Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 32 of 74
Found at i:7012279 original size:15 final size:16
Alignment explanation
Indices: 7012261--7012293 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7012251 TAATTTTTAT
7012261 AATATAAAATTA-ATA
1 AATATAAAATTATATA
*
7012276 AATATTAAATTATATA
1 AATATAAAATTATATA
7012292 AA
1 AA
7012294 AATGTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAAATTATATA
Found at i:7012507 original size:14 final size:13
Alignment explanation
Indices: 7012488--7012538 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
7012478 CTTTTAACAT
7012488 TTATATTTATTATA
1 TTATATTTATT-TA
7012502 TTATATTT-TTTA
1 TTATATTTATTTA
7012514 TT-T-TTTATTTTA
1 TTATATTTA-TTTA
*
7012526 TTATAGTTATTTA
1 TTATATTTATTTA
7012539 ATATGTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 3 0.09
11 1 0.03
12 10 0.31
13 7 0.22
14 11 0.34
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTATATTTATTTA
Found at i:7012560 original size:15 final size:15
Alignment explanation
Indices: 7012534--7012579 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
7012524 TATTATAGTT
7012534 ATTTAATATGTAATTAA
1 ATTT-ATATGTAATT-A
7012551 ATTT-TATGTAATTA
1 ATTTATATGTAATTA
7012565 ATTTAATATGTAATT
1 ATTT-ATATGTAATT
7012580 TAATAGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 9 0.33
16 9 0.33
17 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTTATATGTAATTA
Found at i:7023021 original size:25 final size:26
Alignment explanation
Indices: 7022986--7023045 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
7022976 GAGGGATTTT
7022986 AGAAAAA-AAATAGAAA-AGAAAA-AA
1 AGAAAAAGAAATA-AAATAGAAAACAA
7023010 AGAAAAAGAAATAAAATAGAAAACAA
1 AGAAAAAGAAATAAAATAGAAAACAA
7023036 A-AAAGAAGAA
1 AGAAA-AAGAA
7023046 TATTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.31
25 14 0.44
26 8 0.25
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (26 bp):
AGAAAAAGAAATAAAATAGAAAACAA
Found at i:7023025 original size:23 final size:25
Alignment explanation
Indices: 7022986--7023042 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 25
7022976 GAGGGATTTT
7022986 AGAAAAA-AAATAGAAAAGA-AAAAA
1 AGAAAAAGAAATA-AAAAGAGAAAAA
* *
7023010 AGAAAAAGAAAT-AAAATAGAAAAC
1 AGAAAAAGAAATAAAAAGAGAAAAA
7023034 A-AAAAAGAA
1 AGAAAAAGAA
7023043 GAATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 13 0.45
24 12 0.41
25 4 0.14
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (25 bp):
AGAAAAAGAAATAAAAAGAGAAAAA
Found at i:7024018 original size:21 final size:20
Alignment explanation
Indices: 7023977--7024019 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7023967 AAGAAAGAAG
* * *
7023977 TTATTAATTTAAATTTGGGT
1 TTATTAAGTTAAAATAGGGT
7023997 TTATTAAGTTAAAATAGTGGT
1 TTATTAAGTTAAAATAG-GGT
7024018 TT
1 TT
7024020 GGTTAAGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (20 bp):
TTATTAAGTTAAAATAGGGT
Found at i:7024543 original size:16 final size:16
Alignment explanation
Indices: 7024524--7024561 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
7024514 TTGAAATATG
*
7024524 AAATAACCTAATCCTA
1 AAATAACCTAAACCTA
*
7024540 AAATAACCTAAACCTT
1 AAATAACCTAAACCTA
7024556 AAATAA
1 AAATAA
7024562 TTTAAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAACCTAAACCTA
Found at i:7025637 original size:17 final size:17
Alignment explanation
Indices: 7025615--7025650 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7025605 AAATTTATAC
7025615 ATCTATACATAT-ATTAT
1 ATCTATACAT-TCATTAT
7025632 ATCTATACATTCATTAT
1 ATCTATACATTCATTAT
7025649 AT
1 AT
7025651 AAAAACAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCTATACATTCATTAT
Found at i:7032907 original size:21 final size:21
Alignment explanation
Indices: 7032855--7032908 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
7032845 TCCAATTATT
** *
7032855 TTATATAAATAATAATTTAATA
1 TTATA-AAATAATAAAATAAAA
**
7032877 TTATTTAATAATAAAATAAAA
1 TTATAAAATAATAAAATAAAA
7032898 TTATAAAATAA
1 TTATAAAATAA
7032909 ATTACCAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAAAATAATAAAATAAAA
Found at i:7033214 original size:18 final size:15
Alignment explanation
Indices: 7033183--7033229 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 15
7033173 TATGCATAAA
*
7033183 ATATAATAATTATTT
1 ATATAATAAATATTT
7033198 AATCATACATAAATA-TT
1 -AT-ATA-ATAAATATTT
7033215 ATATAATAAATATTT
1 ATATAATAAATATTT
7033230 TATGCCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 7 0.26
15 5 0.19
16 4 0.15
17 5 0.19
18 6 0.22
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATAAATATTT
Found at i:7036048 original size:13 final size:15
Alignment explanation
Indices: 7036025--7036061 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
7036015 TAAATTAATA
7036025 ATAAA-AAAAAT-TT
1 ATAAATAAAAATATT
7036038 -TAAATAAAAATATT
1 ATAAATAAAAATATT
7036052 ATAAATAAAA
1 ATAAATAAAA
7036062 TTAGAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 6 0.29
14 2 0.10
15 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATAAAAATATT
Found at i:7036248 original size:13 final size:13
Alignment explanation
Indices: 7036232--7036264 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7036222 GATATATTTG
7036232 TTAATTATAAAAA
1 TTAATTATAAAAA
*
7036245 TTAAATATAAAAA
1 TTAATTATAAAAA
7036258 -TAATTAT
1 TTAATTAT
7036265 TTATAGTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAATTATAAAAA
Found at i:7037446 original size:17 final size:16
Alignment explanation
Indices: 7037420--7037452 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
7037410 TCTTTCCCTA
7037420 ATTTTTTATTATTTTT
1 ATTTTTTATTATTTTT
7037436 ATTTATTTATTATTTTT
1 ATTT-TTTATTATTTTT
7037453 TTTCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTATTATTTTT
Found at i:7039483 original size:30 final size:29
Alignment explanation
Indices: 7039424--7039509 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
7039414 TAAAAACTAT
*
7039424 ATAAAAATAT-AA-AAATCAAAAT-AAAAA
1 ATAAATATATAAATAAAT-AAAATAAAAAA
*
7039451 AT-AATA-ATATAATAATGTAAAATAATAAAA
1 ATAAATATATA-AATAA-ATAAAATAA-AAAA
7039481 ATAAATATATAAATAAATAAAATAAAAAA
1 ATAAATATATAAATAAATAAAATAAAAAA
7039510 CAAAACAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 4 0.08
28 7 0.15
29 6 0.12
30 14 0.29
31 9 0.19
32 3 0.06
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (29 bp):
ATAAATATATAAATAAATAAAATAAAAAA
Found at i:7039494 original size:21 final size:21
Alignment explanation
Indices: 7039421--7039506 Score: 63
Period size: 21 Copynumber: 4.0 Consensus size: 21
7039411 ATATAAAAAC
*
7039421 TATATAAAAATATAAAAATCAAA
1 TATATAAATA-ATAAAAAT-AAA
*
7039444 -ATA-AAA-AATAATAATATAA
1 TATATAAATAATAAAAATA-AA
*
7039463 TAATGTAAAATAATAAAAATAAA
1 T-ATAT-AAATAATAAAAATAAA
7039486 TATATAAATAA-ATAAAATAAA
1 TATATAAATAATA-AAAATAAA
7039507 AAACAAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
18 1 0.02
19 9 0.17
20 2 0.04
21 19 0.37
22 6 0.12
23 6 0.12
24 9 0.17
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (21 bp):
TATATAAATAATAAAAATAAA
Found at i:7041262 original size:10 final size:10
Alignment explanation
Indices: 7041244--7041284 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
7041234 AAATGAAATC
*
7041244 ATAAAAATAA
1 ATAATAATAA
7041254 ATAATAATAAA
1 ATAATAAT-AA
*
7041265 ATATTAATAA
1 ATAATAATAA
7041275 ATAATAATAA
1 ATAATAATAA
7041285 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATAATAATAA
Found at i:7041272 original size:11 final size:11
Alignment explanation
Indices: 7041252--7041300 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
7041242 TCATAAAAAT
7041252 AAATAATAATA
1 AAATAATAATA
*
7041263 AAATATTAATAA
1 AAATAATAAT-A
7041275 ATAATAATAATA
1 A-AATAATAATA
**
7041287 AAATTTTAATA
1 AAATAATAATA
7041298 AAA
1 AAA
7041301 GGGAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 20 0.62
12 4 0.12
13 8 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:7041280 original size:24 final size:25
Alignment explanation
Indices: 7041248--7041299 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
7041238 GAAATCATAA
7041248 AAATAAATAATAATAAAATATTAAT
1 AAATAAATAATAATAAAATATTAAT
*
7041273 AAAT-AATAATAATAAAATTTTAAT
1 AAATAAATAATAATAAAATATTAAT
7041297 AAA
1 AAA
7041300 AGGGAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATAAATAATAATAAAATATTAAT
Found at i:7042629 original size:43 final size:42
Alignment explanation
Indices: 7042547--7042646 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 42
7042537 AGTAGAGGCA
* * * *
7042547 CAACAACTTTAAAAATTTTAAAGGCTTATTTAAGTAAAGATT
1 CAACAACTTTAAAAATTTGAAAGGCTTATCTAAGCAAAGACT
*
7042589 CAACAACTTTAAATAATTTGAAAGGCTTCTCTAAGCAAAGACT
1 CAACAACTTTAAA-AATTTGAAAGGCTTATCTAAGCAAAGACT
*
7042632 CAACAATTTTAAAAA
1 CAACAACTTTAAAAA
7042647 ATTCTCATCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 15 0.29
43 36 0.71
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (42 bp):
CAACAACTTTAAAAATTTGAAAGGCTTATCTAAGCAAAGACT
Found at i:7042795 original size:102 final size:102
Alignment explanation
Indices: 7042609--7042867 Score: 297
Period size: 102 Copynumber: 2.5 Consensus size: 102
7042599 AAATAATTTG
* * * * * * *
7042609 AAAGGCTTCTCTAAGCAAAGACTCAACAATTTTAAAAAATTCTCATCTTCAAAAAAGCTCATCCA
1 AAAGGATTCTCTAAGTATAGGCTCAACAACTTT-AAAAATTCTCATCTTGAAAAAAGCTAATCCA
* **
7042674 AGTAGAGGCTCTACAAC-TTTAAAATCTTCATATTGAAA
65 AGTAGAAGCTAAACAACTTTTAAAATCTTCATATTG-AA
* * * * * *
7042712 AAAGGTTTCTCTAAGTATAGGCTAAACAACTTTAAAAATTTTCATTTTGAAAAAGGCTAATCTAA
1 AAAGGATTCTCTAAGTATAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAAGCTAATCCAA
*
7042777 GTAGAAGCTAAACAACTTTTAAAATTTTCATATTGAA
66 GTAGAAGCTAAACAACTTTTAAAATCTTCATATTGAA
* * *
7042814 AAA-GACTCTTCTAAATATAAGCTCAACAACTTTAAAAATTCTCATCTTGAAAAA
1 AAAGGATTC-TCTAAGTATAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAA
7042868 TGCTCCCCTA
Statistics
Matches: 131, Mismatches: 23, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
101 3 0.02
102 84 0.64
103 44 0.34
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (102 bp):
AAAGGATTCTCTAAGTATAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAAAGCTAATCCAA
GTAGAAGCTAAACAACTTTTAAAATCTTCATATTGAA
Found at i:7042798 original size:52 final size:51
Alignment explanation
Indices: 7042633--7042907 Score: 227
Period size: 51 Copynumber: 5.4 Consensus size: 51
7042623 GCAAAGACTC
* * * * * * * *
7042633 AACAATTTTAAAAAATTCTCATCTTCAAAAAAGCTCATCCAAGTAGAGGCTC
1 AACAACTTT-AAAAATTTTCATATTGAAAAAGGCTCATCTAAGTAGAAGCTA
* * * * *
7042685 TACAACTTT-AAAATCTTCATATTGAAAAAAGGTTTC-TCTAAGTATAGGCTA
1 AACAACTTTAAAAATTTTCATATTG-AAAAAGG-CTCATCTAAGTAGAAGCTA
* *
7042736 AACAACTTTAAAAATTTTCATTTTGAAAAAGGCTAATCTAAGTAGAAGCTA
1 AACAACTTTAAAAATTTTCATATTGAAAAAGGCTCATCTAAGTAGAAGCTA
* * * * * *
7042787 AACAACTTTTAAAATTTTCATATTGAAAAAGACTCTTCTAAATATAAGCTC
1 AACAACTTTAAAAATTTTCATATTGAAAAAGGCTCATCTAAGTAGAAGCTA
* * * ** *
7042838 AACAACTTTAAAAATTCTCATCTTGAAAAATGCTCCCCTAAGCA-AAGACGT-
1 AACAACTTTAAAAATTTTCATATTGAAAAAGGCTCATCTAAGTAGAAG-C-TA
7042889 AACAACTTT-AAAATTTTCA
1 AACAACTTTAAAAATTTTCA
7042908 CTTTTTCTTA
Statistics
Matches: 181, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
50 24 0.13
51 134 0.74
52 23 0.13
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (51 bp):
AACAACTTTAAAAATTTTCATATTGAAAAAGGCTCATCTAAGTAGAAGCTA
Found at i:7042879 original size:102 final size:101
Alignment explanation
Indices: 7042630--7042907 Score: 294
Period size: 102 Copynumber: 2.7 Consensus size: 101
7042620 TAAGCAAAGA
* * * *
7042630 CTCAACAATTTTAAAAAATTCTCATCTTCAAAAAAGCTCATCC-AAGTAGAGGCTCTACAACTTT
1 CTCAACAACTTT-AAAAATTCTCATCTTGAAAAAAGCTCA-CCTAAGTAGAAGCT-AACAACTTT
* * * * *
7042694 AAAATCTTCATATTGAAAAAAGGTTTCTCTAAGTATAGG
63 AAAATTTTCATATTGAAAAAAGCTCTCTCTAAATATAAG
* * * * * *
7042733 CTAAACAACTTTAAAAATTTTCATTTTGAAAAAGGCTAATCTAAGTAGAAGCTAAACAACTTTTA
1 CTCAACAACTTTAAAAATTCTCATCTTGAAAAAAGCTCACCTAAGTAGAAGCT-AACAAC-TTTA
7042798 AAATTTTCATATTG-AAAAAGACTCT-TCTAAATATAAG
64 AAATTTTCATATTGAAAAAAG-CTCTCTCTAAATATAAG
* * *
7042835 CTCAACAACTTTAAAAATTCTCATCTTGAAAAATGCTCCCCTAAGCA-AAGACGTAACAACTTTA
1 CTCAACAACTTTAAAAATTCTCATCTTGAAAAAAGCTCACCTAAGTAGAAG-C-TAACAACTTTA
7042899 AAATTTTCA
64 AAATTTTCA
7042908 CTTTTTCTTA
Statistics
Matches: 146, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
101 17 0.12
102 99 0.68
103 30 0.21
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (101 bp):
CTCAACAACTTTAAAAATTCTCATCTTGAAAAAAGCTCACCTAAGTAGAAGCTAACAACTTTAAA
ATTTTCATATTGAAAAAAGCTCTCTCTAAATATAAG
Found at i:7043776 original size:16 final size:15
Alignment explanation
Indices: 7043748--7043787 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
7043738 GATAAATACC
7043748 TCTTTTCTTTTATTTT
1 TCTTTT-TTTTATTTT
7043764 TCATTTTTTTTATTTT
1 TC-TTTTTTTTATTTT
7043780 TCTTTTTT
1 TCTTTTTT
7043788 GAAGCAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.26
16 13 0.57
17 4 0.17
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TCTTTTTTTTATTTT
Found at i:7047666 original size:199 final size:199
Alignment explanation
Indices: 7047142--7047693 Score: 673
Period size: 198 Copynumber: 2.8 Consensus size: 199
7047132 AATCTATCGT
*
7047142 GACAATAAAATCAAACGTCACTTTATAC-TTTTTTTGTGACGTTAATTTTCATCAGCTATTTATG
1 GACAATAAAATCAAACGTCACTTTATACTTTTTTTTGTGACATTAATTTTCATCAGCTATTTATG
* * * *
7047206 AAAAAAAAAGTCATTAGAGGCTATAATGGTCACAAAATAAATGATAAAATCTTATATATATAAGT
66 --GAAAAAAGTCATTAAAAGCTATAATCGTCACAAAATAAATGATAAAATCTTATATAT-T-AGT
* ** * * ** * * * *
7047271 GA-CAAAAGGTAAATCATCACAGTATTAGTGATATAATTATTGTCACAAATGATTACAAGATAAT
127 GATGAAAA-GTAAATTGTCACAATATTAGTGACATAATTAACGTAAAAAATGATTACAAGAAAAC
* *
7047335 GTTAAACAT
191 ATTAAACAA
* * * * * * *
7047344 GACAATAAAATCAAACGTCACCTTATGCTTTTTTTTATAACATTAGTTTTCGTTAGCTATTTAT-
1 GACAATAAAATCAAACGTCACTTTATACTTTTTTTTGTGACATTAATTTTCATCAGCTATTTATG
* * *
7047408 GAAAAAAATCATTGAAAGCTATAATCGTCACAAAATAAATAATAAAAT-TTGATATATTAGTGAT
66 GAAAAAAGTCATTAAAAGCTATAATCGTCACAAAATAAATGATAAAATCTT-ATATATTAGTGAT
*
7047472 GAAAAGTAAATTGTCACAATATTAGTGACATAATTAACGTAAAAAATGATTGCAAGAAAACATTA
130 GAAAAGTAAATTGTCACAATATTAGTGACATAATTAACGTAAAAAATGATTACAAGAAAACATTA
7047537 AACAA
195 AACAA
* * * *
7047542 GATAATAAAATCAAGCATCACTTTATACTTTTTTTTGTGACATTAAATTTT-ATCAGCTATATAT
1 GACAATAAAATCAAACGTCACTTTATACTTTTTTTTGTGACATT-AATTTTCATCAGCTATTTAT
* *
7047606 GGAAAAAAGTCATTAAAAACTATAATCGCCACAAAATAAATGATAAAATCTTATATATTAGTGAT
65 GGAAAAAAGTCATTAAAAGCTATAATCGTCACAAAATAAATGATAAAATCTTATATATTAGTGAT
* *
7047671 GAAAGGTAAATTGTCATAATATT
130 GAAAAGTAAATTGTCACAATATT
7047694 GATAACAAAA
Statistics
Matches: 297, Mismatches: 47, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
198 104 0.35
199 89 0.30
200 49 0.16
202 26 0.09
203 29 0.10
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (199 bp):
GACAATAAAATCAAACGTCACTTTATACTTTTTTTTGTGACATTAATTTTCATCAGCTATTTATG
GAAAAAAGTCATTAAAAGCTATAATCGTCACAAAATAAATGATAAAATCTTATATATTAGTGATG
AAAAGTAAATTGTCACAATATTAGTGACATAATTAACGTAAAAAATGATTACAAGAAAACATTAA
ACAA
Found at i:7059236 original size:58 final size:58
Alignment explanation
Indices: 7059169--7059458 Score: 348
Period size: 58 Copynumber: 4.9 Consensus size: 58
7059159 TTTTGTGCAG
* * * *
7059169 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTATTTTGAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAA
* * * * *
7059227 GGAAAATTGATACTTTCAACTTTTTCACAAAATTTTATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA--ATA-TTTTTTTGAAACTTTATTTTCAA
* * *
7059288 GGAAAAATTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAATTTTATTTTTAA
1 GG-AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAACTTTATTTTCAA
* * *
7059348 GGAAAATTGCTACTTTCAACTTTTTCTCAAAAAT-GTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTT-ATTTTCAA
** *
7059406 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTTGAAACTTTAT
7059459 ATATTTTTTG
Statistics
Matches: 200, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
57 13 0.06
58 68 0.34
59 31 0.16
60 39 0.19
61 21 0.10
62 28 0.14
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTATTTTCAA
Found at i:7059547 original size:17 final size:17
Alignment explanation
Indices: 7059488--7059559 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
7059478 TAAATAAAAT
7059488 AATAAAAC-AAAATAAA
1 AATAAAACAAAAATAAA
* * *
7059504 AGTGAAAATAAATAAAAAA
1 AAT-AAAACAAA-AATAAA
7059523 AGAGTAAAACAAAAATAAA
1 A-A-TAAAACAAAAATAAA
* *
7059542 AATAAAATAAAGATAAA
1 AATAAAACAAAAATAAA
7059559 A
1 A
7059560 GAATATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.05
17 18 0.42
18 3 0.07
19 12 0.28
20 7 0.16
21 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (17 bp):
AATAAAACAAAAATAAA
Found at i:7059557 original size:11 final size:11
Alignment explanation
Indices: 7059496--7059559 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
7059486 ATAATAAAAC
*
7059496 AAAATAAAAGTG
1 AAAATAAAA-TA
7059508 AAAAT-AAATA
1 AAAATAAAATA
*
7059518 AAAA-AAGAGTA
1 AAAATAA-AATA
7059529 AAACA-AAAATA
1 AAA-ATAAAATA
7059540 AAAATAAAATA
1 AAAATAAAATA
*
7059551 AAGATAAAA
1 AAAATAAAA
7059560 GAATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 7 0.16
11 29 0.66
12 8 0.18
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:7059607 original size:20 final size:22
Alignment explanation
Indices: 7059582--7059621 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
7059572 ATCCTAATTT
7059582 AATAAATAAA-A-TAAAAAACA
1 AATAAATAAATATTAAAAAACA
7059602 AATAAATAAATATTAAAAAA
1 AATAAATAAATATTAAAAAA
7059622 AGAAAGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (22 bp):
AATAAATAAATATTAAAAAACA
Found at i:7060089 original size:8 final size:8
Alignment explanation
Indices: 7060078--7060115 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
7060068 ACCTTTTTAC
7060078 TTTTTG-T
1 TTTTTGTT
7060085 TTTTTGTT
1 TTTTTGTT
7060093 TTTTTGTT
1 TTTTTGTT
*
7060101 TTTTTTTT
1 TTTTTGTT
7060109 ATTTTTG
1 -TTTTTG
7060116 ATCAAAGCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 16 0.59
9 5 0.19
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (8 bp):
TTTTTGTT
Found at i:7060096 original size:15 final size:14
Alignment explanation
Indices: 7060078--7060108 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7060068 ACCTTTTTAC
7060078 TTTTTGTTTTTTGTT
1 TTTTTGTTTTTT-TT
7060093 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
7060107 TT
1 TT
7060109 ATTTTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:7060189 original size:43 final size:42
Alignment explanation
Indices: 7060122--7060235 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 42
7060112 TTTGATCAAA
* * * *
7060122 GCTCTTCTAAACAGAGGCTTAACGACTTTAAAAAACATAAATG
1 GCTCATCTAATCAGAGGCTCAACGACTTTAAAAAA-ATAAAAG
* **
7060165 GCTCATCTAATCAGAGGCTCAACGATTTTGGAAAAATAAAAG
1 GCTCATCTAATCAGAGGCTCAACGACTTTAAAAAAATAAAAG
* * *
7060207 GCTCCTCTAAAT-AGAGGCACCACGACTTT
1 GCTCATCT-AATCAGAGGCTCAACGACTTT
7060236 TGAAAGTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (42 bp):
GCTCATCTAATCAGAGGCTCAACGACTTTAAAAAAATAAAAG
Found at i:7060258 original size:41 final size:41
Alignment explanation
Indices: 7060159--7060620 Score: 609
Period size: 41 Copynumber: 11.1 Consensus size: 41
7060149 TTAAAAAACA
* * * * * * *
7060159 TAAATGGCTCATCTAATCAGAGGCTCAACGATTTTGGAAAAA
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAG
** * *
7060201 TAAAAGGCTCCTCTAAATAGAGGCACCACGACTTTTGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* * *
7060242 TAAATTGCTCCTCTAAATAGAGGCACCACGACGTTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
*
7060283 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAA
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* *
7060324 TAAATTGCTCCTCTAAACAGAGACACCACAACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* * *
7060365 TAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
7060406 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* * *
7060447 TAAATTGCTCTTTTAAACAGAGGCACCACGACTTTGAAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* *
7060488 TAAATTGCTCCTCTAAACAGTGGCACCATGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
7060529 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
* ** * *
7060570 TAAAATGCTTTTCTAAATAGAGGCCAGCCACCGATTTTGGGAAAG
1 TAAATTGCTCCTCTAAACAGAGG-CA-CCA-CGACTTT-GGAAAG
7060615 TAAATT
1 TAAATT
7060621 ATTTCCTTGA
Statistics
Matches: 371, Mismatches: 45, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
41 320 0.86
42 31 0.08
43 3 0.01
44 6 0.02
45 11 0.03
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (41 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAG
Found at i:7061938 original size:22 final size:23
Alignment explanation
Indices: 7061913--7061963 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
7061903 TTTTCTCATA
7061913 TTTTCATTCATTCAT-TCTTTTT
1 TTTTCATTCATTCATATCTTTTT
* **
7061935 TTTTCTTTTTTTCATCATCTTTTT
1 TTTTCATTCATTCAT-ATCTTTTT
7061959 TTTTC
1 TTTTC
7061964 TTTTTTCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.50
24 12 0.50
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTCATTCATTCATATCTTTTT
Found at i:7061967 original size:22 final size:25
Alignment explanation
Indices: 7061919--7061970 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
7061909 CATATTTTCA
7061919 TTCATTCATTCTTTTTTTTTCTTTTT
1 TTCATTCATTCTTTTTTTTTC-TTTT
7061945 TTCA-TCA-TCTTTTTTTTTCTTTT
1 TTCATTCATTCTTTTTTTTTCTTTT
7061968 TTC
1 TTC
7061971 TCATTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 7 0.27
24 12 0.46
25 3 0.12
26 4 0.15
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (25 bp):
TTCATTCATTCTTTTTTTTTCTTTT
Found at i:7065941 original size:58 final size:57
Alignment explanation
Indices: 7065878--7066037 Score: 225
Period size: 60 Copynumber: 2.8 Consensus size: 57
7065868 TTGTGCAGGA
7065878 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTATTTTGAAACTTTAATTTCAAGC
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATT-TTTTGAAACTTTAATTTCAAGC
*
7065936 AAAATTGATACTTTCAACTTTTC-CTCAAAAATTTATTTTTTTGAAACTTTAATTTCGAGC
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAA--TA-TTTTTTGAAACTTTAATTTCAAGC
* * *
7065996 AAAATTGACACTTTCAACTTTTCTTCAAAATTA-TTTTTGAAA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAA
7066038 TTTTTTTAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
56 9 0.10
57 1 0.01
58 31 0.33
60 50 0.54
61 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAACTTTAATTTCAAGC
Found at i:7066009 original size:60 final size:59
Alignment explanation
Indices: 7065878--7066341 Score: 237
Period size: 59 Copynumber: 7.8 Consensus size: 59
7065868 TTGTGCAGGA
*
7065878 AAAATTGATACTTTCAACTTTT-CTCCAAAAA-TATTATTTTGAAACTTTAATTTCAAGC
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATTATTTTTTTGAAACTTTAATTTCAAGC
*
7065936 AAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAACTTTAATTTCGAGC
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TTATTTTTTTGAAACTTTAATTTCAAGC
* * *
7065996 AAAATTGACACTTTCAACTTTTCTTC-AAAATTA--TTTTTGAAA-TTT--TTT----T
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAACTTTAATTTCAAGC
* *
7066045 AAAA-TGATAC-TTCAAC-TTT--TC-AAAA--A---TTTTGAAACTTTTAA-TT-GAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAAC-TTTAATTTCAAGC
** **
7066092 AAAATTGATACTTCCTTCCAAAACTTTTAATTTTTCCAAAAAATTATTTCCTTTCCCAAAAACTG
1 AAAATTGATAC-T--TT-C--AAC--TT--TTCCT-C-AAAAATTATTT--TTT---TGAAAC--
*
7066157 TTTTGGAACTTTTCGAG-
47 -TTT--AA--TTTCAAGC
** * * * *
7066174 AAAATTGATACTTTCAACTTTTCCTCAAAAACCA-TTTTTTGAAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTG-AAACTTTAATTTCAAGC
* * * *
7066233 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TGTTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAACTTT-AATTTCAAGC
*** *
7066292 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAACTTTA
7066342 TATATTTTTT
Statistics
Matches: 326, Mismatches: 29, Indels: 101
0.71 0.06 0.22
Matches are distributed among these distances:
41 8 0.02
42 1 0.00
43 3 0.01
44 8 0.02
46 3 0.01
47 10 0.03
48 11 0.03
49 4 0.01
52 2 0.01
53 4 0.01
55 6 0.02
56 9 0.03
58 43 0.13
59 83 0.25
60 65 0.20
62 4 0.01
63 1 0.00
65 7 0.02
67 4 0.01
69 2 0.01
70 6 0.02
71 1 0.00
72 6 0.02
74 2 0.01
75 4 0.01
76 3 0.01
77 4 0.01
78 1 0.00
79 4 0.01
81 1 0.00
82 13 0.04
83 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTGAAACTTTAATTTCAAGC
Found at i:7066239 original size:59 final size:59
Alignment explanation
Indices: 7066166--7066342 Score: 243
Period size: 59 Copynumber: 3.0 Consensus size: 59
7066156 GTTTTGGAAC
*
7066166 TTTTCGAG-AAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTTTGAAAATTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTTTGAAAATTTTA
* ** * *
7066224 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TGTTTTTTGGAAACTTTGA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTTT-GAAAATTTTA
* *
7066283 TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTG-AAATTTTA
1 TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCATTTTTTGAAAATTTTA
7066342 T
1 T
7066343 ATATTTTTTG
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
58 12 0.12
59 84 0.82
60 1 0.01
61 6 0.06
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (59 bp):
TTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACCATTTTTTGAAAATTTTA
Found at i:7066431 original size:17 final size:17
Alignment explanation
Indices: 7066372--7066443 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
7066362 TAAATAAAAT
7066372 AATAAAAC-AAAATAAA
1 AATAAAACAAAAATAAA
* * *
7066388 AGTGAAAATAAATAAAAAA
1 AAT-AAAACAAA-AATAAA
7066407 AGAGTAAAACAAAAATAAA
1 A-A-TAAAACAAAAATAAA
* *
7066426 AATAAAATAAAGATAAA
1 AATAAAACAAAAATAAA
7066443 A
1 A
7066444 GAATATTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 2 0.05
17 18 0.42
18 3 0.07
19 12 0.28
20 7 0.16
21 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (17 bp):
AATAAAACAAAAATAAA
Found at i:7066441 original size:11 final size:11
Alignment explanation
Indices: 7066380--7066443 Score: 53
Period size: 11 Copynumber: 5.8 Consensus size: 11
7066370 ATAATAAAAC
*
7066380 AAAATAAAAGTG
1 AAAATAAAA-TA
7066392 AAAAT-AAATA
1 AAAATAAAATA
*
7066402 AAAA-AAGAGTA
1 AAAATAA-AATA
7066413 AAACA-AAAATA
1 AAA-ATAAAATA
7066424 AAAATAAAATA
1 AAAATAAAATA
*
7066435 AAGATAAAA
1 AAAATAAAA
7066444 GAATATTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 7 0.16
11 29 0.66
12 8 0.18
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.14
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:7066475 original size:4 final size:4
Alignment explanation
Indices: 7066466--7066506 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
7066456 ATCCTAATTT
* *
7066466 AATA AATAA AATA AAAA AACA AATA AATA AATA AATA AATA
1 AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA
7066507 TTAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:7067518 original size:22 final size:20
Alignment explanation
Indices: 7067491--7067544 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
7067481 AATAGCTAAG
*
7067491 ATAAAAATAAAGGAAAATATA
1 ATAAAAATAAAAGAAAA-ATA
*
7067512 TATAAAAA-AATAATAAAAATA
1 -ATAAAAATAA-AAGAAAAATA
7067533 ATAAAAATAAAA
1 ATAAAAATAAAA
7067545 ATAAAATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 7 0.25
22 12 0.43
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
ATAAAAATAAAAGAAAAATA
Found at i:7067541 original size:6 final size:6
Alignment explanation
Indices: 7067517--7067589 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
7067507 ATATATATAA
* *
7067517 AAAAAT AATAAA- AATAAT AAAAAT AAAAAT -AAAAT AGAAAT AGAATAA-
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AA-AAT
*
7067565 AATAAAT AAAAAT TAAAAT AAAAAT
1 AA-AAAT AAAAAT AAAAAT AAAAAT
7067590 GAAATAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
5 7 0.13
6 37 0.69
7 8 0.15
8 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:7067542 original size:26 final size:25
Alignment explanation
Indices: 7067513--7067608 Score: 79
Period size: 27 Copynumber: 3.7 Consensus size: 25
7067503 GAAAATATAT
7067513 ATAAAAAAATAATAAAAAT-AATAAAA
1 ATAAAAAAA-AATAAAAATAAAT-AAA
*
7067539 ATAAAAATAAAATAGAAATAGAATAAA
1 ATAAAAA-AAAATAAAAATA-AATAAA
* * *
7067566 ATAAATAAAAATTAAAATAAAAATGAA
1 ATAAA-AAAAAATAAAA-ATAAATAAA
*
7067593 ATAAAGAAAAA-AAAAA
1 ATAAAAAAAAATAAAAA
7067609 GAACATTGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
24 1 0.02
25 4 0.07
26 19 0.33
27 27 0.47
28 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (25 bp):
ATAAAAAAAAATAAAAATAAATAAA
Found at i:7067549 original size:32 final size:33
Alignment explanation
Indices: 7067489--7067588 Score: 89
Period size: 37 Copynumber: 2.9 Consensus size: 33
7067479 TAAATAGCTA
* *
7067489 AGATAAAAATAA-AGGAAAATATATATAAAAAAAT
1 AGATAAAAATAATA--AAAATAAAAATAAAAAAAT
7067523 A-ATAAAAATAATAAAAATAAAAATAAAATAGAAAT
1 AGATAAAAATAATAAAAATAAAAAT-AAA-A-AAAT
*
7067558 AGA-ATAAAATAAATAAAAATTAAAATAAAAA
1 AGATA-AAAAT-AATAAAAATAAAAATAAAAA
7067589 TGAAATAAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
32 9 0.16
33 13 0.23
34 4 0.07
35 7 0.12
36 9 0.16
37 14 0.25
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (33 bp):
AGATAAAAATAATAAAAATAAAAATAAAAAAAT
Found at i:7067557 original size:11 final size:11
Alignment explanation
Indices: 7067517--7067597 Score: 78
Period size: 11 Copynumber: 7.3 Consensus size: 11
7067507 ATATATATAA
7067517 AAAAATAATAA-
1 AAAAATAA-AAT
7067528 AAATAATAAAAAT
1 AAA-AAT-AAAAT
7067541 AAAAATAAAAT
1 AAAAATAAAAT
* *
7067552 AGAAATAGAAT
1 AAAAATAAAAT
7067563 -AAAAT-AAAT
1 AAAAATAAAAT
7067572 AAAAATTAAAAT
1 AAAAA-TAAAAT
*
7067584 AAAAATGAAAT
1 AAAAATAAAAT
7067595 AAA
1 AAA
7067598 GAAAAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
9 3 0.05
10 8 0.14
11 26 0.44
12 17 0.29
13 5 0.08
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:7067566 original size:37 final size:37
Alignment explanation
Indices: 7067519--7067603 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 37
7067509 ATATATAAAA
7067519 AAAT-AATAAAAAT-AATAAAAATAAAAAT-AAAATAG
1 AAATAAATAAAAATAAATAAAAATAAAAATAAAAAT-G
*
7067554 AAATAGAAT-AAAATAAATAAAAATTAAAATAAAAATG
1 AAATA-AATAAAAATAAATAAAAATAAAAATAAAAATG
*
7067591 AAATAAAGAAAAA
1 AAATAAATAAAAA
7067604 AAAAAGAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
35 4 0.09
36 7 0.16
37 27 0.63
38 5 0.12
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (37 bp):
AAATAAATAAAAATAAATAAAAATAAAAATAAAAATG
Found at i:7067608 original size:32 final size:30
Alignment explanation
Indices: 7067529--7067608 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 30
7067519 AAATAATAAA
* *
7067529 AATAATAAAAATAAAAATAAAATAGAAATAG
1 AATAA-AAAAAAAAAAATAAAATAAAAATAG
*
7067560 AATAAAATAAATAAAAATTAAAATAAAAAT-G
1 AATAAAA-AAA-AAAAAATAAAATAAAAATAG
7067591 AAATAAAGAAAAAAAAAA
1 -AATAAA-AAAAAAAAAA
7067609 GAACATTGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
30 2 0.05
31 14 0.34
32 24 0.59
33 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (30 bp):
AATAAAAAAAAAAAAATAAAATAAAAATAG
Found at i:7070131 original size:8 final size:8
Alignment explanation
Indices: 7070113--7070155 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
7070103 TACAAACAAG
7070113 AAAAT-AA
1 AAAATAAA
*
7070120 ATAATAAA
1 AAAATAAA
*
7070128 ATAATAAA
1 AAAATAAA
7070136 AAAATATAA
1 AAAATA-AA
7070145 AAAATAAA
1 AAAATAAA
7070153 AAA
1 AAA
7070156 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 4 0.12
8 20 0.62
9 8 0.25
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAATAAA
Found at i:7079861 original size:17 final size:16
Alignment explanation
Indices: 7079827--7079865 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
7079817 CATGCCATTT
7079827 TCATATTTTTTTAGTA
1 TCATATTTTTTTAGTA
7079843 TCAT-TTTTTTTATGATA
1 TCATATTTTTTTA-G-TA
7079860 TCATAT
1 TCATAT
7079866 CGTATTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 5 0.25
17 6 0.30
18 1 0.05
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62
Consensus pattern (16 bp):
TCATATTTTTTTAGTA
Found at i:7087061 original size:15 final size:15
Alignment explanation
Indices: 7087038--7087069 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7087028 GGTAAAGGTT
7087038 ATGTATCTTCATCAG
1 ATGTATCTTCATCAG
*
7087053 ATGTTTCTTCATCAG
1 ATGTATCTTCATCAG
7087068 AT
1 AT
7087070 AAATCTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (15 bp):
ATGTATCTTCATCAG
Found at i:7093159 original size:78 final size:78
Alignment explanation
Indices: 7093030--7093186 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
7093020 AGTGATTTGT
7093030 GCAGATTCTTGTTTAGTTCTTTAAATTTTGATGTTTGAAAATTTTGATGTAGAGCATGAAGAAAC
1 GCAGATTCTTGTTTAGTTCTTTAAATTTTGATGTTTGAAAATTTTGATGTAGAGCATGAAGAAAC
7093095 CAAAGCTTTTCTG
66 CAAAGCTTTTCTG
*
7093108 GCAGATTCTTTTTTAGTTCTTTAAATTTTGATGTTTGAAAATTTTGATGTAGAGCATGAAGAAAC
1 GCAGATTCTTGTTTAGTTCTTTAAATTTTGATGTTTGAAAATTTTGATGTAGAGCATGAAGAAAC
7093173 CAAAGCTTTTCTG
66 CAAAGCTTTTCTG
7093186 G
1 G
7093187 GTATCGGCAG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (78 bp):
GCAGATTCTTGTTTAGTTCTTTAAATTTTGATGTTTGAAAATTTTGATGTAGAGCATGAAGAAAC
CAAAGCTTTTCTG
Found at i:7095827 original size:11 final size:11
Alignment explanation
Indices: 7095775--7095839 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
7095765 ACATTAAAAG
*
7095775 AAAATTTTAAA
1 AAAATTCTAAA
7095786 AAAATTC-AAA
1 AAAATTCTAAA
*
7095796 AACAAATCT-AA
1 AA-AATTCTAAA
*
7095807 AAAATCCTAAA
1 AAAATTCTAAA
* *
7095818 CAATTTCTAAA
1 AAAATTCTAAA
7095829 AAAATTCTAAA
1 AAAATTCTAAA
7095840 TTTTTTTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
10 9 0.21
11 33 0.79
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATTCTAAA
Found at i:7095838 original size:22 final size:22
Alignment explanation
Indices: 7095777--7095839 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
7095767 ATTAAAAGAA
*
7095777 AATTT-TAAAAAAATTCAAAAAC
1 AATTTCTAAAAAAATTC-TAAAC
* *
7095799 AA-ATCT-AAAAAATCCTAAAC
1 AATTTCTAAAAAAATTCTAAAC
7095819 AATTTCTAAAAAAATTCTAAA
1 AATTTCTAAAAAAATTCTAAA
7095840 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
20 6 0.18
21 12 0.36
22 15 0.45
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (22 bp):
AATTTCTAAAAAAATTCTAAAC
Found at i:7096297 original size:18 final size:16
Alignment explanation
Indices: 7096215--7096307 Score: 51
Period size: 17 Copynumber: 5.2 Consensus size: 16
7096205 TTTATGAAAA
*
7096215 TTTTAAGTTTTTTTAAT
1 TTTTAA-TTTTTTAAAT
*
7096232 TTTTAATTTTTTAGATTT
1 TTTTAATTTTTTA-A-AT
*
7096250 TTTTAAATTTTTAAAAAT
1 TTTT-AATTTTT-TAAAT
* *
7096268 ATTTCAAATTTTTGAAAT
1 -TTT-TAATTTTTTAAAT
*
7096286 TATTTAATTTTTCAAAAT
1 T-TTTAATTTTT-TAAAT
7096304 TTTT
1 TTTT
7096308 TAAGAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
16 6 0.10
17 18 0.30
18 17 0.28
19 18 0.30
20 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTAATTTTTTAAAT
Found at i:7096309 original size:18 final size:17
Alignment explanation
Indices: 7096231--7096310 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 17
7096221 GTTTTTTTAA
* *
7096231 TTTTTAATTTTTTAGATT
1 TTTTTAA-TTTTTAAAAT
7096249 TTTTTAAATTTTTAAAAAT
1 TTTTT-AATTTTT-AAAAT
** *
7096268 ATTTCAAATTTTTGAAAT
1 -TTTTTAATTTTTAAAAT
*
7096286 TATTTAATTTTTCAAAAT
1 TTTTTAATTTTT-AAAAT
7096304 TTTTTAA
1 TTTTTAA
7096311 GAATTTTTAG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
17 9 0.19
18 24 0.50
19 12 0.25
20 3 0.06
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTTTAAAAT
Found at i:7096338 original size:9 final size:9
Alignment explanation
Indices: 7096248--7096376 Score: 52
Period size: 9 Copynumber: 13.6 Consensus size: 9
7096238 TTTTTTAGAT
*
7096248 TTTTTTAAA
1 TTTTTCAAA
*
7096257 TTTTTAAAAA
1 TTTTT-CAAA
*
7096267 TATTTCAAA
1 TTTTTCAAA
*
7096276 TTTTTGAAA
1 TTTTTCAAA
7096285 TTATTT--AA
1 TT-TTTCAAA
7096293 TTTTTCAAAA
1 TTTTTC-AAA
*
7096303 TTTTTTAAGAA
1 -TTTTTCA-AA
7096314 TTTTT-AGAA
1 TTTTTCA-AA
7096323 TTCTTTTTCAAA
1 ---TTTTTCAAA
7096335 -TTTTCAAA
1 TTTTTCAAA
7096343 TTTTTTCAAAAA
1 -TTTTTC--AAA
*
7096355 TTTTT-ATA
1 TTTTTCAAA
*
7096363 TTTTTCTAA
1 TTTTTCAAA
7096372 TTTTT
1 TTTTT
7096377 TTGATTATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 32
0.70 0.07 0.24
Matches are distributed among these distances:
7 3 0.03
8 19 0.20
9 27 0.28
10 23 0.24
11 12 0.13
12 10 0.11
13 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTTCAAA
Found at i:7096365 original size:20 final size:19
Alignment explanation
Indices: 7096326--7096404 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
7096316 TTTAGAATTC
* *
7096326 TTTTTC-AAATTTTCAAAT
1 TTTTTCAAAATTTTTATAT
7096344 TTTTTCAAAAATTTTTATA-
1 TTTTTC-AAAATTTTTATAT
* *
7096363 TTTTTC-TAATTTTTTTGAT
1 TTTTTCAAAATTTTTAT-AT
7096382 TATTTTCAAAATTTTTAT-T
1 T-TTTTCAAAATTTTTATAT
7096401 TTTT
1 TTTT
7096405 AATTTTCAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 8 0.16
18 10 0.20
19 9 0.18
20 14 0.29
21 8 0.16
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTCAAAATTTTTATAT
Found at i:7096474 original size:19 final size:19
Alignment explanation
Indices: 7096452--7096505 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
7096442 TAAAAAACAT
7096452 ATTTTTTATTAAAATTTTC
1 ATTTTTTATTAAAATTTTC
* * *
7096471 A-TTTTT-TTGAATTTTTT
1 ATTTTTTATTAAAATTTTC
*
7096488 ATATTTTATTAAAATTTT
1 ATTTTTTATTAAAATTTT
7096506 TAGATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 9 0.33
18 9 0.33
19 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTATTAAAATTTTC
Found at i:7096485 original size:9 final size:8
Alignment explanation
Indices: 7096473--7096548 Score: 53
Period size: 9 Copynumber: 8.6 Consensus size: 8
7096463 AAATTTTCAT
7096473 TTTTTTGAA
1 TTTTTT-AA
7096482 TTTTTTATA
1 TTTTTTA-A
7096491 TTTTATTAAA
1 TTTT-TT-AA
*
7096501 ATTTTTAGA
1 TTTTTTA-A
7096510 TTTTTTAA
1 TTTTTTAA
*
7096518 TTTTTAAA
1 TTTTTTAA
**
7096526 TTATCATAA
1 TT-TTTTAA
7096535 TTTTTATAA
1 TTTTT-TAA
7096544 TTTTT
1 TTTTT
7096549 AAAAATATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
8 13 0.25
9 33 0.62
10 6 0.11
11 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (8 bp):
TTTTTTAA
Found at i:7096549 original size:9 final size:9
Alignment explanation
Indices: 7096483--7096579 Score: 65
Period size: 9 Copynumber: 10.7 Consensus size: 9
7096473 TTTTTTGAAT
*
7096483 TTTTTATAT
1 TTTTTATAA
*
7096492 TTTATTAAAA
1 TTT-TTATAA
*
7096502 TTTTTA-GA
1 TTTTTATAA
7096510 TTTTT-TAA
1 TTTTTATAA
7096518 TTTTTA-AA
1 TTTTTATAA
* *
7096526 TTATCATAA
1 TTTTTATAA
7096535 TTTTTATAA
1 TTTTTATAA
*
7096544 TTTTTAAAAA
1 TTTTT-ATAA
* *
7096554 TATTTCATATT
1 T-TTTTATA-A
7096565 TTTTTATAA
1 TTTTTATAA
7096574 TTTTTA
1 TTTTTA
7096580 AAAAGTTTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
8 18 0.27
9 26 0.39
10 19 0.28
11 4 0.06
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7096596 original size:30 final size:30
Alignment explanation
Indices: 7096535--7096598 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
7096525 ATTATCATAA
* *
7096535 TTTTTATAATTTTTAAAAATATTTCATATT
1 TTTTTATAATTTTTAAAAATATTTAAAATT
7096565 TTTTTATAATTTTTAAAAAGT-TTTAAAATT
1 TTTTTATAATTTTTAAAAA-TATTTAAAATT
7096595 TTTT
1 TTTT
7096599 AGAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTATAATTTTTAAAAATATTTAAAATT
Found at i:7097308 original size:19 final size:20
Alignment explanation
Indices: 7097269--7097310 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7097259 TACTGATATG
* *
7097269 GTATTGACTTTAACGATGTA
1 GTATTGACTTGAACAATGTA
7097289 GTATTGACTTGAA-AATGTA
1 GTATTGACTTGAACAATGTA
7097308 GTA
1 GTA
7097311 ATTAGAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (20 bp):
GTATTGACTTGAACAATGTA
Found at i:7097385 original size:31 final size:31
Alignment explanation
Indices: 7097350--7097410 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7097340 CAAATAGTCC
*
7097350 TTGTACTCATATAAAATTTGAAGTTTAATTA
1 TTGTACTCACATAAAATTTGAAGTTTAATTA
** *
7097381 TTGTACTTGCATGAAATTTGAAGTTTAATT
1 TTGTACTCACATAAAATTTGAAGTTTAATT
7097411 CCTTTAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (31 bp):
TTGTACTCACATAAAATTTGAAGTTTAATTA
Found at i:7098348 original size:16 final size:14
Alignment explanation
Indices: 7098313--7098399 Score: 74
Period size: 14 Copynumber: 6.2 Consensus size: 14
7098303 CACTTTCATA
7098313 TATTAAT-TTAAAT
1 TATTAATATTAAAT
7098326 TATTAATATTATAAT
1 TATTAATATTA-AAT
7098341 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
* *
7098355 GA-TAATAATAATAT
1 TATTAATATTAA-AT
* *
7098369 TATTAATATGATAT
1 TATTAATATTAAAT
7098383 TATTAATAATT-AAT
1 TATTAAT-ATTAAAT
7098397 TAT
1 TAT
7098400 AGACAATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
12 5 0.08
13 11 0.18
14 23 0.38
15 14 0.23
16 7 0.12
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:7098408 original size:43 final size:43
Alignment explanation
Indices: 7098324--7098408 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
7098314 ATTAATTTAA
* *
7098324 ATTATTAATATTATAATTGATTAATATAAATGATAATAATAAT
1 ATTATTAATATGATAATTGATTAATATAAATGATAACAATAAT
* *
7098367 ATTATTAATATGAT-ATT-ATTAATAATTAATTATAGACAATAA
1 ATTATTAATATGATAATTGATTAAT-ATAAATGATA-ACAATAA
7098409 AAACTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 6 0.17
42 11 0.31
43 19 0.53
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.44
Consensus pattern (43 bp):
ATTATTAATATGATAATTGATTAATATAAATGATAACAATAAT
Found at i:7099618 original size:40 final size:40
Alignment explanation
Indices: 7099563--7099643 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7099553 ACTAATCAAC
7099563 TATTCAGATAAAATCAGAAAACAGTATCAGAAGCAGTGTA
1 TATTCAGATAAAATCAGAAAACAGTATCAGAAGCAGTGTA
7099603 TATTCAGATAAAATCAGAAAACAGTATCAGAAGCAGTGTA
1 TATTCAGATAAAATCAGAAAACAGTATCAGAAGCAGTGTA
7099643 T
1 T
7099644 CATCTTTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (40 bp):
TATTCAGATAAAATCAGAAAACAGTATCAGAAGCAGTGTA
Found at i:7102573 original size:15 final size:15
Alignment explanation
Indices: 7102553--7102584 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7102543 AAAAACAGAA
7102553 AGATTTCTCAATTCC
1 AGATTTCTCAATTCC
7102568 AGATTTCTCAATTCC
1 AGATTTCTCAATTCC
7102583 AG
1 AG
7102585 CTAACTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (15 bp):
AGATTTCTCAATTCC
Found at i:7107246 original size:30 final size:30
Alignment explanation
Indices: 7107212--7107358 Score: 95
Period size: 30 Copynumber: 5.0 Consensus size: 30
7107202 AGTCTTTTGG
7107212 TTTATTTAAATACAAATTAAAAATTAAAAA
1 TTTATTTAAATACAAATTAAAAATTAAAAA
* * * * *
7107242 TTTATTTAGATATAAATTAAAAGTTAAGAG
1 TTTATTTAAATACAAATTAAAAATTAAAAA
** * * * *
7107272 CATATTTGATTACAAAATAAAAGTTAAAAA
1 TTTATTTAAATACAAATTAAAAATTAAAAA
* ** * *
7107302 TTTATTTCAATGTAAA--AAATA-TAAAAT
1 TTTATTTAAATACAAATTAAAAATTAAAAA
*
7107329 TTTATTTAAATA-AAATAATAAAAATCAAAA
1 TTTATTTAAATACAAAT--TAAAAATTAAAA
7107359 GGCCTTTTTT
Statistics
Matches: 85, Mismatches: 27, Indels: 9
0.70 0.22 0.07
Matches are distributed among these distances:
26 3 0.04
27 15 0.18
28 3 0.04
30 60 0.71
31 4 0.05
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
TTTATTTAAATACAAATTAAAAATTAAAAA
Found at i:7107348 original size:26 final size:27
Alignment explanation
Indices: 7107296--7107353 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
7107286 AAATAAAAGT
* *
7107296 TAAAAATTTATTTCAATGTAAAAAATA
1 TAAAATTTTATTTCAATATAAAAAATA
7107323 TAAAATTTTATTT-AA-ATAAAATAATA
1 TAAAATTTTATTTCAATATAAAA-AATA
7107349 -AAAAT
1 TAAAAT
7107354 CAAAAGGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.36
26 6 0.21
27 12 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAATTTTATTTCAATATAAAAAATA
Found at i:7109260 original size:10 final size:10
Alignment explanation
Indices: 7109247--7109277 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7109237 TATTTAATTT
7109247 TATATTTATA
1 TATATTTATA
*
7109257 TATATTTATT
1 TATATTTATA
7109267 TATATTTATA
1 TATATTTATA
7109277 T
1 T
7109278 TTAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATATTTATA
Found at i:7109262 original size:26 final size:26
Alignment explanation
Indices: 7109215--7109280 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
7109205 TTTTAAATTA
*
7109215 AATTTTAGTATTTTTAATTATTTATTT
1 AATTTTA-TATTTATAATTATTTATTT
7109242 AATTTTATATTTAT-ATATATTTATTT
1 AATTTTATATTTATAAT-TATTTATTT
7109268 -ATATTTATATTTA
1 AAT-TTTATATTTA
7109281 AAAAATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 4 0.11
26 25 0.69
27 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
AATTTTATATTTATAATTATTTATTT
Found at i:7115279 original size:12 final size:12
Alignment explanation
Indices: 7115264--7115340 Score: 65
Period size: 12 Copynumber: 6.8 Consensus size: 12
7115254 ATAGATTTGG
7115264 TAATATAAAATA
1 TAATATAAAATA
*
7115276 TAATATAAAATT
1 TAATATAAAATA
*
7115288 TAATAT--AATT
1 TAATATAAAATA
*
7115298 TAAT-T-TAATA
1 TAATATAAAATA
* *
7115308 TAATTTAAAATTT
1 TAATATAAAA-TA
7115321 TAATATAAAATA
1 TAATATAAAATA
7115333 T-ATATAAA
1 TAATATAAA
7115341 TTTAATAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
9 1 0.02
10 15 0.27
11 8 0.15
12 21 0.38
13 10 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATATAAAATA
Found at i:7115304 original size:15 final size:15
Alignment explanation
Indices: 7115284--7115315 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7115274 TATAATATAA
7115284 AATTTAATATAATTT
1 AATTTAATATAATTT
7115299 AATTTAATATAATTT
1 AATTTAATATAATTT
7115314 AA
1 AA
7115316 AATTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTAATATAATTT
Found at i:7116316 original size:18 final size:19
Alignment explanation
Indices: 7116295--7116340 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
7116285 TTTTTTCATC
7116295 GTTTTATTATTTT-ATTTT-
1 GTTTTATT-TTTTCATTTTA
* *
7116313 GTTTTGTTTTTTCTTTTTA
1 GTTTTATTTTTTCATTTTA
7116332 GTTTTATTT
1 GTTTTATTT
7116341 ATTAATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.78
Consensus pattern (19 bp):
GTTTTATTTTTTCATTTTA
Found at i:7118089 original size:14 final size:14
Alignment explanation
Indices: 7118059--7118098 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
7118049 ATTTATTATC
*
7118059 TACAATAAAATAAAA
1 TACAATAATA-AAAA
*
7118074 TAGAATAATAAAAA
1 TACAATAATAAAAA
7118088 TACAATAATAA
1 TACAATAATAA
7118099 TTATAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (14 bp):
TACAATAATAAAAA
Found at i:7118089 original size:19 final size:18
Alignment explanation
Indices: 7118065--7118129 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
7118055 TATCTACAAT
7118065 AAAATAAAATAGAATAATA
1 AAAATAAAAT-GAATAATA
*
7118084 AAAATACAAT-AATAATTA
1 AAAATAAAATGAATAA-TA
*
7118102 TAAATATAAATGATATAA-A
1 AAAATA-AAATGA-ATAATA
7118121 AAAATAAAA
1 AAAATAAAA
7118130 AGTTATTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 18 0.47
20 1 0.03
21 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATAAAATGAATAATA
Found at i:7118493 original size:3 final size:3
Alignment explanation
Indices: 7118480--7118533 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
7118470 TAGAAATTGC
* *
7118480 TTA TCA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7118528 TTA TTA
1 TTA TTA
7118534 AAATGAAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7118936 original size:12 final size:11
Alignment explanation
Indices: 7118897--7118936 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
7118887 CTAAAAGTTT
*
7118897 ACAACAAAAAG
1 ACAACCAAAAG
7118908 A-AACCAAAAG
1 ACAACCAAAAG
7118918 ACAACCAAAAG
1 ACAACCAAAAG
7118929 AGCAACCA
1 A-CAACCA
7118937 TAAGTCATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.35
11 11 0.42
12 6 0.23
ACGTcount: A:0.65, C:0.25, G:0.10, T:0.00
Consensus pattern (11 bp):
ACAACCAAAAG
Found at i:7119696 original size:62 final size:63
Alignment explanation
Indices: 7119629--7119759 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 63
7119619 GTGTTTCTGA
7119629 CAAAAATGCCTTAAATAA-TTTC-TAAAAATTTTTATG-AAGGGATTATTGAAGGCATTTTTAGC
1 CAAAAATGCCTTAAATAACTTTCAT-AAAATTTTT-TGTAAGGGATTATTGAAGGCATTTTTAGC
* * * * * *
7119691 TAAAAATTCCTTGAATAACTTTCATTAAATTTTTTGTAAGGGATTATTGAAGGCTTTTTTGGC
1 CAAAAATGCCTTAAATAACTTTCATAAAATTTTTTGTAAGGGATTATTGAAGGCATTTTTAGC
7119754 CAAAAA
1 CAAAAA
7119760 CACCTTCAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
62 17 0.29
63 41 0.69
64 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (63 bp):
CAAAAATGCCTTAAATAACTTTCATAAAATTTTTTGTAAGGGATTATTGAAGGCATTTTTAGC
Found at i:7120045 original size:62 final size:58
Alignment explanation
Indices: 7119911--7120075 Score: 163
Period size: 58 Copynumber: 2.8 Consensus size: 58
7119901 TTTTTTGTAA
*
7119911 GGGATTATTCAAGGTGTTTCTGACAAAAAACGTCTTCAATAATCCAAAAAAATGGCAT
1 GGGATTATTCAAGGTGTTTCTGACAAAAAACGTCTTCAATAATCCAAAAAAATGGAAT
* * * **
7119969 GGGATTATTGAAGGTGTTT-TGACCAAAAATG-CATTCAATAATCCCTTACAAAAAATTTAAT
1 GGGATTATTCAAGGTGTTTCTGACAAAAAACGTC-TTCAATAAT-CC--A-AAAAAATGGAAT
* * * * *
7120030 GGAGATTATTCAAGGTGTTTATGGCATAAAACGCCTTTAATAATCC
1 GG-GATTATTCAAGGTGTTTCTGACAAAAAACGTCTTCAATAATCC
7120076 CCTTATAAGA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
56 1 0.01
57 19 0.22
58 20 0.23
60 1 0.01
61 11 0.13
62 18 0.21
63 16 0.18
64 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (58 bp):
GGGATTATTCAAGGTGTTTCTGACAAAAAACGTCTTCAATAATCCAAAAAAATGGAAT
Found at i:7121042 original size:19 final size:19
Alignment explanation
Indices: 7121020--7121061 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7121010 TTTGAATTGG
7121020 AAAAT-AAAACTAATATATT
1 AAAATCAAAA-TAATATATT
*
7121039 AAAATCAAAATATTATATT
1 AAAATCAAAATAATATATT
7121058 AAAA
1 AAAA
7121062 AATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATCAAAATAATATATT
Found at i:7131179 original size:30 final size:31
Alignment explanation
Indices: 7131078--7131179 Score: 79
Period size: 30 Copynumber: 3.4 Consensus size: 31
7131068 CTTATGAATT
* * *
7131078 ATATAAATATTTAATATAATATCTAGATT-TA
1 ATATAATTAATTAATATAATATTTA-ATTATA
*
7131109 A-AAAATT--TTAATATAATATTTAAATTATA
1 ATATAATTAATTAATATAATATTT-AATTATA
* * * *
7131138 ATTTTATTAATTAATGTAATATTT-ATTTTA
1 ATATAATTAATTAATATAATATTTAATTATA
7131168 ATATAATTAATT
1 ATATAATTAATT
7131180 TCAAAGATAT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
28 16 0.29
29 4 0.07
30 22 0.39
31 1 0.02
32 13 0.23
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (31 bp):
ATATAATTAATTAATATAATATTTAATTATA
Found at i:7131352 original size:24 final size:25
Alignment explanation
Indices: 7131325--7131372 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
7131315 TCATTTGTAA
7131325 CGTT-AATATAATAAAGTGATGGGC
1 CGTTGAATATAATAAAGTGATGGGC
* *
7131349 CGTTGGATCTAATAAAGTGATGGG
1 CGTTGAATATAATAAAGTGATGGG
7131373 TTGTTGGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (25 bp):
CGTTGAATATAATAAAGTGATGGGC
Found at i:7136135 original size:30 final size:30
Alignment explanation
Indices: 7136093--7136184 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
7136083 ATTTTTTTTA
* *
7136093 TTGCA-CCAAAATAAATCTTTAACTTTTATT
1 TTGCATCC-AAATAAATCTTTAAATTTTAAT
*
7136123 TTGCATCCAAATAAATTTTTAAATTTTAAT
1 TTGCATCCAAATAAATCTTTAAATTTTAAT
* ** * *
7136153 TTGTATTTAAATAAGTCTTTATATTTTAAT
1 TTGCATCCAAATAAATCTTTAAATTTTAAT
7136183 TT
1 TT
7136185 ATACCTAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 50 0.96
31 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (30 bp):
TTGCATCCAAATAAATCTTTAAATTTTAAT
Found at i:7136194 original size:30 final size:29
Alignment explanation
Indices: 7136139--7136204 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
7136129 CCAAATAAAT
* **
7136139 TTTTAAATTTTAATTTGTATTTAAATAAG
1 TTTTAAATTTTAATTTATACCTAAATAAG
*
7136168 TCTTTATATTTTAATTTATACCTAAATAAG
1 T-TTTAAATTTTAATTTATACCTAAATAAG
7136198 TTTTAAA
1 TTTTAAA
7136205 GATAAATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTTAAATTTTAATTTATACCTAAATAAG
Found at i:7136292 original size:29 final size:30
Alignment explanation
Indices: 7136254--7136312 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
7136244 ATAAAAAATC
* *
7136254 AAATAATAAAAACTTACTTAGATATAATAA
1 AAATAATAAAAACTTACTTACATAAAATAA
* *
7136284 AAAT-ATAAAAATTTATTTACATAAAATAA
1 AAATAATAAAAACTTACTTACATAAAATAA
7136313 TTTAGGAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (30 bp):
AAATAATAAAAACTTACTTACATAAAATAA
Found at i:7140461 original size:16 final size:15
Alignment explanation
Indices: 7140455--7140492 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7140445 TTATTTTCTG
7140455 TATTTTTATAATTTAT
1 TATTTTT-TAATTTAT
7140471 TATTTTTTAACTTTAT
1 TATTTTTTAA-TTTAT
7140487 T-TTTTT
1 TATTTTT
7140493 AAAAGAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTTTAATTTAT
Found at i:7142402 original size:11 final size:11
Alignment explanation
Indices: 7142386--7142450 Score: 66
Period size: 11 Copynumber: 6.3 Consensus size: 11
7142376 GGTTAAGTAT
7142386 TTTATTTATTA
1 TTTATTTATTA
7142397 TTTATTTATTA
1 TTTATTTATTA
*
7142408 TATATTT-TTA
1 TTTATTTATTA
* *
7142418 TTTAATAATTA
1 TTTATTTATTA
*
7142429 ATT-TTTA-TA
1 TTTATTTATTA
7142438 TTTA-TTATTA
1 TTTATTTATTA
7142448 TTT
1 TTT
7142451 TAATTTTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
9 7 0.16
10 14 0.33
11 22 0.51
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:7142419 original size:28 final size:27
Alignment explanation
Indices: 7142385--7142446 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
7142375 TGGTTAAGTA
* *
7142385 TTTTATTT-ATTATTTATTTATTATATAT
1 TTTTATTTAATAATTAATTT-TTATAT-T
7142413 TTTTATTTAATAATTAATTTTTATATT
1 TTTTATTTAATAATTAATTTTTATATT
*
7142440 TATTATT
1 TTTTATT
7142447 ATTTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 7 0.23
28 14 0.47
29 9 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTATTTAATAATTAATTTTTATATT
Found at i:7142880 original size:14 final size:14
Alignment explanation
Indices: 7142861--7142913 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
7142851 ATCATTCACT
*
7142861 TTTTTTTTCTTTTG
1 TTTTTTTTCTTTTA
** *
7142875 TTTTTTCCCCTTTA
1 TTTTTTTTCTTTTA
*
7142889 TTTGTTTTTCTTTTT
1 TTT-TTTTTCTTTTA
7142904 TTTTTTTTCT
1 TTTTTTTTCT
7142914 ATTTTCTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTTTA
Found at i:7143462 original size:13 final size:13
Alignment explanation
Indices: 7143444--7143468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7143434 CTCTTATTTA
7143444 TTTTTTTTTTCTC
1 TTTTTTTTTTCTC
7143457 TTTTTTTTTTCT
1 TTTTTTTTTTCT
7143469 TTGCATGCCC
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:7144148 original size:28 final size:29
Alignment explanation
Indices: 7144106--7144171 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 29
7144096 AAAAAATAAA
7144106 TTTTTTTTCTCTATTTTTT-TCTTTTC-TT
1 TTTTTTTTCTCTATTTTTTCTC-TTTCATT
7144134 TTTATTTTTCT-TATTTTTTCTCTTTCATT
1 TTT-TTTTTCTCTATTTTTTCTCTTTCATT
7144163 TTTTTTTTC
1 TTTTTTTTC
7144172 AAGGCACTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 21 0.60
29 14 0.40
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTTTTCTCTATTTTTTCTCTTTCATT
Found at i:7144151 original size:29 final size:28
Alignment explanation
Indices: 7144106--7144171 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
7144096 AAAAAATAAA
*
7144106 TTTTTTTTCTCTATTTTTTTCTTTTC-TT
1 TTTTTTTTCTCTATTTTTCTC-TTTCATT
7144134 TTTATTTTTCT-TATTTTTTCTCTTTCATT
1 TTT-TTTTTCTCTA-TTTTTCTCTTTCATT
7144163 TTTTTTTTC
1 TTTTTTTTC
7144172 AAGGCACTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 15 0.44
29 19 0.56
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTTTTTCTCTATTTTTCTCTTTCATT
Found at i:7149714 original size:3 final size:3
Alignment explanation
Indices: 7149706--7149752 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7149696 ACATTCATTG
7149706 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7149753 GATGAATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7149757 original size:3 final size:3
Alignment explanation
Indices: 7149751--7149813 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
7149741 AATAATAATA
7149751 ATG ATG AATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG -ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
7149797 ATG ATG GTG ATG ATG AT
1 ATG ATG ATG ATG ATG AT
7149814 ATTATACCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:7151237 original size:14 final size:14
Alignment explanation
Indices: 7151220--7151246 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7151210 AAAAATAGGG
7151220 AAAGAAAAATGATA
1 AAAGAAAAATGATA
7151234 AAAGAAAAATGAT
1 AAAGAAAAATGAT
7151247 TATAACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAGAAAAATGATA
Found at i:7151755 original size:20 final size:22
Alignment explanation
Indices: 7151717--7151756 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7151707 CACTCAAAGA
*
7151717 AAAAAAAAAGAAGTGAAAGAGT
1 AAAAAAAAAGAACTGAAAGAGT
7151739 AAAAAAAAA-AACT-AAAGA
1 AAAAAAAAAGAACTGAAAGA
7151757 TCACCTTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAGAACTGAAAGAGT
Found at i:7151965 original size:8 final size:7
Alignment explanation
Indices: 7151927--7152008 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
7151917 AAGAAAAGGT
7151927 AAAGAAA
1 AAAGAAA
*
7151934 AGAAG-AT
1 A-AAGAAA
7151941 AAAGAAA
1 AAAGAAA
7151948 AGATA-AAA
1 A-A-AGAAA
7151956 AAAGAGAA
1 AAAGA-AA
7151964 AAAGAAA
1 AAAGAAA
7151971 AAA-AAA
1 AAAGAAA
*
7151977 AGAGAAA
1 AAAGAAA
* *
7151984 GATGAACA
1 AAAGAA-A
*
7151992 AAAAAAA
1 AAAGAAA
7151999 AAAGAAA
1 AAAGAAA
7152006 AAA
1 AAA
7152009 AATGAATAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
6 9 0.16
7 28 0.49
8 19 0.33
9 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (7 bp):
AAAGAAA
Found at i:7151965 original size:17 final size:15
Alignment explanation
Indices: 7151927--7152010 Score: 62
Period size: 18 Copynumber: 5.1 Consensus size: 15
7151917 AAGAAAAGGT
* *
7151927 AAAGAAAAG-AAGAT
1 AAAGAAAAGAAAAAA
7151941 AAAGAAAAGATAAAAA
1 AAAGAAAAGA-AAAAA
7151957 AAGAGAAAAAGAAAAAAA
1 AA-AG-AAAAG-AAAAAA
7151975 AAAGAGAAAGATGAACAAA
1 AAAGA-AAAGA--AA-AAA
*
7151994 AAAAAAAAGAAAAAA
1 AAAGAAAAGAAAAAA
7152009 AA
1 AA
7152011 TGAATAAGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
14 9 0.16
15 5 0.09
16 9 0.16
17 8 0.14
18 19 0.33
19 8 0.14
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (15 bp):
AAAGAAAAGAAAAAA
Found at i:7151971 original size:6 final size:6
Alignment explanation
Indices: 7151913--7152007 Score: 54
Period size: 6 Copynumber: 16.0 Consensus size: 6
7151903 ATGAAAAAGT
* * * *
7151913 GAAAAA GAAAAG GTAAAGAA -AAGAA GATAAA G-AAAA GATAAAA -AAAGA
1 GAAAAA GAAAAA G-AAA-AA GAAAAA GAAAAA GAAAAA GA-AAAA GAAAAA
* ** * *
7151961 GAAAAA GAAAAA -AAAAA GAGAAA GATGAA CAAAAA AAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
7152008 AAATGAATAA
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
5 14 0.21
6 44 0.67
7 7 0.11
8 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:7151973 original size:25 final size:23
Alignment explanation
Indices: 7151906--7151971 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 23
7151896 AAATGAAATG
* *
7151906 AAAAAGTGAAAAAGAAAAGGTAA
1 AAAAAGAGAAAAAGAAAAGATAA
*
7151929 AGAAAAGAAGATAAAGAAAAGATAA
1 A-AAAAG-AGAAAAAGAAAAGATAA
7151954 AAAAAGAGAAAAAGAAAA
1 AAAAAGAGAAAAAGAAAA
7151972 AAAAAAGAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.32
24 10 0.27
25 15 0.41
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (23 bp):
AAAAAGAGAAAAAGAAAAGATAA
Found at i:7151976 original size:19 final size:21
Alignment explanation
Indices: 7151952--7151998 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
7151942 AAGAAAAGAT
7151952 AAAAAAAGAGAAA-AAGAA-A
1 AAAAAAAGAGAAAGAAGAACA
*
7151971 AAAAAAAGAGAAAGATGAACA
1 AAAAAAAGAGAAAGAAGAACA
7151992 AAAAAAA
1 AAAAAAA
7151999 AAAGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 13 0.52
20 4 0.16
21 8 0.32
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAGAAAGAAGAACA
Found at i:7151984 original size:25 final size:24
Alignment explanation
Indices: 7151907--7152006 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 24
7151897 AATGAAATGA
* ***
7151907 AAAAGTGAAAAAGAAAAGGTAAAG
1 AAAAGAGAAAAAGAAAAAAAAAAG
* * *
7151931 AAAAGAAGATAAAGAAAAGATAAA-
1 AAAAG-AGAAAAAGAAAAAAAAAAG
7151955 AAAAGAGAAAAAGAAAAAAAAAAG
1 AAAAGAGAAAAAGAAAAAAAAAAG
*
7151979 AGAAAGATG-AACA-AAAAAAAAAAG
1 A-AAAGA-GAAAAAGAAAAAAAAAAG
7152003 AAAA
1 AAAA
7152007 AAAATGAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
23 18 0.28
24 23 0.35
25 23 0.35
26 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.05
Consensus pattern (24 bp):
AAAAGAGAAAAAGAAAAAAAAAAG
Found at i:7152013 original size:25 final size:24
Alignment explanation
Indices: 7151968--7152014 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7151958 AGAGAAAAAG
* *
7151968 AAAAAAAAAAGAGAAAGATGAACA
1 AAAAAAAAAAGAAAAAAATGAACA
7151992 AAAAAAAAAAGAAAAAAAATGAA
1 AAAAAAAAAAG-AAAAAAATGAA
7152015 TAAGTGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAAGAAAAAAATGAACA
Found at i:7152353 original size:10 final size:10
Alignment explanation
Indices: 7152338--7152379 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
7152328 TGTAATAATC
7152338 AAAAGAAAAA
1 AAAAGAAAAA
*
7152348 AAAAGAAAAC
1 AAAAGAAAAA
*
7152358 AAAACAAAAA
1 AAAAGAAAAA
7152368 AAATAGAAAAA
1 AAA-AGAAAAA
7152379 A
1 A
7152380 TAAATATGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 20 0.74
11 7 0.26
ACGTcount: A:0.86, C:0.05, G:0.07, T:0.02
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:7153122 original size:22 final size:22
Alignment explanation
Indices: 7153097--7153143 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7153087 AGTTTAACTG
* * *
7153097 GCATGTAAGCCTAGATTAGCTA
1 GCATGCAAGCCCAAATTAGCTA
*
7153119 GCATGCATGCCCAAATTAGCTA
1 GCATGCAAGCCCAAATTAGCTA
7153141 GCA
1 GCA
7153144 CATAATCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (22 bp):
GCATGCAAGCCCAAATTAGCTA
Found at i:7153413 original size:32 final size:31
Alignment explanation
Indices: 7153377--7153503 Score: 101
Period size: 32 Copynumber: 3.9 Consensus size: 31
7153367 AGTTTTAAGT
*
7153377 CCAGTTTATATGGCACCAACAAAAATTTAAAC
1 CCAGTTTAT-TGGCACCAATAAAAATTTAAAC
* * *
7153409 CCAGTTTAGCTAGCACCCAATAAAAATTCAAAC
1 CCAGTTTA-TTGGCA-CCAATAAAAATTTAAAC
* * **
7153442 CTAGTTTAGTTGACACCAATAAAAATTTAGGC
1 CCAGTTTA-TTGGCACCAATAAAAATTTAAAC
* * * *
7153474 CCAATCTAGCTGGCACCAATGAAAATTTAA
1 CCAGTTTA-TTGGCACCAATAAAAATTTAA
7153504 GCTTAGCCTA
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
32 49 0.65
33 26 0.35
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (31 bp):
CCAGTTTATTGGCACCAATAAAAATTTAAAC
Found at i:7153442 original size:33 final size:32
Alignment explanation
Indices: 7153377--7153468 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 32
7153367 AGTTTTAAGT
* * *
7153377 CCAGTTTA-TATGGCACCAACAAAAATTTAAAC
1 CCAGTTTAGTA-GACACCAATAAAAATTCAAAC
7153409 CCAGTTTAGCTAG-CACCCAATAAAAATTCAAAC
1 CCAGTTTAG-TAGACA-CCAATAAAAATTCAAAC
* *
7153442 CTAGTTTAGTTGACACCAATAAAAATT
1 CCAGTTTAGTAGACACCAATAAAAATT
7153469 TAGGCCCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
32 24 0.46
33 26 0.50
34 2 0.04
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.26
Consensus pattern (32 bp):
CCAGTTTAGTAGACACCAATAAAAATTCAAAC
Found at i:7153627 original size:96 final size:95
Alignment explanation
Indices: 7153387--7153634 Score: 223
Period size: 96 Copynumber: 2.6 Consensus size: 95
7153377 CCAGTTTATA
** * ** *
7153387 TGGCACCAACAAAAATTTAAACCCAGTTTAGCTAGCACCCAATAAAAATTCAAACCTAGTTTAGT
1 TGGCACCAATGAAAATTTAAGCCCAGTTTAGCTAGC-CCTTAT-AAAATTTAAACCTAGTTTAGT
* *
7153452 TGACACCAATAAAAATTTAGGCCCAATCTAGC
64 AGACACCAATAAAAATTTAAGCCCAATCTAGC
** ** * ***
7153484 TGGCACCAATGAAAATTTAAGCTTAGCCTAG-TTGGTATATAATAAAATTTAAAGCCTAGTTTAG
1 TGGCACCAATGAAAATTTAAGCCCAGTTTAGCTAGCCCT-T-ATAAAATTTAAA-CCTAGTTTAG
* * * *
7153548 CTAG-CACTAATGAAAATTTAAG-CCAGTCTAGT
63 -TAGACACCAATAAAAATTTAAGCCCAATCTAGC
*
7153580 TGGCACCAATGATAATTTAAGCCCAGTTTAGCTAGCCCTTATGAAAATTTAAACC
1 TGGCACCAATGAAAATTTAAGCCCAGTTTAGCTAGCCCTTAT-AAAATTTAAACC
7153635 CAATTTATCT
Statistics
Matches: 116, Mismatches: 29, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
95 4 0.03
96 56 0.48
97 54 0.47
98 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (95 bp):
TGGCACCAATGAAAATTTAAGCCCAGTTTAGCTAGCCCTTATAAAATTTAAACCTAGTTTAGTAG
ACACCAATAAAAATTTAAGCCCAATCTAGC
Found at i:7153629 original size:32 final size:32
Alignment explanation
Indices: 7153523--7153641 Score: 118
Period size: 32 Copynumber: 3.8 Consensus size: 32
7153513 AGTTGGTATA
* *
7153523 TAAT-AAAATTTAAAGCCTAGTTTAGCTAGCAC
1 TAATGAAAATTT-AAGCCCAGTTTAGCTAGCCC
* * *
7153555 TAATGAAAATTTAAG-CCAGTCTAGTTGGCACC
1 TAATGAAAATTTAAGCCCAGTTTAGCTAGC-CC
*
7153587 -AATGATAATTTAAGCCCAGTTTAGCTAGCCC
1 TAATGAAAATTTAAGCCCAGTTTAGCTAGCCC
* * *
7153618 TTATGAAAATTTAAACCCAATTTA
1 TAATGAAAATTTAAGCCCAGTTTA
7153642 TCTGGTACCA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
31 25 0.36
32 38 0.54
33 7 0.10
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (32 bp):
TAATGAAAATTTAAGCCCAGTTTAGCTAGCCC
Found at i:7153661 original size:63 final size:63
Alignment explanation
Indices: 7153400--7153664 Score: 167
Period size: 64 Copynumber: 4.1 Consensus size: 63
7153390 CACCAACAAA
* * * * * * * * * *
7153400 AATTTAAACCCAGTTTAGCTAGCACCCAATAAAAATTCAAACCTAGTTTAGTTGACACCAATAAA
1 AATTTAAGCCCAGTTTAGCTAGCA-CTAATGAAAATT-TAACCCAATCTAGTTGGCACCAATGAT
* * * * * ** ** * ** *
7153465 AATTTAGGCCCAATCTAGCTGGCACCAATGAAAATTTAAGCTTAGCCTAGTTGGTATATAAT-AA
1 AATTTAAGCCCAGTTTAGCTAGCACTAATGAAAATTTAA-CCCAATCTAGTTGGCA-CCAATGAT
* * *
7153529 AATTTAAAGCCTAGTTTAGCTAGCACTAATGAAAATTTAAGCCAGTCTAGTTGGCACCAATGAT
1 AATTT-AAGCCCAGTTTAGCTAGCACTAATGAAAATTTAACCCAATCTAGTTGGCACCAATGAT
* * * *
7153593 AATTTAAGCCCAGTTTAGCTAGCCCTTATGAAAATTTAAACCCAATTTA-TCTGGTACCAATGA-
1 AATTTAAGCCCAGTTTAGCTAGCACTAATGAAAATTT-AACCCAATCTAGT-TGGCACCAATGAT
*
7153656 GATTTAAGC
1 AATTTAAGC
7153665 TTAGATTATC
Statistics
Matches: 158, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
63 43 0.27
64 65 0.41
65 50 0.32
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (63 bp):
AATTTAAGCCCAGTTTAGCTAGCACTAATGAAAATTTAACCCAATCTAGTTGGCACCAATGAT
Found at i:7156974 original size:25 final size:25
Alignment explanation
Indices: 7156949--7157010 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
7156939 GAACAACAAT
* *
7156949 ATAT-AAT-AAATGACATAATTAAA
1 ATATGAATGAAATGACAAAACTAAA
7156972 ATATGAATGAAATGACAAAACTAAA
1 ATATGAATGAAATGACAAAACTAAA
*
7156997 ATATGCATGAAATG
1 ATATGAATGAAATG
7157011 TAAAGCGCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 4 0.12
24 3 0.09
25 27 0.79
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.26
Consensus pattern (25 bp):
ATATGAATGAAATGACAAAACTAAA
Found at i:7158048 original size:18 final size:18
Alignment explanation
Indices: 7158025--7158063 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7158015 TATACCATAA
* *
7158025 ATGACAATGTATAAATGC
1 ATGACAATATAAAAATGC
7158043 ATGACAATATAAAAATGC
1 ATGACAATATAAAAATGC
7158061 ATG
1 ATG
7158064 TGCTGACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (18 bp):
ATGACAATATAAAAATGC
Found at i:7158140 original size:7 final size:7
Alignment explanation
Indices: 7158128--7158230 Score: 67
Period size: 7 Copynumber: 15.7 Consensus size: 7
7158118 GGTTTGGTTA
7158128 GGTTTAG
1 GGTTTAG
*
7158135 GGTTTAA
1 GGTTTAG
7158142 GGTTT--
1 GGTTTAG
7158147 GGTTTAG
1 GGTTTAG
7158154 GG-TTAG
1 GGTTTAG
*
7158160 AGTTTAG
1 GGTTTAG
7158167 GGTTT--
1 GGTTTAG
*
7158172 TGTTTAG
1 GGTTTAG
* *
7158179 AGTTTGG
1 GGTTTAG
7158186 GGTTT--
1 GGTTTAG
7158191 GGTTTAG
1 GGTTTAG
*
7158198 TGTTTAG
1 GGTTTAG
* *
7158205 GTTTTAA
1 GGTTTAG
* *
7158212 TGTTTAT
1 GGTTTAG
7158219 GGTTTAG
1 GGTTTAG
7158226 GGTTT
1 GGTTT
7158231 GTGGTTTATG
Statistics
Matches: 73, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
5 14 0.19
6 5 0.07
7 54 0.74
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (7 bp):
GGTTTAG
Found at i:7158159 original size:25 final size:25
Alignment explanation
Indices: 7158118--7158178 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
7158108 AGTTTAGGTT
* *
7158118 GGTTTGG-TTAGGTTTAGGGTTTAA
1 GGTTTGGTTTAGGGTTAGAGTTTAA
*
7158142 GGTTTGGTTTAGGGTTAGAGTTTAG
1 GGTTTGGTTTAGGGTTAGAGTTTAA
*
7158167 GGTTTTGTTTAG
1 GGTTTGGTTTAG
7158179 AGTTTGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.48
Consensus pattern (25 bp):
GGTTTGGTTTAGGGTTAGAGTTTAA
Found at i:7158180 original size:19 final size:19
Alignment explanation
Indices: 7158156--7158230 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 19
7158146 TGGTTTAGGG
7158156 TTAGAGTTTAGGGTTTTGT
1 TTAGAGTTTAGGGTTTTGT
* *
7158175 TTAGAGTTTGGGGTTTGGT
1 TTAGAGTTTAGGGTTTTGT
* *
7158194 TTAGTGTTTAGGTTTTAATGT
1 TTAGAGTTTAGGGTTT--TGT
7158215 TTATG-GTTTAGGGTTT
1 TTA-GAGTTTAGGGTTT
7158231 GTGGTTTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 30 0.65
21 15 0.33
22 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (19 bp):
TTAGAGTTTAGGGTTTTGT
Found at i:7163604 original size:13 final size:13
Alignment explanation
Indices: 7163588--7163619 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
7163578 CACACTGTGT
7163588 AGCTTTACTGTCA
1 AGCTTTACTGTCA
7163601 AGCTTTACTGTCA
1 AGCTTTACTGTCA
7163614 AGCTTT
1 AGCTTT
7163620 GATCTCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (13 bp):
AGCTTTACTGTCA
Found at i:7176589 original size:28 final size:27
Alignment explanation
Indices: 7176541--7176593 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
7176531 GAAATATTAG
**
7176541 ATTTTTTTTTTTTGGTATTGTTGATTT
1 ATTTTTTTTTTTTGAAATTGTTGATTT
7176568 ATTTTTTTTTTTTGAAATTTGTTGAT
1 ATTTTTTTTTTTTGAAA-TTGTTGAT
7176594 AGTTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (27 bp):
ATTTTTTTTTTTTGAAATTGTTGATTT
Found at i:7177928 original size:60 final size:61
Alignment explanation
Indices: 7177848--7177962 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 61
7177838 TAATGCTGAT
* ** *
7177848 TTTTTTTAGGAAATTATTTAAGGTGTTTTTGGGTAGAAAACACCTTAAATAATCCCATTCAA
1 TTTTTTTAGG-AATTATTTAAGGCGTTTTTGGCCAAAAAACACCTTAAATAATCCCATTCAA
**
7177910 TTTTTTTAGG-ATTATTTAAGGCGTTTTTGGCCAAAAAATGCCTTAAATAATCC
1 TTTTTTTAGGAATTATTTAAGGCGTTTTTGGCCAAAAAACACCTTAAATAATCC
7177963 TAAAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 37 0.79
62 10 0.21
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (61 bp):
TTTTTTTAGGAATTATTTAAGGCGTTTTTGGCCAAAAAACACCTTAAATAATCCCATTCAA
Found at i:7178014 original size:36 final size:37
Alignment explanation
Indices: 7177943--7178016 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
7177933 TTTTTGGCCA
*
7177943 AAAAATGCCTTAAATAATCCTAAAAAAATTAAACAAG
1 AAAAATACCTTAAATAATCCTAAAAAAATTAAACAAG
*
7177980 AAAAATACCTTAAATAATCCT-AAAAAATTGAACAAG
1 AAAAATACCTTAAATAATCCTAAAAAAATTAAACAAG
7178016 A
1 A
7178017 TTATTTAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 15 0.43
37 20 0.57
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (37 bp):
AAAAATACCTTAAATAATCCTAAAAAAATTAAACAAG
Done.