period size: 30 Copynumber: 14.1 Consensus size: 29
37565557 AATTGTCCAG
** *
37565567 AAATTACATTTCAACCC-AAAACTTTCTGA
1 AAATTACATTTTGACCCTAAAACTTT-TCA
*
37565596 AAATTATATTTTGACCCTAAAAC-TTTCTA
1 AAATTACATTTTGACCCTAAAACTTTTC-A
37565625 TAAATTACATTTTGACCCCT-AAACTTTTCCA
1 -AAATTACATTTTGA-CCCTAAAACTTTT-CA
* *
37565656 AAATTACATTTTGACCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCTAAAACTTT-TCA
* *
37565686 AAATTACATTTTAACCCCT-AAACATTTCCA
1 AAATTACATTTTGA-CCCTAAAAC-TTTTCA
* *
37565716 AAATTATATTTTGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCTAAAACTTT-TCA
*
37565746 AAATTATATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCTAAAACTTTT-CA
*
37565776 AAATTACATTTTAATCCC-AAAACTTTTCCA
1 AAATTACATTTTGA-CCCTAAAACTTTT-CA
* * *
37565806 AAATTAAATTTTGACCCCATAACTTTTCCA
1 AAATTACATTTTGACCCTAAAACTTTT-CA
*
37565836 AAATTATATTTTGA-CCTCAAAACTTTTCCA
1 AAATTACATTTTGACCCT-AAAACTTTT-CA
* * * * *
37565866 CAATTACATTTTAACCCAAAAAATTTTAA
1 AAATTACATTTTGACCCTAAAACTTTTCA
* * * *
37565895 AAATTATATTTTGGCCCCAAAACTTTCTAA
1 AAATTACATTTTGACCCTAAAACTTT-TCA
37565925 AAATTACATTTTGACCCCT-AAACTTTTCCA
1 AAATTACATTTTGA-CCCTAAAACTTTT-CA
* * * * *
37565955 AAATCATATTTTAACCCCAAAA-TTTCCA
1 AAATTACATTTTGACCCTAAAACTTTTCA
37565983 AAA
1 AAA
37565986 AAATTGCATT
Statistics
Matches: 324, Mismatches: 45, Indels: 43
0.79 0.11 0.10
Matches are distributed among these distances:
28 6 0.02
29 61 0.19
30 233 0.72
31 23 0.07
32 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTGACCCTAAAACTTTTCA
Found at i:37565659 original size:60 final size:60
Alignment explanation
Indices: 37565595--37566011 Score: 495
Period size: 60 Copynumber: 7.0 Consensus size: 60
37565585 AAACTTTCTG
* *
37565595 AAAATTATATTTTGACCCTAAAACTTTCTATAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTTCC
* * *
37565655 AAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCCTAAACATTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTTCC
* *
37565715 AAAATTATATTTTGACCCTAAAACTTTCTAAAAATTATATTTTGA-CCCTAAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCT-AAACTTTTCC
* * * * *
37565775 AAAATTACATTTTAATCCCAAAACTTT-TCCAAAATTAAATTTTGACCCC-ATAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTGACCCCTA-AACTTTTCC
* * * * ** * *
37565835 AAAATTATATTTTGACCTCAAAACTTT-TCCACAATTACATTTTAACCCAAAAAATTTT-A
1 AAAATTATATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTGACCCCTAAACTTTTCC
*
37565894 AAAATTATATTTTGGCCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTTCC
* * * * * *
37565954 AAAATCATATTTTAACCCCAAAA-TTTCCAAAAAAATTGCATTTTTACCCCGAAACTTT
1 AAAATTATATTTTGACCCCAAAACTTT-C-TAAAAATTACATTTTGACCCCTAAACTTT
37566012 CACTAAAATT
Statistics
Matches: 306, Mismatches: 42, Indels: 17
0.84 0.12 0.05
Matches are distributed among these distances:
59 57 0.19
60 220 0.72
61 29 0.09
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.37
Consensus pattern (60 bp):
AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTGACCCCTAAACTTTTCC
Found at i:37565720 original size:90 final size:87
Alignment explanation
Indices: 37565562--37565985 Score: 426
Period size: 90 Copynumber: 4.7 Consensus size: 87
37565552 CCCTCAATTG
* * * * * * *
37565562 TCCAGAAATTACA-TTTCAACCCAAAAC-TTTCTGAAAATTATATTTTGACCCTAAAACTTTCTA
1 TCCA-AAATTACATTTTGACCCCAAAACTTTTC-CAAAATTACATTTTAACCC-AAAAATTTCCA
*
37565625 TAAATTACATTTTGACCCCTAAACTTT
63 -AAATTATATTTTGACCCCTAAAC-TT
* *
37565652 TCCAAAATTACATTTTGACCCCAAAAC-TTTCTAAAAATTACATTTTAACCCCTAAACATTTCCA
1 TCCAAAATTACATTTTGACCCCAAAACTTTTC-CAAAATTACATTTTAA-CCC-AAAAATTTCCA
37565716 AAATTATATTTTGA-CCCTAAAACTT
63 AAATTATATTTTGACCCCT-AAACTT
* * * *
37565741 TCTAAAAATTATATTTTGACCCTAAAACTTTTCCAAAATTACATTTTAATCCCAAAACTTTTCCA
1 TC-CAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAA-CCCAAAA-ATTTCCA
*
37565806 AAATTAAATTTTGACCCC-ATAACTTT
63 AAATTATATTTTGACCCCTA-AAC-TT
* * * **
37565832 TCCAAAATTATATTTTGACCTCAAAACTTTTCCACAATTACATTTTAACCCAAAAAATTTTAAAA
1 TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCC-AAAAATTTCCAAA
* *
37565897 ATTATATTTTGGCCCCAAAACTT
65 ATTATATTTTGACCCCTAAACTT
* * * * *
37565920 TCTAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCATATTTTAACCCCAAAATTTCCAAA
1 TC-CAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCAAAAATTTCCAAA
37565985 A
65 A
37565986 AAATTGCATT
Statistics
Matches: 286, Mismatches: 36, Indels: 26
0.82 0.10 0.07
Matches are distributed among these distances:
88 15 0.05
89 88 0.31
90 160 0.56
91 23 0.08
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (87 bp):
TCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTAACCCAAAAATTTCCAAAA
TTATATTTTGACCCCTAAACTT
Found at i:37577710 original size:68 final size:68
Alignment explanation
Indices: 37577599--37578145 Score: 835
Period size: 68 Copynumber: 7.9 Consensus size: 68
37577589 ATCATTTCCA
*
37577599 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37577664 GTC
66 GTC
* * *
37577667 ATCCGCTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37577732 GTC
66 GTC
*
37577735 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTAAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37577800 GTC
66 GTC
37577803 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37577868 GTC
66 GTC
*
37577871 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37577936 GTC
66 GTC
** * *
37577939 ATCCTTTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37578004 GTC
66 GTC
* * *
37578007 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAATTTGAAGTAAGAGCAA-
1 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
37578071 GATC
66 G-TC
* * * *
37578075 ATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGCCTTTGTCCCTCTGAAATTGAAG
1 A--T-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTAT--CTCTGAAATTGAAG
37578140 TAAGAG
56 TAAGAG
37578146 TAAGATGAAG
Statistics
Matches: 448, Mismatches: 20, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
67 1 0.00
68 392 0.88
70 1 0.00
71 1 0.00
74 1 0.00
75 18 0.04
76 15 0.03
78 19 0.04
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (68 bp):
ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:37578498 original size:6 final size:6
Alignment explanation
Indices: 37578463--37578563 Score: 60
Period size: 6 Copynumber: 18.0 Consensus size: 6
37578453 GACTTTGATT
* * *
37578463 TTTAAG TTTAAA -TTAAT TTTAAA TTT--- TTTAGA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
37578505 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AC TTTAAA TTTAAA -TT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
37578553 -TTAAA TTTAAA
1 TTTAAA TTTAAA
37578564 AATAATATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
3 3 0.04
4 6 0.08
5 14 0.19
6 45 0.60
7 2 0.03
8 5 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:37578498 original size:26 final size:25
Alignment explanation
Indices: 37578460--37578514 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
37578450 TTAGACTTTG
*
37578460 ATTTTTAAGTTTAAATTAATTTTAA
1 ATTTTTAAGTTTAAATTAATCTTAA
* *
37578485 ATTTTTTAGATTTAAATTTATCTTAA
1 ATTTTTAAG-TTTAAATTAATCTTAA
37578511 ATTT
1 ATTT
37578515 AAATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (25 bp):
ATTTTTAAGTTTAAATTAATCTTAA
Found at i:37578532 original size:31 final size:31
Alignment explanation
Indices: 37578475--37578550 Score: 102
Period size: 31 Copynumber: 2.4 Consensus size: 31
37578465 TAAGTTTAAA
*
37578475 TTAATTTTAAATTTTTTAGATTTAAATTTA-T
1 TTAAATTTAAATTTTTTA-ATTTAAATTTACT
37578506 CTTAAATTTAAATTTATTT-ATTTAAATTTACT
1 -TTAAATTTAAATTT-TTTAATTTAAATTTACT
37578538 TTAAATTTAAATT
1 TTAAATTTAAATT
37578551 AATTAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
31 24 0.59
32 14 0.34
33 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (31 bp):
TTAAATTTAAATTTTTTAATTTAAATTTACT
Found at i:37578552 original size:11 final size:11
Alignment explanation
Indices: 37578464--37578552 Score: 51
Period size: 11 Copynumber: 8.4 Consensus size: 11
37578454 ACTTTGATTT
*
37578464 TTAAGTTTAAA
1 TTAAATTTAAA
*
37578475 TTAATTTTAAA
1 TTAAATTTAAA
* *
37578486 TT--TTTTAGAT
1 TTAAATTTA-AA
**
37578496 TTAAATTTATC
1 TTAAATTTAAA
37578507 TTAAATTTAAA
1 TTAAATTTAAA
* *
37578518 TT-TATTT-AT
1 TTAAATTTAAA
**
37578527 TTAAATTTACT
1 TTAAATTTAAA
37578538 TTAAATTTAAA
1 TTAAATTTAAA
37578549 TTAA
1 TTAA
37578553 TTAAATTTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
9 8 0.13
10 11 0.18
11 37 0.62
12 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:37580309 original size:60 final size:60
Alignment explanation
Indices: 37580243--37580725 Score: 494
Period size: 60 Copynumber: 8.1 Consensus size: 60
37580233 AATTGTCCAG
* * * *
37580243 AAATTACATTTCGACCCCAAAACCTTTT-GAAAATTATATTTGGACCCTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAA-CTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * ** *
37580303 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCAAAAAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCT-AA
* ** * *
37580363 AAATTACATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCTCT-AAACTTT-TCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACC-CTAAAACTTTCT-AA
* * * **
37580423 AAATTATATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTTGG
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * * * * * **
37580483 AAATTATATTTTAACCCTAAAACTTTTCCAAAAATACATTTTAACCTTAAAACTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * *
37580543 AAATTATATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCTTAAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * * * * *
37580603 AAATTATATTTT-AGCCCCAGAAC-TTTCTGAAAATTATCATTTTGACCCCAAAACTTTTTGA
1 AAATTACATTTTGA-CCCCAAAACTTTTC-CAAAATTA-CATTTTGACCCTAAAACTTTCTAA
* * * *
37580664 AAATTACATTTTGACCCCTAAACTTTTCCAAAATCATATTTTGACCCTAAAA-TTTCCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
37580723 AAA
1 AAA
37580726 ATTGTATTTT
Statistics
Matches: 360, Mismatches: 53, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
59 20 0.06
60 290 0.81
61 45 0.12
62 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (60 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
Found at i:37580385 original size:90 final size:90
Alignment explanation
Indices: 37580228--37580724 Score: 544
Period size: 90 Copynumber: 5.5 Consensus size: 90
37580218 CTTTGTAAGT
* * * * * * *
37580228 CCCTAAA-TTGTCCAGAAATTACATTTCGACCCCAAAACCTTTT-GAAAATTATATTTGGACCCT
1 CCCTAAACTTTTCCA-AAATTATATTTTGA-CCCAAAAACTTTTCCAAAATTACATTTTGACCCT
* *
37580291 AAAACTTTCTAAAAATTACATTTTGAC
64 AAAACTTTTTGAAAATTACATTTTGAC
* * *
37580318 CCCTAAACTTTTCCAAAATTATATTTTGACCAAAAAACTTTTCCAAAATTACATTTTAACCCCAA
1 CCCTAAACTTTTCCAAAATTATATTTTGACCCAAAAACTTTTCCAAAATTACATTTTGACCCTAA
*
37580383 AACTTTTTGAAAATTACATTTTAAC
66 AACTTTTTGAAAATTACATTTTGAC
* *
37580408 CTCTAAACTTTTCCAAAATTATATTTTGACCCTAAAACTTTTCCAAAATTACATTTTGACCCTAA
1 CCCTAAACTTTTCCAAAATTATATTTTGACCCAAAAACTTTTCCAAAATTACATTTTGACCCTAA
* * *
37580473 AACTTTTTGGAAATTATATTTT-AA
66 AACTTTTTGAAAATTACATTTTGAC
* * * ** * *
37580497 CCCTAAAACTTTTCCAAAAATACATTTTAACCTTAAAACTTTCCCAAAATTATATTTTGACCCTA
1 CCCT-AAACTTTTCCAAAATTATATTTTGACCCAAAAACTTTTCCAAAATTACATTTTGACCCTA
**
37580562 AAACTTTTCCAAAATTACATTTTGA-
65 AAACTTTTTGAAAATTACATTTTGAC
* * * * *
37580587 CCTTAAAAC-TTTCTAAAAATTATATTTT-AGCCCCAGAAC-TTTCTGAAAATTATCATTTTGAC
1 CCCT-AAACTTTTC-CAAAATTATATTTTGA-CCCAAAAACTTTTC-CAAAATTA-CATTTTGAC
*
37580649 CCCAAAACTTTTTGAAAATTACATTTTGAC
61 CCTAAAACTTTTTGAAAATTACATTTTGAC
* *
37580679 CCCTAAACTTTTCCAAAATCATATTTTGACCCTAAAA--TTTCCAAAA
1 CCCTAAACTTTTCCAAAATTATATTTTGACCCAAAAACTTTTCCAAAA
37580725 AATTGTATTT
Statistics
Matches: 345, Mismatches: 51, Indels: 23
0.82 0.12 0.05
Matches are distributed among these distances:
89 27 0.08
90 247 0.72
91 63 0.18
92 8 0.02
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (90 bp):
CCCTAAACTTTTCCAAAATTATATTTTGACCCAAAAACTTTTCCAAAATTACATTTTGACCCTAA
AACTTTTTGAAAATTACATTTTGAC
Found at i:37580727 original size:30 final size:29
Alignment explanation
Indices: 37580238--37580760 Score: 426
Period size: 30 Copynumber: 17.3 Consensus size: 29
37580228 CCCTAAATTG
* * *
37580238 TCCAGAAATTACATTTCGACCCCAAAACCTT
1 TCCA-AAATTATATTTTGACCCTAAAA-CTT
** *
37580269 TTGAAAATTATATTTGGACCCTAAAACTT
1 TCCAAAATTATATTTTGACCCTAAAACTT
* *
37580298 TCTAAAAATTACATTTTGACCCCT-AAACTTT
1 TC-CAAAATTATATTTTGA-CCCTAAAAC-TT
**
37580329 TCCAAAATTATATTTTGACCAAAAAACTTT
1 TCCAAAATTATATTTTGACCCTAAAAC-TT
* * *
37580359 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCTAAAAC-TT
** * *
37580389 TTGAAAATTACATTTTAACCTCT-AAACTTT
1 TCCAAAATTATATTTTGACC-CTAAAAC-TT
37580419 TCCAAAATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCTAAAAC-TT
*
37580449 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCTAAAAC-TT
*** *
37580479 TTGGAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCTAAAAC-TT
* * * *
37580509 TCCAAAAATACATTTTAACCTTAAAACTT
1 TCCAAAATTATATTTTGACCCTAAAACTT
37580538 TCCCAAAATTATATTTTGACCCTAAAACTTT
1 T-CCAAAATTATATTTTGACCCTAAAAC-TT
* *
37580569 TCCAAAATTACATTTTGACCTTAAAACTT
1 TCCAAAATTATATTTTGACCCTAAAACTT
* * *
37580598 TCTAAAAATTATATTTT-AGCCCCAGAACTT
1 TC-CAAAATTATATTTTGA-CCCTAAAACTT
* *
37580628 TCTGAAAATTATCATTTTGACCCCAAAACTTT
1 TC-CAAAATTAT-ATTTTGACCCTAAAAC-TT
** *
37580660 TTGAAAATTACATTTTGACCCCT-AAACTTT
1 TCCAAAATTATATTTTGA-CCCTAAAAC-TT
*
37580690 TCCAAAATCATATTTTGACCCTAAAA-TT
1 TCCAAAATTATATTTTGACCCTAAAACTT
* * *
37580718 TCCAAAAAATTGTATTTTTACCCTGAAACTT
1 TCC--AAAATTATATTTTGACCCTAAAACTT
37580749 TCACTAAAATTA
1 TC-C-AAAATTA
37580761 CCATTTCACC
Statistics
Matches: 411, Mismatches: 62, Indels: 38
0.80 0.12 0.07
Matches are distributed among these distances:
28 5 0.01
29 20 0.05
30 333 0.81
31 48 0.12
32 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (29 bp):
TCCAAAATTATATTTTGACCCTAAAACTT
Found at i:37580735 original size:60 final size:60
Alignment explanation
Indices: 37580243--37580779 Score: 472
Period size: 60 Copynumber: 8.9 Consensus size: 60
37580233 AATTGTCCAG
* * * * * *
37580243 AAATTACATTTCGACCCCAAAACCTTTT-GAAAATTATATTTGGACCCTAAAACTTTCTAA
1 AAATTATATTTTGACCCCTAAA-CTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * ** *
37580303 AAATTACATTTTGACCCCTAAACTTTTCCAAAATTATATTTTGACCAAAAAACTTT-TCCA
1 AAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCT-AA
* * * ** * *
37580363 AAATTACATTTTAACCCCAAAACTTTTTGAAAATTACATTTTAACCTCT-AAACTTT-TCCA
1 AAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACC-CTAAAACTTTCT-AA
* **
37580423 AAATTATATTTTGA-CCCTAAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTTTGG
1 AAATTATATTTTGACCCCT-AAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * * * **
37580483 AAATTATATTTT-AACCCTAAAACTTTTCCAAAAATACATTTTAACCTTAAAACTTTCCCA
1 AAATTATATTTTGACCCCT-AAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
*
37580543 AAATTATATTTTGA-CCCTAAAACTTTTCCAAAATTACATTTTGACCTTAAAACTTTCTAA
1 AAATTATATTTTGACCCCT-AAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
* * * *
37580603 AAATTATATTTT-AGCCCC-AGAAC-TTTCTGAAAATTATCATTTTGACCCCAAAACTTTTTGA
1 AAATTATATTTTGA-CCCCTA-AACTTTTC-CAAAATTA-CATTTTGACCCTAAAACTTTCTAA
* * * *
37580664 AAATTACATTTTGACCCCTAAACTTTTCCAAAATCATATTTTGACCCTAAAA-TTTCCAAA
1 AAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTT-CTAA
* * * *
37580724 AAATTGTATTTTTA-CCCTGAAAC-TTTCACTAAAATTACCA-TTTCACCCTCAAACTT
1 AAATTATATTTTGACCCCT-AAACTTTTC-C-AAAATTA-CATTTTGACCCTAAAACTT
37580780 CCTTAAATCC
Statistics
Matches: 401, Mismatches: 54, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
59 29 0.07
60 297 0.74
61 66 0.16
62 9 0.02
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.37
Consensus pattern (60 bp):
AAATTATATTTTGACCCCTAAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTAA
Found at i:37585649 original size:52 final size:52
Alignment explanation
Indices: 37585586--37585721 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
37585576 CTTTCCTTTA
* * *
37585586 ACACTTACGATGACATATAGTCATCGGACCTCT-TAATCCACAAAGGAATCAT
1 ACACTCACGATGACACATAGTCATCGGACCT-TAAAATCCACAAAGGAATCAT
* ** *
37585638 ACACTCACGATGACACATAGTTATCGGACCTTAAAATCCGTAAAGGATTCAT
1 ACACTCACGATGACACATAGTCATCGGACCTTAAAATCCACAAAGGAATCAT
* * *
37585690 ATACTCACGAGGACACATAGTCATCGAACCTT
1 ACACTCACGATGACACATAGTCATCGGACCTT
37585722 TTTCATTTAC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 1 0.01
52 71 0.99
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (52 bp):
ACACTCACGATGACACATAGTCATCGGACCTTAAAATCCACAAAGGAATCAT
Found at i:37592215 original size:52 final size:52
Alignment explanation
Indices: 37592147--37592334 Score: 268
Period size: 52 Copynumber: 3.6 Consensus size: 52
37592137 ATTTCATTTA
* * *
37592147 ATACTCACGATGACACATAGTCATCGGACCTCTTAATCCGCAAAGGAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
37592199 ATACTCATGATAACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
37592251 ATACTCACAATGACACATAGTCATCAGACCTCATAATCTGTAAAGGATTCAC
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
37592303 ATACTCATGATTGACACATAGTCATCGGACCT
1 ATACTCACGA-TGACACATAGTCATCGGACCT
37592335 TTTTCATTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
52 99 0.83
53 20 0.17
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:37597577 original size:52 final size:52
Alignment explanation
Indices: 37597520--37597623 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
37597510 AAGATTAATG
37597520 GTACTAGTGCAAGCATAATCTCAACTACCAATAATACTTATCAAAAAGGTAT
1 GTACTAGTGCAAGCATAATCTCAACTACCAATAATACTTATCAAAAAGGTAT
* *
37597572 GTACTAGTGCAAGCATAATCTCAACTACTAATAATACTTGTCAAAAAGGTAT
1 GTACTAGTGCAAGCATAATCTCAACTACCAATAATACTTATCAAAAAGGTAT
37597624 TATATCAGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (52 bp):
GTACTAGTGCAAGCATAATCTCAACTACCAATAATACTTATCAAAAAGGTAT
Found at i:37598217 original size:17 final size:17
Alignment explanation
Indices: 37598179--37598270 Score: 96
Period size: 17 Copynumber: 5.5 Consensus size: 17
37598169 ATTTTTAAAA
* *
37598179 TTTAAATCTAAATTTA-
1 TTTAAATTTGAATTTAT
*
37598195 TTTAAATTTGAATTTAC
1 TTTAAATTTGAATTTAT
*
37598212 TTTAAATTTGAACTTAT
1 TTTAAATTTGAATTTAT
* * * *
37598229 TTTGAGTTTGGATTTAA
1 TTTAAATTTGAATTTAT
*
37598246 TTTAAATTTAAATTTAT
1 TTTAAATTTGAATTTAT
37598263 TTTAAATT
1 TTTAAATT
37598271 AAATTTAAAC
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
16 14 0.23
17 47 0.77
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (17 bp):
TTTAAATTTGAATTTAT
Found at i:37598266 original size:22 final size:23
Alignment explanation
Indices: 37598241--37598284 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
37598231 TGAGTTTGGA
*
37598241 TTTAATTTAAATTTAAA-TTTAT
1 TTTAAATTAAATTTAAACTTTAT
37598263 TTTAAATTAAATTTAAACTTTA
1 TTTAAATTAAATTTAAACTTTA
37598285 AAAAGTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAATTAAATTTAAACTTTAT
Found at i:37598286 original size:7 final size:6
Alignment explanation
Indices: 37598176--37598286 Score: 65
Period size: 6 Copynumber: 19.5 Consensus size: 6
37598166 CCCATTTTTA
* * *
37598176 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * * ** *
37598221 GAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
37598266 AAA-TT AAATTT AAACTTT AAA
1 AAATTT AAATTT AAA-TTT AAA
37598287 AAGTCCAAAT
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 20 0.24
6 52 0.63
7 6 0.07
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:37599002 original size:13 final size:13
Alignment explanation
Indices: 37598984--37599016 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
37598974 GAATATTATT
*
37598984 ATTAATAATGATA
1 ATTAATAATAATA
37598997 ATTAATAATAATA
1 ATTAATAATAATA
37599010 A-TAATAA
1 ATTAATAA
37599017 ATAAAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:37599005 original size:16 final size:16
Alignment explanation
Indices: 37598981--37599020 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
37598971 AATGAATATT
* *
37598981 ATTATTAATAATGATA
1 ATTAATAATAATAATA
37598997 ATTAATAATAATAATA
1 ATTAATAATAATAATA
*
37599013 ATAAATAA
1 ATTAATAA
37599021 AAGGTTAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTAATAATAATAATA
Found at i:37600227 original size:29 final size:29
Alignment explanation
Indices: 37600188--37600269 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
37600178 ACCCCTGAAC
* *
37600188 TTTTCCGAAATTCCATTTTTGACCATAAA
1 TTTTCCAAAATTCCATTTTTGACCACAAA
* *
37600217 TTTTCCAAAATTACATTTTT-ACCCCCAAA
1 TTTTCCAAAATTCCATTTTTGA-CCACAAA
*
37600246 CTTTCCAAAATTCCATTTTTGACC
1 TTTTCCAAAATTCCATTTTTGACC
37600270 CAAGGCTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.02
29 43 0.96
30 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTCCAAAATTCCATTTTTGACCACAAA
Found at i:37600279 original size:28 final size:27
Alignment explanation
Indices: 37600190--37600283 Score: 82
Period size: 29 Copynumber: 3.3 Consensus size: 27
37600180 CCCTGAACTT
* * *
37600190 TTCCGAAATTCCATTTTTGACCATAAATT
1 TTCCAAAATTCCATTTTTGACC-CAAA-C
*
37600219 TTCCAAAATTACATTTTT-ACCCCCAAAC
1 TTCCAAAATTCCATTTTTGA--CCCAAAC
*
37600247 TTTCCAAAATTCCATTTTTGACCCAAGGC
1 -TTCCAAAATTCCATTTTTGACCCAA-AC
37600276 TTCCAAAA
1 TTCCAAAA
37600284 ATTACTATTT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
28 14 0.26
29 37 0.69
30 3 0.06
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (27 bp):
TTCCAAAATTCCATTTTTGACCCAAAC
Found at i:37600285 original size:58 final size:58
Alignment explanation
Indices: 37600189--37600374 Score: 148
Period size: 58 Copynumber: 3.2 Consensus size: 58
37600179 CCCCTGAACT
* * **
37600189 TTTCCGAAATTCCATTTTTGACCATAAATTTTCCAAAATTAC-ATTTTTACCCCCAAAC
1 TTTCCAAAATTCCATTTTTGACCACAAAGCTTCCAAAATTACTA-TTTTACCCCCAAAC
* **
37600247 TTTCCAAAATTCCATTTTTGACC-CAAGGCTTCCAAAAATTACTATTTTACCCCTGAA-
1 TTTCCAAAATTCCATTTTTGACCACAAAGCTTCC-AAAATTACTATTTTACCCCCAAAC
* * * * * * *
37600304 TATCCAAAAAGTTACATTTTTTACCCCAAA-CTTTTCAAAAATTACCATTTTACCCTCAAAC
1 TTTCC-AAAA-TTCCATTTTTGACCACAAAGC--TTCCAAAATTACTATTTTACCCCCAAAC
*
37600365 -ATCCAAAATT
1 TTTCCAAAATT
37600375 AACAATTTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
57 10 0.10
58 47 0.45
59 18 0.17
60 26 0.25
61 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (58 bp):
TTTCCAAAATTCCATTTTTGACCACAAAGCTTCCAAAATTACTATTTTACCCCCAAAC
Found at i:37600373 original size:88 final size:86
Alignment explanation
Indices: 37600223--37600502 Score: 268
Period size: 87 Copynumber: 3.2 Consensus size: 86
37600213 TAAATTTTCC
* *
37600223 AAAATTACA-TTTTTACCCCCAAACTTTCCAAAATT-CCATTTTTGA-CC-CAAGGCTTCCAAAA
1 AAAATTACATTTTTTA-CCCCAAACTTTCAAAAATTACCATTTTT-ACCCTCAA-GCATCC-AAA
37600284 ATTACTATTTTACCCCTGAATATCCA
62 ATTAC-ATTTTACCCCTGAATATCCA
*
37600310 AAAAGTTACATTTTTTACCCCAAACTTTTCAAAAATTACCA-TTTTACCCTCAAACATCCAAAAT
1 AAAA-TTACATTTTTTACCCCAAAC-TTTCAAAAATTACCATTTTTACCCTCAAGCATCCAAAAT
* * *
37600374 TAACAATTTA-CCCTTAGATGTCCA
64 T-ACATTTTACCCCTGA-ATATCCA
* * * *
37600398 AAAATTACATTTTTGACCCCAAAAATCTCAAAAATTA-CATTTTTACCCTCGAGCATCCAAAATT
1 AAAATTACATTTTTTACCCC-AAACTTTCAAAAATTACCATTTTTACCCTCAAGCATCCAAAATT
* * **
37600462 ACCGTTTTAGCCCCCGAGCATCCA
65 A-CATTTTA-CCCCTGAATATCCA
*
37600486 AAAATCACATTTTTTAC
1 AAAATTACATTTTTTAC
37600503 TCTATTTATT
Statistics
Matches: 160, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
86 3 0.02
87 62 0.39
88 57 0.36
89 32 0.20
90 6 0.04
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.32
Consensus pattern (86 bp):
AAAATTACATTTTTTACCCCAAACTTTCAAAAATTACCATTTTTACCCTCAAGCATCCAAAATTA
CATTTTACCCCTGAATATCCA
Found at i:37600458 original size:29 final size:28
Alignment explanation
Indices: 37600223--37600499 Score: 154
Period size: 29 Copynumber: 9.5 Consensus size: 28
37600213 TAAATTTTCC
*
37600223 AAAATTACATTTTTACCCCCAAACTTTCC-
1 AAAATTACATTTTTA-CCCCAAAC-ATCCA
* * *
37600252 AAAATTCCATTTTTGA-CCCAAGGCTTCCA
1 AAAATTACATTTTT-ACCCCAA-ACATCCA
* *
37600281 AAAATTAC-TATTTTACCCCTGAATATCCA
1 AAAATTACAT-TTTTACCCC-AAACATCCA
* *
37600310 AAAAGTTACATTTTTTACCCCAAACTTTTCA
1 AAAA-TTACA-TTTTTACCCCAAAC-ATCCA
37600341 AAAATTACCA-TTTTACCCTCAAACATCC-
1 AAAATTA-CATTTTTACCC-CAAACATCCA
* * * **
37600369 AAAATTAACA-ATTTACCCTTAGATGTCCA
1 AAAATT-ACATTTTTACCC-CAAACATCCA
*
37600398 AAAATTACATTTTTGACCCCAAAAATCTCA
1 AAAATTACATTTTT-ACCCCAAACATC-CA
* *
37600428 AAAATTACATTTTTACCCTCGAGCATCC-
1 AAAATTACATTTTTACCC-CAAACATCCA
** * *
37600456 AAAATTACCGTTTTAGCCCCCGAGCATCCA
1 AAAATTACATTTTTA--CCCCAAACATCCA
*
37600486 AAAATCACATTTTT
1 AAAATTACATTTTT
37600500 TACTCTATTT
Statistics
Matches: 196, Mismatches: 31, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
28 48 0.24
29 74 0.38
30 55 0.28
31 18 0.09
32 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAATTACATTTTTACCCCAAACATCCA
Found at i:37608630 original size:152 final size:152
Alignment explanation
Indices: 37608353--37608653 Score: 444
Period size: 152 Copynumber: 2.0 Consensus size: 152
37608343 GGTAAGATCC
* *
37608353 ATCTAAGTTTCTCCATGTGGAGAACCCTTGCAGGTCATACCTCCATATCCAGGTGTCGGATATGA
1 ATCTAAGTTTCTCCATGTGGAGAACCCTTGCAGGTCATACCTCCATATCCAAGCGTCGGATATGA
* * * *
37608418 GTGTCAGACACAAATACCGAAAGAAAAATGAAGATTCGGAGCAACAAAGTCTAAATATGCATCAT
66 GTGCCAAACACAAATACCGAAAGAAAAATGAAGATTCAGAGCAACAAAATCTAAATATGCATCAT
*
37608483 AATATATAACAAAGTATGGTAAG
131 AACATATAACAAAGT-TGGTAAG
* * *
37608506 ATCTAAGTTTTTCCATGTGGAGGATCCC-TGCA-GTCTTACCTCCATATCCAAGCGTCGGATATG
1 ATCTAAGTTTCTCCATGTGGA-GAACCCTTGCAGGTCATACCTCCATATCCAAGCGTCGGATATG
** *
37608569 AGTGCCAAACACAAATACCTCAAGAAAAATGAAGATTCAGAGCAACAAAATCTAGATATGCATCA
65 AGTGCCAAACACAAATACCGAAAGAAAAATGAAGATTCAGAGCAACAAAATCTAAATATGCATCA
*
37608634 TAACATATAACGAAGTTGGT
130 TAACATATAACAAAGTTGGT
37608654 TGAGATTCTT
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
151 4 0.03
152 100 0.75
153 24 0.18
154 5 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (152 bp):
ATCTAAGTTTCTCCATGTGGAGAACCCTTGCAGGTCATACCTCCATATCCAAGCGTCGGATATGA
GTGCCAAACACAAATACCGAAAGAAAAATGAAGATTCAGAGCAACAAAATCTAAATATGCATCAT
AACATATAACAAAGTTGGTAAG
Found at i:37616993 original size:26 final size:26
Alignment explanation
Indices: 37616964--37617019 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
37616954 TAAACTGCAC
*
37616964 AAGAGGAAGATGTAAAGGATAGGCCT
1 AAGAGCAAGATGTAAAGGATAGGCCT
* *
37616990 AAGATCCAGATGTAAAGGATAGGCCT
1 AAGAGCAAGATGTAAAGGATAGGCCT
37617016 AAGA
1 AAGA
37617020 TCCAGATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (26 bp):
AAGAGCAAGATGTAAAGGATAGGCCT
Found at i:37617020 original size:26 final size:26
Alignment explanation
Indices: 37616971--37617026 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
37616961 CACAAGAGGA
37616971 AGATGTAAAGGATAGGCCTAAGATCC
1 AGATGTAAAGGATAGGCCTAAGATCC
37616997 AGATGTAAAGGATAGGCCTAAGATCC
1 AGATGTAAAGGATAGGCCTAAGATCC
37617023 AGAT
1 AGAT
37617027 ATAGTTAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATGTAAAGGATAGGCCTAAGATCC
Found at i:37621356 original size:15 final size:15
Alignment explanation
Indices: 37621338--37621455 Score: 50
Period size: 15 Copynumber: 7.9 Consensus size: 15
37621328 AATTCATATT
37621338 TTAATAATAATTATA
1 TTAATAATAATTATA
*
37621353 TTAAAAAT-ATTAT-
1 TTAATAATAATTATA
*
37621366 TAAATTACAT-ATTAT-
1 TTAA-TA-ATAATTATA
* * *
37621381 TTTATTA-AATTGTA
1 TTAATAATAATTATA
*
37621395 TTTAATAATAATTATG
1 -TTAATAATAATTATA
*
37621411 TTAAAATATAATTA-A
1 TTAATA-ATAATTATA
* *
37621426 TTAAATTAATATTTTTA
1 TT-AA-TAATAATTATA
*
37621443 TTAATAATCATTA
1 TTAATAATAATTA
37621456 AAATTTAATA
Statistics
Matches: 74, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
13 8 0.11
14 7 0.09
15 34 0.46
16 21 0.28
17 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTAATAATAATTATA
Found at i:37621407 original size:58 final size:58
Alignment explanation
Indices: 37621337--37621446 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
37621327 TAATTCATAT
37621337 TTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACATATTATTTTATTAAATTGTA
1 TTTAATAATAATTATATTAAAATATAATTAATTAAATTA-ATA-T-TTTTATTAAATTGTA
*
37621395 TTTAATAATAATTATGTTAAAATATAATTAATTAAATTAATATTTTTATTAA
1 TTTAATAATAATTATATTAAAATATAATTAATTAAATTAATATTTTTATTAA
37621447 TAATCATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
58 30 0.62
59 3 0.06
60 6 0.12
61 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (58 bp):
TTTAATAATAATTATATTAAAATATAATTAATTAAATTAATATTTTTATTAAATTGTA
Found at i:37621641 original size:16 final size:16
Alignment explanation
Indices: 37621620--37621687 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
37621610 TGAATTACTG
*
37621620 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTTC
* *
37621636 ATTACAACTATATTTC
1 ATTACAGCTCTATTTC
* *
37621652 ATTACAGTTTTATTTC
1 ATTACAGCTCTATTTC
*
37621668 ATTACATCTCTATTTC
1 ATTACAGCTCTATTTC
37621684 ATTA
1 ATTA
37621688 TTGCGAACCA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTACAGCTCTATTTC
Found at i:37621671 original size:32 final size:32
Alignment explanation
Indices: 37621620--37621687 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
37621610 TGAATTACTG
37621620 ATTACAGCTCTATTCCATTACAACTATATTTC
1 ATTACAGCTCTATTCCATTACAACTATATTTC
* * * * *
37621652 ATTACAGTTTTATTTCATTACATCTCTATTTC
1 ATTACAGCTCTATTCCATTACAACTATATTTC
37621684 ATTA
1 ATTA
37621688 TTGCGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTACAGCTCTATTCCATTACAACTATATTTC
Done.