Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold149
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: 533615
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.25
Warning! 129246 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:133819 original size:75 final size:75
Alignment explanation
Indices: 133689--133845 Score: 224
Period size: 75 Copynumber: 2.1 Consensus size: 75
133679 CCTGCTCCGT
* * *** *
133689 GAGCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGGGCTCCTGCTCCGTGAGCT
1 GAGCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCA
133754 GCGGCACCGA
66 GCGGCACCGA
* * * *
133764 GCGCAGCGGCACCGAGAGCTCCTGCTCCGTGAGCAGCGGCACGGAGAGCAGCTGCTCCACCAGCA
1 GAGCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCA
133829 GCGGCACCGA
66 GCGGCACCGA
133839 GAGCAGC
1 GAGCAGC
133846 TGCTCCGTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.19, C:0.36, G:0.36, T:0.09
Consensus pattern (75 bp):
GAGCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCA
GCGGCACCGA
Found at i:133849 original size:60 final size:59
Alignment explanation
Indices: 133766--133910 Score: 245
Period size: 60 Copynumber: 2.4 Consensus size: 59
133756 GGCACCGAGC
*
133766 GCAGCGGCACCGAGAGCTCCTGCTCCGTGAGCAGCGGCACGGAGAGCAGCTGCTCCACCA
1 GCAGCGGCACCGAGAGC-CCTGCTCCGTGAGCAGCGGCACCGAGAGCAGCTGCTCCACCA
*
133826 GCAGCGGCACCGAGAGCAGCTGCTCCGTGAGCAGCGGCACCGAGAGCAGCTGCTCCACCA
1 GCAGCGGCACCGAGAGC-CCTGCTCCGTGAGCAGCGGCACCGAGAGCAGCTGCTCCACCA
*
133886 GCAGCGGCACCGAGAGCTCTGCTCC
1 GCAGCGGCACCGAGAGCCCTGCTCC
133911 ACCTGCAGCA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
59 7 0.09
60 74 0.91
ACGTcount: A:0.20, C:0.37, G:0.33, T:0.10
Consensus pattern (59 bp):
GCAGCGGCACCGAGAGCCCTGCTCCGTGAGCAGCGGCACCGAGAGCAGCTGCTCCACCA
Found at i:133879 original size:135 final size:135
Alignment explanation
Indices: 133631--133899 Score: 403
Period size: 135 Copynumber: 2.0 Consensus size: 135
133621 TGCTCTGTGA
* ***
133631 GCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGGGCACCTGCTCCGTGAGCAGC
1 GCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCAGC
* * *** *
133696 GGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGGGCTCCTGCTCCGTGAGCTGCGGCAC
66 GGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCAGCGGCAC
133761 CGAGC
131 CGAGC
* * *
133766 GCAGCGGCACCGAGAGCTCCTGCTCCGTGAGCAGCGGCACGGAGAGCAGCTGCTCCACCAGCAGC
1 GCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCAGC
* *
133831 GGCACCGAGAGCAGCTGCTCCGTGAGCAGCGGCACCGAGAGCAGCTGCTCCACCAGCAGCGGCAC
66 GGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCAGCGGCAC
133896 CGAG
131 CGAG
133900 AGCTCTGCTC
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 119 1.00
ACGTcount: A:0.19, C:0.37, G:0.35, T:0.09
Consensus pattern (135 bp):
GCAGCGGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCAGC
GGCACCGAGAGCACCTGCTCCGTGAGCAGCGGCACCGAGAGCACCTGCTCCACCAGCAGCGGCAC
CGAGC
Found at i:134241 original size:2 final size:2
Alignment explanation
Indices: 134229--134262 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
134219 GGAGAAAGTG
*
134229 TA TA CA 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
134263 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:134267 original size:2 final size:2
Alignment explanation
Indices: 134262--134290 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
134252 ATATATATAT
134262 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
134291 AGGGGCTAAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:134602 original size:21 final size:19
Alignment explanation
Indices: 134551--134606 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
134541 TTTAATATAT
134551 AATAAATAATAAAAAATTC
1 AATAAATAATAAAAAATTC
*
134570 AATGAATTAATAAAAAA-TC
1 AAT-AAATAATAAAAAATTC
134589 AGATTAAATCAATAAAAA
1 A-A-TAAAT-AATAAAAA
134607 GATTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 6 0.19
20 16 0.52
21 9 0.29
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAAATAATAAAAAATTC
Found at i:135239 original size:17 final size:16
Alignment explanation
Indices: 135212--135243 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
135202 TTTAATATTA
135212 AATAAATATTAAATAT
1 AATAAATATTAAATAT
135228 AATAAATAATTAAATA
1 AATAAAT-ATTAAATA
135244 ACCATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAATATTAAATAT
Found at i:139051 original size:20 final size:19
Alignment explanation
Indices: 139026--139063 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
139016 AAAAAAATAA
139026 TTTTTATCAATTAAATTAAT
1 TTTTTATCAATT-AATTAAT
*
139046 TTTTTATTAATTAATTAA
1 TTTTTATCAATTAATTAA
139064 ATCTCTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTATCAATTAATTAAT
Found at i:271267 original size:21 final size:22
Alignment explanation
Indices: 271244--271290 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 22
271234 AAAATAATTT
*
271244 AAATATAATATGATATAAA-ATA
1 AAATA-AATATAATATAAATATA
271266 AAATAAATATAATATAAATATA
1 AAATAAATATAATATAAATATA
271288 AAA
1 AAA
271291 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATAAATATAATATAAATATA
Found at i:271272 original size:26 final size:27
Alignment explanation
Indices: 271223--271290 Score: 84
Period size: 26 Copynumber: 2.5 Consensus size: 27
271213 TGACACGTAT
* **
271223 ATATAAAATAAAAAATAATTTAAATATA
1 ATAT-AAATATAAAATAAAATAAATATA
*
271251 ATAT-GATATAAAATAAAATAAATATA
1 ATATAAATATAAAATAAAATAAATATA
271277 ATATAAATATAAAA
1 ATATAAATATAAAA
271291 ATATTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 22 0.65
27 8 0.24
28 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (27 bp):
ATATAAATATAAAATAAAATAAATATA
Found at i:271282 original size:11 final size:11
Alignment explanation
Indices: 271245--271288 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
271235 AAATAATTTA
271245 AATAT-AATAT
1 AATATAAATAT
*
271255 GATATAAA-AT
1 AATATAAATAT
*
271265 AAAATAAATAT
1 AATATAAATAT
271276 AATATAAATAT
1 AATATAAATAT
271287 AA
1 AA
271289 AAATATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 12 0.43
11 16 0.57
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AATATAAATAT
Found at i:272898 original size:3 final size:3
Alignment explanation
Indices: 272890--272916 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
272880 TTTTTAAATA
272890 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
272917 TTTGACAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:274061 original size:6 final size:6
Alignment explanation
Indices: 274050--274078 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
274040 TAGAGGTCCT
274050 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
274079 TGTCTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:275557 original size:22 final size:22
Alignment explanation
Indices: 275503--275626 Score: 100
Period size: 22 Copynumber: 5.8 Consensus size: 22
275493 TTTTTTAATT
*
275503 TTAATTAATTATATT-AAATTA
1 TTAATTAATTATATTAAAAATA
*
275524 ATAATTAATTATATTAAAAATA
1 TTAATTAATTATATTAAAAATA
*
275546 TTAAGTAATTATATTAATAAATA
1 TTAATTAATTATATTAA-AAATA
* * *
275569 -AAGATTGATTA-ATTAAAAATT
1 TTA-ATTAATTATATTAAAAATA
*
275590 TTACTT--TT-T-TTAATCAAATA
1 TTAATTAATTATATTAA--AAATA
275610 TTAATTAATTATATTAA
1 TTAATTAATTATATTAA
275627 TTATTATTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
18 4 0.05
19 2 0.03
20 9 0.11
21 20 0.25
22 29 0.36
23 12 0.15
24 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAATTAATTATATTAAAAATA
Found at i:275643 original size:20 final size:18
Alignment explanation
Indices: 275620--275659 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
275610 TTAATTAATT
*
275620 ATATTAATTATTATTGTTAA
1 ATATGAATTATT-TT-TTAA
275640 ATATGAATTATTTTTTAA
1 ATATGAATTATTTTTTAA
275658 AT
1 AT
275660 TATATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATATGAATTATTTTTTAA
Found at i:279000 original size:32 final size:32
Alignment explanation
Indices: 278959--279021 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
278949 AGTGGGACAT
* *
278959 GTAGGAAGCGCTAATGCGC-TTAGCGCATCCAC
1 GTAGGAAGCGCT-AGGCGCATTAGCACATCCAC
278991 GTAGGAAGCGCTAGGCGCATTAGCACATCCA
1 GTAGGAAGCGCTAGGCGCATTAGCACATCCA
279022 ATGTGGCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (32 bp):
GTAGGAAGCGCTAGGCGCATTAGCACATCCAC
Found at i:280048 original size:13 final size:13
Alignment explanation
Indices: 280018--280075 Score: 80
Period size: 13 Copynumber: 4.4 Consensus size: 13
280008 AGGTAACCTC
280018 TATATACATATATA
1 TATATAC-TATATA
*
280032 TATATACTATTTA
1 TATATACTATATA
*
280045 TATATACTATAAA
1 TATATACTATATA
*
280058 TATATAGTATATA
1 TATATACTATATA
280071 TATAT
1 TATAT
280076 TAATGAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
13 32 0.82
14 7 0.18
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (13 bp):
TATATACTATATA
Found at i:280088 original size:2 final size:2
Alignment explanation
Indices: 280018--280075 Score: 62
Period size: 2 Copynumber: 27.5 Consensus size: 2
280008 AGGTAACCTC
* * *
280018 TA TA TA CA TA TA TA TA TA TA CTA TT TA TA TA TA CTA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA
280062 TA GTA TA TA TA TA T
1 TA -TA TA TA TA TA T
280076 TAATGAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 41 0.87
3 6 0.13
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:281048 original size:21 final size:22
Alignment explanation
Indices: 281022--281073 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
281012 TCCAAGATTC
281022 TTGATCTCC-AAAATATCATAA
1 TTGATCTCCAAAAATATCATAA
* *
281043 TTGATCTCCAAAAATATTATAT
1 TTGATCTCCAAAAATATCATAA
*
281065 TTGCTCTCC
1 TTGATCTCC
281074 GAGATATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (22 bp):
TTGATCTCCAAAAATATCATAA
Found at i:282568 original size:24 final size:24
Alignment explanation
Indices: 282540--282589 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
282530 AAATGAAACT
* *
282540 GAGGCCTGCAGAGAAAGGACTGAA
1 GAGGCCTACAGAGAAAGGACCGAA
*
282564 GAGGCCTACAGTGAAAGGACCGAA
1 GAGGCCTACAGAGAAAGGACCGAA
282588 GA
1 GA
282590 TGAAGAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.36, T:0.08
Consensus pattern (24 bp):
GAGGCCTACAGAGAAAGGACCGAA
Found at i:285513 original size:50 final size:50
Alignment explanation
Indices: 285438--285697 Score: 414
Period size: 50 Copynumber: 5.2 Consensus size: 50
285428 AAGTTGTTGC
* * *
285438 AATTGTTAACTATCCTTCACCAACCTTTGACAATA-AAGAGAGGTGGCCAT
1 AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAG-GAGGTGGCCAT
285488 AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCAT
1 AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCAT
* * * *
285538 AATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGGGAGGTAGTCAT
1 AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCAT
* *
285588 AATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGACCAT
1 AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCAT
*
285638 AATTGTTGACGATTCTTCACCCACCTTTGACAATAGAAGGAGGTGGCCAT
1 AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCAT
285688 AATTGTTGAC
1 AATTGTTGAC
285698 TCTAAGTATA
Statistics
Matches: 194, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 191 0.98
51 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (50 bp):
AATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCAT
Found at i:289264 original size:20 final size:20
Alignment explanation
Indices: 289236--289310 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
289226 TCATACCCTG
289236 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
289256 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
289276 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
289296 ATGTATCGATACATT
1 ATGTATCGATACATT
289311 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:289303 original size:40 final size:39
Alignment explanation
Indices: 289236--289313 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
289226 TCATACCCTG
* *
289236 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
289276 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
289314 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:292826 original size:32 final size:32
Alignment explanation
Indices: 292777--293238 Score: 755
Period size: 32 Copynumber: 14.4 Consensus size: 32
292767 AAAATGGTGA
* * *
292777 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
292809 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * * *
292841 TTTTAAATGGGTTGCCACCAACTTCTGGGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
292873 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
292905 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
292937 TTT-AGAATGGGTTGCCACCGGCTTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
292969 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
293001 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
293033 TTTGAAATGGGTTGCCACCGACTTGTATAGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
293065 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
293097 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
293129 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
293161 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
293193 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
293225 TTTGGAATGGGTTG
1 TTTGAAATGGGTTG
293239 TAAGTTGCAG
Statistics
Matches: 404, Mismatches: 24, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
31 1 0.00
32 402 1.00
33 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:298235 original size:13 final size:13
Alignment explanation
Indices: 298217--298241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
298207 CATAAAGTGT
298217 TGTATCGATACAA
1 TGTATCGATACAA
298230 TGTATCGATACA
1 TGTATCGATACA
298242 TGTTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:298322 original size:13 final size:13
Alignment explanation
Indices: 298304--298328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
298294 ATCACTTAAA
298304 TGTATCGATACAT
1 TGTATCGATACAT
298317 TGTATCGATACA
1 TGTATCGATACA
298329 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:298381 original size:52 final size:52
Alignment explanation
Indices: 298337--298517 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
298327 CACTGATCTT
298337 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
298389 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
298441 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
298493 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
298518 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:303130 original size:33 final size:33
Alignment explanation
Indices: 303093--303159 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
303083 TTCAACGATT
303093 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
303126 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
303159 T
1 T
303160 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:303131 original size:13 final size:13
Alignment explanation
Indices: 303113--303137 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
303103 CATAAAATGT
303113 TGTATCGATACAA
1 TGTATCGATACAA
303126 TGTATCGATACA
1 TGTATCGATACA
303138 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:303220 original size:13 final size:13
Alignment explanation
Indices: 303202--303226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
303192 ATTACTCACA
303202 TGTATCGATACAT
1 TGTATCGATACAT
303215 TGTATCGATACA
1 TGTATCGATACA
303227 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:303363 original size:52 final size:52
Alignment explanation
Indices: 303235--303355 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
303225 CACTGATCTT
*
303235 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
303287 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
303339 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
303356 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:307360 original size:17 final size:17
Alignment explanation
Indices: 307340--307375 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
307330 AAGGAAGATG
* *
307340 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
307357 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
307374 AA
1 AA
307376 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:314407 original size:17 final size:17
Alignment explanation
Indices: 314387--314422 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
314377 AAGGAAGATG
* *
314387 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
314404 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
314421 AA
1 AA
314423 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:318147 original size:50 final size:50
Alignment explanation
Indices: 318088--318282 Score: 354
Period size: 50 Copynumber: 3.9 Consensus size: 50
318078 TTAACTATCT
*
318088 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTATTGACGATTC
1 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACGATTC
* *
318138 TTCACCAACCTTTGACAATAAAAGGAGGTGGCCATAATTGTTGACTATTC
1 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACGATTC
318188 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACGATTC
*
318238 TTCACCAACCTTTGACAATAGAAGGAGGTAGCCATAATTGTTGAC
1 TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGAC
318283 TCTAAGTATA
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 139 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (50 bp):
TTCACCAACCTTTGACAATAGAAGGAGGTGGCCATAATTGTTGACGATTC
Found at i:318585 original size:16 final size:16
Alignment explanation
Indices: 318548--318593 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
318538 ATAAAATTAA
*
318548 ATTAATTTTATATATCTT
1 ATTAATTTT-T-TATATT
318566 ATTAATTTTTTATATT
1 ATTAATTTTTTATATT
*
318582 ATTAATATTTTA
1 ATTAATTTTTTA
318594 ATAAATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 16 0.62
17 1 0.04
18 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTAATTTTTTATATT
Found at i:318908 original size:3 final size:3
Alignment explanation
Indices: 318900--318925 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
318890 ACCAAGTCAA
318900 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
318926 CACCGTCGTT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:320401 original size:60 final size:60
Alignment explanation
Indices: 320303--320419 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
320293 ATATTATTCT
* *
320303 TGCTCTTCGAGATACTGATCATAATTGTAAATAGTCAAAATTAGGTAAGACCTTGTAAAG
1 TGCTCTTCGAGATACTGATCATAATTGTAAATAATCAAAATTAGGCAAGACCTTGTAAAG
* * * *
320363 TGCTTTTCGAGATATTGTTCATAATTGTAAATAATCAAAATTAGGCAAGACTTTGTA
1 TGCTCTTCGAGATACTGATCATAATTGTAAATAATCAAAATTAGGCAAGACCTTGTA
320420 CATAAATAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (60 bp):
TGCTCTTCGAGATACTGATCATAATTGTAAATAATCAAAATTAGGCAAGACCTTGTAAAG
Found at i:322447 original size:34 final size:34
Alignment explanation
Indices: 322401--322585 Score: 248
Period size: 34 Copynumber: 5.5 Consensus size: 34
322391 GTAAAAACCA
*
322401 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
322435 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* * *
322469 CTATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
322503 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
322537 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
322570 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
322586 TCTCCCACTT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
33 18 0.14
34 111 0.83
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:327040 original size:34 final size:34
Alignment explanation
Indices: 326994--327176 Score: 253
Period size: 34 Copynumber: 5.4 Consensus size: 34
326984 GTAAAAACCA
*
326994 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
327028 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
327062 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
327096 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
327130 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
327163 CCATTTAATCAACA
1 CCATTTAATCAACA
327177 TTGGCGACTC
Statistics
Matches: 133, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
33 16 0.12
34 113 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:328465 original size:18 final size:18
Alignment explanation
Indices: 328420--328465 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
328410 TTAGCCTTTT
328420 TTTTCATTTTCATTTAACA
1 TTTT-ATTTTCATTTAACA
*
328439 TCTTT-TTTTCATTTAATA
1 T-TTTATTTTCATTTAACA
328457 TTTTATTTT
1 TTTTATTTT
328466 ATGTTTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 1 0.04
20 3 0.12
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTTTCATTTAACA
Found at i:328663 original size:34 final size:34
Alignment explanation
Indices: 328575--328790 Score: 247
Period size: 34 Copynumber: 6.4 Consensus size: 34
328565 AAAATAAAAA
* ** *
328575 ATTGTTGATTAAAT-GGTGATTTAATAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
328608 ATTGTTGATT-AATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
328641 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
** *
328675 ATTGTTGATTAAATGAAAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
328709 ATTATTGATTAAATGAGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
328743 ATTATTGACTAAATGGTAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
328777 ATTGTTGATTAAAT
1 ATTGTTGATTAAAT
328791 AGTGGTTTTT
Statistics
Matches: 157, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
32 3 0.02
33 35 0.22
34 119 0.76
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:328756 original size:102 final size:101
Alignment explanation
Indices: 328603--328790 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 101
328593 ATTTAATAGT
* * * * * *
328603 TTACCATTGTTGATTAATGGGTGATTTGGTGGTTTGCCATTGTTGATTAAATGGGAGATTTGGTA
1 TTACCATTATTGATTAATGAGTGATTTGGTGGCTTACCATTATTGACTAAATGGGAGATTTGGTA
328668 GCTTACCATTGTTGATTAAATGAAAAATTTGGTAGC
66 GCTTACCATTGTTGATTAAATGAAAAATTTGGTAGC
*
328704 TTACCATTATTGATTAAATGAGTGATTTGGTGGCTTACCATTATTGACTAAATGGTAGATTTGGT
1 TTACCATTATTGATT-AATGAGTGATTTGGTGGCTTACCATTATTGACTAAATGGGAGATTTGGT
*
328769 AGGTTACCATTGTTGATTAAAT
65 AGCTTACCATTGTTGATTAAAT
328791 AGTGGTTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 14 0.18
102 64 0.82
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (101 bp):
TTACCATTATTGATTAATGAGTGATTTGGTGGCTTACCATTATTGACTAAATGGGAGATTTGGTA
GCTTACCATTGTTGATTAAATGAAAAATTTGGTAGC
Found at i:333259 original size:34 final size:34
Alignment explanation
Indices: 333202--333420 Score: 271
Period size: 34 Copynumber: 6.5 Consensus size: 34
333192 AAGTGGGAGA
*
333202 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
333235 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
333269 ATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * **
333303 ATTGTTGAATAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
333337 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
333371 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
333405 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
333421 TGGTTTTTAC
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
33 17 0.11
34 143 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:333345 original size:102 final size:101
Alignment explanation
Indices: 333202--333420 Score: 332
Period size: 102 Copynumber: 2.2 Consensus size: 101
333192 AAGTGGGAGA
** * * * *
333202 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
333267 CCATTGTTGACTAAATGAG-AGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATG-GTAGATTTGGTAGCTTACC
*
333303 ATTGTTGAATAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* *
333368 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
333405 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
333421 TGGTTTTTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
101 16 0.15
102 90 0.85
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
Found at i:338437 original size:22 final size:22
Alignment explanation
Indices: 338412--338463 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
338402 TTTAGAAAAA
*
338412 TTAAAAATGATAAATAATTATT
1 TTAAAAATGATAAAAAATTATT
*
338434 TT-AAAACGATAAAAAATTATT
1 TTAAAAATGATAAAAAATTATT
338455 TATAAAAAT
1 T-TAAAAAT
338464 TTTAAAGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 18 0.72
22 3 0.12
23 4 0.16
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TTAAAAATGATAAAAAATTATT
Found at i:339079 original size:16 final size:16
Alignment explanation
Indices: 339058--339093 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
339048 AAATTTAATA
339058 ATTAAT-ATATTAAAAT
1 ATTAATCATA-TAAAAT
339074 ATTAATCATATAAAAT
1 ATTAATCATATAAAAT
339090 ATTA
1 ATTA
339094 TTAAAGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAATCATATAAAAT
Found at i:342635 original size:14 final size:13
Alignment explanation
Indices: 342616--342662 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
342606 AATAATTTTT
342616 TATTTTTT-AATA
1 TATTTTTTAAATA
342628 TATATTTTTAAATA
1 TAT-TTTTTAAATA
*
342642 T-TTTTTAAAATA
1 TATTTTTTAAATA
*
342654 TGTTTTTTA
1 TATTTTTTA
342663 TAATTGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 13 0.43
13 12 0.40
14 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTTTTTAAATA
Found at i:342642 original size:12 final size:12
Alignment explanation
Indices: 342619--342659 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
342609 AATTTTTTAT
342619 TTTTTAATATATA
1 TTTTTAA-ATATA
342632 TTTTTAAATAT-
1 TTTTTAAATATA
342643 TTTTTAAA-ATA
1 TTTTTAAATATA
342654 TGTTTT
1 T-TTTT
342660 TTATAATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.08
11 9 0.35
12 8 0.31
13 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
TTTTTAAATATA
Found at i:343364 original size:24 final size:24
Alignment explanation
Indices: 343318--343365 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
343308 AAGAGTTTAA
*
343318 ATTTGTAAAATATTATATATTTTT
1 ATTTGTAAAATATTAAATATTTTT
*
343342 ATTTGTAGAAAT-TTAAATTTTTTT
1 ATTTGTA-AAATATTAAATATTTTT
343366 TTTAGCTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTGTAAAATATTAAATATTTTT
Found at i:343503 original size:41 final size:41
Alignment explanation
Indices: 343458--343580 Score: 99
Period size: 41 Copynumber: 3.2 Consensus size: 41
343448 TGATTATAAG
343458 AGTTTAAAATTTTAAAGGTACAATTTATTTTTATTTGTATA
1 AGTTTAAAATTTTAAAGGTACAATTTATTTTTATTTGTATA
** *
343499 AGTTT-AAA-TTT--A--T----TTT-TTGGGTATGAT-TATAA
1 AGTTTAAAATTTTAAAGGTACAATTTATT-TTTAT-TTGTAT-A
343531 GAGTTTAAAATTTTAAAGGTACAATTTATTTTTATTTGTATA
1 -AGTTTAAAATTTTAAAGGTACAATTTATTTTTATTTGTATA
343573 AGTTTAAA
1 AGTTTAAA
343581 TTTATTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 32
0.61 0.06 0.33
Matches are distributed among these distances:
30 2 0.03
31 9 0.15
32 2 0.03
33 5 0.08
34 3 0.05
35 4 0.07
37 2 0.03
39 4 0.07
40 3 0.05
41 13 0.22
42 2 0.03
43 9 0.15
44 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (41 bp):
AGTTTAAAATTTTAAAGGTACAATTTATTTTTATTTGTATA
Found at i:343757 original size:32 final size:32
Alignment explanation
Indices: 343721--343832 Score: 91
Period size: 32 Copynumber: 3.3 Consensus size: 32
343711 TTTGTAAAAG
343721 TTTAAATTTGTTTTTGGGTATGATTATACGAA
1 TTTAAATTTGTTTTTGGGTATGATTATACGAA
*** * * *
343753 TTTAAATTTTAAAAGTATTTTTTATCTTATTTATA-AAA
1 TTTAAA-TTT----GT-TTTTGGGTATGA-TTATACGAA
343791 GTTTAAATTTGTTTTTGGGTATGATTATACGAA
1 -TTTAAATTTGTTTTTGGGTATGATTATACGAA
343824 TTTAAATTT
1 TTTAAATTT
343833 TAAAAGTATT
Statistics
Matches: 59, Mismatches: 12, Indels: 18
0.66 0.13 0.20
Matches are distributed among these distances:
32 20 0.34
33 12 0.20
34 2 0.03
37 2 0.03
38 12 0.20
39 11 0.19
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (32 bp):
TTTAAATTTGTTTTTGGGTATGATTATACGAA
Found at i:343787 original size:39 final size:39
Alignment explanation
Indices: 343753--343871 Score: 119
Period size: 39 Copynumber: 3.2 Consensus size: 39
343743 ATTATACGAA
343753 TTTAAATTTTAAAAGTATTTTTTATCTTATTTATAAAAG
1 TTTAAATTTTAAAAGTATTTTTTATCTTATTTATAAAAG
*** * * *
343792 TTTAAA-TTT----GT-TTTTGGGTATGA-TTATACGAA-
1 TTTAAATTTTAAAAGTATTTTTTATCTTATTTATA-AAAG
343824 TTTAAATTTTAAAAGTATTTTTTATCTTATTTATAAAAG
1 TTTAAATTTTAAAAGTATTTTTTATCTTATTTATAAAAG
343863 TTTAAATTT
1 TTTAAATTT
343872 GTTTTTTGGT
Statistics
Matches: 59, Mismatches: 12, Indels: 18
0.66 0.13 0.20
Matches are distributed among these distances:
32 11 0.19
33 12 0.20
34 2 0.03
37 2 0.03
38 12 0.20
39 20 0.34
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (39 bp):
TTTAAATTTTAAAAGTATTTTTTATCTTATTTATAAAAG
Found at i:343937 original size:72 final size:72
Alignment explanation
Indices: 343183--345100 Score: 1867
Period size: 73 Copynumber: 26.6 Consensus size: 72
343173 ATTGTCGTTC
* * * * * *
343183 AAGGTATTATTTATTTTTATTTGTAAAAATTTAAATTTGTTTTTAGGATATGCTTATACAAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGG-TATGATTATACAAGTTT
343248 AAATTTTT
65 AAATTTTT
* * *
343256 AAGGTATAATTTA--TTT-TTT-TAGAAGTTTAAATTTGTTTTTTTGTTTGATTATA-AGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACA-AGTTT
*
343316 AAATTTGT
65 AAATTTTT
** * * * * * **
343324 AAAATATTATATATTTTTATTTGTAGAAATTTAAATTTTTTTTTTAGCTATGATTATAGGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATACAAGTTT
343389 AAATTTTTT
65 AAA-TTTTT
*
343398 AAGGTATAATTTATTTTTATTTGTATAAGTTTAAATTTATTTTTTGGGTATGATTATA-AGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATACA-AGTT
*
343462 TAAAATTTTA
64 T-AAATTTTT
* *
343472 AAGGTACAATTTATTTTTATTTGTATAAGTTTAAATTTATTTTTTGGGTATGATTATA-AGAGTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATACA-AGTT
*
343536 TAAAATTTTA
64 T-AAATTTTT
* * * *
343546 AAGGTACAATTTATTTTTATTTGTATAAGTTTAAATTTATTTTTTGAGTATGATTATATAATTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG-GTATGATTATACAAGTTT
*
343611 AAATTGTT
65 AAATTTTT
** * * * **
343619 GGGGTATAACTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTGGGTATGATTATATGAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTT-
343684 AAATTTTT
65 AAATTTTT
** * * *
343692 AATTTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTGGGTATGATTATACGAA-TTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAC-AAGTTT
*
343756 AAATTTTA
65 AAATTTTT
* ** * * * * *
343764 AAAGTATTTTTTA-TCTTATTTATAAAAGTTTAAATTTGTTTTTGGGTATGATTATACGAA-TTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAC-AAGTTT
*
343827 AAATTTTA
65 AAATTTTT
* ** * * * *
343835 AAAGTATTTTTTA-TCTTATTTATAAAAGTTTAAATTTGTTTTTTGGTATGATTATACAAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
343899 AATTTTT
66 AATTTTT
* * * * ** * *
343906 AAGTTATTATTTATCTTTATTTGTAGAAGTTTCAATTT-GCTTTTGGATAT-AATATACGAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGG-TATGATTATACAAGTTT
*
343969 AAATTTTA
65 AAATTTTT
* * * * * *
343977 AAGGTAT-TTTTA-TCTTATTTATAAAAGTTTAAATTTATTTTTGGGTATGATTATTCAAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
344040 AATTTTT
66 AATTTTT
* * * * * * *
344047 AAGTTATTATTTATCTTTAGTTGTAGAAGTTTAAATTT-TTTTTTGGTATGATTGTACGAGTATA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
344111 AATTTTT
66 AATTTTT
* * * * * *
344118 AAGCTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTTAGTATAACTATA-AGGGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACA-AGTTT
344182 AAATTTTT
65 AAATTTTT
* * * *
344190 -AGGATATAATTTAATTTTATTTGTAAAAATTTAAATTTATTTTTTTGGTATGATTATACGAGTT
1 AAGG-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTA-TTTTTTGGTATGATTATACAAGTT
344254 TAAATTTTT
64 TAAATTTTT
* * * *
344263 AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTGTTAGTATGATTATACGAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
344328 AATTTTT
66 AATTTTT
* * *
344335 AAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGGTATGATTATACGAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
344400 AATTTTTT
66 AA-TTTTT
* * * **
344408 AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTTGGTTTGATTATATGAGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
344473 AATTTTT
66 AATTTTT
* * * * * * *
344480 AGGGTATAATTTAATTTTATTTGTAGAAGTTTGAATTTGTTTTTAT--TTTAATTATATGAA-TT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT-TGGTATGATTATA-CAAGTT
*
344542 AAAATTTTT
64 TAAATTTTT
* * * * * * *
344551 AAGGAACAATTTA-TTTTACTTGTAGAAGTGTAAATTTGTTTTTTAGATATAATTATACAAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATACAAGTTT
*
344615 AAAATTTTG
65 -AAATTTTT
* * * * * * *
344624 AAAGTATAATTTATTTTTATTTCTAGAAATTTAAATTTATTTTTTGATTTGATTATATAGGTTTA
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
*
344689 AATGTTT
66 AATTTTT
* * * * * * *
344696 AAGATATTATTTATCTTTATTTGTAAAAGTTTAAATTTATTTTTTGGATATGATTTTACGAGTTC
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGG-TATGATTATACAAGTTT
344761 AAATTTTT
65 AAATTTTT
* * * * * * *
344769 AAGATATTATTTATCTTTATTTGTAAAAGTTTAAATTTATTTTTTGAGTAGGATTATATAAGATT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG-GTATGATTATACAAGTTT
344834 AAATTTTTT
65 AAA-TTTTT
* * * ** *
344843 AAGCTATAATTTATTTTTATTTGTATAAGTATAAATTTATTTTTTGGGTACAACTATACAAGTTT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATACAAGTTT
344908 AAATTTTT
65 AAATTTTT
* * * * * * *
344916 AA--TATATGTTTTTTTTTATTTTGTAG-AGCTTTAAATTTGTTTTCTGGTTTAATTATACGAGT
1 AAGGTATA-ATTTATTTTTA-TTTGTAGAAG-TTTAAATTTATTTTTTGGTATGATTATACAAGT
344978 TTAAAATTTTT
63 TT-AAATTTTT
* * * * * *
344989 AATGTAT-TTTTA-TTTTATTTATAGAAGCTTAAATTTATTTTTTGAGTATGATTTTATGAA-TT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG-GTATGATTATA-CAAGTT
*
345051 TAATTTTTTT
64 TAA-ATTTTT
* * *
345061 AAGCTATAATTTATTTTTATTTATAGAATTTTAAATTTAT
1 AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTAT
345101 ATTATAATTA
Statistics
Matches: 1570, Mismatches: 223, Indels: 103
0.83 0.12 0.05
Matches are distributed among these distances:
67 1 0.00
68 29 0.02
69 43 0.03
70 67 0.04
71 293 0.19
72 400 0.25
73 419 0.27
74 310 0.20
75 8 0.01
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (72 bp):
AAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATACAAGTTTA
AATTTTT
Found at i:344285 original size:145 final size:145
Alignment explanation
Indices: 343191--345100 Score: 1830
Period size: 145 Copynumber: 13.2 Consensus size: 145
343181 TCAAGGTATT
* * * * * *
343191 ATTTATTTTTATTTGTAAAAATTTAAATTT-GTTTTTAGGATATGCTTATACAAGTTTAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGG-TATGATTATACGAGTTTAAATTTT
* * * *
343255 TAAGGTATAATTTA--TTT-TTT-TAGAAGTTTAAATTTGTTTTTTTGTTTGATTATAAGAGTTT
65 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAAGAGTTT
* * *
343316 AAATTTGTAAAATATT
130 AAATTTTTAAGATATA
* * * *
343332 ATATATTTTTATTTGTAGAAATTTAAATTT-TTTTTTTAGCTATGATTATAGGAGTTTAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTT-GGTATGATTATACGAGTTTAAA-TTT
* *
343396 TTAAGGTATAATTTATTTTTATTTGTATAAGTTTAAATTTATTTTTTGGGTATGATTATAAGAGT
64 TTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATAAGAGT
* * *
343461 TTAAAATTTTAAAGGTACA
128 TT-AAATTTTTAAGATATA
* * *
343480 ATTTATTTTTATTTGTATAAGTTTAAATTTATTTTTTGGGTATGATTATAAGAGTTTAAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTT-AAATTTT
* * * * *
343545 AAAGGTACAATTTATTTTTATTTGTATAAGTTTAAATTTATTTTTTGAGTATGATTATATA-ATT
65 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG-GTATGATTATA-AGAGT
* ** *
343609 TTAAATTGTTGGGGTATA
128 TTAAATTTTTAAGATATA
* * * *
343627 ACTTATTTTTATTTGTAAAAGTTTAAATTTA-TTTTTGGGTATGATTATATGAGTTTAAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTT-AAATTTT
** * * * * *
343691 TAATTTATAATTTATTTTTATTTGTAAAAGTTTAAATTTGTTTTTGGGTATGATTATACGAATTT
65 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAAGAGTTT
* *
343756 AAA-TTTTAAAAGTATT
130 AAATTTTTAAGA-TATA
* * * * * * *
343772 TTTTA-TCTTATTTATAAAAGTTTAAATTT-GTTTTTGGGTATGATTATACGAATTTAAA-TTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTTAAATTTTT
* ** * * * *
343834 AAAAGTATTTTTTA-TCTTATTTATAAAAGTTTAAATTTGTTTTTTGGTATGATTATACA-AGTT
66 AAGA-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATA-AGAGTT
* *
343897 TAAATTTTTAAGTTATT
129 TAAATTTTTAAGATATA
* * ** *
343914 ATTTATCTTTATTTGTAGAAGTTTCAA-TT-TGCTTTTGGATAT-AATATACGAGTTTAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGG-TATGATTATACGAGTTTAAATTTT
* * * * * * * *
343976 AAAGGTAT-TTTTA-TCTTATTTATAAAAGTTTAAATTTATTTTTGGGTATGATTATTCA-AGTT
65 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTA-TAAGAGTT
* *
344038 TAAATTTTTAAGTTATT
129 TAAATTTTTAAGATATA
* * * *
344055 ATTTATCTTTAGTTGTAGAAGTTTAAA-TT-TTTTTTTGGTATGATTGTACGAGTATAAATTTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTTAAATTTTT
* * * * * *
344118 AAGCTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTTAGTATAACTATAAGGGTTTA
66 AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAAGAGTTTA
*
344183 AATTTTTAGGATATA
131 AATTTTTAAGATATA
* * *
344198 ATTTAATTTTATTTGTAAAAATTTAAATTTATTTTTTTGGTATGATTATACGAGTTTAAATTTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTTAAATTTTT
* * *
344263 AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTGTTAGTATGATTATACGAGTTTA
66 AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAAGAGTTTA
344328 AATTTTTAAGATATA
131 AATTTTTAAGATATA
*
344343 ATTTATTTTTATTTGTAAAAGTTTAAATTTA-TTTTTTGGTATGATTATACGAGTTTAAATTTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTTAAA-TTTT
* * *
344407 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTTGGTTTGATTATATGAGTTT
65 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAAGAGTTT
* *
344472 AAATTTTTAGGGTATA
130 AAATTTTTAAGATATA
* * * * * * *
344488 ATTTAATTTTATTTGTAGAAGTTTGAATTTGTTTTTATT--T-TAATTATATGAATTAAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTT-TTGGTATGATTATACGAGTTTAAATTTT
* * * * * *
344550 TAAGGA-ACAATTTA-TTTTACTTGTAGAAGTGTAAATTTGTTTTTTAGATATAATTATACA-AG
65 TAA-GATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATA-AGAG
*
344612 TTTAAAATTTTGAA-AGTATA
127 TTT-AAATTTTTAAGA-TATA
* * * * * *
344632 ATTTATTTTTATTTCTAGAAATTTAAATTTA-TTTTTTGATTTGATTATA-TAGGTTTAAATGTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGA-GTTTAAATTTT
* * * * *
344695 TAAGATATTATTTATCTTTATTTGTAAAAGTTTAAATTTATTTTTTGGATATGATTTTACGAGTT
65 TAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGG-TATGATTATAAGAGTT
* *
344760 CAAATTTTTAAGATATT
129 TAAATTTTTAAGATATA
* * * ** *
344777 ATTTATCTTTATTTGTAAAAGTTTAAATTTA-TTTTTTGAGTAGGATTATATAAGATTAAATTTT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTG-GTATGATTATACGAGTTTAAA-TTT
* * * ** *
344841 TTAAGCTATAATTTATTTTTATTTGTATAAGTATAAATTTATTTTTTGGGTACAACTATACA-AG
64 TTAAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GGTATGATTATA-AGAG
*
344905 TTTAAATTTTTAATATAT-
127 TTTAAATTTTTAAGATATA
* * * * * *
344923 GTTTTTTTTTATTTTGTAG-AGCTTTAAATTT-GTTTTCTGGTTTAATTATACGAGTTTAAAATT
1 ATTTATTTTTA-TTTGTAGAAG-TTTAAATTTATTTTTTTGGTATGATTATACGAGTTT-AAATT
* * * * *
344986 TTTAATG-TAT-TTTTA-TTTTATTTATAGAAGCTTAAATTTATTTTTTGAGTATGATTTTATGA
63 TTTAA-GATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG-GTATGATTATAAGA
* * *
345048 ATTTAATTTTTTTAAGCTATA
126 GTTTAA-ATTTTTAAGATATA
* *
345069 ATTTATTTTTATTTATAGAATTTTAAATTTAT
1 ATTTATTTTTATTTGTAGAAGTTTAAATTTAT
345101 ATTATAATTA
Statistics
Matches: 1482, Mismatches: 226, Indels: 117
0.81 0.12 0.06
Matches are distributed among these distances:
140 3 0.00
141 173 0.12
142 142 0.10
143 145 0.10
144 179 0.12
145 366 0.25
146 191 0.13
147 154 0.10
148 119 0.08
149 10 0.01
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (145 bp):
ATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTTGGTATGATTATACGAGTTTAAATTTTT
AAGATATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTATGATTATAAGAGTTTA
AATTTTTAAGATATA
Found at i:344366 original size:40 final size:40
Alignment explanation
Indices: 344322--344445 Score: 102
Period size: 40 Copynumber: 3.3 Consensus size: 40
344312 TGATTATACG
344322 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAAA
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAAA
* ** * * * **
344362 AGTTTAAA--TTT---AT-T-TTTTGGTATGA-TTATACG
1 AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAAA
*
344394 AGTTTAAATTTTTTAAGATATAATTTATTTTTATTTGTAGA
1 AGTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTAAA
344435 AGTTTAAATTT
1 AGTTTAAATTT
344446 GTTTTTTGGT
Statistics
Matches: 59, Mismatches: 16, Indels: 18
0.63 0.17 0.19
Matches are distributed among these distances:
32 12 0.20
33 6 0.10
34 1 0.02
35 5 0.08
38 5 0.08
39 1 0.02
40 17 0.29
41 12 0.20
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.55
Consensus pattern (40 bp):
AGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAAA
Found at i:344728 original size:40 final size:39
Alignment explanation
Indices: 344684--344806 Score: 109
Period size: 40 Copynumber: 3.3 Consensus size: 39
344674 GATTATATAG
344684 GTTTAAATGTTTAAGATATTATTTATCTTTATTTGTAAAA
1 GTTTAAAT-TTTAAGATATTATTTATCTTTATTTGTAAAA
* * **
344724 GTTTAAA-TTT---AT-TT-TTTGGAT-ATGATTT-TACGA
1 GTTTAAATTTTAAGATATTATTT--ATCTTTATTTGTAAAA
*
344757 GTTCAAATTTTTAAGATATTATTTATCTTTATTTGTAAAA
1 GTTTAAA-TTTTAAGATATTATTTATCTTTATTTGTAAAA
344797 GTTTAAATTT
1 GTTTAAATTT
344807 ATTTTTTGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 23
0.65 0.11 0.24
Matches are distributed among these distances:
33 12 0.19
34 7 0.11
35 7 0.11
38 7 0.11
39 10 0.16
40 19 0.31
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.54
Consensus pattern (39 bp):
GTTTAAATTTTAAGATATTATTTATCTTTATTTGTAAAA
Found at i:344900 original size:25 final size:26
Alignment explanation
Indices: 344846--344900 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
344836 ATTTTTTAAG
** *
344846 CTAT-AATTTATTTTTATTTGTATAA
1 CTATAAATTTATTTTTATGGGTACAA
*
344871 GTATAAATTTATTTTT-TGGGTACAA
1 CTATAAATTTATTTTTATGGGTACAA
344896 CTATA
1 CTATA
344901 CAAGTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (26 bp):
CTATAAATTTATTTTTATGGGTACAA
Found at i:345336 original size:15 final size:15
Alignment explanation
Indices: 345316--345346 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
345306 TTCAATAGCT
345316 TCATCATCATTATCA
1 TCATCATCATTATCA
345331 TCATCATCATTATCA
1 TCATCATCATTATCA
345346 T
1 T
345347 TTTTAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCATCATTATCA
Found at i:347590 original size:72 final size:71
Alignment explanation
Indices: 347508--347834 Score: 355
Period size: 72 Copynumber: 4.5 Consensus size: 71
347498 AATTATACAC
* * *
347508 GTATAAATTTATTTTTATTTGTAGAAATTTAAATTTGTTTTTT-GTTTTGATTATGTAAGTTTAA
1 GTAT-AATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTAGTTATGATTATG-AAGTTTAA
347572 ACTTTTAAG
64 A-TTTTAAG
* * * *
347581 GTATTATTTATGTTTATTTGTAGATA-TTTAAATTTATTTTTTAGATATGATTATAGGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGA-AGTTTAAATTTATTTTTTAGTTATGATTAT-GAAGTTTAA
347645 ATTTTTTAAG
64 A--TTTTAAG
* * *
347655 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTCT-ATTA-AACGAGTTTAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTAGTTATGATTATGA--AGTTTAA
347718 ATTGTTAAG
64 ATT-TTAAG
*
347727 GTATAATTTATTTTTATTTATAGAAGTTT-AATTTATTTTTTAAG-TATGATAATATGAA-TTTA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-AGTTATGAT--TATGAAGTTT-
347789 AAATTTTGAAG
62 AAATTTT-AAG
347800 GTATAATTTATTTTTATTTGTA-AATGTTTAAATTT
1 GTATAATTTATTTTTATTTGTAGAA-GTTTAAATTT
347835 TTGAAGGTAT
Statistics
Matches: 218, Mismatches: 19, Indels: 33
0.81 0.07 0.12
Matches are distributed among these distances:
71 16 0.07
72 76 0.35
73 69 0.32
74 56 0.26
75 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (71 bp):
GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTAGTTATGATTATGAAGTTTAAAT
TTTAAG
Found at i:347813 original size:48 final size:42
Alignment explanation
Indices: 347755--347872 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 42
347745 TATAGAAGTT
347755 TAATTTATTTTTTAAGTATGATAATATGAATTTAAAATTTTGAAGGTA
1 TAATTTATTTTTT-A-TATG-TAA-ATG--TTTAAAATTTTGAAGGTA
* *
347803 TAATTTA-TTTTTATTTGTAAATGTTTAAATTTTTGAAGGTA
1 TAATTTATTTTTTATATGTAAATGTTTAAAATTTTGAAGGTA
* *
347844 TAATTTA-TTTTTATTTGTAAAAGTTTAAA
1 TAATTTATTTTTTATATGTAAATGTTTAAA
347873 TTTATTTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
41 45 0.67
43 3 0.04
44 3 0.04
45 3 0.04
46 1 0.01
47 5 0.07
48 7 0.10
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (42 bp):
TAATTTATTTTTTATATGTAAATGTTTAAAATTTTGAAGGTA
Found at i:347830 original size:145 final size:146
Alignment explanation
Indices: 347508--347834 Score: 423
Period size: 146 Copynumber: 2.2 Consensus size: 146
347498 AATTATACAC
* * * ***
347508 GTATAAATTTATTTTTATTTGTAGAAATTTAAATTTGTTTTTTGTTTTGATTATGTAAGTTTAAA
1 GTAT-AATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGTTCTGATTAAACAAGTTTAAA
* * *
347573 CTTTTAAGGTATTATTTATGTTTATTTGTAGATATTTAAATTTATTTTTTAGATATGATTATAGG
65 CTTTTAAGGTATAATTTATGTTTATTTATAGATATTTAAATTTATTTTTTAGATATGATAATAGG
* * *
347638 AGTTTAAATTTTTTAAG
130 AATTTAAAATTTTGAAG
*
347655 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTCT-ATTAAACGAGTTTAAA
1 GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-GTTCTGATTAAACAAGTTTAAA
*
347719 -TTGTTAAGGTATAATTTATTTTTATTTATAGA-AGTTT-AATTTATTTTTTA-AGTATGATAAT
65 CTT-TTAAGGTATAATTTATGTTTATTTATAGATA-TTTAAATTTATTTTTTAGA-TATGATAAT
*
347780 ATGAATTTAAAATTTTGAAG
127 AGGAATTTAAAATTTTGAAG
347800 GTATAATTTATTTTTATTTGTA-AATGTTTAAATTT
1 GTATAATTTATTTTTATTTGTAGAA-GTTTAAATTT
347835 TTGAAGGTAT
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
144 3 0.02
145 72 0.45
146 77 0.48
147 8 0.05
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (146 bp):
GTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGTTCTGATTAAACAAGTTTAAAC
TTTTAAGGTATAATTTATGTTTATTTATAGATATTTAAATTTATTTTTTAGATATGATAATAGGA
ATTTAAAATTTTGAAG
Found at i:347842 original size:41 final size:41
Alignment explanation
Indices: 347785--347875 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
347775 ATAATATGAA
* *
347785 TTTAAAATTTTGAAGGTATAATTTATTTTTATTTGTAAATG
1 TTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAG
347826 TTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAG
1 TTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAG
347867 TTTAAATTT
1 TTTAAATTT
347876 ATTTTTTGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (41 bp):
TTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAG
Found at i:347850 original size:21 final size:21
Alignment explanation
Indices: 347783--347850 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
347773 TGATAATATG
*
347783 AATTTAAAATTTTGAAGGTAT
1 AATTTAAATTTTTGAAGGTAT
**
347804 AATTT--ATTTTT-ATTTGTA-
1 AATTTAAATTTTTGA-AGGTAT
347822 AATGTTTAAATTTTTGAAGGTAT
1 AA--TTTAAATTTTTGAAGGTAT
347845 AATTTA
1 AATTTA
347851 TTTTTATTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
18 3 0.09
19 8 0.23
20 3 0.09
21 9 0.26
22 9 0.26
23 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
AATTTAAATTTTTGAAGGTAT
Found at i:347855 original size:19 final size:19
Alignment explanation
Indices: 347792--347855 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 19
347782 GAATTTAAAA
347792 TTTTGAAGGTATAATTTAT
1 TTTTGAAGGTATAATTTAT
**
347811 TTTT-ATTTGTA-AATGTTTAAAT
1 TTTTGA-AGGTATAA--TTT--AT
347833 TTTTGAAGGTATAATTTAT
1 TTTTGAAGGTATAATTTAT
347852 TTTT
1 TTTT
347856 ATTTGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
18 3 0.09
19 13 0.38
20 3 0.09
21 3 0.09
22 9 0.26
23 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTTGAAGGTATAATTTAT
Found at i:347859 original size:114 final size:112
Alignment explanation
Indices: 347711--347947 Score: 298
Period size: 113 Copynumber: 2.1 Consensus size: 112
347701 CTATTAAACG
* *
347711 AGTTTAAATTGTTAAGGTATAATTTATTTTTATTTATAGAAGTTT-AATTTATTTTTTAAGTATG
1 AGTTTAAATTTTTAAGGTATAATTTATTTTTATTTATAAAAGTTTAAATTTATTTTTTAA-TATG
** * *
347775 ATAATATGAATTTAAAATTTTGAAGGTATAATTTATTTTTATTTGTA-A
65 ATAATACCAATTT-AAATTTTGAAGGTATAATTTATCTTTATTTATAGA
* * *
347823 ATGTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGATTT
1 A-GTTTAAATTTTT-AAGGTATAATTTATTTTTATTTATAAAAGTTTAAATTTATTTTTTAATAT
* * * * *
347888 GATTATACCAGTTTAATTTTTTAAGGTATTATTTATCTTTATTTATAGA
64 GATAATACCAATTTAAATTTTGAAGGTATAATTTATCTTTATTTATAGA
347937 AGTTTAAATTT
1 AGTTTAAATTT
347948 ATCTTTTTAG
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
112 1 0.01
113 49 0.46
114 44 0.41
115 13 0.12
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.54
Consensus pattern (112 bp):
AGTTTAAATTTTTAAGGTATAATTTATTTTTATTTATAAAAGTTTAAATTTATTTTTTAATATGA
TAATACCAATTTAAATTTTGAAGGTATAATTTATCTTTATTTATAGA
Found at i:347902 original size:73 final size:73
Alignment explanation
Indices: 347825--348007 Score: 226
Period size: 73 Copynumber: 2.5 Consensus size: 73
347815 ATTTGTAAAT
* * *
347825 GTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTAT-TTTTT-GATTT
1 GTTT-AATTTTT-AAGGTATTATTTATCTTTATTTGTAAAAGTTTAAATTTATCTTTTTAGATAT
347888 GATTATACCA
64 GATTATACCA
* * *
347898 GTTTAATTTTTTAAGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATCTTTTTAGGTATG
1 GTTTAA-TTTTTAAGGTATTATTTATCTTTATTTGTAAAAGTTTAAATTTATCTTTTTAGATATG
**
347963 ATTATATGA
65 ATTATACCA
* **
347972 GCTTAATTTTTAAAATATTATTTATCTTTATTTGTA
1 GTTTAATTTTTAAGGTATTATTTATCTTTATTTGTA
348008 TGATTATACG
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
72 38 0.40
73 41 0.43
74 16 0.17
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (73 bp):
GTTTAATTTTTAAGGTATTATTTATCTTTATTTGTAAAAGTTTAAATTTATCTTTTTAGATATGA
TTATACCA
Found at i:347914 original size:72 final size:74
Alignment explanation
Indices: 347825--348007 Score: 228
Period size: 72 Copynumber: 2.5 Consensus size: 74
347815 ATTTGTAAAT
* * * *
347825 GTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTAT-TTTTT-GATTT
1 GTTT-AATTTTTTAAGGTATTATTTATCTTTATTTGTAAAAGTTTAAATTTATCTTTTTAGATAT
347888 GATTATACCA
65 GATTATACCA
* * *
347898 GTTTAATTTTTTAAGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATCTTTTTAGGTATG
1 GTTTAATTTTTTAAGGTATTATTTATCTTTATTTGTAAAAGTTTAAATTTATCTTTTTAGATATG
**
347963 ATTATATGA
66 ATTATACCA
* **
347972 GCTTAA-TTTTTAAAATATTATTTATCTTTATTTGTA
1 GTTTAATTTTTTAAGGTATTATTTATCTTTATTTGTA
348008 TGATTATACG
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
72 43 0.45
73 36 0.38
74 16 0.17
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (74 bp):
GTTTAATTTTTTAAGGTATTATTTATCTTTATTTGTAAAAGTTTAAATTTATCTTTTTAGATATG
ATTATACCA
Found at i:348004 original size:186 final size:185
Alignment explanation
Indices: 347639--348007 Score: 526
Period size: 186 Copynumber: 2.0 Consensus size: 185
347629 GATTATAGGA
* * *
347639 GTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTGGTTCTA
1 GTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGATTCTA
* *
347704 TTAAACGAGTTTAAATTGTTAAGGTATAATTTATTTTTATTTATAGAAGTTTAATTTATTTTTTA
66 TTAAACCAGTTTAAATTGTTAAGGTATAATTTATCTTTATTTATAGAAGTTTAATTTATTTTTTA
* ** *
347769 AGTATGATAATATGAATTTAAAATTTTGAAGGTATAATTTATTTTTATTTGTAAAT
131 AGTATGATAATATGAACTT-AAATTTTGAAAATATAATTTATCTTTATTTGTAAAT
347825 GTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGATT-TG
1 GTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGATTCT-
* * * *
347889 ATTATACCAGTTTAATTTTTTAAGGTATTATTTATCTTTATTTATAGAAGTTTAAATTTATCTTT
65 ATTAAACCAGTTTAAATTGTTAAGGTATAATTTATCTTTATTTATAGAAGTTT-AATTTAT-TTT
* * * * *
347954 TTAGGTATGATTATATGAGCTT-AATTTTTAAAATATTATTTATCTTTATTTGTA
128 TTAAGTATGATAATATGAACTTAAATTTTGAAAATATAATTTATCTTTATTTGTA
348008 TGATTATACG
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
185 1 0.01
186 133 0.82
187 7 0.04
188 21 0.13
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (185 bp):
GTTTAAATTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTATTTTTTGATTCTA
TTAAACCAGTTTAAATTGTTAAGGTATAATTTATCTTTATTTATAGAAGTTTAATTTATTTTTTA
AGTATGATAATATGAACTTAAATTTTGAAAATATAATTTATCTTTATTTGTAAAT
Found at i:348535 original size:72 final size:70
Alignment explanation
Indices: 348459--348666 Score: 242
Period size: 71 Copynumber: 2.9 Consensus size: 70
348449 TATTAAAGTG
* *
348459 TTTTTAGATATGATTGTATGAGTTTAAATTTTTAAAGTATATTT-TTTTTATTTGTAGAAATTTA
1 TTTTTAGGTATGATTGTATGAGTTTAAATTTTTAAAGTATATTTATTTTTATTTATAGAAA-TTA
348523 AATTTA
65 AATTTA
* ** *
348529 TTTTTTTGGTATGATTGTACAAGTTTAAATTTTTGAAGGTATAATTTATTTTTATTTATAGAAAT
1 -TTTTTAGGTATGATTGTATGAGTTTAAATTTTT-AAAGTAT-ATTTATTTTTATTTATAGAAAT
348594 TAAATTTA
63 TAAATTTA
** * *
348602 TTTTTAGGTATGATTACATGAGTTTAAATTTTTTATAAGTATAATTTAGTATTA-TTA-AGAAAT
1 TTTTTAGGTATGATTGTATGAGTTTAAA-TTTTTA-AAGTAT-ATTTATTTTTATTTATAGAAAT
348665 TA
63 TA
348667 TTGTTTTGGA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
71 37 0.31
72 33 0.28
73 33 0.28
74 15 0.13
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (70 bp):
TTTTTAGGTATGATTGTATGAGTTTAAATTTTTAAAGTATATTTATTTTTATTTATAGAAATTAA
ATTTA
Found at i:348645 original size:73 final size:73
Alignment explanation
Indices: 348459--348666 Score: 243
Period size: 72 Copynumber: 2.9 Consensus size: 73
348449 TATTAAAGTG
* ** *
348459 TTTTTAGATATGATTGTATGAGTTTAAA-TTTTTAAAGTAT-ATTT-TTTTTATTTGTAGAAATT
1 TTTTTAGGTATGATTACATGAGTTTAAATTTTTTAAAGTATAATTTATTTTTATTTATAGAAA-T
348521 TAAATTTAT
65 TAAATTTAT
* * *
348530 TTTTTTGGTATGATTGTACA--AGTTTAAATTTTTGAAGGTATAATTTATTTTTATTTATAGAAA
1 TTTTTAGGTATGA-T-TACATGAGTTTAAATTTTTTAAAGTATAATTTATTTTTATTTATAGAAA
348593 TTAAATTTA-
64 TTAAATTTAT
* *
348602 TTTTTAGGTATGATTACATGAGTTTAAATTTTTTATAAGTATAATTTAGTATTA-TTA-AGAAAT
1 TTTTTAGGTATGATTACATGAGTTTAAATTTTTTA-AAGTATAATTTATTTTTATTTATAGAAAT
348665 TA
65 TA
348667 TTGTTTTGGA
Statistics
Matches: 117, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
70 4 0.03
71 28 0.24
72 40 0.34
73 30 0.26
74 15 0.13
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (73 bp):
TTTTTAGGTATGATTACATGAGTTTAAATTTTTTAAAGTATAATTTATTTTTATTTATAGAAATT
AAATTTAT
Found at i:348875 original size:19 final size:21
Alignment explanation
Indices: 348848--348890 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
348838 TTATGCGAGT
348848 TTAA-ATTTTTA-GGGTATAA
1 TTAATATTTTTATGGGTATAA
* *
348867 TTAATTTTTTTATGGGTATGA
1 TTAATATTTTTATGGGTATAA
348888 TTA
1 TTA
348891 TACAAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
TTAATATTTTTATGGGTATAA
Found at i:348960 original size:72 final size:71
Alignment explanation
Indices: 348869--349365 Score: 360
Period size: 72 Copynumber: 6.9 Consensus size: 71
348859 GGGTATAATT
* * *
348869 AATTTTTTTATGGGTATGATTATACAAGTTTAAGTTTTTGAAGGTATAATTTATTTTTATTTGTA
1 AATTTGTTTA-GGGTATGATTATACGAGTTTAAATTTTT-AAGGTATAATTTATTTTTATTTGTA
348934 AAAGTTTA
64 AAAGTTTA
* * * * *
348942 AATTTGTTTAGGGAATGATTATATGAGTCTAAAGTTTGTAAGGTATAATTTATTTTTATTTATAA
1 AATTTGTTTAGGGTATGATTATACGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAA
349007 AAGTTTA
65 AAGTTTA
* *** * * * * ** *
349014 AATTTATTTTTTAGTTTGATTATACGAGGTCAAATTTTTAAGGTATTATTTATCATTATTTGTAG
1 AATTT-GTTTAGGGTATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAA
*
349079 AAGTGTA
65 AAGTTTA
* * * *
349086 AACTTCT-TTTAGAGGTATGACTATATC-AGTTTAAATTTTTTAAGCTGTAATTTATTTCTATTT
1 AA-TT-TGTTTAG-GGTATGATTATA-CGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTT
* *
349149 GTAGAATTTTA
61 GTAAAAGTTTA
* * * * * *
349160 AATTTGGTTTTTGGATATAATTA-ACGAGTTTAAATTTTTAAGATATGATTTA-TTTTATATGTA
1 AATTT-G-TTTAGGGTATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTA
*
349223 AAACTTTA
64 AAAGTTTA
** * * * * * *
349231 AATTTGTTTTCTGTTTTAATTATACGAGTTTAAGTTTTTAAGGTAT-TTTTATTTTTATTTGTAG
1 AATTTG-TTTAGGGTATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAA
*
349295 AGGTTTA
65 AAGTTTA
* * * * * *
349302 AATTTTTTTTTTGAGT-TAATTATAGGAG-TTAAATTTTTTTTAAGGTATAATTTAATTTTATTT
1 AA--TTTGTTTAGGGTATGATTATACGAGTTTAAA---TTTTTAAGGTATAATTTATTTTTATTT
349365 G
61 G
349366 CAAGATTAGT
Statistics
Matches: 334, Mismatches: 71, Indels: 37
0.76 0.16 0.08
Matches are distributed among these distances:
70 21 0.06
71 69 0.21
72 112 0.34
73 74 0.22
74 54 0.16
75 4 0.01
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (71 bp):
AATTTGTTTAGGGTATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAAA
AGTTTA
Found at i:349171 original size:146 final size:145
Alignment explanation
Indices: 348883--349239 Score: 362
Period size: 146 Copynumber: 2.5 Consensus size: 145
348873 TTTTTATGGG
* * ** *
348883 TATGATTATACAAGTTTAAGTTTTTGAAGGTATAATTTATTTTTATTTGTAAAAGTTTAAATTTG
1 TATGATTATACGAGTTTAAATTTTT-AAGGTATAATTTATCATTATTTGTAAAAGTGTAAATTTG
* * * *
348948 TTTAGGGAATGATTATATGAGTCTAAAGTTTGTAAGGTATAATTTATTTTTATTTATAAAAGTTT
65 TTTAGGGAATGACTATATCAGTCTAAAGTTTGTAAGCTATAATTTATTTCTATTTATAAAAGTTT
*
349013 AAATTTATTTTTTAG-
130 AAATTTAGTTTTTAGA
* * * * *
349028 TTTGATTATACGAGGTCAAATTTTTAAGGTATTATTTATCATTATTTGTAGAAGTGTAAACTTCT
1 TATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATCATTATTTGTAAAAGTGTAAA-TT-T
* * * * * * * *
349093 -TTTAGAGGTATGACTATATCAGTTTAAATTTTTTAAGCTGTAATTTATTTCTATTTGTAGAATT
64 GTTTAG-GGAATGACTATATCAGTCTAAAGTTTGTAAGCTATAATTTATTTCTATTTATAAAAGT
* *
349157 TTAAATTTGGTTTTTGGA
128 TTAAATTTAGTTTTTAGA
* * * * * * *
349175 TATAATTA-ACGAGTTTAAATTTTTAAGATATGATTTAT-TTTATATGTAAAACTTTAAATTTGT
1 TATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATCATTATTTGTAAAAGTGTAAATTTGT
349238 TT
66 TT
349240 TCTGTTTTAA
Statistics
Matches: 171, Mismatches: 36, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
143 1 0.01
144 35 0.20
145 42 0.25
146 87 0.51
147 6 0.04
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (145 bp):
TATGATTATACGAGTTTAAATTTTTAAGGTATAATTTATCATTATTTGTAAAAGTGTAAATTTGT
TTAGGGAATGACTATATCAGTCTAAAGTTTGTAAGCTATAATTTATTTCTATTTATAAAAGTTTA
AATTTAGTTTTTAGA
Found at i:361610 original size:38 final size:38
Alignment explanation
Indices: 361496--361614 Score: 166
Period size: 38 Copynumber: 3.1 Consensus size: 38
361486 ACCAACCGCA
* *
361496 AGCCACCAGCCAATTCCAAATTGAATTCTCTAGTTGCC
1 AGCCACCAGCCAATTCCAAATTGAATTCTCTAGTCGTC
* *
361534 AGCCACCGGCCAATTCCAAATTAAATTCTCTAGTCGTC
1 AGCCACCAGCCAATTCCAAATTGAATTCTCTAGTCGTC
* * **
361572 AGCCACCAGCCAATTTCAAATTGAATTCTTTAACCGTC
1 AGCCACCAGCCAATTCCAAATTGAATTCTCTAGTCGTC
361610 AGCCA
1 AGCCA
361615 ATTCAATTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 71 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (38 bp):
AGCCACCAGCCAATTCCAAATTGAATTCTCTAGTCGTC
Found at i:366245 original size:38 final size:38
Alignment explanation
Indices: 366171--366322 Score: 126
Period size: 38 Copynumber: 4.0 Consensus size: 38
366161 TGCCAGTCAC
* ****
366171 CAGCCAATTCCCAATTGAATTCTCTGGTTG-CGAGCCAA
1 CAGCCAATTCCAAATTGAATTCTCTAACCGTC-AGCCAA
* ** *
366209 CGGCCAATTCCAAATTGAATTCTCTAGTCGTCAGCCAC
1 CAGCCAATTCCAAATTGAATTCTCTAACCGTCAGCCAA
* * * * * **
366247 CAACCAATTTCAAATTGAATTTTTTAACCGTCAACCGC
1 CAGCCAATTCCAAATTGAATTCTCTAACCGTCAGCCAA
* *
366285 CAGCCAATTTCAAATTGAATTCTTTAACCGTCAGCCAA
1 CAGCCAATTCCAAATTGAATTCTCTAACCGTCAGCCAA
366323 TTCAATTTGA
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
38 93 0.99
39 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (38 bp):
CAGCCAATTCCAAATTGAATTCTCTAACCGTCAGCCAA
Found at i:368472 original size:28 final size:28
Alignment explanation
Indices: 368411--368474 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
368401 CTTTATGGTC
*
368411 TCTTAATTAGAATTTTACATGATTAAAT
1 TCTTAATTAGAATTTTACATGATAAAAT
*
368439 TCTTAATTA-AATTTTATTATGTATAAAAT
1 TCTTAATTAGAATTTTA-CATG-ATAAAAT
368468 T-TTAATT
1 TCTTAATT
368475 GATCACTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.22
28 18 0.56
29 7 0.22
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (28 bp):
TCTTAATTAGAATTTTACATGATAAAAT
Found at i:370286 original size:24 final size:24
Alignment explanation
Indices: 370259--370334 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
370249 CTTCTATTAA
* *
370259 CCTCTTCAGTCCTTCCACTGTAGG
1 CCTCTTCAGTCCTTTCTCTGTAGG
* *
370283 CCTCTTCAGTCCTTTTTCTGTACG
1 CCTCTTCAGTCCTTTCTCTGTAGG
*
370307 CCTCTTCATTCCTTTCTCTGTAGG
1 CCTCTTCAGTCCTTTCTCTGTAGG
370331 CCTC
1 CCTC
370335 AGTTTCAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.09, C:0.37, G:0.13, T:0.41
Consensus pattern (24 bp):
CCTCTTCAGTCCTTTCTCTGTAGG
Found at i:371960 original size:19 final size:20
Alignment explanation
Indices: 371920--371962 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
371910 CTTTTCTTAA
* *
371920 CTTTGTTTTCTAGTTGTTGC
1 CTTTATTTTATAGTTGTTGC
371940 CTTTATTTTATAGTT-TTGC
1 CTTTATTTTATAGTTGTTGC
371959 CTTT
1 CTTT
371963 TTATCATTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (20 bp):
CTTTATTTTATAGTTGTTGC
Found at i:372369 original size:106 final size:106
Alignment explanation
Indices: 372256--372447 Score: 375
Period size: 106 Copynumber: 1.8 Consensus size: 106
372246 TATAAAGGAT
*
372256 AAATCCAAACTATAATTATATGATTTGTTTAAAATAAAAGGATAAATAAATAATTATAAAATATT
1 AAATCCAAACTATAATTATATGATTTGTTTAAAACAAAAGGATAAATAAATAATTATAAAATATT
372321 TCATAAATAAAAATATTTAAGAACCCGAAATTATAATAAAA
66 TCATAAATAAAAATATTTAAGAACCCGAAATTATAATAAAA
372362 AAATCCAAACTATAATTATATGATTTGTTTAAAACAAAAGGATAAATAAATAATTATAAAATATT
1 AAATCCAAACTATAATTATATGATTTGTTTAAAACAAAAGGATAAATAAATAATTATAAAATATT
372427 TCATAAATAAAAATATTTAAG
66 TCATAAATAAAAATATTTAAG
372448 TTATGAAAAG
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 85 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (106 bp):
AAATCCAAACTATAATTATATGATTTGTTTAAAACAAAAGGATAAATAAATAATTATAAAATATT
TCATAAATAAAAATATTTAAGAACCCGAAATTATAATAAAA
Found at i:372495 original size:23 final size:22
Alignment explanation
Indices: 372459--372501 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
372449 TATGAAAAGG
*
372459 TATTTATAATTATTATCAATTA
1 TATTAATAATTATTATCAATTA
372481 TATTAATAATGTATTATCAAT
1 TATTAATAAT-TATTATCAAT
372502 AAAAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTAATAATTATTATCAATTA
Found at i:372510 original size:23 final size:22
Alignment explanation
Indices: 372464--372518 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
372454 AAAGGTATTT
* * *
372464 ATAATTATTATCAATTATATTA
1 ATAATTATTATCAATAAAAGTA
372486 ATAATGTATTATCAATAAAAGTA
1 ATAAT-TATTATCAATAAAAGTA
372509 ATTAA-TATTA
1 A-TAATTATTA
372519 AATCTTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 10 0.36
23 15 0.54
24 3 0.11
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
ATAATTATTATCAATAAAAGTA
Found at i:372973 original size:15 final size:15
Alignment explanation
Indices: 372955--372984 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
372945 TATAATATCC
*
372955 AAATGAAATATATTT
1 AAATAAAATATATTT
372970 AAATAAAATATATTT
1 AAATAAAATATATTT
372985 TCAATTCCAA
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:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATAAAATATATTT
Found at i:374122 original size:22 final size:22
Alignment explanation
Indices: 374081--374123 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
374071 AAAAGTTTTG
* *
374081 AAAATTTTCTAAACCCTAACCC
1 AAAAATTTCTAAAACCTAACCC
*
374103 AAAAATTTCTAAAACTTAACC
1 AAAAATTTCTAAAACCTAACC
374124 TTTGTTTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAATTTCTAAAACCTAACCC
Found at i:376656 original size:31 final size:33
Alignment explanation
Indices: 376621--376692 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
376611 TTCAATAATT
376621 AATTATTAATCAAATT-AATCAT-ATTTTTTTG
1 AATTATTAATCAAATTGAATCATAATTTTTTTG
* * * *
376652 AATTATTATTCGAATTGAATTATAAATTTTTTTT
1 AATTATTAATCAAATTGAATCAT-AATTTTTTTG
376686 AATTATT
1 AATTATT
376693 TCAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.41
32 5 0.15
34 15 0.44
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (33 bp):
AATTATTAATCAAATTGAATCATAATTTTTTTG
Found at i:381095 original size:23 final size:24
Alignment explanation
Indices: 381068--381118 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
381058 AATATTTAAT
*
381068 TTATGAAATGGTATTTATAAT-TA
1 TTATGAAATGGTATTAATAATGTA
* **
381091 TTATGCAATTTTATTAATAATGTA
1 TTATGAAATGGTATTAATAATGTA
381115 TTAT
1 TTAT
381119 CAATTAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (24 bp):
TTATGAAATGGTATTAATAATGTA
Found at i:381122 original size:23 final size:23
Alignment explanation
Indices: 381079--381123 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
381069 TATGAAATGG
*
381079 TATTTATAATTATTATGCAATTT
1 TATTAATAATTATTATGCAATTT
381102 TATTAATAATGTATTAT-CAATT
1 TATTAATAAT-TATTATGCAATT
381124 AATGTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTAATAATTATTATGCAATTT
Found at i:382600 original size:2 final size:2
Alignment explanation
Indices: 382591--382631 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
382581 AAAAAAGTTG
382591 TA TA -A 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
382632 AACGTTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:383305 original size:16 final size:16
Alignment explanation
Indices: 383276--383308 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
383266 ATTCAAAAAA
383276 ATTCAAATACAAAATG
1 ATTCAAATACAAAATG
383292 ATTCAAAT-CTAAAATG
1 ATTCAAATAC-AAAATG
383308 A
1 A
383309 ATTTAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (16 bp):
ATTCAAATACAAAATG
Found at i:386931 original size:26 final size:27
Alignment explanation
Indices: 386857--386934 Score: 106
Period size: 28 Copynumber: 2.9 Consensus size: 27
386847 AAATGCCACC
386857 CTTTGTATTTGTCAAATATGGTGGTTT
1 CTTTGTATTTGTCAAATATGGTGGTTT
386884 CGTTTGTATTTGTCAAATATGGTGGTTAT
1 C-TTTGTATTTGTCAAATATGGTGGTT-T
* *
386913 -TTT-TATTTGTAAAAAATGGTGG
1 CTTTGTATTTGTCAAATATGGTGG
386935 CTTGTTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
26 17 0.36
27 4 0.09
28 25 0.53
29 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (27 bp):
CTTTGTATTTGTCAAATATGGTGGTTT
Found at i:389514 original size:21 final size:22
Alignment explanation
Indices: 389485--389530 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
389475 TGTTCAGACA
** *
389485 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
389507 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
389528 AGT
1 AGT
389531 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:391400 original size:19 final size:19
Alignment explanation
Indices: 391376--391412 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
391366 AGGTGGAGAT
391376 TTATGGTGGATGGCTATCC
1 TTATGGTGGATGGCTATCC
*
391395 TTATGGTGGGTGGCTATC
1 TTATGGTGGATGGCTATC
391413 TCTAGTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.38
Consensus pattern (19 bp):
TTATGGTGGATGGCTATCC
Found at i:391494 original size:28 final size:28
Alignment explanation
Indices: 391432--391486 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
391422 CAAATACCAC
391432 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
391460 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
391487 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:391527 original size:24 final size:24
Alignment explanation
Indices: 391468--391536 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
391458 TTCCTTTGTA
* * *
391468 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
391494 TTTGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
391518 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
391537 AATTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 22 0.59
26 15 0.41
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:394760 original size:82 final size:82
Alignment explanation
Indices: 394623--394870 Score: 388
Period size: 82 Copynumber: 3.0 Consensus size: 82
394613 ATAGTGGCTA
* * **
394623 CAACATGATGCCACAGCTGTTATTTGCAGTTTTGGCTCTCTCCATATCACGATACATGACCAATA
1 CAACATGATGCCACAGCTGTTATTTGCGGTTTTGGCTCTCTCCATGTCAATATACATGACCAATA
*
394688 TTTATCACAATTGATCG
66 TTTATAACAATTGATCG
* *
394705 CAACATAATGCCACAGTTGTTATTTGCGGTTTTGGCTCTCTCCATGTCAATATACATGACCAATA
1 CAACATGATGCCACAGCTGTTATTTGCGGTTTTGGCTCTCTCCATGTCAATATACATGACCAATA
394770 TTTATAACAATTGATCG
66 TTTATAACAATTGATCG
* * *
394787 CAACATGATGCCACAACTGTTATTTACGGTTTTAGCTCTCTCCATGTCAATATACATGACCAATA
1 CAACATGATGCCACAGCTGTTATTTGCGGTTTTGGCTCTCTCCATGTCAATATACATGACCAATA
* *
394852 TTTATTATAATTGATCG
66 TTTATAACAATTGATCG
394869 CA
1 CA
394871 GTAACATTAA
Statistics
Matches: 152, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 152 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CAACATGATGCCACAGCTGTTATTTGCGGTTTTGGCTCTCTCCATGTCAATATACATGACCAATA
TTTATAACAATTGATCG
Found at i:395371 original size:24 final size:24
Alignment explanation
Indices: 395343--395388 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
395333 AATAAAAATT
395343 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* *
395367 AGCCACCATTTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
395389 AAATAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.28, G:0.07, T:0.22
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:395416 original size:28 final size:28
Alignment explanation
Indices: 395369--395446 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
395359 AAACAACAAG
* *
395369 CCACCATTTTTTAC-AA-ACAAA-AATAA
1 CCACCATATTTGACAAATACAAAGAA-AA
*
395395 CCACCATATTTGACAAATACAAAGGAAA
1 CCACCATATTTGACAAATACAAAGAAAA
395423 CCACCATATTTGACAAATACAAAG
1 CCACCATATTTGACAAATACAAAG
395447 GGTGGTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 12 0.26
27 2 0.04
28 31 0.67
29 1 0.02
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.22
Consensus pattern (28 bp):
CCACCATATTTGACAAATACAAAGAAAA
Found at i:395447 original size:28 final size:28
Alignment explanation
Indices: 395393--395447 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
395383 AAACAAAAAT
395393 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
395421 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
395448 GTGGTATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:395491 original size:19 final size:19
Alignment explanation
Indices: 395467--395503 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
395457 GTTGACTAGA
395467 GATAGCCACCCACCATAAG
1 GATAGCCACCCACCATAAG
*
395486 GATAGCCATCCACCATAA
1 GATAGCCACCCACCATAA
395504 ATCTCCACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.35, G:0.14, T:0.14
Consensus pattern (19 bp):
GATAGCCACCCACCATAAG
Found at i:397380 original size:21 final size:22
Alignment explanation
Indices: 397342--397387 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
397332 ATCTGTTGAA
* **
397342 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
397363 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
397385 ACT
1 ACT
397388 TGTCTTAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:399936 original size:24 final size:24
Alignment explanation
Indices: 399909--399954 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
399899 AATAAAAATT
399909 AGCCACCAATTTCGACAAACAACA
1 AGCCACCAATTTCGACAAACAACA
* **
399933 AGCCACCATTTTTTACAAACAA
1 AGCCACCAATTTCGACAAACAA
399955 AAATAACCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (24 bp):
AGCCACCAATTTCGACAAACAACA
Found at i:399982 original size:28 final size:28
Alignment explanation
Indices: 399935--400012 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
399925 AAACAACAAG
* *
399935 CCACCATTTTTTAC-AA-ACAAA-AATAA
1 CCACCATATTTGACAAATACAAAGAA-AA
*
399961 CCACCATATTTGACAAATACAAAGGAAA
1 CCACCATATTTGACAAATACAAAGAAAA
399989 CCACCATATTTGACAAATACAAAG
1 CCACCATATTTGACAAATACAAAG
400013 GGTGGTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 12 0.26
27 2 0.04
28 31 0.67
29 1 0.02
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.22
Consensus pattern (28 bp):
CCACCATATTTGACAAATACAAAGAAAA
Found at i:400013 original size:28 final size:28
Alignment explanation
Indices: 399959--400013 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
399949 AAACAAAAAT
399959 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
399987 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
400014 GTGGTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:405101 original size:18 final size:17
Alignment explanation
Indices: 405080--405128 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 17
405070 ATAAATATCG
405080 ATTATAAAATAAATTAAA
1 ATTATAAAATAAATT-AA
405098 ATTATAAAAT-AA-T-A
1 ATTATAAAATAAATTAA
405112 ATTATAAAATCAAATTA
1 ATTATAAAAT-AAATTA
405129 TAATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
14 11 0.41
16 3 0.11
17 3 0.11
18 10 0.37
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTATAAAATAAATTAA
Found at i:405107 original size:14 final size:13
Alignment explanation
Indices: 405088--405131 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
405078 CGATTATAAA
*
405088 ATAAATTAAAATT
1 ATAAAATAAAATT
405101 ATAAAATAATAATT
1 ATAAAATAA-AATT
*
405115 ATAAAATCAAATT
1 ATAAAATAAAATT
405128 ATAA
1 ATAA
405132 TATTTAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAAATAAAATT
Found at i:405108 original size:32 final size:35
Alignment explanation
Indices: 405063--405128 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 35
405053 TATTATGATT
*
405063 AATTATAATAAAT-ATCGATTATAAAAT-AAATTAA
1 AATTATAATAAATAAT-AATTATAAAATCAAATTAA
405097 AATTAT-A-AAATAATAATTATAAAATCAAATTA
1 AATTATAATAAATAATAATTATAAAATCAAATTA
405129 TAATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 14 0.48
33 9 0.31
34 6 0.21
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.35
Consensus pattern (35 bp):
AATTATAATAAATAATAATTATAAAATCAAATTAA
Found at i:405311 original size:18 final size:17
Alignment explanation
Indices: 405279--405328 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
405269 GCTGGTACTT
* *
405279 TTTTTTAATACATTACA
1 TTTTTAAATAAATTACA
* *
405296 TTTTTATTATAAATTATA
1 TTTTTA-AATAAATTACA
405314 TTTTTAAATAAATTA
1 TTTTTAAATAAATTA
405329 TAATATATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTTAAATAAATTACA
Found at i:405347 original size:35 final size:37
Alignment explanation
Indices: 405308--405394 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
405298 TTTATTATAA
*
405308 ATTATATTTTTA-AATAAA-TTATAATATATAAATTT
1 ATTATATTTATATAATAAATTTATAATATATAAATTT
* *
405343 ATTATATTTATATATTAAATTTATATTATATAAAATTT
1 ATTATATTTATATAATAAATTTATAATATAT-AAATTT
*
405381 -TAAATATTTATATA
1 AT-TATATTTATATA
405395 TATATATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
35 11 0.25
36 5 0.11
37 11 0.25
38 17 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (37 bp):
ATTATATTTATATAATAAATTTATAATATATAAATTT
Found at i:405406 original size:38 final size:36
Alignment explanation
Indices: 405322--405444 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 36
405312 TATTTTTAAA
* *
405322 TAAATTATAATATATAAATTTATTATATTTATATAT
1 TAAATTATATTATATAAATTTATAATATTTATATAT
405358 TAAATTTATATTATATAAAATTT-TAAATATTTATATAT
1 TAAA-TTATATTATAT-AAATTTAT-AATATTTATATAT
* * *
405396 ATATATTATATTTATTTTAATTTTATATATCATATTATAT-T
1 -TAAATTATA-TTA-TATAAATTTATA-AT-AT-TTATATAT
405437 TAAATTAT
1 TAAATTAT
405445 TTTTTATTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
36 4 0.06
37 11 0.15
38 23 0.32
39 12 0.17
40 12 0.17
41 3 0.04
42 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (36 bp):
TAAATTATATTATATAAATTTATAATATTTATATAT
Found at i:405430 original size:24 final size:25
Alignment explanation
Indices: 405395--405442 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
405385 TATTTATATA
* *
405395 TATATATTATATT-TATTTTAATTT
1 TATATATCATATTATATTTAAATTT
405419 TATATATCATATTATATTTAAATT
1 TATATATCATATTATATTTAAATT
405443 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATATCATATTATATTTAAATTT
Found at i:405446 original size:57 final size:58
Alignment explanation
Indices: 405322--405446 Score: 141
Period size: 57 Copynumber: 2.2 Consensus size: 58
405312 TATTTTTAAA
* *
405322 TAAATTATAATATATAAATTTATTATATTTATATATTAAATTTATATTATATAAAATTT
1 TAAATTAT-TTATATAAATATATTATATTTATATATTAAATTTATATTATATAAAATTT
* * **
405381 TAAA-TATTTATATATATATATTATATTTAT-T-TTAATTTTATA-TATCATATTATATT
1 TAAATTATTTATATAAATATATTATATTTATATATTAAATTTATATTAT-ATAAAAT-TT
405437 TAAATTATTT
1 TAAATTATTT
405447 TTTATTTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
54 3 0.05
55 15 0.26
56 7 0.12
57 25 0.44
58 3 0.05
59 4 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (58 bp):
TAAATTATTTATATAAATATATTATATTTATATATTAAATTTATATTATATAAAATTT
Found at i:405448 original size:29 final size:28
Alignment explanation
Indices: 405342--405448 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
405332 TATATAAATT
**
405342 TATTATATTTATATATTAAATTTATAT-TA
1 TATTATATTTA-A-ATTATTTTTATATATA
* * *
405371 TATAAAATTTTAAA-TATTTATATATATA
1 TATTATA-TTTAAATTATTTTTATATATA
** *
405399 TATTATATTTATTTTAATTTTATATATCA
1 TATTATATTTAAATTATTTTTATATAT-A
405428 TATTATATTTAAATTATTTTT
1 TATTATATTTAAATTATTTTT
405449 TATTTTATGT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
27 12 0.20
28 19 0.32
29 25 0.42
30 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTATATTTAAATTATTTTTATATATA
Found at i:406330 original size:13 final size:13
Alignment explanation
Indices: 406314--406422 Score: 60
Period size: 13 Copynumber: 8.1 Consensus size: 13
406304 ATAAATTTAT
406314 TATATTTATATTA
1 TATATTTATATTA
*
406327 TATAAAATTT-TA-AA
1 TAT---ATTTATATTA
*
406341 TATTTTTATATTTA
1 TATATTTATA-TTA
* *
406355 TATCATATTTTATTT
1 TAT-AT-TTATATTA
*
406370 TATTTTTATATTA
1 TATATTTATATTA
* *
406383 TATTTTTATATCA
1 TATATTTATATTA
* *
406396 TATTTTTATATTT
1 TATATTTATATTA
*
406409 TATATTTATTTTA
1 TATATTTATATTA
406422 T
1 T
406423 TTTTATTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
11 3 0.04
12 2 0.03
13 43 0.59
14 9 0.12
15 8 0.11
16 8 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TATATTTATATTA
Found at i:406406 original size:26 final size:24
Alignment explanation
Indices: 406340--406437 Score: 89
Period size: 26 Copynumber: 4.2 Consensus size: 24
406330 AAAATTTTAA
*
406340 ATATTT-TTATA--TTTATATCAT
1 ATATTTATTATATTTTTATATTAT
*
406361 AT-TTTATTTTATTTTTATATTAT
1 ATATTTATTATATTTTTATATTAT
* *
406384 ATTTTTATATCATATTTTTATATTTT
1 ATATTTAT-T-ATATTTTTATATTAT
*
406410 ATATTTATTTTATTTTTAT-TTATT
1 ATATTTATTATATTTTTATATTA-T
406434 ATAT
1 ATAT
406438 CATATTGTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
20 3 0.05
21 6 0.10
23 13 0.21
24 19 0.30
25 2 0.03
26 20 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
ATATTTATTATATTTTTATATTAT
Found at i:406421 original size:44 final size:44
Alignment explanation
Indices: 406359--406443 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 44
406349 TATTTATATC
406359 ATATTTTATTTTATTTTTATATTATATTT-TTATATCATATTTTT
1 ATATTTTATTTTATTTTTAT-TTATATTTATTATATCATATTTTT
*
406403 ATATTTTATATTTA-TTTTATTTTTATTTATTATATCATATT
1 ATATTTTAT-TTTATTTTTATTTATATTTATTATATCATATT
406444 GTTAAAAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
43 7 0.18
44 27 0.71
45 4 0.11
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.69
Consensus pattern (44 bp):
ATATTTTATTTTATTTTTATTTATATTTATTATATCATATTTTT
Found at i:406427 original size:11 final size:11
Alignment explanation
Indices: 406362--406430 Score: 66
Period size: 11 Copynumber: 5.7 Consensus size: 11
406352 TTATATCATA
406362 TTTTATTTTAT
1 TTTTATTTTAT
406373 TTTTATATTATAT
1 TTTTAT-TT-TAT
*
406386 TTTTATATCATATT
1 TTTTAT-T-TTA-T
406400 TTTATATTTTAT
1 TTT-TATTTTAT
*
406412 ATTTATTTTAT
1 TTTTATTTTAT
406423 TTTTATTT
1 TTTTATTT
406431 ATTATATCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
11 21 0.43
12 5 0.10
13 15 0.31
14 5 0.10
15 3 0.06
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:406435 original size:13 final size:14
Alignment explanation
Indices: 406341--406435 Score: 73
Period size: 13 Copynumber: 7.2 Consensus size: 14
406331 AAATTTTAAA
406341 TATTTTTATATTTAT
1 TATTTTTATA-TTAT
*
406356 ATCATATTT-TATT-T
1 -T-ATTTTTATATTAT
406370 TATTTTTATATTA-
1 TATTTTTATATTAT
*
406383 TATTTTTATATCA-
1 TATTTTTATATTAT
406396 TATTTTTATATT-T
1 TATTTTTATATTAT
*
406409 TA-TATT-TATT-T
1 TATTTTTATATTAT
406420 TATTTTTAT-TTAT
1 TATTTTTATATTAT
406433 TAT
1 TAT
406436 ATCATATTGT
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
11 7 0.11
12 13 0.20
13 35 0.53
14 1 0.02
15 2 0.03
16 3 0.05
17 5 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTTATATTAT
Found at i:406792 original size:17 final size:16
Alignment explanation
Indices: 406746--406785 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
406736 TTACAAAAAT
*
406746 AAAAAATTTAAATTTG
1 AAAAAATTTAAACTTG
406762 AAAAAATTTAAACTTG
1 AAAAAATTTAAACTTG
406778 AAAAAATT
1 AAAAAATT
406786 CGAAACTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAAATTTAAACTTG
Found at i:407027 original size:23 final size:23
Alignment explanation
Indices: 406984--407027 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
406974 ATATTTAAGG
* *
406984 TATTTATAATTATTATTCAATTA
1 TATTAATAATTATTATCCAATTA
407007 TATTAATAATATATTA-CCAAT
1 TATTAATAAT-TATTATCCAAT
407028 AAAAGTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTAATAATTATTATCCAATTA
Found at i:408714 original size:394 final size:394
Alignment explanation
Indices: 407979--408731 Score: 1188
Period size: 394 Copynumber: 1.9 Consensus size: 394
407969 TGTTGTCGCA
*
407979 TTTGGTGGTAGAAATAATGACAATAAACTTAAAAAATCTTATACACTCACTTTAAAGGATTTTTG
1 TTTGGTAGTAGAAATAATGACAATAAACTTAAAAAATCTTATACACTCACTTTAAAGGATTTTTG
* * * * * *
408044 ACATTGATTTGAAGAAAATTGTTTGAAGGTTAATAAAAATGAGAAGGAAGTAAAGTTTAATGATG
66 ACACTAATTTGAAGAAAATGGATTAAAGGTTAATAAAAATGAGAAGGAAATAAAGTTTAATGATG
*
408109 TTGGGAGTGATTTAGGTGATGATTATGAAGAGAGGTTGGTAAATGTACCATAGGCTACTAATAAT
131 TTGGGAGTGATTTAGGTGATGATTATGAAGAGAGGTTAGTAAATGTACCATAGGCTACTAATAAT
* * *
408174 TCAGATGGAAATGATGAATTAAAGGTTGCTAAGGAAATTTTAAAAGACAATATTTAAAGAAAAAA
196 TCAAATGGAAATGATGAATTAAAGGTTGCTAAGAAAATTTTAAAAGACAAGATTTAAAGAAAAAA
* *
408239 GCAATTAGATGTTCATAATGATGACAACAAAGATAAAGATGGAGATGATGCTGTTAATATTGAGG
261 GCAATTAGATGTTCATAATAATGACAACAAAGATAAAGATGGAGATGATGATGTTAATATTGAGG
408304 CTGAGGAGAGAGTAGTTGCATCCCAATGTTCTAGATGTAACATTAAATAAGACTAGTAAAAATGT
326 CTGAGGAGAGAGTAGTTGCATCCCAATGTTCTAGATGTAACATTAAATAAGACTAGTAAAAATGT
408369 TGAG
391 TGAG
* * *
408373 TTTGGTAGTAGAAATAATGACAATGAACTTAAAAGATCTTATACACTCACTTTAGAGGATTTTTG
1 TTTGGTAGTAGAAATAATGACAATAAACTTAAAAAATCTTATACACTCACTTTAAAGGATTTTTG
* * *
408438 ACACTAATTTGAAGAAGATGGATTAAAGGTTAATGAAAATGAGAAGGAAATGAAGTTTAATGATG
66 ACACTAATTTGAAGAAAATGGATTAAAGGTTAATAAAAATGAGAAGGAAATAAAGTTTAATGATG
408503 TTGGGAGTGATTTAGGTGATGATTATGAAGAGAGGTTAGTAAATGTACCATAAGG-TACTAATAA
131 TTGGGAGTGATTTAGGTGATGATTATGAAGAGAGGTTAGTAAATGTACCAT-AGGCTACTAATAA
* *
408567 TTCAAATGGAAATGATGAATTAAAGGTTGCTAA-AAAATTTTTGAAGGACAAGATTCT-AAGAAA
195 TTCAAATGGAAATGATGAATTAAAGGTTGCTAAGAAAA-TTTTAAAAGACAAGATT-TAAAGAAA
* * * * * * *
408630 AAAGCAGTTAGATGTTTATAATAATTATAACAAAGATGAATATGGAGATGATGATGTTAATGTTG
258 AAAGCAATTAGATGTTCATAATAATGACAACAAAGATAAAGATGGAGATGATGATGTTAATATTG
* *
408695 AGGTTGAGGAGAGAGTAGTTGCATCCTAATGTTCTAG
323 AGGCTGAGGAGAGAGTAGTTGCATCCCAATGTTCTAG
408732 GCCGAATCTT
Statistics
Matches: 326, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
393 3 0.01
394 319 0.98
395 4 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (394 bp):
TTTGGTAGTAGAAATAATGACAATAAACTTAAAAAATCTTATACACTCACTTTAAAGGATTTTTG
ACACTAATTTGAAGAAAATGGATTAAAGGTTAATAAAAATGAGAAGGAAATAAAGTTTAATGATG
TTGGGAGTGATTTAGGTGATGATTATGAAGAGAGGTTAGTAAATGTACCATAGGCTACTAATAAT
TCAAATGGAAATGATGAATTAAAGGTTGCTAAGAAAATTTTAAAAGACAAGATTTAAAGAAAAAA
GCAATTAGATGTTCATAATAATGACAACAAAGATAAAGATGGAGATGATGATGTTAATATTGAGG
CTGAGGAGAGAGTAGTTGCATCCCAATGTTCTAGATGTAACATTAAATAAGACTAGTAAAAATGT
TGAG
Found at i:411000 original size:20 final size:20
Alignment explanation
Indices: 410975--411017 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
410965 ATTAATAAGT
410975 AATAAATA-GAAAAATAAATA
1 AATAAATAGGAAAAA-AAATA
*
410995 AATAAATAGGCAAAAAAATA
1 AATAAATAGGAAAAAAAATA
411015 AAT
1 AAT
411018 TGGATCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (20 bp):
AATAAATAGGAAAAAAAATA
Done.