Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 142 of 160
Found at i:26832035 original size:21 final size:20
Alignment explanation
Indices: 26832011--26832102 Score: 77
Period size: 21 Copynumber: 4.6 Consensus size: 20
26832001 TGCAATAATG
26832011 ATATAATATATCATGCAATTA
1 ATATAA-ATATCATGCAATTA
26832032 ATATAAACTATCATGCAATTA
1 ATATAAA-TATCATGCAATTA
* * *
26832053 AGAAAAAATATCAGGCAAATTA
1 A-TATAAATATCATGC-AATTA
26832075 AT-TAACA-ATCATGCAA--A
1 ATATAA-ATATCATGCAATTA
26832092 A-ATAAATATCA
1 ATATAAATATCA
26832103 CAAATAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.02
17 9 0.15
19 2 0.03
20 9 0.15
21 28 0.47
22 10 0.17
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (20 bp):
ATATAAATATCATGCAATTA
Found at i:26832164 original size:42 final size:43
Alignment explanation
Indices: 26832099--26832200 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
26832089 AAAAATAAAT
*
26832099 ATCACAAATAAA-ATTATATATAATTATGCAATCAAACATAATC
1 ATCACAAATAAATA-TATAGATAATTATGCAATCAAACATAATC
* * * *
26832142 A-CACAAATAAATATATAGATAATTATGTAATTAAATATAGTC
1 ATCACAAATAAATATATAGATAATTATGCAATCAAACATAATC
26832184 ATC-CAAATAAATATATA
1 ATCACAAATAAATATATA
26832201 ATCATACCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 49 0.94
43 3 0.06
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.31
Consensus pattern (43 bp):
ATCACAAATAAATATATAGATAATTATGCAATCAAACATAATC
Found at i:26832305 original size:25 final size:25
Alignment explanation
Indices: 26832241--26832299 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 25
26832231 GTTAAATACA
* *
26832241 AAAAATAGGAGAATAAAAAACAAAAAT
1 AAAAA-AGG-GAAAAAAAAAAAAAAAT
26832268 AAAAAAGGGAAAAAAAAAAAAAAAGT
1 AAAAAAGGGAAAAAAAAAAAAAAA-T
26832294 AAAAAA
1 AAAAAA
26832300 TGAAAACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.48
26 10 0.34
27 5 0.17
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.07
Consensus pattern (25 bp):
AAAAAAGGGAAAAAAAAAAAAAAAT
Found at i:26836129 original size:10 final size:11
Alignment explanation
Indices: 26836115--26836143 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
26836105 TCAATTTTTG
26836115 ATTATTTTATT
1 ATTATTTTATT
26836126 -TTATTTTATT
1 ATTATTTTATT
26836136 ATTATTTT
1 ATTATTTT
26836144 TGAGCAGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:26836999 original size:3 final size:3
Alignment explanation
Indices: 26836993--26837019 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
26836983 AATAATAATA
26836993 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
26837020 CATCAATAAC
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:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26840307 original size:12 final size:12
Alignment explanation
Indices: 26840290--26840315 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26840280 TATAAATATT
26840290 AATTTTAAATTA
1 AATTTTAAATTA
26840302 AATTTTAAATTA
1 AATTTTAAATTA
26840314 AA
1 AA
26840316 AAGTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTTTAAATTA
Found at i:26850398 original size:17 final size:17
Alignment explanation
Indices: 26850376--26850409 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
26850366 TTACAGTTAT
26850376 TTTAAACCACAAGAAGG
1 TTTAAACCACAAGAAGG
26850393 TTTAAACCACAAGAAGG
1 TTTAAACCACAAGAAGG
26850410 CAAAACGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (17 bp):
TTTAAACCACAAGAAGG
Found at i:26855133 original size:10 final size:10
Alignment explanation
Indices: 26855120--26855148 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
26855110 ACTAGGCAAG
26855120 GCAGGGCAGA
1 GCAGGGCAGA
26855130 GCAGGGCAGA
1 GCAGGGCAGA
26855140 GCAGGGCAG
1 GCAGGGCAG
26855149 GCACTGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.21, G:0.52, T:0.00
Consensus pattern (10 bp):
GCAGGGCAGA
Found at i:26858047 original size:17 final size:18
Alignment explanation
Indices: 26858008--26858049 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
26857998 ATATTTATAG
*
26858008 AAAAAAAAAGTTTTCAAT
1 AAAAAAAAAGTATTCAAT
* *
26858026 TAAAAAAATGTATT-AAT
1 AAAAAAAAAGTATTCAAT
26858043 AAAAAAA
1 AAAAAAA
26858050 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAAAAAGTATTCAAT
Found at i:26859899 original size:19 final size:20
Alignment explanation
Indices: 26859865--26859903 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
26859855 ATTATTTGTT
26859865 ATTATTTAATTTTTAAAATA
1 ATTATTTAATTTTTAAAATA
*
26859885 ATTATTTTA-TTTTAAAATA
1 ATTATTTAATTTTTAAAATA
26859904 TATATCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATTTAATTTTTAAAATA
Found at i:26860393 original size:21 final size:22
Alignment explanation
Indices: 26860352--26860393 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
26860342 TATTCACATA
*
26860352 AAAATTATAAGATTTTTTTATT
1 AAAATTATAAGATTTTATTATT
*
26860374 AAAATTTTAA-ATTTTATTAT
1 AAAATTATAAGATTTTATTAT
26860394 CTTTATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
AAAATTATAAGATTTTATTATT
Found at i:26860485 original size:17 final size:17
Alignment explanation
Indices: 26860460--26860500 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
26860450 ACCTATATAT
26860460 ATATATTAGAA-AGAAAA
1 ATATATTAGAATA-AAAA
*
26860477 ATATTTTAGAATAAAAA
1 ATATATTAGAATAAAAA
26860494 ATATATT
1 ATATATT
26860501 TTTATTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (17 bp):
ATATATTAGAATAAAAA
Found at i:26867049 original size:2 final size:2
Alignment explanation
Indices: 26867042--26867078 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26867032 GCAAAAGGAT
26867042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26867079 GCTTCAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26871612 original size:2 final size:2
Alignment explanation
Indices: 26871607--26871655 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
26871597 CTCTCTCTAC
26871607 AT AT AT AT AT AT AT AT A- AGT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
26871649 AT AT AT A
1 AT AT AT A
26871656 AGAAGACTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.96
3 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26872112 original size:2 final size:2
Alignment explanation
Indices: 26872105--26872132 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26872095 TCCTCATGCT
26872105 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
26872133 TATATTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:26877362 original size:30 final size:30
Alignment explanation
Indices: 26877326--26877395 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
26877316 ACAACAACAA
*
26877326 CAACAACAAATAATATGGTTTGTTTGTATG
1 CAACAACAAATAATAAGGTTTGTTTGTATG
26877356 CAACAACAAATAATAAGGTTTGTTTGTATG
1 CAACAACAAATAATAAGGTTTGTTTGTATG
*
26877386 CAAAAACAAA
1 CAACAACAAA
26877396 CAAAAGAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (30 bp):
CAACAACAAATAATAAGGTTTGTTTGTATG
Found at i:26879246 original size:2 final size:2
Alignment explanation
Indices: 26879239--26879264 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26879229 GTCCTTTGAG
26879239 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26879265 TCCATGCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26895000 original size:28 final size:29
Alignment explanation
Indices: 26894948--26895003 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
26894938 GGCACGCGCC
*
26894948 TCTCTCTTAATCATCTCTTAGTTTAGGTG
1 TCTCTCTTAATCATCTCTTAATTTAGGTG
26894977 TCTCTCTT-ATC-TCCTCTTAATTTAGGT
1 TCTCTCTTAATCAT-CTCTTAATTTAGGT
26895004 ATCGTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 16 0.64
29 8 0.32
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (29 bp):
TCTCTCTTAATCATCTCTTAATTTAGGTG
Found at i:26900902 original size:33 final size:34
Alignment explanation
Indices: 26900847--26900911 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
26900837 TTGTGATTAT
26900847 AATAAAAAATAAAAGTTATAATT-TATTTATATGC
1 AATAAAAAATAAAAGTTATAATTAT-TTTATATGC
*
26900881 AATAAAAATTAAAAGTT-TAATTATTTTATAT
1 AATAAAAAATAAAAGTTATAATTATTTTATAT
26900912 TTTTAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (34 bp):
AATAAAAAATAAAAGTTATAATTATTTTATATGC
Found at i:26913070 original size:49 final size:50
Alignment explanation
Indices: 26912999--26913093 Score: 129
Period size: 49 Copynumber: 1.9 Consensus size: 50
26912989 TCTTGTTTTG
*
26912999 AATTTTTAAATTCTCCACCATTTAAGTCAATTTA-GAATTTTTTTTTCAA
1 AATTTTTAAATTCTCCACCATTTAAGCCAATTTAGGAATTTTTTTTTCAA
* * * * *
26913048 AATTTTTAAATTTTTCATCATTTGAGCCTATTTAGGAATTTTTTTT
1 AATTTTTAAATTCTCCACCATTTAAGCCAATTTAGGAATTTTTTTT
26913094 ATTTATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 28 0.72
50 11 0.28
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (50 bp):
AATTTTTAAATTCTCCACCATTTAAGCCAATTTAGGAATTTTTTTTTCAA
Found at i:26914190 original size:5 final size:5
Alignment explanation
Indices: 26914180--26914239 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
26914170 CCTATTATCT
26914180 TAAAA TAAAA T-AAA T-AAA TAATAA -AAAA TTAAAA TCAAAA TCAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA TAAAA -TAAAA T-AAAA T-AAAA
26914226 T-AAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA
26914240 AACAATTGGG
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 14 0.29
5 18 0.37
6 17 0.35
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:26914531 original size:42 final size:42
Alignment explanation
Indices: 26914484--26914570 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
26914474 TGGCTTTGAG
*
26914484 AAAAATAAAATACTCATCTAAACAAAGGCACCATAACTTTCA
1 AAAAATAAAATACTCATCTAAACAAAGGCACCACAACTTTCA
** * * * *
26914526 AAAAATAAAATGTTCCTCTAAACAGAGGCATCACAACTTTGA
1 AAAAATAAAATACTCATCTAAACAAAGGCACCACAACTTTCA
26914568 AAA
1 AAA
26914571 GTAAAAAGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.22
Consensus pattern (42 bp):
AAAAATAAAATACTCATCTAAACAAAGGCACCACAACTTTCA
Found at i:26914728 original size:14 final size:14
Alignment explanation
Indices: 26914709--26914761 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
26914699 AAAAATTCAC
26914709 TAAAATTTGATTTT
1 TAAAATTTGATTTT
*
26914723 TAAAATTTCAGTTTT
1 TAAAATTTGA-TTTT
**
26914738 ATAAAAATTTGATTCG
1 -T-AAAATTTGATTTT
26914754 TAAAATTT
1 TAAAATTT
26914762 CATATATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 16 0.50
15 5 0.16
16 3 0.09
17 8 0.25
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (14 bp):
TAAAATTTGATTTT
Found at i:26915155 original size:21 final size:22
Alignment explanation
Indices: 26915129--26915388 Score: 127
Period size: 21 Copynumber: 11.6 Consensus size: 22
26915119 TTCACACCTC
26915129 AAAGATTCTCATTTGAA-ACTT
1 AAAGATTCTCATTTGAATACTT
* **
26915150 AAAGATTCTTATTTGAATACCC
1 AAAGATTCTCATTTGAATACTT
* * *
26915172 AAATATTCTCATTTGAAAACTC
1 AAAGATTCTCATTTGAATACTT
* * * *
26915194 AAAGATTTTTATTTGAAAACTC
1 AAAGATTCTCATTTGAATACTT
* *
26915216 AAATATTCTCATTTGAA-ACTCG
1 AAAGATTCTCATTTGAATACT-T
* *
26915238 AAA-ATTCTTATTTGAGGATTTCTT
1 AAAGATTCTCATTTGA--A-TACTT
* * * * *
26915262 ACAGATTTTTATTT-AAGACTC
1 AAAGATTCTCATTTGAATACTT
* * **
26915283 AAAGATACTTATTTGATGATTTTTT
1 AAAGATTCTCATTTGA--A-TACTT
*
26915308 AAAGATTCTCATTT-AAGACTT
1 AAAGATTCTCATTTGAATACTT
* * *
26915329 AAAGATTTTCGTTTGAAAATGTCTT
1 AAAGATTCTCATTTG--AAT-ACTT
*
26915354 AAAGATTCTCATTT-AAGACTT
1 AAAGATTCTCATTTGAATACTT
*
26915375 AAATATTCTCATTT
1 AAAGATTCTCATTT
26915389 AAGACTCAAA
Statistics
Matches: 181, Mismatches: 43, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
21 73 0.40
22 61 0.34
23 1 0.01
24 7 0.04
25 39 0.22
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.42
Consensus pattern (22 bp):
AAAGATTCTCATTTGAATACTT
Found at i:26915185 original size:22 final size:22
Alignment explanation
Indices: 26915126--26915252 Score: 143
Period size: 22 Copynumber: 5.9 Consensus size: 22
26915116 GGTTTCACAC
26915126 CTCAAAGATTCTCATTTG-AAA
1 CTCAAAGATTCTCATTTGAAAA
* * *
26915147 CTTAAAGATTCTTATTTGAATA
1 CTCAAAGATTCTCATTTGAAAA
* *
26915169 CCCAAATATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
* *
26915191 CTCAAAGATTTTTATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
*
26915213 CTCAAATATTCTCATTTG-AAA
1 CTCAAAGATTCTCATTTGAAAA
*
26915234 CTCGAAA-ATTCTTATTTGA
1 CTC-AAAGATTCTCATTTGA
26915253 GGATTTCTTA
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
21 32 0.37
22 55 0.63
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAAA
Found at i:26915206 original size:44 final size:43
Alignment explanation
Indices: 26915128--26915252 Score: 180
Period size: 44 Copynumber: 2.9 Consensus size: 43
26915118 TTTCACACCT
* * *
26915128 CAAAGATTCTCATTTGAAACTTAAAGATTCTTATTTGAATACC
1 CAAATATTCTCATTTGAAACTCAAAGATTCTTATTTGAAAACC
* *
26915171 CAAATATTCTCATTTGAAAACTCAAAGATTTTTATTTGAAAACT
1 CAAATATTCTCATTTG-AAACTCAAAGATTCTTATTTGAAAACC
26915215 CAAATATTCTCATTTGAAACTCGAAA-ATTCTTATTTGA
1 CAAATATTCTCATTTGAAACTC-AAAGATTCTTATTTGA
26915253 GGATTTCTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 32 0.43
44 42 0.57
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (43 bp):
CAAATATTCTCATTTGAAACTCAAAGATTCTTATTTGAAAACC
Found at i:26915314 original size:46 final size:46
Alignment explanation
Indices: 26915220--26915373 Score: 152
Period size: 46 Copynumber: 3.3 Consensus size: 46
26915210 AAACTCAAAT
* *
26915220 ATTCTCATTTGAA-ACTCGAAA-ATTCTTATTTGAGGATTTCTTACAG
1 ATTCTCATTT-AAGACTC-AAAGATACTTATTTGAGGATTTCTTAAAG
* * * *
26915266 ATTTTTATTTAAGACTCAAAGATACTTATTTGATGATTTTTTAAAG
1 ATTCTCATTTAAGACTCAAAGATACTTATTTGAGGATTTCTTAAAG
* * * ** *
26915312 ATTCTCATTTAAGACTTAAAGAT-TTTCGTTTGAAAATGTCTTAAAG
1 ATTCTCATTTAAGACTCAAAGATACTT-ATTTGAGGATTTCTTAAAG
26915358 ATTCTCATTTAAGACT
1 ATTCTCATTTAAGACT
26915374 TAAATATTCT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
45 7 0.08
46 83 0.92
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (46 bp):
ATTCTCATTTAAGACTCAAAGATACTTATTTGAGGATTTCTTAAAG
Found at i:26915399 original size:21 final size:21
Alignment explanation
Indices: 26915358--26915399 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
26915348 TGTCTTAAAG
*
26915358 ATTCTCATTTAAGACTTAAAT
1 ATTCTCATTTAAGACTCAAAT
26915379 ATTCTCATTTAAGACTCAAAT
1 ATTCTCATTTAAGACTCAAAT
26915400 TTTCATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTCTCATTTAAGACTCAAAT
Found at i:26915672 original size:16 final size:17
Alignment explanation
Indices: 26915641--26915673 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26915631 AAATGCAATG
26915641 CATGTAATGCAAATTTT
1 CATGTAATGCAAATTTT
*
26915658 CATGTCATG-AAATTTT
1 CATGTAATGCAAATTTT
26915674 AATTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (17 bp):
CATGTAATGCAAATTTT
Found at i:26916082 original size:79 final size:80
Alignment explanation
Indices: 26915919--26916082 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 80
26915909 TTCGTCACTA
* * * *
26915919 CTCATAGGCTTCTCAACACTAGCCGTTTCAGAACAAATTTTGCCCATTAATCCACATTATTTTCA
1 CTCATAGGCTTCTCAACACTAACCATTTCAGAACAAATTTTGCCCATTAACCCACATCATTTTCA
* **
26915984 TCGCTTAATCTTCAT
66 TCACTTAATCCACAT
* * * * **
26915999 -TCATAGGCTTCTCAACACTAACCATTTTAGAATAAATTTTGTCTATTGCCCCACATCATTTTCA
1 CTCATAGGCTTCTCAACACTAACCATTTCAGAACAAATTTTGCCCATTAACCCACATCATTTTCA
* *
26916063 TCATTTGA-CCACAT
66 TCACTTAATCCACAT
26916077 CTCATA
1 CTCATA
26916083 AATTATGTCA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
78 4 0.06
79 64 0.94
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.37
Consensus pattern (80 bp):
CTCATAGGCTTCTCAACACTAACCATTTCAGAACAAATTTTGCCCATTAACCCACATCATTTTCA
TCACTTAATCCACAT
Found at i:26916712 original size:16 final size:15
Alignment explanation
Indices: 26916693--26916728 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
26916683 CTCCTTTTCA
*
26916693 TTTTTTTCATTTATTT
1 TTTTTTTCATCT-TTT
26916709 TTTTTTTCATCTTTT
1 TTTTTTTCATCTTTT
26916724 TTTTT
1 TTTTT
26916729 CTTTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCATCTTTT
Found at i:26916715 original size:25 final size:24
Alignment explanation
Indices: 26916687--26916738 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
26916677 TTTTTTCTCC
26916687 TTTTCAT-TTTTTTCATTTATTTTTT
1 TTTTCATCTTTTTT--TTTATTTTTT
*
26916712 TTTTCATCTTTTTTTTTCTTTTTT
1 TTTTCATCTTTTTTTTTATTTTTT
26916736 TTT
1 TTT
26916739 CCTTAATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 12 0.48
25 7 0.28
26 6 0.24
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTCATCTTTTTTTTTATTTTTT
Found at i:26916723 original size:13 final size:12
Alignment explanation
Indices: 26916687--26916738 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 12
26916677 TTTTTTCTCC
26916687 TTTTCATTTTTT
1 TTTTCATTTTTT
26916699 TCATTT-ATTTTTT
1 T--TTTCATTTTTT
26916712 TTTTCATCTTTTT
1 TTTTCAT-TTTTT
26916725 TTTTC-TTTTTT
1 TTTTCATTTTTT
26916736 TTT
1 TTT
26916739 CCTTAATCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 11 0.31
12 4 0.11
13 18 0.50
14 3 0.08
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCATTTTTT
Found at i:26916736 original size:10 final size:10
Alignment explanation
Indices: 26916693--26916739 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
26916683 CTCCTTTTCA
*
26916693 TTTTTTTCAT
1 TTTTTTTCTT
*
26916703 TTATTTT-TT
1 TTTTTTTCTT
**
26916712 TTTTCATCTT
1 TTTTTTTCTT
26916722 TTTTTTTCTT
1 TTTTTTTCTT
26916732 TTTTTTTC
1 TTTTTTTC
26916740 CTTAATCCAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
9 5 0.17
10 24 0.83
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:26917130 original size:18 final size:17
Alignment explanation
Indices: 26917097--26917144 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
26917087 GGTATTTATT
26917097 TTTTTTTCTATCTTTTTCC
1 TTTTTTTCT-T-TTTTTCC
*
26917116 TTTTTTTACTTTTTTTTC
1 TTTTTTT-CTTTTTTTCC
26917134 TTTTTTTCTTT
1 TTTTTTTCTTT
26917145 CTATTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 4 0.15
18 13 0.48
19 8 0.30
20 2 0.07
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTCC
Found at i:26917137 original size:7 final size:8
Alignment explanation
Indices: 26917097--26917144 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 8
26917087 GGTATTTATT
26917097 TTTTTTTC
1 TTTTTTTC
26917105 TATCTTTTTCC
1 T-T-TTTTT-C
26917116 TTTTTTTAC
1 TTTTTTT-C
26917125 TTTTTTTTC
1 -TTTTTTTC
26917134 TTTTTTTC
1 TTTTTTTC
26917142 TTT
1 TTT
26917145 CTATTTAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
8 12 0.34
9 8 0.23
10 13 0.37
11 2 0.06
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:26920923 original size:26 final size:24
Alignment explanation
Indices: 26920894--26920948 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
26920884 AAATTTAAAG
* *
26920894 AAAATTTCTTACTTAAAGATTTCTTA
1 AAAATTTATCACTTAAA-ATTT-TTA
*
26920920 AAAATTTATCATTTAAAATTTTTA
1 AAAATTTATCACTTAAAATTTTTA
26920944 AAAAT
1 AAAAT
26920949 CTAATCATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 8 0.31
25 4 0.15
26 14 0.54
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (24 bp):
AAAATTTATCACTTAAAATTTTTA
Found at i:26920940 original size:25 final size:26
Alignment explanation
Indices: 26920906--26920957 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
26920896 AATTTCTTAC
*
26920906 TTAAAGATTTCTTAAAAAT-TTATCAT
1 TTAAAGATTT-TTAAAAATCTAATCAT
26920932 TTAAA-ATTTTTAAAAATCTAATCAT
1 TTAAAGATTTTTAAAAATCTAATCAT
26920957 T
1 T
26920958 GGATAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (26 bp):
TTAAAGATTTTTAAAAATCTAATCAT
Found at i:26921904 original size:5 final size:5
Alignment explanation
Indices: 26921894--26921953 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
26921884 CTTATTATCT
26921894 TAAAA TAAAA TAAAA -AATAA -AAAA TAAAAA TAAAAA TAAGAA TCAAAA
1 TAAAA TAAAA TAAAA TAA-AA TAAAA T-AAAA T-AAAA TAA-AA T-AAAA
26921942 T-AAA TAAAA TAA
1 TAAAA TAAAA TAA
26921954 CAAATAATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.16
5 22 0.45
6 17 0.35
7 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:26921912 original size:7 final size:7
Alignment explanation
Indices: 26921900--26921929 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
26921890 ATCTTAAAAT
26921900 AAAATAA
1 AAAATAA
26921907 AAAATAA
1 AAAATAA
26921914 AAAAT-A
1 AAAATAA
26921920 AAAATAA
1 AAAATAA
26921927 AAA
1 AAA
26921930 TAAGAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:26921912 original size:12 final size:12
Alignment explanation
Indices: 26921894--26921960 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 12
26921884 CTTATTATCT
26921894 TAAAATAAAATAA
1 TAAAATAAAA-AA
26921907 -AAAATAAAAAA
1 TAAAATAAAAAA
26921918 TAAAA-ATAAAAA
1 TAAAATA-AAAAA
26921930 TAAGAATCAAAATAAA
1 TAA-AAT--AAA-AAA
*
26921946 TAAAATAACAAA
1 TAAAATAAAAAA
26921958 TAA
1 TAA
26921961 TTGGGCCTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
11 3 0.07
12 27 0.59
13 4 0.09
15 5 0.11
16 7 0.15
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:26921915 original size:6 final size:6
Alignment explanation
Indices: 26921895--26921945 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
26921885 TTATTATCTT
* *
26921895 AAAAT- AAAATAA AAAATAA AAAATA AAAATA AAAATA AGAATC AAAATA
1 AAAATA AAAAT-A AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA
26921944 AA
1 AA
26921946 TAAAATAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 12 0.30
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:26922651 original size:43 final size:43
Alignment explanation
Indices: 26922604--26922691 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
26922594 TCAAAAAGAT
26922604 ACTTTTATTCATAAAACTAAATATTTCAAAACTTAAGAATCTA
1 ACTTTTATTCATAAAACTAAATATTTCAAAACTTAAGAATCTA
26922647 ACTTTTATTCATAAAACTAAATATTTCAAAACTTAAGAATCTA
1 ACTTTTATTCATAAAACTAAATATTTCAAAACTTAAGAATCTA
26922690 AC
1 AC
26922692 AAGAGAAAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (43 bp):
ACTTTTATTCATAAAACTAAATATTTCAAAACTTAAGAATCTA
Found at i:26924318 original size:166 final size:166
Alignment explanation
Indices: 26924044--26924373 Score: 588
Period size: 166 Copynumber: 2.0 Consensus size: 166
26924034 AAAAGAATAA
* **
26924044 CAAGTAAGATTACAAAATAAATTTCTTATAAGATAATAGAAGTAAAATTGTAGTACCACAAAATT
1 CAAGTAAGATTACAAAATAAATTTCTTATAAGATAATAGAAATAAAATTGTAGTAAAACAAAATT
* *
26924109 GAAAAATAGTCAAATTCGATTTACTTAAAATTCTTTTTGAAAAAACATTTGTTTTTATATTGCTA
66 GAAAAATAGTCAAATTCGATTTACTTAAAATTCTCTTTGAAAAAACATTTGTATTTATATTGCTA
26924174 TAAGACACATTATCATAAATTTATTAAAAAGTTAAG
131 TAAGACACATTATCATAAATTTATTAAAAAGTTAAG
*
26924210 CAAGTAAGATTACAAAATAAATTTCTTATAAGATAATAGAAATAAAATTGTAGTAAAATAAAATT
1 CAAGTAAGATTACAAAATAAATTTCTTATAAGATAATAGAAATAAAATTGTAGTAAAACAAAATT
* *
26924275 GAAAAATAGTCAAATTCGATTTACTTAAAATTCTCTTTGAAAAAACATTTGTATTTATATTGTTG
66 GAAAAATAGTCAAATTCGATTTACTTAAAATTCTCTTTGAAAAAACATTTGTATTTATATTGCTA
26924340 TAAGACACATTATCATAAATTTATTAAAAAGTTA
131 TAAGACACATTATCATAAATTTATTAAAAAGTTA
26924374 CTATCATTAA
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 156 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (166 bp):
CAAGTAAGATTACAAAATAAATTTCTTATAAGATAATAGAAATAAAATTGTAGTAAAACAAAATT
GAAAAATAGTCAAATTCGATTTACTTAAAATTCTCTTTGAAAAAACATTTGTATTTATATTGCTA
TAAGACACATTATCATAAATTTATTAAAAAGTTAAG
Found at i:26925145 original size:22 final size:19
Alignment explanation
Indices: 26925091--26925146 Score: 51
Period size: 22 Copynumber: 2.8 Consensus size: 19
26925081 TTTCCATATA
*
26925091 TAATA-ATATTTTGATTTT
1 TAATAGATATTTTTATTTT
*
26925109 TAATAGATTAGTTTTATTTTT
1 TAATAGA-TATTTTTA-TTTT
26925130 TAATTAAGATATTTTTA
1 TAA-T-AGATATTTTTA
26925147 GGTAATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 5 0.17
19 1 0.03
20 6 0.20
21 7 0.23
22 8 0.27
23 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TAATAGATATTTTTATTTT
Found at i:26925459 original size:17 final size:16
Alignment explanation
Indices: 26925437--26925490 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
26925427 AGATCACGAG
26925437 TAATAAGATTATTTTAA
1 TAATAA-ATTATTTTAA
*
26925454 TAATAAAATTATTTCAA
1 TAAT-AAATTATTTTAA
*
26925471 TAATTAAATTATTATAA
1 TAA-TAAATTATTTTAA
26925488 TAA
1 TAA
26925491 CCTTAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 29 0.91
18 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATAAATTATTTTAA
Found at i:26925485 original size:20 final size:17
Alignment explanation
Indices: 26925437--26925483 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
26925427 AGATCACGAG
* *
26925437 TAATAAGATTATTTTAA
1 TAATAAAATTATTTCAA
26925454 TAATAAAATTATTTCAA
1 TAATAAAATTATTTCAA
*
26925471 TAATTAAATTATT
1 TAATAAAATTATT
26925484 ATAATAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TAATAAAATTATTTCAA
Found at i:26928862 original size:3 final size:3
Alignment explanation
Indices: 26928854--26928939 Score: 91
Period size: 3 Copynumber: 28.7 Consensus size: 3
26928844 GAGGCATGCT
* * *
26928854 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAA CAG CAG CAG CAA CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * *
26928902 CAA CAA CAA CAG CAG CAG CAG CTG CTG CTG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
26928940 AAGAGAAGGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.37, C:0.34, G:0.26, T:0.03
Consensus pattern (3 bp):
CAG
Found at i:26957081 original size:6 final size:6
Alignment explanation
Indices: 26957042--26957108 Score: 57
Period size: 6 Copynumber: 11.2 Consensus size: 6
26957032 GAGGAACATC
* * * * *
26957042 GAGGGA GAGGAA GGGGGA G-GGGA -AGGGGA GGAGGGA GAGGAA AAGGAA
1 GAGGGA GAGGGA GAGGGA GAGGGA GA-GGGA -GAGGGA GAGGGA GAGGGA
26957090 GAGGGA GAGGGA GAGGGA G
1 GAGGGA GAGGGA GAGGGA G
26957109 GTTTAACTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 4 0.08
6 41 0.82
7 4 0.08
8 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:26957106 original size:30 final size:30
Alignment explanation
Indices: 26957042--26957108 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
26957032 GAGGAACATC
** *
26957042 GAGGGAGAGGAAGGGGGAGGGGAAGGGGAG
1 GAGGGAGAGGAAAAGGAAGGGGAAGGGGAG
26957072 GAGGGAGAGGAAAAGGAAGAGGG-AGAGGGA-
1 GAGGGAGAGGAAAAGGAAG-GGGAAG-GGGAG
26957102 GAGGGAG
1 GAGGGAG
26957109 GTTTAACTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (30 bp):
GAGGGAGAGGAAAAGGAAGGGGAAGGGGAG
Found at i:26958547 original size:24 final size:24
Alignment explanation
Indices: 26958512--26958570 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
26958502 ATTAAATCAA
*
26958512 TATAA-AAA-TTTTTAATTACAGT
1 TATAATAAATTTTTTAATTACAAT
* * *
26958534 TATAATAATTTTTTTATTTATAAT
1 TATAATAAATTTTTTAATTACAAT
26958558 TATAATAAATTTT
1 TATAATAAATTTT
26958571 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 5 0.17
23 2 0.07
24 23 0.77
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TATAATAAATTTTTTAATTACAAT
Found at i:26960378 original size:86 final size:87
Alignment explanation
Indices: 26960210--26960382 Score: 267
Period size: 86 Copynumber: 2.0 Consensus size: 87
26960200 CTGTTCAAAC
* ** * *
26960210 TTAGTTAGCACTTTTTAGATAATATCTCGTTTTTCTAAAGATCAACTCAACCTCTATTCCTGGAG
1 TTAGTGAGCACTTTCCAAATAATATCTCGTTTTTCTAAAGATCAACTCAACCGCTATTCCTGGAG
26960275 GATGAATCTGCTAATCTTTCCT
66 GATGAATCTGCTAATCTTTCCT
* *
26960297 TTAGTGAGCACTTTCCAAATAATATCTTGTTTTTCTAAA-ATCAACTGAACCGCTATTCCTGGAG
1 TTAGTGAGCACTTTCCAAATAATATCTCGTTTTTCTAAAGATCAACTCAACCGCTATTCCTGGAG
*
26960361 GATGAATCTGCTGATCTTTCCT
66 GATGAATCTGCTAATCTTTCCT
26960383 GTTAAATTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 44 0.56
87 34 0.44
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (87 bp):
TTAGTGAGCACTTTCCAAATAATATCTCGTTTTTCTAAAGATCAACTCAACCGCTATTCCTGGAG
GATGAATCTGCTAATCTTTCCT
Found at i:26962580 original size:60 final size:60
Alignment explanation
Indices: 26962487--26962606 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
26962477 TTGGGCCTAA
26962487 TTGTCAAAGGATACTAGTCGCATTCAATAGTTAATTGTCACAAATTTTGTTAAGGTGGAT
1 TTGTCAAAGGATACTAGTCGCATTCAATAGTTAATTGTCACAAATTTTGTTAAGGTGGAT
26962547 TTGTCAAAGGATACTAGTCGCATTCAATAGTTAATTGTCACAAATTTTGTTAAGGTGGAT
1 TTGTCAAAGGATACTAGTCGCATTCAATAGTTAATTGTCACAAATTTTGTTAAGGTGGAT
26962607 ACTCTTTTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (60 bp):
TTGTCAAAGGATACTAGTCGCATTCAATAGTTAATTGTCACAAATTTTGTTAAGGTGGAT
Found at i:26963697 original size:34 final size:33
Alignment explanation
Indices: 26963637--26963700 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
26963627 ACTAAAATTT
* **
26963637 GATTTTTATTTTTGAATATCAAAGGAACAAAAA
1 GATTTTTATTTTTGAAAAAAAAAGGAACAAAAA
*
26963670 GATTTTTATTTTTTAAAAAAAAGAGGAACAA
1 GATTTTTATTTTTGAAAAAAAA-AGGAACAA
26963701 CACGCCTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 18 0.69
34 8 0.31
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (33 bp):
GATTTTTATTTTTGAAAAAAAAAGGAACAAAAA
Found at i:26974506 original size:18 final size:17
Alignment explanation
Indices: 26974485--26974584 Score: 63
Period size: 18 Copynumber: 6.1 Consensus size: 17
26974475 TATATTAGTA
26974485 AATATAAAATATTATATT
1 AATATAAAATATT-TATT
*
26974503 AATA-AATAATATTTAGT
1 AATATAA-AATATTTATT
*
26974520 AATAT--ATTATTTATT
1 AATATAAAATATTTATT
* *
26974535 AATATAATATATTCA-T
1 AATATAAAATATTTATT
26974551 AA-AT--AATATTATATT
1 AATATAAAATATT-TATT
26974566 AATA-AATAATATTATATT
1 AATATAA-AATATT-TATT
26974584 A
1 A
26974585 TTATTAACAA
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
13 5 0.08
14 1 0.02
15 18 0.28
16 4 0.06
17 14 0.22
18 22 0.34
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
AATATAAAATATTTATT
Found at i:26974532 original size:15 final size:15
Alignment explanation
Indices: 26974488--26974580 Score: 62
Period size: 15 Copynumber: 5.8 Consensus size: 15
26974478 ATTAGTAAAT
*
26974488 ATAAAATATTATATTA
1 ATAATATATTAT-TTA
*
26974504 ATAA-ATAATATTTA
1 ATAATATATTATTTA
*
26974518 GTAATATATTATTTA
1 ATAATATATTATTTA
* * *
26974533 TTAATATAATATATTC
1 ATAATATATTAT-TTA
26974549 ATAAATAATATTATATTA
1 AT-AAT-ATATTAT-TTA
26974567 ATAAATAATATTAT
1 AT-AAT-ATATTAT
26974581 ATTATTATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
14 6 0.09
15 25 0.39
16 7 0.11
17 3 0.05
18 23 0.36
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
ATAATATATTATTTA
Found at i:26974717 original size:16 final size:15
Alignment explanation
Indices: 26974698--26974727 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26974688 TAATAAACTA
26974698 AAAATAAAACGAAAAT
1 AAAATAAAAC-AAAAT
26974714 AAAATAAAACAAAA
1 AAAATAAAACAAAA
26974728 CTTTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (15 bp):
AAAATAAAACAAAAT
Found at i:26976757 original size:5 final size:6
Alignment explanation
Indices: 26976742--26976766 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26976732 ATGTGGTTAA
26976742 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
26976767 GTCGCCAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:26977952 original size:18 final size:18
Alignment explanation
Indices: 26977931--26977982 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
26977921 AAATTTTTTT
26977931 TTAAATTTAAATATTATA
1 TTAAATTTAAATATTATA
26977949 TTAAATTT---T-TT-TA
1 TTAAATTTAAATATTATA
26977962 --AAATTTAAATATTATA
1 TTAAATTTAAATATTATA
26977978 TTAAA
1 TTAAA
26977983 CATTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
11 6 0.22
13 2 0.07
14 3 0.11
15 3 0.11
16 2 0.07
18 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAATTTAAATATTATA
Found at i:26977965 original size:29 final size:30
Alignment explanation
Indices: 26977920--26977997 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
26977910 ACCAACCAAA
* *
26977920 TAAATTTTTTTTTAAATTTAAATATTATAT
1 TAAACTTTTTTTAAAATTTAAATATTATAT
26977950 TAAA-TTTTTTTAAAATTTAAATATTATAT
1 TAAACTTTTTTTAAAATTTAAATATTATAT
* *
26977979 TAAACATTTTTTATAATTT
1 TAAACTTTTTTTAAAATTT
26977998 GAAACCACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 28 0.64
30 16 0.36
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
TAAACTTTTTTTAAAATTTAAATATTATAT
Found at i:26979460 original size:2 final size:2
Alignment explanation
Indices: 26979453--26979492 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26979443 TATATCCTTT
26979453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26979493 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26980784 original size:2 final size:2
Alignment explanation
Indices: 26980768--26980809 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
26980758 ATCAGAAGGA
*
26980768 AT AT AT -T AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26980809 A
1 A
26980810 AAGAAGAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26986002 original size:23 final size:24
Alignment explanation
Indices: 26985956--26986002 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
26985946 TTTATATAAA
*
26985956 AATATAATCGATTTAATTTAAATTC
1 AATATAATC-ATTAAATTTAAATTC
*
26985981 AATATAAT-ATTAAATTTGAATT
1 AATATAATCATTAAATTTAAATT
26986003 TGAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATAATCATTAAATTTAAATTC
Found at i:26987087 original size:14 final size:12
Alignment explanation
Indices: 26987060--26987099 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
26987050 ATATAAATAT
26987060 AAATTTAATTTA
1 AAATTTAATTTA
26987072 AAATTTAAGGTTTA
1 AAATTTAA--TTTA
26987086 AAATTTAATTTA
1 AAATTTAATTTA
26987098 AA
1 AA
26987100 TTTGATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 14 0.54
14 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
AAATTTAATTTA
Found at i:26987616 original size:2 final size:2
Alignment explanation
Indices: 26987604--26987634 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26987594 AAATTTTTGT
*
26987604 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26987635 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26987722 original size:16 final size:15
Alignment explanation
Indices: 26987701--26987731 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26987691 TATTATATTC
26987701 ATATATAT-TATTTT
1 ATATATATATATTTT
26987715 ATATATATATATTTT
1 ATATATATATATTTT
26987730 AT
1 AT
26987732 TTTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATATATATATATTTT
Found at i:26988882 original size:21 final size:20
Alignment explanation
Indices: 26988854--26988895 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
26988844 TTAAGTATAG
26988854 TAATATTAA-ATTTTAAATTT
1 TAATATTAACATTTT-AATTT
26988874 TAATGATTAACATTTTAATTT
1 TAAT-ATTAACATTTTAATTT
26988895 T
1 T
26988896 CTTAAGACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TAATATTAACATTTTAATTT
Found at i:26991399 original size:3 final size:3
Alignment explanation
Indices: 26991391--26991429 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
26991381 CACCATTTAA
26991391 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26991430 TATTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26991469 original size:16 final size:16
Alignment explanation
Indices: 26991444--26991478 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
26991434 ATTATTATTA
26991444 TTTTTTTTTTCT-TTT
1 TTTTTTTTTTCTCTTT
26991459 TTTTTTGTTTTCTCTTT
1 TTTTTT-TTTTCTCTTT
26991476 TTT
1 TTT
26991479 CTTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTCTCTTT
Found at i:26991474 original size:18 final size:16
Alignment explanation
Indices: 26991444--26991503 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
26991434 ATTATTATTA
26991444 TTTTTTTTTTCTTTTT
1 TTTTTTTTTTCTTTTT
* *
26991460 TTTTTGTTTTC--TCT
1 TTTTTTTTTTCTTTTT
* *
26991474 TTTTTCTTTCCTTTTT
1 TTTTTTTTTTCTTTTT
26991490 TATTTTTTTTTCTT
1 T-TTTTTTTTTCTT
26991504 CTTCTTCCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 11 0.32
16 13 0.38
17 10 0.29
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTCTTTTT
Found at i:26991488 original size:29 final size:29
Alignment explanation
Indices: 26991444--26991503 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
26991434 ATTATTATTA
* *
26991444 TTTTTT-TTTTCTTTTTTTTTTGTTTTCTC
1 TTTTTTCTTTCCTTTTTTATTT-TTTTCTC
*
26991473 TTTTTTCTTTCCTTTTTTATTTTTTTTTC
1 TTTTTTCTTTCCTTTTTTATTTTTTTCTC
26991502 TT
1 TT
26991504 CTTCTTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.85
Consensus pattern (29 bp):
TTTTTTCTTTCCTTTTTTATTTTTTTCTC
Found at i:26992363 original size:19 final size:19
Alignment explanation
Indices: 26992336--26992374 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
26992326 GGGTCGAACC
*
26992336 GTCCATGAACCGTCAAACT
1 GTCCATGAACCGCCAAACT
*
26992355 GTCCCTGAACCGCCAAACT
1 GTCCATGAACCGCCAAACT
26992374 G
1 G
26992375 AACCGTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.18
Consensus pattern (19 bp):
GTCCATGAACCGCCAAACT
Found at i:26992730 original size:21 final size:19
Alignment explanation
Indices: 26992688--26992740 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
26992678 TGGAGTATTT
* *
26992688 ATAAAAAAATTTTAATAAA
1 ATAAAAAAAATTTAAGAAA
26992707 ATAAAAAAAATTTATAGAATA
1 ATAAAAAAAATTTA-AGAA-A
26992728 ATAAATAAAAATT
1 ATAAA-AAAAATT
26992741 AATTAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 6 0.21
22 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAAAAAATTTAAGAAA
Found at i:26993585 original size:22 final size:20
Alignment explanation
Indices: 26993555--26993599 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
26993545 AAAATATATA
26993555 TTTACGATTTCTTTAAAGGGGT
1 TTTACGA-TT-TTTAAAGGGGT
* *
26993577 TTTAGGATTTTTAAATGGGT
1 TTTACGATTTTTAAAGGGGT
26993597 TTT
1 TTT
26993600 TAAGAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 2 0.10
22 6 0.29
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.51
Consensus pattern (20 bp):
TTTACGATTTTTAAAGGGGT
Found at i:26999789 original size:4 final size:4
Alignment explanation
Indices: 26999782--26999806 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26999772 ATTAAAAAAA
26999782 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
26999807 GACCTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:27000863 original size:24 final size:24
Alignment explanation
Indices: 27000775--27000928 Score: 158
Period size: 24 Copynumber: 6.5 Consensus size: 24
27000765 TTTATATTTA
*
27000775 TATTTATATATTTTTATT-TTTATC
1 TATTAATATA-TTTTATTATTTATC
*
27000799 TATT-AT-TACTATTATTATTTAT-
1 TATTAATATA-TTTTATTATTTATC
* *
27000821 TAGT-ATATA-TATATATATTTATC
1 TATTAATATATTTTAT-TATTTATC
* * *
27000844 TATTAACATATCTTATTATTTATT
1 TATTAATATATTTTATTATTTATC
27000868 TATTAATATATTTTTTATTATTTATC
1 TATTAATATA--TTTTATTATTTATC
27000894 TATTAATATATTTTATTATTTATC
1 TATTAATATATTTTATTATTTATC
27000918 TATTAATATAT
1 TATTAATATAT
27000929 AAATTTTTTT
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.03
22 20 0.18
23 12 0.11
24 49 0.45
25 3 0.03
26 22 0.20
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (24 bp):
TATTAATATATTTTATTATTTATC
Found at i:27000886 original size:7 final size:7
Alignment explanation
Indices: 27000764--27000921 Score: 66
Period size: 8 Copynumber: 22.4 Consensus size: 7
27000754 GGGTAAGCCC
27000764 ATTTA-T
1 ATTTATT
27000770 ATTTA-T
1 ATTTATT
27000776 ATTTATAT
1 ATTTAT-T
27000784 ATTT-TT
1 ATTTATT
27000790 ATTT-TT
1 ATTTATT
*
27000796 ATCTATT
1 ATTTATT
*
27000803 A-TTACT
1 ATTTATT
27000809 A-TTATT
1 ATTTATT
27000815 ATTTATT
1 ATTTATT
*
27000822 A-GTATAT
1 ATTTAT-T
*
27000829 ATATATAT
1 ATTTAT-T
27000837 ATTTATCT
1 ATTTAT-T
* *
27000845 ATTAACAT
1 ATTTA-TT
27000853 ATCTTATT
1 AT-TTATT
27000861 A--T-TT
1 ATTTATT
27000865 ATTTATT
1 ATTTATT
*
27000872 AATATATT
1 -ATTTATT
*
27000880 TTTTATT
1 ATTTATT
27000887 ATTTATCT
1 ATTTAT-T
*
27000895 ATTAATAT
1 ATTTAT-T
27000903 ATTTTATT
1 A-TTTATT
27000911 ATTTATCT
1 ATTTAT-T
27000919 ATT
1 ATT
27000922 AATATATAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 28
0.72 0.12 0.17
Matches are distributed among these distances:
4 3 0.03
5 1 0.01
6 34 0.29
7 29 0.25
8 45 0.38
9 6 0.05
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (7 bp):
ATTTATT
Found at i:27000890 original size:50 final size:48
Alignment explanation
Indices: 27000775--27000928 Score: 174
Period size: 50 Copynumber: 3.2 Consensus size: 48
27000765 TTTATATTTA
* *
27000775 TATTTATATATTTTTATT-TTTATCTATT-ATTA-C-TATTA-TTATT
1 TATTAATATATTTTTATTATTTATCTATTAAATATCTTATTATTTATT
* * *
27000818 TATTAGTATATATATATATATTTATCTATTAACATATCTTATTATTTATT
1 TATTAATATATTTTTAT-TATTTATCTATTAA-ATATCTTATTATTTATT
* *
27000868 TATTAATATATTTTTTATTATTTATCTATTAATATATTTTATTATTTATC
1 TATTAATATA-TTTTTATTATTTATCTATTAA-ATATCTTATTATTTATT
27000918 TATTAATATAT
1 TATTAATATAT
27000929 AAATTTTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
43 13 0.14
44 1 0.01
45 10 0.11
46 1 0.01
47 2 0.02
48 1 0.01
49 6 0.07
50 53 0.58
51 5 0.05
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.62
Consensus pattern (48 bp):
TATTAATATATTTTTATTATTTATCTATTAAATATCTTATTATTTATT
Found at i:27002003 original size:57 final size:58
Alignment explanation
Indices: 27001875--27002009 Score: 209
Period size: 58 Copynumber: 2.3 Consensus size: 58
27001865 GATTTTCTTT
* * * *
27001875 AAATAAAATTTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
1 AAATAAATTTTC-TAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGA
*
27001934 AAATAAATTTTCTAAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTCCTTGA
1 AAATAAATTTTCTAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGA
27001992 AAAT-AATTTTCTAAAAAA
1 AAATAAATTTTCTAAAAAA
27002010 AGGTTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 14 0.20
58 46 0.65
59 11 0.15
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (58 bp):
AAATAAATTTTCTAAAAAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGA
Found at i:27003461 original size:3 final size:3
Alignment explanation
Indices: 27003453--27003478 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27003443 ATTTATTTAT
27003453 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
27003479 TCATTTTTTG
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27004755 original size:16 final size:15
Alignment explanation
Indices: 27004718--27004768 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
27004708 TTCCAAAATC
*
27004718 TTTATTTTTTTACTT
1 TTTATTTTTTTAATT
*
27004733 TGTATTTTTTTAATT
1 TTTATTTTTTTAATT
* *
27004748 TTTAATTTTTTAAAT
1 TTTATTTTTTTAATT
27004763 TTTATT
1 TTTATT
27004769 AGATAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTAATT
Found at i:27006998 original size:10 final size:9
Alignment explanation
Indices: 27006983--27007042 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
27006973 ATGTCTTTTA
27006983 TTTTTTACGT
1 TTTTTTAC-T
27006993 TTTTTTACT
1 TTTTTTACT
*
27007002 TTTTTTACC
1 TTTTTTACT
* *
27007011 TTTTTCACA
1 TTTTTTACT
*
27007020 ATTTTTACT
1 TTTTTTACT
*
27007029 TTCTTTACCT
1 TTTTTTA-CT
27007039 TTTT
1 TTTT
27007043 CATATACTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
9 27 0.68
10 13 0.32
ACGTcount: A:0.13, C:0.17, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTTACT
Found at i:27007879 original size:11 final size:11
Alignment explanation
Indices: 27007863--27007903 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
27007853 GTAATATCTG
27007863 ACAAATCTTAA
1 ACAAATCTTAA
*
27007874 ACAAAT-TTCTA
1 ACAAATCTT-AA
27007885 ACAAATCTTAA
1 ACAAATCTTAA
27007896 ACAAATCT
1 ACAAATCT
27007904 CTTATGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.08
11 22 0.85
12 2 0.08
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (11 bp):
ACAAATCTTAA
Found at i:27008182 original size:25 final size:25
Alignment explanation
Indices: 27008153--27008232 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
27008143 CACTTCCCAT
*
27008153 ATCTTAAACATTT-AGCTTTTTTCAC
1 ATCTTAAAC-TTTCAGCTCTTTTCAC
27008178 ATCTTAAACTTTCAGCTCTTTTCAC
1 ATCTTAAACTTTCAGCTCTTTTCAC
* * *
27008203 GTCTTGAACCTTC-GACTCTTTTCAC
1 ATCTTAAACTTTCAG-CTCTTTTCAC
27008228 ATCTT
1 ATCTT
27008233 GAATCTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 4 0.08
25 44 0.92
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (25 bp):
ATCTTAAACTTTCAGCTCTTTTCAC
Found at i:27008233 original size:25 final size:25
Alignment explanation
Indices: 27008166--27008271 Score: 92
Period size: 25 Copynumber: 4.2 Consensus size: 25
27008156 TTAAACATTT
* * *
27008166 AGCTTTTTTCACATCTTAAACTTTC
1 AGCTCTTTTCACATCTTGAACCTTC
*
27008191 AGCTCTTTTCACGTCTTGAACCTTC
1 AGCTCTTTTCACATCTTGAACCTTC
* *
27008216 -GACTCTTTTCACATCTTGAATCTTT
1 AG-CTCTTTTCACATCTTGAACCTTC
* *
27008241 AACTCTTCTT-ACGT-TTCGAACCTTC
1 AGCTCTT-TTCACATCTT-GAACCTTC
27008266 AGCTCT
1 AGCTCT
27008272 GATACCACTT
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
24 3 0.05
25 60 0.92
26 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.08, T:0.43
Consensus pattern (25 bp):
AGCTCTTTTCACATCTTGAACCTTC
Found at i:27008247 original size:50 final size:50
Alignment explanation
Indices: 27008171--27008265 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
27008161 CATTTAGCTT
*
27008171 TTTTCACATCTTAAACTTTCAGCTCTT-TTCACGTCTT-GAACCTTCGACTC
1 TTTTCACATCTTAAACTTTCAACTCTTCTT-ACGT-TTCGAACCTTCGACTC
*
27008221 TTTTCACATCTTGAATCTTT-AACTCTTCTTACGTTTCGAACCTTC
1 TTTTCACATCTT-AAACTTTCAACTCTTCTTACGTTTCGAACCTTC
27008266 AGCTCTGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
49 2 0.05
50 30 0.75
51 8 0.20
ACGTcount: A:0.20, C:0.28, G:0.07, T:0.44
Consensus pattern (50 bp):
TTTTCACATCTTAAACTTTCAACTCTTCTTACGTTTCGAACCTTCGACTC
Found at i:27008306 original size:31 final size:31
Alignment explanation
Indices: 27008265--27008349 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
27008255 TTCGAACCTT
* *
27008265 CAGCTCTGATACCACTTGTTGGGGAACACCA
1 CAGCTCTGATATCACTTGTTGGGAAACACCA
* *
27008296 CAGCTATGATATCACTTGTTGGAAAACACCA
1 CAGCTCTGATATCACTTGTTGGGAAACACCA
* *
27008327 CAACTCTGATATCATTTGTTGGG
1 CAGCTCTGATATCACTTGTTGGG
27008350 CTAAAAGCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (31 bp):
CAGCTCTGATATCACTTGTTGGGAAACACCA
Found at i:27008901 original size:52 final size:51
Alignment explanation
Indices: 27008822--27008971 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 51
27008812 TATAACCATA
* * * *
27008822 CAAACTTGCCCATTAAGAATCCTTTTTCTCTTAAAATTTTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAAT-CTTTTTCTCTTAGAATTTTTCTTTTGCAAGT
* * *
27008874 TAAACTTACCTATTAAGAATCTATTTTCTTTTAGAATTTTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCT-TTTTCTCTTAGAATTTTTCTTTTGCAAGT
* *
27008926 CAAACTTACCTATTAAGAATCTCCTTTCTCTTAGAATTCTTCTTTT
1 CAAACTTACCTATTAAGAATCT-TTTTCTCTTAGAATTTTTCTTTT
27008972 TAAATCTTAT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCTTTTTCTCTTAGAATTTTTCTTTTGCAAGT
Found at i:27010137 original size:13 final size:14
Alignment explanation
Indices: 27010111--27010139 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27010101 TATACTTATA
27010111 TAATTATAATATTT
1 TAATTATAATATTT
27010125 TAATTAT-ATATTT
1 TAATTATAATATTT
27010138 TA
1 TA
27010140 TTCGGGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:27012773 original size:18 final size:18
Alignment explanation
Indices: 27012750--27012785 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27012740 CTTTATTTCT
27012750 TTTTTTGATAAAA-AATAA
1 TTTTTT-ATAAAATAATAA
27012768 TTTTTTATAAAATAATAA
1 TTTTTTATAAAATAATAA
27012786 AGTTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTTTTATAAAATAATAA
Found at i:27017714 original size:20 final size:20
Alignment explanation
Indices: 27017667--27017719 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
27017657 TGATTTTTTA
27017667 AATATTTATATTTAAAAAAT
1 AATATTTATATTTAAAAAAT
*
27017687 AATAATTTATATTTTAAAAAT
1 AAT-ATTTATATTTAAAAAAT
*
27017708 AATATTTTTATT
1 AATATTTATATT
27017720 AATTTCGAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTATATTTAAAAAAT
Found at i:27018537 original size:3 final size:3
Alignment explanation
Indices: 27018529--27018561 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27018519 TTCTAATTTC
27018529 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27018562 TCAGAATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27033747 original size:30 final size:29
Alignment explanation
Indices: 27033696--27033764 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
27033686 AAAATATAAA
* **
27033696 ATATATTTTTTTTAATTTTTTAAATTTAT
1 ATATATTTTTATTAAAATTTTAAATTTAT
27033725 ATATAATTTTTATTAAAATTTTAAA-TTAT
1 ATAT-ATTTTTATTAAAATTTTAAATTTAT
*
27033754 -TTTATTTTTAT
1 ATATATTTTTAT
27033765 ATAATTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 8 0.23
28 2 0.06
29 8 0.23
30 17 0.49
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
ATATATTTTTATTAAAATTTTAAATTTAT
Found at i:27040100 original size:12 final size:12
Alignment explanation
Indices: 27040083--27040117 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
27040073 ACACTTCTTT
*
27040083 CTTCTCCGCTTC
1 CTTCTCCCCTTC
27040095 CTTCTCCCCTTC
1 CTTCTCCCCTTC
*
27040107 CTTCTTCCCTT
1 CTTCTCCCCTT
27040118 TGCTCTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.51, G:0.03, T:0.46
Consensus pattern (12 bp):
CTTCTCCCCTTC
Found at i:27040909 original size:22 final size:22
Alignment explanation
Indices: 27040861--27040901 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27040851 GATTTAAAAG
*
27040861 AAATTTTTTAAGTAAAATTATA
1 AAATTTTATAAGTAAAATTATA
27040883 AAATTTTATAA-TAAAATTA
1 AAATTTTATAAGTAAAATTA
27040902 ATTAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATTTTATAAGTAAAATTATA
Found at i:27040916 original size:6 final size:6
Alignment explanation
Indices: 27040901--27040933 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
27040891 TAATAAAATT
27040901 AATT-A AATTAA AATTAA AATTAAA AATTAA AAT
1 AATTAA AATTAA AATTAA AATT-AA AATTAA AAT
27040934 CAATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:27040928 original size:13 final size:13
Alignment explanation
Indices: 27040901--27040946 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
27040891 TAATAAAATT
27040901 AATT-AAATT-AA
1 AATTAAAATTAAA
27040912 AATTAAAATTAAA
1 AATTAAAATTAAA
*
27040925 AATTAAAATCAATA
1 AATTAAAATTAA-A
27040939 AATTAAAA
1 AATTAAAA
27040947 GATTTCATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 4 0.13
12 5 0.16
13 13 0.42
14 9 0.29
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAATTAAA
Found at i:27040929 original size:19 final size:20
Alignment explanation
Indices: 27040894--27040933 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
27040884 AATTTTATAA
27040894 TAAAATTAATTAAATTAAAAT
1 TAAAATTAA-TAAATTAAAAT
27040915 TAAAATTAA-AAATTAAAAT
1 TAAAATTAATAAATTAAAAT
27040934 CAATAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAATTAATAAATTAAAAT
Found at i:27040941 original size:21 final size:19
Alignment explanation
Indices: 27040895--27040946 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
27040885 ATTTTATAAT
*
27040895 AAAATTAATTAAATTAAAATT
1 AAAATTAA--AAATTAAAATA
27040916 AAAATTAAAAATTAAAATCA
1 AAAATTAAAAATTAAAAT-A
27040936 ATAAATTAAAA
1 A-AAATTAAAA
27040947 GATTTCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
20 1 0.04
21 17 0.61
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTAAAAATTAAAATA
Found at i:27041151 original size:25 final size:25
Alignment explanation
Indices: 27041113--27041187 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 25
27041103 TATAATTTAA
*
27041113 ATTTTTTATTAAAATTTTATTAAATT
1 ATTTTTTA-AAAAATTTTATTAAATT
* *
27041139 ATTTTTTAAAAAATTATA-CAAATT
1 ATTTTTTAAAAAATTTTATTAAATT
* *
27041163 -TTATCTAAAAAATTTTATATAAATT
1 ATTTTTTAAAAAATTTTAT-TAAATT
27041188 TGTCTATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
23 14 0.35
24 5 0.12
25 13 0.32
26 8 0.20
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTTTTAAAAAATTTTATTAAATT
Found at i:27041193 original size:24 final size:25
Alignment explanation
Indices: 27041123--27041188 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
27041113 ATTTTTTATT
* *
27041123 AAAATTTTAT-TAAATTATTTTTTAA
1 AAAATTTTATATAAATT-TTATCTAA
*
27041148 AAAA--TTATACAAATTTTATCTAA
1 AAAATTTTATATAAATTTTATCTAA
27041171 AAAATTTTATATAAATTT
1 AAAATTTTATATAAATTT
27041189 GTCTATTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 14 0.41
24 5 0.15
25 15 0.44
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAATTTTATATAAATTTTATCTAA
Found at i:27042028 original size:2 final size:2
Alignment explanation
Indices: 27042021--27042046 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27042011 AATCTGTTAG
27042021 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27042047 TGCTGAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27042698 original size:18 final size:19
Alignment explanation
Indices: 27042675--27042710 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27042665 GAAAAATTAG
27042675 TACAGT-TCTTTTTTTTTC
1 TACAGTATCTTTTTTTTTC
*
27042693 TACAGTATGTTTTTTTTT
1 TACAGTATCTTTTTTTTT
27042711 GGACGGTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.14, C:0.11, G:0.08, T:0.67
Consensus pattern (19 bp):
TACAGTATCTTTTTTTTTC
Found at i:27056629 original size:24 final size:25
Alignment explanation
Indices: 27056590--27056640 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
27056580 GATACTGTAT
* *
27056590 TTTTTTTTTTTCGATTCAGATTAAA
1 TTTTTTTATTTCGATTCAAATTAAA
27056615 TTTTTTTATTT-GATTCAAATTAAA
1 TTTTTTTATTTCGATTCAAATTAAA
27056639 TT
1 TT
27056641 CTAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (25 bp):
TTTTTTTATTTCGATTCAAATTAAA
Found at i:27056648 original size:24 final size:24
Alignment explanation
Indices: 27056602--27056648 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
27056592 TTTTTTTTTC
* * **
27056602 GATTCAGATTAAATTTTTTTATTT
1 GATTCAAATTAAATTCTAATATTT
27056626 GATTCAAATTAAATTCTAATATT
1 GATTCAAATTAAATTCTAATATT
27056649 AAAAGTATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (24 bp):
GATTCAAATTAAATTCTAATATTT
Found at i:27073354 original size:81 final size:82
Alignment explanation
Indices: 27073218--27073379 Score: 238
Period size: 81 Copynumber: 2.0 Consensus size: 82
27073208 CTGTGAAAAT
* * * *
27073218 AAACATATCATTTTACAATTTTGCTGGAAAGAAACCATGAATATTTATGTTGCTAATAGACCTAC
1 AAACATATCATTTCACAACTTTACTGGAAAGAAACCATGAATATTTATGTTGCTAATAGAACTAC
*
27073283 TGCATCTCCAATTTGCC
66 TACATCTCCAATTTGCC
*
27073300 AAACATATCA-TTCACAACTTTACTGG-AAGAAGACCATGAATATTTGTGTTGCTAATAGAACTA
1 AAACATATCATTTCACAACTTTACTGGAAAGAA-ACCATGAATATTTATGTTGCTAATAGAACTA
*
27073363 CTACATCTGCAATTTGC
65 CTACATCTCCAATTTGC
27073380 AGAAGAACAG
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
80 5 0.07
81 57 0.79
82 10 0.14
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (82 bp):
AAACATATCATTTCACAACTTTACTGGAAAGAAACCATGAATATTTATGTTGCTAATAGAACTAC
TACATCTCCAATTTGCC
Found at i:27084393 original size:19 final size:21
Alignment explanation
Indices: 27084348--27084393 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
27084338 TACTTATAAT
*
27084348 TATTTTTTTATTTTTAAATTA
1 TATTTTTTTATTATTAAATTA
*
27084369 TGATTTTTTT-TTATTATA-TA
1 T-ATTTTTTTATTATTAAATTA
27084389 TATTT
1 TATTT
27084394 ATATTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 3 0.14
21 7 0.32
22 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TATTTTTTTATTATTAAATTA
Found at i:27084399 original size:25 final size:24
Alignment explanation
Indices: 27084341--27084401 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
27084331 ATTTGAATAC
*
27084341 TTATAATTATTTTTTTATTTTTAAA
1 TTATAATT-TTTTTTTATTTATAAA
* *
27084366 TTATGATTTTTTTTTATTATATATA
1 TTATAATTTTTTTTTATT-TATAAA
27084391 TT-TATATTTTT
1 TTATA-ATTTTT
27084402 AGCTTCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATAATTTTTTTTTATTTATAAA
Found at i:27084400 original size:23 final size:24
Alignment explanation
Indices: 27084348--27084401 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
27084338 TACTTATAAT
*
27084348 TATTTTTTTATTTTTAAATTATGA
1 TATTTTTTTATTTATAAATTATGA
* *
27084372 TTTTTTTTTATTATATATATT-T-A
1 TATTTTTTTATT-TATAAATTATGA
27084395 TATTTTT
1 TATTTTT
27084402 AGCTTCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 7 0.28
24 12 0.48
25 6 0.24
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TATTTTTTTATTTATAAATTATGA
Found at i:27085717 original size:27 final size:29
Alignment explanation
Indices: 27085687--27085746 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
27085677 ATAAGTCAAG
27085687 TAAAATGTTTAACATA-ATT-TTTAAATT-
1 TAAAATGTTTAA-ATATATTATTTAAATTA
* *
27085714 TAAAATTTTTTAATATATTATTTAAATTA
1 TAAAATGTTTAAATATATTATTTAAATTA
27085743 TAAA
1 TAAA
27085747 TCTATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.11
27 13 0.46
28 8 0.29
29 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAAATGTTTAAATATATTATTTAAATTA
Found at i:27085865 original size:14 final size:14
Alignment explanation
Indices: 27085833--27085895 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
27085823 ACATTTGTTA
27085833 TTAAAT-TTATAAT
1 TTAAATATTATAAT
27085846 TTAAATATTAT-AT
1 TTAAATATTATAAT
*
27085859 TTAAAATATTTAAAAT
1 TT-AAATA-TTATAAT
*
27085875 TTAAATATCAT-A-
1 TTAAATATTATAAT
27085887 TTAAATATT
1 TTAAATATT
27085896 TTATTATAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
12 8 0.19
13 11 0.26
14 11 0.26
15 8 0.19
16 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATATTATAAT
Found at i:27085870 original size:29 final size:27
Alignment explanation
Indices: 27085837--27085896 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
27085827 TTGTTATTAA
* *
27085837 ATTTATAATTTAAATATTATATTTAAAAT
1 ATTTAAAATTTAAATATCATA-TT-AAAT
27085866 ATTTAAAATTTAAATATCATATTAAAT
1 ATTTAAAATTTAAATATCATATTAAAT
27085893 ATTT
1 ATTT
27085897 TATTATAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 8 0.28
28 2 0.07
29 19 0.66
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTAAAATTTAAATATCATATTAAAT
Found at i:27085896 original size:20 final size:17
Alignment explanation
Indices: 27085855--27085896 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
27085845 TTTAAATATT
27085855 ATATTTAAAATATTTAA
1 ATATTTAAAATATTTAA
27085872 A-ATTTAAATATCATATTAA
1 ATATTTAAA-AT-AT-TTAA
27085891 ATATTT
1 ATATTT
27085897 TATTATAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.33
17 3 0.14
18 2 0.10
19 5 0.24
20 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTTAAAATATTTAA
Found at i:27086173 original size:2 final size:2
Alignment explanation
Indices: 27086154--27086187 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
27086144 TATGGTGTAC
* *
27086154 AT AT AC AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27086188 GCCTAGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:27087995 original size:2 final size:2
Alignment explanation
Indices: 27087988--27088017 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27087978 GGCTTTGTTT
27087988 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
27088018 CCAGAAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27093209 original size:21 final size:20
Alignment explanation
Indices: 27093181--27093219 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27093171 AATGACTCCT
27093181 TTGGTTCTCACCATTGCCTC
1 TTGGTTCTCACCATTGCCTC
*
27093201 TTGGCTTCTCGCCATTGCC
1 TTGG-TTCTCACCATTGCC
27093220 AATCGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.08, C:0.36, G:0.18, T:0.38
Consensus pattern (20 bp):
TTGGTTCTCACCATTGCCTC
Found at i:27098937 original size:2 final size:2
Alignment explanation
Indices: 27098924--27098965 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
27098914 TTTAAGGTTT
* *
27098924 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TT 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
27098966 AGGATAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:27101903 original size:17 final size:17
Alignment explanation
Indices: 27101869--27101907 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
27101859 AATTAAAAAA
27101869 AAAAAGAAATAATTGGAG
1 AAAAAGAAAT-ATTGGAG
27101887 AAAAAGAAAT-TTAGGAG
1 AAAAAGAAATATT-GGAG
27101904 AAAA
1 AAAA
27101908 TATATACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.10
17 8 0.40
18 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (17 bp):
AAAAAGAAATATTGGAG
Found at i:27103641 original size:33 final size:33
Alignment explanation
Indices: 27103604--27103671 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
27103594 AACTACATAA
27103604 TATTTAATTTCGTTAACCCGCACGCTTGTGTTT
1 TATTTAATTTCGTTAACCCGCACGCTTGTGTTT
27103637 TATTTAATTTCGTTAACCCGCACGCTTGTGTTT
1 TATTTAATTTCGTTAACCCGCACGCTTGTGTTT
27103670 TA
1 TA
27103672 GGCTGACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (33 bp):
TATTTAATTTCGTTAACCCGCACGCTTGTGTTT
Found at i:27111307 original size:17 final size:17
Alignment explanation
Indices: 27111287--27111355 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 17
27111277 TAATAGAATA
27111287 TTTATTAAAATATTATT
1 TTTATTAAAATATTATT
*
27111304 TTTAATAAAA-ATATATTT
1 TTTATTAAAATAT-TA-TT
*
27111322 TAATTATATATAAATGTTAATT
1 T--TTAT-TA-AAATATT-ATT
27111344 TTTATTAAAATA
1 TTTATTAAAATA
27111356 AAAAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 7 0.17
19 2 0.05
20 7 0.17
21 2 0.05
22 7 0.17
23 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (17 bp):
TTTATTAAAATATTATT
Done.