Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015257.1 Kokia drynarioides strain JFW-HI SEQ_130302, 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: 576078
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 879 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:453 original size:20 final size:20
Alignment explanation
Indices: 428--467 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
418 AGTCTTCAAG
* *
428 GTATCGGTATAAGTGGAGTT
1 GTATCGATAGAAGTGGAGTT
448 GTATCGATAGAAGTGGAGTT
1 GTATCGATAGAAGTGGAGTT
468 CTACCGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.33
Consensus pattern (20 bp):
GTATCGATAGAAGTGGAGTT
Found at i:631 original size:3 final size:3
Alignment explanation
Indices: 623--687 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
613 TTTGTATTCA
*
623 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
671 ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
688 GAGTCTTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1941 original size:37 final size:37
Alignment explanation
Indices: 1900--1976 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1890 GTTTTTATAA
* * *
1900 ATTAAAAAGATTAAAATA-TCTTCGAATAAAATAATTT
1 ATTAAAAAAATTAAAATACTC-TCAAATAAAATAACTT
*
1937 ATTAAAAAAATTAAAATACTCTCAAATAATATAACTT
1 ATTAAAAAAATTAAAATACTCTCAAATAAAATAACTT
1974 ATT
1 ATT
1977 TTAATTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 33 0.94
38 2 0.06
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (37 bp):
ATTAAAAAAATTAAAATACTCTCAAATAAAATAACTT
Found at i:6315 original size:30 final size:29
Alignment explanation
Indices: 6275--6471 Score: 139
Period size: 30 Copynumber: 6.6 Consensus size: 29
6265 AAAAATAAAA
* **
6275 TTTTGAAAAGTTTGGGGGCCAAATTTGAAT
1 TTTTGGAAAGTTTGGGGTTCAAATTT-AAT
* * **
6305 TTTTGGAAAGTTTGAGGTTTAAATCCAAAT
1 TTTTGGAAAGTTTGGGGTTCAAAT-TTAAT
* *
6335 TTTTGTG-AAGTTTGGGATTCAAATATGAATT
1 TTTTG-GAAAGTTTGGGGTTCAAAT-TTAA-T
*
6366 TTTTGGAAAGTTTGAGGGTTAAAATTTAAT
1 TTTTGGAAAGTTTG-GGGTTCAAATTTAAT
* ** * *
6396 TTTTGTAAAGTTTGGAGGTAAAAATATAGT
1 TTTTGGAAAGTTTGG-GGTTCAAATTTAAT
* *
6426 TTTTGGAAA-TATTAGGGG-TCAAATTCAAA
1 TTTTGGAAAGT-TT-GGGGTTCAAATTTAAT
6455 TTTTGGAAAGTTTGGGG
1 TTTTGGAAAGTTTGGGG
6472 GTAAAAACAT
Statistics
Matches: 131, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
28 4 0.03
29 18 0.14
30 82 0.63
31 19 0.15
32 8 0.06
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (29 bp):
TTTTGGAAAGTTTGGGGTTCAAATTTAAT
Found at i:6346 original size:60 final size:61
Alignment explanation
Indices: 6266--6410 Score: 170
Period size: 61 Copynumber: 2.4 Consensus size: 61
6256 AATGGGGTCA
* * * *
6266 AAAAT-AAAATTTTGAAAAGTTTGGGGGCCAAATTTGAA-TTTTTGGAAAGTTTGA-GGTT
1 AAAATCAAATTTTTGTAAAGTTTGGGAGCCAAATATGAATTTTTTGGAAAGTTTGAGGGTT
* * **
6324 TAAATCCAAATTTTTGTGAAGTTTGGGATTCAAATATGAATTTTTTGGAAAGTTTGAGGGTT
1 AAAAT-CAAATTTTTGTAAAGTTTGGGAGCCAAATATGAATTTTTTGGAAAGTTTGAGGGTT
**
6386 AAAATTTAATTTTTGTAAAGTTTGG
1 AAAATCAAATTTTTGTAAAGTTTGG
6411 AGGTAAAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
58 4 0.06
60 26 0.37
61 33 0.46
62 8 0.11
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (61 bp):
AAAATCAAATTTTTGTAAAGTTTGGGAGCCAAATATGAATTTTTTGGAAAGTTTGAGGGTT
Found at i:6466 original size:59 final size:60
Alignment explanation
Indices: 6302--6496 Score: 166
Period size: 59 Copynumber: 3.2 Consensus size: 60
6292 GCCAAATTTG
* * * * ** *
6302 AATTTTTGGAAAGTTTGA-GGTTTAAATCCAAATTTTTGTG-AAGTTTGG-GATTCAAATAT
1 AATTTTTGGAAAGTTTGAGGGGTAAAATTCAAA-TTTTG-GAAAGTTTGGAGGTAAAAACAT
* * * * *
6361 GAATTTTTTGGAAAGTTTGAGGGTTAAAATTTAATTTTTGTAAAGTTTGGAGGTAAAAATAT
1 -AA-TTTTTGGAAAGTTTGAGGGGTAAAATTCAAATTTTGGAAAGTTTGGAGGTAAAAACAT
* * *
6423 AGTTTTTGGAAA-TATT-AGGGGTCAAATTCAAATTTTGGAAAGTTTGGGGGTAAAAACAT
1 AATTTTTGGAAAGT-TTGAGGGGTAAAATTCAAATTTTGGAAAGTTTGGAGGTAAAAACAT
*
6482 AATTTTTGGATAGTT
1 AATTTTTGGAAAGTT
6497 AAAGGATTAA
Statistics
Matches: 111, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
59 48 0.43
60 15 0.14
61 30 0.27
62 18 0.16
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.41
Consensus pattern (60 bp):
AATTTTTGGAAAGTTTGAGGGGTAAAATTCAAATTTTGGAAAGTTTGGAGGTAAAAACAT
Found at i:6491 original size:30 final size:30
Alignment explanation
Indices: 6365--6496 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 30
6355 AAATATGAAT
* * **
6365 TTTTTGGAAAGTTTGAGGGTTAAAATTTAA
1 TTTTTGGAAAGTTTGGGGGTAAAAACATAA
* * * *
6395 TTTTTGTAAAGTTTGGAGGTAAAAATATAG
1 TTTTTGGAAAGTTTGGGGGTAAAAACATAA
* **
6425 TTTTTGGAAA-TATTAGGGGTCAAATTCA-AA
1 TTTTTGGAAAGT-TTGGGGGT-AAAAACATAA
6455 -TTTTGGAAAGTTTGGGGGTAAAAACATAA
1 TTTTTGGAAAGTTTGGGGGTAAAAACATAA
*
6484 TTTTTGGATAGTT
1 TTTTTGGAAAGTT
6497 AAAGGATTAA
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
28 5 0.06
29 19 0.24
30 52 0.65
31 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.40
Consensus pattern (30 bp):
TTTTTGGAAAGTTTGGGGGTAAAAACATAA
Found at i:6516 original size:59 final size:58
Alignment explanation
Indices: 6365--6516 Score: 135
Period size: 59 Copynumber: 2.6 Consensus size: 58
6355 AAATATGAAT
* * * * * *
6365 TTTTTGGAAAGTTTGAGGGTTAAAATTTAATTTTTGTAAAGTTTGGAGGTAAAAATATAG
1 TTTTTGGATAG-TTAAGGGTTAAAATCTAA-TTTTGGAAAGTTTGGAGGTAAAAACATAA
* * * * *
6425 TTTTTGGAAATA-TTAGGGGTCAAATTCAAATTTTGGAAAGTTTGGGGGTAAAAACATAA
1 TTTTTGG--ATAGTTAAGGGTTAAAATCTAATTTTGGAAAGTTTGGAGGTAAAAACATAA
* *
6484 TTTTTGGATAGTTAAAGGATTAAAATGTAATTT
1 TTTTTGGATAGTT-AAGGGTTAAAATCTAATTT
6517 CTAAATAAAA
Statistics
Matches: 71, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
57 3 0.04
58 2 0.03
59 45 0.63
60 19 0.27
62 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.22, T:0.39
Consensus pattern (58 bp):
TTTTTGGATAGTTAAGGGTTAAAATCTAATTTTGGAAAGTTTGGAGGTAAAAACATAA
Found at i:8179 original size:123 final size:123
Alignment explanation
Indices: 8024--8334 Score: 396
Period size: 123 Copynumber: 2.5 Consensus size: 123
8014 TTTTGGTCTT
* * ** *
8024 CTTCTTTGTATCTCATTAGGAAGATGAGGTTTGAAGTTTCACTCGTATTGAGTTTTGCTTCATTA
1 CTTCTTCGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTA
* *
8089 ATTTGGTCTACTTCTTTGTATCTCATCAGAAAGATAACCACTTC-ATTGTTTTGATCCA
66 ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATAACCACTTCAACT-TTTTGATCCA
*
8147 CTTCTTCGTATCTCATCAAGAAGATG-GAGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATT
1 CTTCTTCGTATCTCATCAGGAAGATGAG-GTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATT
* * * * * *
8211 GATTTGGTCTACTTCTCTGTATCTTATCAGGAAGATGACCGCTTCAACTTTTTGATTCA
65 AATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATAACCACTTCAACTTTTTGATCCA
* * *
8270 CTT-ATC-TATTTCTCATCAGGAAGATGAGGATTTGAAGTTTTACTCACATTGAGCTTCGCTTCA
1 CTTCTTCGTA--TCTCATCAGGAAGATGAGG-TTTGAAGTTTCACTCACATTGAGCTTTGCTTCA
8333 TT
63 TT
8335 GTTTTGGTTC
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
121 2 0.01
122 3 0.02
123 123 0.75
124 36 0.22
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (123 bp):
CTTCTTCGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTA
ATTTGGTCTACTTCTCTGTATCTCATCAGAAAGATAACCACTTCAACTTTTTGATCCA
Found at i:8360 original size:34 final size:34
Alignment explanation
Indices: 8317--8384 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
8307 TTTTACTCAC
8317 ATTGAGCTTCGCTTCATTGTTTTGGTTCACTTCT
1 ATTGAGCTTCGCTTCATTGTTTTGGTTCACTTCT
*
8351 ATTGAGCTTCGCTTTATTGTTTTGGTTCACTTCT
1 ATTGAGCTTCGCTTCATTGTTTTGGTTCACTTCT
8385 CTATATCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.12, C:0.19, G:0.18, T:0.51
Consensus pattern (34 bp):
ATTGAGCTTCGCTTCATTGTTTTGGTTCACTTCT
Found at i:8473 original size:158 final size:158
Alignment explanation
Indices: 8193--8508 Score: 447
Period size: 158 Copynumber: 2.0 Consensus size: 158
8183 TTTCACTCAC
* * *
8193 ATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTCTGTATCTTATCAGGAAGATGACCGCTTCAA
1 ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAA
* * * * * *
8258 CTTTTTGATTCACTTATCTATTTCTCATCAGGAAGATGAGGATTTGAAGTTTTACTCACATTGAG
66 CATTTTAATCCACTTATCTATATCTCATCAGGAAGATGAGGATTTCAAGTTTCACTCACATTGAG
8323 CT-TCGCTTCATTGTTTTGGTTCACTTCT
131 CTGT-GCTTCATTGTTTTGGTTCACTTCT
* * *
8351 ATTGAGCTTCGCTTTATTGTTTTGGT-TCACTTCTCTATATCTCATCAGGAAGATGATCGCTTCA
1 ATTGAGCTTCGCTTCATTGATTTGGTCT-ACTTCTCTATATCTCATCAGGAAGATGACCGCTTCA
* * * * *
8415 TCATTTTAATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTCAAGTTTCACTCACATTGA
65 ACATTTTAATCCACTTATCTATATCTCATCAGGAAGATGAGGATTTCAAGTTTCACTCACATTGA
8480 GCTGTGCTTCATTGTTTTGGTTCACTTCT
130 GCTGTGCTTCATTGTTTTGGTTCACTTCT
8509 CTGTATCTCA
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
157 1 0.01
158 137 0.99
159 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (158 bp):
ATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCTTCAA
CATTTTAATCCACTTATCTATATCTCATCAGGAAGATGAGGATTTCAAGTTTCACTCACATTGAG
CTGTGCTTCATTGTTTTGGTTCACTTCT
Found at i:8555 original size:48 final size:48
Alignment explanation
Indices: 8484--8578 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
8474 CATTGAGCTG
** * * *
8484 TGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATTAGGAAGATGAC
1 TGCTTCATCATTTTGATCCACTTCTCTGAATCTCATTAGGAAGATGAC
*
8532 TGCTTCATCATTTTGATCCACTTCTTTGAATCTCATTAGGAAGATGA
1 TGCTTCATCATTTTGATCCACTTCTCTGAATCTCATTAGGAAGATGA
8579 GGGTTTGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (48 bp):
TGCTTCATCATTTTGATCCACTTCTCTGAATCTCATTAGGAAGATGAC
Found at i:8565 original size:124 final size:122
Alignment explanation
Indices: 8351--8735 Score: 551
Period size: 124 Copynumber: 3.1 Consensus size: 122
8341 GTTCACTTCT
* *
8351 ATTGAGCTTCGCTTTATTGTTTTGGTTCACTTCTCTATATCTCATCAGGAAGATGA-TCGCTTCA
1 ATTGAGCTT-GCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACT-GCTTCA
* *
8415 TCATTTTAATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTCAAGTTTCACTCAC
64 TCATTTTAATCCACTTCTCTG-ATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCAC
*
8475 ATTGAGCTGTGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATTAGGAAGATGACTGCTTCAT
1 ATTGAGCT-TGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCAT
* * *
8540 CATTTTGATCCACTTCTTTGAATCTCATTAGGAAGATGAGGGTTTGAAGTTTCACTCAC
65 CATTTTAATCCACTTCTCTG-ATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCAC
* **
8599 ATTGAGC-TGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGTCCACTTCATC
1 ATTGAGCTTGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATC
* * *
8663 ATTTTAATCCACTTCTCT-ATACTTTATCAGGAAGATAAGGGTTTGAGGTTTCACTCAC
66 ATTTTAATCCACTTCTCTGAT-C-TCATCAGGAAGATGAGGGTTTGAAGTTTCACTCAC
8721 ATTGAGCTTCGCTTC
1 ATTGAGCTT-GCTTC
8736 CTATAAAGCG
Statistics
Matches: 236, Mismatches: 19, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
120 2 0.01
121 1 0.00
122 107 0.45
123 1 0.00
124 123 0.52
125 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.40
Consensus pattern (122 bp):
ATTGAGCTTGCTTCATTGTTTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGACTGCTTCATC
ATTTTAATCCACTTCTCTGATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCAC
Found at i:13585 original size:30 final size:30
Alignment explanation
Indices: 13479--13586 Score: 92
Period size: 30 Copynumber: 3.6 Consensus size: 30
13469 AAAAATTTAG
* * * *
13479 AAAGTTAGAGGGCCAAATTCAAATTTTTGG
1 AAAGTTCGAGGGTCAAATTTAAATTTTTGA
* *
13509 AAAGTTCGGGGGGTTAAATTTAAATTTTT-A
1 AAAGTTC-GAGGGTCAAATTTAAATTTTTGA
* * ** *
13539 CGAAGTTCAATCGTCAAATTTGAATTTTTGA
1 -AAAGTTCGAGGGTCAAATTTAAATTTTTGA
13570 AAAGTTCGAGGGTCAAA
1 AAAGTTCGAGGGTCAAA
13587 ACTTTATTAT
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
30 34 0.59
31 24 0.41
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.33
Consensus pattern (30 bp):
AAAGTTCGAGGGTCAAATTTAAATTTTTGA
Found at i:13626 original size:61 final size:59
Alignment explanation
Indices: 13561--13747 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 59
13551 GTCAAATTTG
* *
13561 AATTTTTGAAAAGTTCGA-GGGTCAAAACTT-TATTATTGTAAAATTTGAGGGTAAAAAATAT
1 AATTTTTGAAAA-TTCGAGGGGTCAAAACTTAAATT-TTGGAAAATTT-AGGGT-AAAAATAT
* ** * *
13622 AATTTTTGGAAATTTTAGGGGTTAAAACTTAAATTTTGGAAAGTTTAGGGTAAAAATAT
1 AATTTTTGAAAATTCGAGGGGTCAAAACTTAAATTTTGGAAAATTTAGGGTAAAAATAT
* * * * * **
13681 AATTTTTGAAAAATT-TATGGGTC-AAATTTAAATTTTGGAAAGTTTAGGGGTCAAAGCAT
1 AATTTTTG-AAAATTCGAGGGGTCAAAACTTAAATTTTGGAAAATTTA-GGGTAAAAATAT
13740 AATTTTTG
1 AATTTTTG
13748 GATCGTTTAG
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
58 22 0.20
59 39 0.36
60 13 0.12
61 31 0.29
62 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (59 bp):
AATTTTTGAAAATTCGAGGGGTCAAAACTTAAATTTTGGAAAATTTAGGGTAAAAATAT
Found at i:13687 original size:29 final size:30
Alignment explanation
Indices: 13609--13767 Score: 135
Period size: 30 Copynumber: 5.3 Consensus size: 30
13599 TAAAATTTGA
*
13609 GGGTAAAAAATATAATTTTTGGAAATTTTAG
1 GGGT-AAAAATATAATTTTTGGAAAGTTTAG
* *
13640 GGGTTAAAACT-TAAATTTTGGAAAGTTTA-
1 GGG-TAAAAATATAATTTTTGGAAAGTTTAG
* * *
13669 GGGTAAAAATATAATTTTTGAAAAATTTAT
1 GGGTAAAAATATAATTTTTGGAAAGTTTAG
* * *
13699 GGGT-CAAATTTAAATTTTGGAAAGTTTAG
1 GGGTAAAAATATAATTTTTGGAAAGTTTAG
* ** **
13728 GGGTCAAAGCATAATTTTTGGATCGTTTAG
1 GGGTAAAAATATAATTTTTGGAAAGTTTAG
* *
13758 AGGTTAAAAT
1 GGGTAAAAAT
13768 GCAATTTCTA
Statistics
Matches: 100, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
28 6 0.06
29 41 0.41
30 44 0.44
31 8 0.08
32 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
GGGTAAAAATATAATTTTTGGAAAGTTTAG
Found at i:13687 original size:59 final size:58
Alignment explanation
Indices: 13608--13749 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 58
13598 GTAAAATTTG
*
13608 AGGGTAAAAAATATAATTTTTGGAAATTTTAGGGGTTAAAACTTAAATTTTGGAAAGTTT
1 AGGGT-AAAAATATAATTTTTGGAAAATTTAGGGG-TAAAACTTAAATTTTGGAAAGTTT
* * * *
13668 AGGGTAAAAATATAATTTTTGAAAAATTTATGGGTCAAATTTAAATTTTGGAAAGTTT
1 AGGGTAAAAATATAATTTTTGGAAAATTTAGGGGTAAAACTTAAATTTTGGAAAGTTT
* **
13726 AGGGGTCAAAGCATAATTTTTGGA
1 A-GGGTAAAAATATAATTTTTGGA
13750 TCGTTTAGAG
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
58 23 0.32
59 44 0.61
60 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.37
Consensus pattern (58 bp):
AGGGTAAAAATATAATTTTTGGAAAATTTAGGGGTAAAACTTAAATTTTGGAAAGTTT
Found at i:16656 original size:21 final size:21
Alignment explanation
Indices: 16632--16672 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16622 GAATTCTACC
16632 GATAAAACTAAGACATCTATT
1 GATAAAACTAAGACATCTATT
* *
16653 GATACAACTAAGACTTCTAT
1 GATAAAACTAAGACATCTAT
16673 CGGTAGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
GATAAAACTAAGACATCTATT
Found at i:26504 original size:17 final size:17
Alignment explanation
Indices: 26479--26516 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26469 CTTGCGTTTC
26479 TTTTAATTGTCATTGCA
1 TTTTAATTGTCATTGCA
* *
26496 TTTTTATTGTCTTTGCA
1 TTTTAATTGTCATTGCA
26513 TTTT
1 TTTT
26517 CAGTGTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.63
Consensus pattern (17 bp):
TTTTAATTGTCATTGCA
Found at i:41549 original size:2 final size:2
Alignment explanation
Indices: 41542--41570 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41532 ATTCATCTAC
41542 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 T
41571 TTCCTCCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45400 original size:102 final size:102
Alignment explanation
Indices: 45224--45430 Score: 371
Period size: 102 Copynumber: 2.0 Consensus size: 102
45214 TGGCGTATTC
* *
45224 AGTAGGGTATTTAAGTGTGATCAGTAAGACTAGAATGAGTAAAGGTATCTAACGAATACTAGGTA
1 AGTAGGGTATTTAAGCGTGATCAATAAGACTAGAATGAGTAAAGGTATCTAACGAATACTAGGTA
*
45289 AGTACTAAACAAAGTTAAGAAATGATTGAAGTTGATG
66 AGTACTAAACAAAGTTAAGAAACGATTGAAGTTGATG
45326 AGTAGGGTATTTAAGCGTGATCAATAAGACTAGAATGAGTAAAGGTATCTAAC-AGATACTAGGT
1 AGTAGGGTATTTAAGCGTGATCAATAAGACTAGAATGAGTAAAGGTATCTAACGA-ATACTAGGT
45390 AAGTACTAAACAAAGTTAAGAAACGATTGAAGTTGATG
65 AAGTACTAAACAAAGTTAAGAAACGATTGAAGTTGATG
45428 AGT
1 AGT
45431 TGAAGAGATA
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
101 1 0.01
102 100 0.99
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.27
Consensus pattern (102 bp):
AGTAGGGTATTTAAGCGTGATCAATAAGACTAGAATGAGTAAAGGTATCTAACGAATACTAGGTA
AGTACTAAACAAAGTTAAGAAACGATTGAAGTTGATG
Found at i:45660 original size:17 final size:19
Alignment explanation
Indices: 45616--45658 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
45606 TTTATATTTT
* *
45616 TAAAAAATATTAATTATTA
1 TAAAAAATATTAAGTATGA
45635 TAAAAAATATT-AGTATGA
1 TAAAAAATATTAAGTATGA
45653 TAAAAA
1 TAAAAA
45659 TAATTTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TAAAAAATATTAAGTATGA
Found at i:47157 original size:29 final size:30
Alignment explanation
Indices: 47108--47167 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
47098 ATATCAAAAC
*
47108 TATACACGAACTTTGATTTTG-TGCAATTT
1 TATACACGAAATTTGATTTTGATGCAATTT
* *
47137 TATACATGAAATTTCGA-TTTGATTCAATTT
1 TATACACGAAATTT-GATTTTGATGCAATTT
47167 T
1 T
47168 CACAAATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (30 bp):
TATACACGAAATTTGATTTTGATGCAATTT
Found at i:51272 original size:29 final size:29
Alignment explanation
Indices: 51206--51272 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 29
51196 ATATGTCGCT
*
51206 TTTTATTTTTAGTTTTTTTATCATTTTTTA
1 TTTTATTTTTAGTTTTTTTA-CATTCTTTA
51236 TTTATATTTTTCA-TTTTTTTA-ATTCTTTA
1 TTT-TATTTTT-AGTTTTTTTACATTCTTTA
51265 TTATTATT
1 TT-TTATT
51273 ATTATTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
29 13 0.39
30 4 0.12
31 15 0.45
32 1 0.03
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTTATTTTTAGTTTTTTTACATTCTTTA
Found at i:51298 original size:16 final size:15
Alignment explanation
Indices: 51277--51333 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
51267 ATTATTATTA
51277 TTATTTCTTTCTTCTT
1 TTATTTCTTTCTT-TT
*
51293 TTATTT-TTTCTTTC
1 TTATTTCTTTCTTTT
* *
51307 CTATTATCTTTGTTTT
1 TTATT-TCTTTCTTTT
51323 TTATTTTCTTT
1 TTA-TTTCTTT
51334 TTCTTTTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 19 0.58
17 2 0.06
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (15 bp):
TTATTTCTTTCTTTT
Found at i:51340 original size:16 final size:17
Alignment explanation
Indices: 51280--51340 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 17
51270 ATTATTATTA
51280 TTTCTTTCTTCTTTTA-
1 TTTCTTTCTTCTTTTAT
**
51296 TTT-TTTCTT-TCCTAT
1 TTTCTTTCTTCTTTTAT
* *
51311 TATCTTTGTT-TTTTAT
1 TTTCTTTCTTCTTTTAT
51327 TTTCTTT-TTCTTTT
1 TTTCTTTCTTCTTTT
51341 TCTTTTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 22 0.63
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTCTTCTTTTAT
Found at i:51346 original size:23 final size:22
Alignment explanation
Indices: 51280--51349 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
51270 ATTATTATTA
*
51280 TTTCTTTCTTCTTTTATTTTTTCT
1 TTTCTTT-TTCTTTT-TTTTTTAT
* * *
51304 TTCCTATTATCTTTGTTTTTTAT
1 TTTCT-TTTTCTTTTTTTTTTAT
51327 TTTCTTTTTCTTTTTCTTTTTAT
1 TTTCTTTTTCTTTTT-TTTTTAT
51350 ATACTTCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 8 0.22
23 18 0.49
24 9 0.24
25 2 0.05
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.77
Consensus pattern (22 bp):
TTTCTTTTTCTTTTTTTTTTAT
Found at i:67111 original size:12 final size:12
Alignment explanation
Indices: 67094--67120 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
67084 GCTATCGAAT
67094 CCATATAGTTTA
1 CCATATAGTTTA
67106 CCATATAGTTTA
1 CCATATAGTTTA
67118 CCA
1 CCA
67121 AAACACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (12 bp):
CCATATAGTTTA
Found at i:70996 original size:18 final size:18
Alignment explanation
Indices: 70921--70985 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
70911 TAGCTCGCTC
* *
70921 AGCATACTAGCTTGTTTG
1 AGCATACTGGCTCGTTTG
70939 AGCATACTGGCTCG-TTG
1 AGCATACTGGCTCGTTTG
*
70956 AGCATATTGGCTCGTTTG
1 AGCATACTGGCTCGTTTG
70974 AGCATACTGGCT
1 AGCATACTGGCT
70986 TGTAAGAGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.38
18 26 0.62
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (18 bp):
AGCATACTGGCTCGTTTG
Found at i:76259 original size:30 final size:30
Alignment explanation
Indices: 76225--76289 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
76215 CCGACCCCAT
*
76225 CCCCAACGCCATCTGCATCTCCAGCTCCAA
1 CCCCAACCCCATCTGCATCTCCAGCTCCAA
76255 CCCCAACCCCATCTGCATCTCCAGCTCCAA
1 CCCCAACCCCATCTGCATCTCCAGCTCCAA
76285 CCCCA
1 CCCCA
76290 TCACCCACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.54, G:0.08, T:0.15
Consensus pattern (30 bp):
CCCCAACCCCATCTGCATCTCCAGCTCCAA
Found at i:76267 original size:24 final size:24
Alignment explanation
Indices: 76240--76291 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
76230 ACGCCATCTG
76240 CATCTCCAGCTCCAACCCCAACCC
1 CATCTCCAGCTCCAACCCCAACCC
* * * *
76264 CATCTGCATCTCCAGCTCCAACCC
1 CATCTCCAGCTCCAACCCCAACCC
76288 CATC
1 CATC
76292 ACCCACCACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.54, G:0.06, T:0.17
Consensus pattern (24 bp):
CATCTCCAGCTCCAACCCCAACCC
Found at i:78898 original size:22 final size:22
Alignment explanation
Indices: 78869--78916 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
78859 ATAGTGTATC
*
78869 AAAT-ATTTTCCTTAATTATAT
1 AAATAATTTTCATTAATTATAT
*
78890 TAATAATTTTCATTAATTATAT
1 AAATAATTTTCATTAATTATAT
78912 AAATA
1 AAATA
78917 CTAAATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATAATTTTCATTAATTATAT
Found at i:84417 original size:3 final size:3
Alignment explanation
Indices: 84409--84469 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
84399 TAGTTGCTGA
*
84409 AAG AAG AAG AA- ATAG AAG -AG AAG AAG AAC AAG AAG AAG AAG AA-
1 AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
84452 AAG AAG -AG AAG -AG AAG AA
1 AAG AAG AAG AAG AAG AAG AA
84470 ATGGAGATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
2 9 0.18
3 40 0.80
4 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:84432 original size:17 final size:16
Alignment explanation
Indices: 84410--84463 Score: 76
Period size: 17 Copynumber: 3.4 Consensus size: 16
84400 AGTTGCTGAA
84410 AGAAGAAGAAATAGAAG
1 AGAAGAAGAAA-AGAAG
84427 AGAAGAAGAACAAG-A-
1 AGAAGAAGAA-AAGAAG
84442 AGAAGAAGAAAAGAAG
1 AGAAGAAGAAAAGAAG
84458 AGAAGA
1 AGAAGA
84464 GAAGAAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.09
15 11 0.32
16 7 0.21
17 12 0.35
18 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (16 bp):
AGAAGAAGAAAAGAAG
Found at i:84441 original size:23 final size:23
Alignment explanation
Indices: 84409--84458 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
84399 TAGTTGCTGA
* *
84409 AAGAAGAAGAA-ATAGAAGAGAAG
1 AAGAACAAGAAGA-AGAAGAAAAG
84432 AAGAACAAGAAGAAGAAGAAAAG
1 AAGAACAAGAAGAAGAAGAAAAG
84455 AAGA
1 AAGA
84459 GAAGAGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.28, T:0.02
Consensus pattern (23 bp):
AAGAACAAGAAGAAGAAGAAAAG
Found at i:98713 original size:22 final size:21
Alignment explanation
Indices: 98673--98713 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98663 GTCACCATCT
* *
98673 ATTAATTTTTTCGATTTACTC
1 ATTAAATTTTTCGAATTACTC
98694 ATTAAATTTTTCGAAATTAC
1 ATTAAATTTTTCG-AATTAC
98714 ATATTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTAAATTTTTCGAATTACTC
Found at i:99564 original size:15 final size:15
Alignment explanation
Indices: 99544--99576 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
99534 TCTTTGAGTC
99544 TGTGCATTCCAATTT
1 TGTGCATTCCAATTT
99559 TGTGCATTCCAATTT
1 TGTGCATTCCAATTT
99574 TGT
1 TGT
99577 ATACCAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (15 bp):
TGTGCATTCCAATTT
Found at i:100873 original size:2 final size:2
Alignment explanation
Indices: 100866--100892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100856 ATAAGATTTA
100866 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
100893 CTCATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107617 original size:8 final size:8
Alignment explanation
Indices: 107604--107639 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
107594 GGGTTGTTTG
107604 AAATTGTC
1 AAATTGTC
107612 AAATTGTC
1 AAATTGTC
*
107620 AAATGGTC
1 AAATTGTC
*
107628 AAATAGTC
1 AAATTGTC
107636 AAAT
1 AAAT
107640 CTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (8 bp):
AAATTGTC
Found at i:112105 original size:10 final size:10
Alignment explanation
Indices: 112072--112110 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
112062 CTTAACTAAC
112072 TTTTAATTAA
1 TTTTAATTAA
**
112082 TTACAATTAA
1 TTTTAATTAA
112092 -TTTAATTAA
1 TTTTAATTAA
112101 TTTTAATTAA
1 TTTTAATTAA
112111 AGAGTGGAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATTAA
Found at i:114843 original size:25 final size:25
Alignment explanation
Indices: 114783--114836 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
114773 TCCTAAGGGA
* *
114783 TTTAAACTCTATACAATCTTATCCC
1 TTTAAACTTTATACAATCTTACCCC
114808 TTTAAACTTTATACAATCTTACCCC
1 TTTAAACTTTATACAATCTTACCCC
114833 TTTA
1 TTTA
114837 GGATTTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAAACTTTATACAATCTTACCCC
Found at i:116254 original size:23 final size:22
Alignment explanation
Indices: 116211--116288 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 22
116201 CACAAATGAA
116211 CGGAGAGCACAAACGTGCTAAT
1 CGGAGAGCACAAACGTGCTAAT
*
116233 CGGAGAGCACATAACGTTCTAATAT
1 CGGAGAGCACA-AACGTGCT-A-AT
* * *
116258 CGAAGAGCACACAAAGTGCTAAA
1 CGGAGAGCACA-AACGTGCTAAT
116281 CGGAGAGC
1 CGGAGAGC
116289 GTGCTAAGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 11 0.24
23 15 0.33
24 2 0.04
25 18 0.39
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (22 bp):
CGGAGAGCACAAACGTGCTAAT
Found at i:119514 original size:23 final size:23
Alignment explanation
Indices: 119487--119533 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
119477 AAATAGCGTA
119487 GGCTAATAAAATCCTGATTGTAG
1 GGCTAATAAAATCCTGATTGTAG
119510 GGCTAATAAAATCCTGATTGTAG
1 GGCTAATAAAATCCTGATTGTAG
119533 G
1 G
119534 ACCTTTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (23 bp):
GGCTAATAAAATCCTGATTGTAG
Found at i:124716 original size:274 final size:274
Alignment explanation
Indices: 124227--124775 Score: 1071
Period size: 274 Copynumber: 2.0 Consensus size: 274
124217 CAACAAATAA
124227 ATGCAACGACAAAAATAAACATTAAACAAACGCCATCCCCGATAACGACGCCAAAACTTGATCGC
1 ATGCAACGACAAAAATAAACATTAAACAAACGCCATCCCCGATAACGACGCCAAAACTTGATCGC
124292 GCTATGAACGTCACAGCATATTATATGCAAGCGTACATTGTCGATGCTAGAATAGTAGATAGAAA
66 GCTATGAACGTCACAGCATATTATATGCAAGCGTACATTGTCGATGCTAGAATAGTAGATAGAAA
124357 TGAATCTATTGGATATCGATCCCACAGAGATTGTTGTTTATTGTTTAATCTATCAAAGCATTCTA
131 TGAATCTATTGGATATCGATCCCACAGAGATTGTTGTTTATTGTTTAATCTATCAAAGCATTCTA
124422 AGTTAAAATGAGAAGAAATGTTAAGAGTCATGTTAATGCAACTGGGTTGAATTTATACGAGTTAA
196 AGTTAAAATGAGAAGAAATGTTAAGAGTCATGTTAATGCAACTGGGTTGAATTTATACGAGTTAA
124487 GAATTAAATCTGTC
261 GAATTAAATCTGTC
* *
124501 ATGCAACGACAAAAATAAACATTAAACAAATGCCATCCCCGGTAACGACGCCAAAACTTGATCGC
1 ATGCAACGACAAAAATAAACATTAAACAAACGCCATCCCCGATAACGACGCCAAAACTTGATCGC
*
124566 GCTATGAATGTCACAGCATATTATATGCAAGCGTACATTGTCGATGCTAGAATAGTAGATAGAAA
66 GCTATGAACGTCACAGCATATTATATGCAAGCGTACATTGTCGATGCTAGAATAGTAGATAGAAA
124631 TGAATCTATTGGATATCGATCCCACAGAGATTGTTGTTTATTGTTTAATCTATCAAAGCATTCTA
131 TGAATCTATTGGATATCGATCCCACAGAGATTGTTGTTTATTGTTTAATCTATCAAAGCATTCTA
124696 AGTTAAAATGAGAAGAAATGTTAAGAGTCATGTTAATGCAACTGGGTTGAATTTATACGAGTTAA
196 AGTTAAAATGAGAAGAAATGTTAAGAGTCATGTTAATGCAACTGGGTTGAATTTATACGAGTTAA
124761 GAATTAAATCTGTC
261 GAATTAAATCTGTC
124775 A
1 A
124776 GCGTAGAATG
Statistics
Matches: 272, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
274 272 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (274 bp):
ATGCAACGACAAAAATAAACATTAAACAAACGCCATCCCCGATAACGACGCCAAAACTTGATCGC
GCTATGAACGTCACAGCATATTATATGCAAGCGTACATTGTCGATGCTAGAATAGTAGATAGAAA
TGAATCTATTGGATATCGATCCCACAGAGATTGTTGTTTATTGTTTAATCTATCAAAGCATTCTA
AGTTAAAATGAGAAGAAATGTTAAGAGTCATGTTAATGCAACTGGGTTGAATTTATACGAGTTAA
GAATTAAATCTGTC
Found at i:129597 original size:36 final size:36
Alignment explanation
Indices: 129547--129647 Score: 159
Period size: 36 Copynumber: 2.8 Consensus size: 36
129537 TCGTTATATG
* *
129547 TTTTACTCCCTGTTGACTTGAAGGTCATGTTGCTCA
1 TTTTACTCCTTGTTGACCTGAAGGTCATGTTGCTCA
129583 TTTTACTCCTTGTTGACCTGAAGGTCATGTTGCTCA
1 TTTTACTCCTTGTTGACCTGAAGGTCATGTTGCTCA
*
129619 TTTTACT-CTCTGTTGACCCGAAGGTCATG
1 TTTTACTCCT-TGTTGACCTGAAGGTCATG
129648 CTTGTTACCA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
35 2 0.03
36 59 0.97
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (36 bp):
TTTTACTCCTTGTTGACCTGAAGGTCATGTTGCTCA
Found at i:129680 original size:40 final size:40
Alignment explanation
Indices: 129628--129706 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
129618 ATTTTACTCT
* *
129628 CTGTTGACCCGAAGGTCATGCTTGTTACCAATATACAATC
1 CTGTTGACCCGAAGGCCATGCCTGTTACCAATATACAATC
* *
129668 CTGTTGATCCGAAGGCCATGCCTGTTACCAGTATACAAT
1 CTGTTGACCCGAAGGCCATGCCTGTTACCAATATACAAT
129707 GTTATTCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (40 bp):
CTGTTGACCCGAAGGCCATGCCTGTTACCAATATACAATC
Found at i:132049 original size:69 final size:69
Alignment explanation
Indices: 131974--132107 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 69
131964 TTCTTTACGC
** * * * * *
131974 ACAAATCACATTAATATTTAATTATAAACCATATTAATATTTAAGCACTAATCACATTAATATTT
1 ACAAATCACATTAATATTTAAGCATAAAACACATTAATACTTAAACACAAATCACATTAATATTT
132039 GAGT
66 GAGT
* * *
132043 ACAAATCATATTAATATTTAAGCATAAAACACGTTAATACTTAAACACAAATTACATTAATATTT
1 ACAAATCACATTAATATTTAAGCATAAAACACATTAATACTTAAACACAAATCACATTAATATTT
132108 AAGCACAGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 55 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (69 bp):
ACAAATCACATTAATATTTAAGCATAAAACACATTAATACTTAAACACAAATCACATTAATATTT
GAGT
Found at i:132114 original size:23 final size:23
Alignment explanation
Indices: 131967--132114 Score: 152
Period size: 23 Copynumber: 6.4 Consensus size: 23
131957 ATCTTAGTTC
*
131967 TTTACGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** * * *
131990 TTTAATTATAAACCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
132013 TTTAAGCACTAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
132036 TTTGAGTACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
132059 TTTAAGCATAAAACACGTTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
132082 CTTAAACACAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
132105 TTTAAGCACA
1 TTTAAGCACA
132115 GATATAAGAA
Statistics
Matches: 95, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 95 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:138229 original size:21 final size:21
Alignment explanation
Indices: 138205--138260 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
138195 TAGAAGTAAG
138205 ACTTGTATAGGTAGAA-GAGTC
1 ACTTGTATAGGTAGAACGA-TC
** *
138226 ACTTGTATTTGTAGAACTATC
1 ACTTGTATAGGTAGAACGATC
*
138247 ACTTGTATCGGTAG
1 ACTTGTATAGGTAG
138261 GAATCTGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (21 bp):
ACTTGTATAGGTAGAACGATC
Found at i:147968 original size:20 final size:20
Alignment explanation
Indices: 147935--147974 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
147925 ATAATATTAA
* *
147935 AAACAACAGTAAAATAACAT
1 AAACAACAGCAAAACAACAT
*
147955 AAACAACTGCAAAACAACAT
1 AAACAACAGCAAAACAACAT
147975 CGAAAACAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.20, G:0.05, T:0.12
Consensus pattern (20 bp):
AAACAACAGCAAAACAACAT
Found at i:147999 original size:11 final size:11
Alignment explanation
Indices: 147985--148048 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
147975 CGAAAACAAT
147985 ACCAAAATAGC
1 ACCAAAATAGC
*
147996 ACCAAAAATAGT
1 ACC-AAAATAGC
148008 ACCAAAACT-GC
1 ACCAAAA-TAGC
*
148019 ACCAAAAATAGT
1 ACC-AAAATAGC
* *
148031 ACCAAAGTTGC
1 ACCAAAATAGC
148042 ACCAAAA
1 ACCAAAA
148049 ACAGTACCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 23 0.55
12 19 0.45
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.12
Consensus pattern (11 bp):
ACCAAAATAGC
Found at i:148003 original size:23 final size:22
Alignment explanation
Indices: 147977--148074 Score: 106
Period size: 23 Copynumber: 4.3 Consensus size: 22
147967 AACAACATCG
*
147977 AAAACAATACCAAAATAGCACCA
1 AAAACAGTACCAAAAT-GCACCA
*
148000 AAAATAGTACCAAAACTGCACCA
1 AAAACAGTACCAAAA-TGCACCA
* *
148023 AAAATAGTACCAAAGTTGCACCA
1 AAAACAGTACCAAA-ATGCACCA
* *
148046 AAAACAGTACCAAATCTGCACAA
1 AAAACAGTACCAAA-ATGCACCA
148069 AAAACA
1 AAAACA
148075 ACTTGCAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 65 0.98
24 1 0.02
ACGTcount: A:0.55, C:0.24, G:0.08, T:0.12
Consensus pattern (22 bp):
AAAACAGTACCAAAATGCACCA
Found at i:148005 original size:12 final size:12
Alignment explanation
Indices: 147988--148059 Score: 67
Period size: 12 Copynumber: 6.2 Consensus size: 12
147978 AAACAATACC
147988 AAAATAGCACCA
1 AAAATAGCACCA
*
148000 AAAATAGTACCA
1 AAAATAGCACCA
*
148012 AAACT-GCACCA
1 AAAATAGCACCA
*
148023 AAAATAGTACC-
1 AAAATAGCACCA
* *
148034 AAAGTTGCACCA
1 AAAATAGCACCA
* *
148046 AAAACAGTACCA
1 AAAATAGCACCA
148058 AA
1 AA
148060 TCTGCACAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
11 17 0.37
12 29 0.63
ACGTcount: A:0.54, C:0.24, G:0.10, T:0.12
Consensus pattern (12 bp):
AAAATAGCACCA
Found at i:148034 original size:46 final size:46
Alignment explanation
Indices: 147984--148072 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
147974 TCGAAAACAA
* *
147984 TACCAAAATAGCACCAAAAATAGTACCAAAACTGCACCAAAAATAG
1 TACCAAAATAGCACCAAAAACAGTACCAAAACTGCACAAAAAATAG
* * *
148030 TACCAAAGTTGCACCAAAAACAGTACCAAATCTGCACAAAAAA
1 TACCAAAATAGCACCAAAAACAGTACCAAAACTGCACAAAAAA
148073 CAACTTGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.13
Consensus pattern (46 bp):
TACCAAAATAGCACCAAAAACAGTACCAAAACTGCACAAAAAATAG
Found at i:148389 original size:24 final size:25
Alignment explanation
Indices: 148348--148395 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
148338 CAATAAAACT
*
148348 AAAATAATAATTAGTATTAAAAATA
1 AAAATAATAATCAGTATTAAAAATA
* *
148373 AAAATAA-AATCATTATTATAAAT
1 AAAATAATAATCAGTATTAAAAAT
148396 CCGGGTCGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATAATAATCAGTATTAAAAATA
Found at i:149668 original size:33 final size:34
Alignment explanation
Indices: 149618--149693 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 34
149608 AGTATTTAAA
*
149618 ATTTTTTTTGTTCAATTT-AGTACTTAAATTTGAT
1 ATTTTTTTTCTTCAATTTGA-TACTTAAATTTGAT
* *
149652 ATTTTTTTTCTT-AATTTGATATTTAAATTTGGT
1 ATTTTTTTTCTTCAATTTGATACTTAAATTTGAT
*
149685 ACTTTTTTT
1 ATTTTTTTT
149694 AAGTTGATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 25 0.68
34 12 0.32
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (34 bp):
ATTTTTTTTCTTCAATTTGATACTTAAATTTGAT
Found at i:149708 original size:30 final size:32
Alignment explanation
Indices: 149638--149711 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 32
149628 TTCAATTTAG
* *
149638 TACTTAAATTTGATATTTTTTTTCTTAATTTGA
1 TACTTAAATTTGATA-TCTTTTTCTTAAGTTGA
* *
149671 TATTTAAATTTGGTA-CTTTTT-TTAAGTTGA
1 TACTTAAATTTGATATCTTTTTCTTAAGTTGA
149701 TACTTAAATTT
1 TACTTAAATTT
149712 TTTGGGATCC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.50
31 5 0.14
33 13 0.36
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.58
Consensus pattern (32 bp):
TACTTAAATTTGATATCTTTTTCTTAAGTTGA
Found at i:150027 original size:58 final size:58
Alignment explanation
Indices: 149936--150095 Score: 182
Period size: 58 Copynumber: 2.7 Consensus size: 58
149926 TTGAATCTAA
* * * *
149936 AAAAAAAGCTT-AGATACCAAATTAGGGAAAAATGTCAAGTTCAAGTACT-AAATTGAGTC
1 AAAAAAAGTTTAAG-TATCAAATTA-AGAAAAATGTCAAGTTCAAGTA-TAAAATTGAATC
* * *
149995 CAAAAAAGTTTAAGTA-CTAAATTACGAAAAATGTCAAGTTCAGGTATAAAATTGAATC
1 AAAAAAAGTTTAAGTATC-AAATTAAGAAAAATGTCAAGTTCAAGTATAAAATTGAATC
*
150053 AAAAAAAGTTTAAGTATCAAATTAAAAAAAAGTGTCAAGTTCA
1 AAAAAAAGTTTAAGTATCAAATTAAGAAAAA-TGTCAAGTTCA
150096 GATATCAAAT
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
57 1 0.01
58 56 0.64
59 29 0.33
60 2 0.02
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (58 bp):
AAAAAAAGTTTAAGTATCAAATTAAGAAAAATGTCAAGTTCAAGTATAAAATTGAATC
Found at i:162540 original size:22 final size:22
Alignment explanation
Indices: 162512--162556 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
162502 ATAAATACCG
162512 ACCTAAAACCCTAGACCAAGCT
1 ACCTAAAACCCTAGACCAAGCT
162534 ACCTAAAACCCTAGACCAAGCT
1 ACCTAAAACCCTAGACCAAGCT
162556 A
1 A
162557 TGTTTAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.36, G:0.09, T:0.13
Consensus pattern (22 bp):
ACCTAAAACCCTAGACCAAGCT
Found at i:164095 original size:27 final size:27
Alignment explanation
Indices: 164054--164116 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
164044 TCTTCCATGG
* *
164054 GTTAATTTGTCAATTTA-AGTATTAAAT
1 GTTAGTTTGTCAATTTAGA-CATTAAAT
*
164081 GTTAGTTTGTTAATTTAGACATTAAAT
1 GTTAGTTTGTCAATTTAGACATTAAAT
*
164108 GCTAGTTTG
1 GTTAGTTTG
164117 AGTTTACGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.48
Consensus pattern (27 bp):
GTTAGTTTGTCAATTTAGACATTAAAT
Found at i:176137 original size:18 final size:18
Alignment explanation
Indices: 176114--176150 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
176104 ACAATTCATA
176114 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
176132 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
176150 T
1 T
176151 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:183240 original size:18 final size:18
Alignment explanation
Indices: 183217--183253 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
183207 ACAATTCATA
183217 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
183235 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
183253 T
1 T
183254 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:188441 original size:25 final size:24
Alignment explanation
Indices: 188355--188443 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
188345 TTAAACTCTG
*
188355 TCTGGGCTCGAATGAGCTAACTTA
1 TCTGGGCTCGTATGAGCTAACTTA
* *
188379 TCTGGGCTCGTAAGAGCTAACCTA
1 TCTGGGCTCGTATGAGCTAACTTA
* * *
188403 TCTGGGCTCATATGAGCTAATTTTG
1 TCTGGGCTCGTATGAGCTAA-CTTA
*
188428 TCTGGGCTTGTATGAG
1 TCTGGGCTCGTATGAG
188444 TTAAATTTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 39 0.72
25 15 0.28
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (24 bp):
TCTGGGCTCGTATGAGCTAACTTA
Found at i:195778 original size:18 final size:18
Alignment explanation
Indices: 195755--195791 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
195745 AAGATAAAAG
* *
195755 ATTTATGGATTGATGAAA
1 ATTTATGAATTGACGAAA
195773 ATTTATGAATTGACGAAA
1 ATTTATGAATTGACGAAA
195791 A
1 A
195792 CTAGAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (18 bp):
ATTTATGAATTGACGAAA
Found at i:197259 original size:36 final size:36
Alignment explanation
Indices: 197183--197259 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
197173 ATACAATCAG
* * **
197183 TCACATGGCATGAAGAACATACCTACATATTTTCTA
1 TCACATGGCATGAAGAACATACCAACATAATCACTA
*
197219 TCACATGGCATGAAGAACATACCAACATAATCACTT
1 TCACATGGCATGAAGAACATACCAACATAATCACTA
197255 TCACA
1 TCACA
197260 ACAGTCATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (36 bp):
TCACATGGCATGAAGAACATACCAACATAATCACTA
Found at i:198250 original size:40 final size:40
Alignment explanation
Indices: 198190--198287 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
198180 CGTTTGGATA
* * *
198190 GAAAACGCCACAAAAGGTAAAGCATTAGTGGCACTTATGG
1 GAAAGCGCCACAAAAGGTAAAGCATTAGCGACACTTATGG
*
198230 GAAAGCGCCACAAAAGGTAAAGCATTAGCGACGCTTATGG
1 GAAAGCGCCACAAAAGGTAAAGCATTAGCGACACTTATGG
* *
198270 GAAAGCGCCGCTAAAGGT
1 GAAAGCGCCACAAAAGGT
198288 CGGAGCATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (40 bp):
GAAAGCGCCACAAAAGGTAAAGCATTAGCGACACTTATGG
Found at i:199467 original size:43 final size:43
Alignment explanation
Indices: 199385--199469 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
199375 ATTAACATGT
* * *
199385 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAATCATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* **
199428 TAAATCATATTACTTTACTTTTATTAATAT-CTTGACATGTTA
1 TAAATCATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
199470 TTAATTGTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (43 bp):
TAAATCATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:200416 original size:28 final size:28
Alignment explanation
Indices: 200383--200457 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
200373 ACCCTACAAT
*
200383 CTAAATTATAAAC-CTTAGACTTAAAACC
1 CTAAATCATAAACAC-TAGACTTAAAACC
*
200411 CTAAATCATAAACACTAGACTTAAAACT
1 CTAAATCATAAACACTAGACTTAAAACC
*
200439 CTAAATCGTAAACACTAGA
1 CTAAATCATAAACACTAGA
200458 TTGATTAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.25
Consensus pattern (28 bp):
CTAAATCATAAACACTAGACTTAAAACC
Found at i:201497 original size:51 final size:51
Alignment explanation
Indices: 201425--201526 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
201415 CTGCCATATT
201425 GGTCATCATTTGACTATATCGATACCCCTCATCAAAACTTTGAGCCCATTG
1 GGTCATCATTTGACTATATCGATACCCCTCATCAAAACTTTGAGCCCATTG
*
201476 GGTCGTCATTTGACTATATCGATACCCCTCATCAAAACTTTGAGCCCATTG
1 GGTCATCATTTGACTATATCGATACCCCTCATCAAAACTTTGAGCCCATTG
201527 CCACGGCTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (51 bp):
GGTCATCATTTGACTATATCGATACCCCTCATCAAAACTTTGAGCCCATTG
Found at i:203476 original size:20 final size:20
Alignment explanation
Indices: 203453--203490 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
203443 AATCTGTTAA
*
203453 AAATTAAATAAAATTTTAGT
1 AAATAAAATAAAATTTTAGT
*
203473 AAATAAAATAATATTTTA
1 AAATAAAATAAAATTTTA
203491 AAAAGATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
AAATAAAATAAAATTTTAGT
Found at i:203529 original size:26 final size:29
Alignment explanation
Indices: 203476--203529 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
203466 TTTTAGTAAA
*
203476 TAAAATAATATTTTAAAAAGATATCATAC
1 TAAAATAATATTTTAAAAAGATAACATAC
*
203505 TAAAATAA-A-TTTAAAAATA-AACATA
1 TAAAATAATATTTTAAAAAGATAACATA
203530 TTACTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 9 0.39
28 1 0.04
29 8 0.35
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (29 bp):
TAAAATAATATTTTAAAAAGATAACATAC
Found at i:204289 original size:15 final size:17
Alignment explanation
Indices: 204268--204308 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
204258 TAATTTTTTA
204268 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
204284 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
204300 AAAATTATA
1 AAAATTATA
204309 TTTTTAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:205073 original size:17 final size:17
Alignment explanation
Indices: 205051--205084 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
205041 CCTATACAGC
205051 ATGTCACGTAAGCATAA
1 ATGTCACGTAAGCATAA
*
205068 ATGTCACGTGAGCATAA
1 ATGTCACGTAAGCATAA
205085 GATCATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (17 bp):
ATGTCACGTAAGCATAA
Found at i:207675 original size:12 final size:12
Alignment explanation
Indices: 207660--207693 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
207650 TCCGCTTTTG
*
207660 TTTCTTTTTCTT
1 TTTCTTGTTCTT
207672 TTTCTTGTTCTT
1 TTTCTTGTTCTT
*
207684 GTTCTTGTTC
1 TTTCTTGTTC
207694 CCCCCTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTCTTGTTCTT
Found at i:214593 original size:17 final size:16
Alignment explanation
Indices: 214548--214593 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
214538 ACAATAGAGA
214548 TTAAAT-TGAAA-AAT
1 TTAAATGTGAAACAAT
* *
214562 TTAAGTGTAAAACAAT
1 TTAAATGTGAAACAAT
214578 TTAATATGTGAAACAA
1 TTAA-ATGTGAAACAA
214594 GATATTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 7 0.28
17 9 0.36
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (16 bp):
TTAAATGTGAAACAAT
Found at i:217456 original size:21 final size:21
Alignment explanation
Indices: 217408--217447 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
217398 CTCATGCTTA
*
217408 ATTATTGTTTTTCTTAATTTC
1 ATTATTGTTTTTCTTACTTTC
217429 ATTATTGTTTTTCTTACTT
1 ATTATTGTTTTTCTTACTT
217448 ATTTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (21 bp):
ATTATTGTTTTTCTTACTTTC
Found at i:248359 original size:12 final size:12
Alignment explanation
Indices: 248334--248375 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
248324 ATTGAATTTA
248334 TTTTTTAAT-A-
1 TTTTTTAATGAT
248344 TTTTTT-ATGAT
1 TTTTTTAATGAT
248355 TTTTTTAATGAT
1 TTTTTTAATGAT
*
248367 TTATTTAAT
1 TTTTTTAAT
248376 TAATTCGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 7 0.25
11 6 0.21
12 13 0.46
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (12 bp):
TTTTTTAATGAT
Found at i:251113 original size:27 final size:27
Alignment explanation
Indices: 251083--251140 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
251073 ATATTAATAA
251083 AAAAATAA-AAAAATTATATAAATGTAT
1 AAAAATAACAAAAATT-TATAAATGTAT
* *
251110 -AAAATAACTAAAACTTTATAAATTTAT
1 AAAAATAAC-AAAAATTTATAAATGTAT
251137 AAAA
1 AAAA
251141 TATATAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
26 7 0.27
27 10 0.38
28 9 0.35
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAATAACAAAAATTTATAAATGTAT
Found at i:251245 original size:23 final size:23
Alignment explanation
Indices: 251217--251266 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
251207 TTTATTAATT
* *
251217 TATATATTTTAATTTATGAAAATAA
1 TATAT-TTTTAAATT-TCAAAATAA
251242 TATATTTTTAAATTTCAAAATAA
1 TATATTTTTAAATTTCAAAATAA
251265 TA
1 TA
251267 ATATAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 8 0.35
25 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TATATTTTTAAATTTCAAAATAA
Found at i:256708 original size:16 final size:17
Alignment explanation
Indices: 256678--256715 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
256668 AATTATGAAG
*
256678 AAATATAAAATAAAAAA
1 AAATATAAAAGAAAAAA
*
256695 AAAT-TAAAAGAAAACA
1 AAATATAAAAGAAAAAA
256711 AAATA
1 AAATA
256716 ATAGAGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATATAAAAGAAAAAA
Found at i:259595 original size:5 final size:5
Alignment explanation
Indices: 259585--259609 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
259575 AATTTTGATC
259585 TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT
259610 ATTAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:260217 original size:10 final size:10
Alignment explanation
Indices: 260203--260239 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
260193 ATTAAAATGT
260203 ATTTTT-ATA
1 ATTTTTAATA
260212 ATTTTTAATA
1 ATTTTTAATA
*
260222 A-TTTTAATG
1 ATTTTTAATA
260231 ATTTTTAAT
1 ATTTTTAAT
260240 TTTTAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 14 0.56
10 11 0.44
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:260260 original size:26 final size:26
Alignment explanation
Indices: 260205--260267 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
260195 TAAAATGTAT
*
260205 TTTTATAATTTTTAATAATTTTAATGA
1 TTTT-TAATTTTTAATAATTATAATGA
260232 TTTTTAATTTTTAAATTAATTAT-AT-A
1 TTTTTAATTTTT-AA-TAATTATAATGA
*
260258 TTTTTTATTT
1 TTTTTAATTT
260268 AATTAAATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 18 0.56
27 8 0.25
28 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTAATTTTTAATAATTATAATGA
Found at i:267590 original size:21 final size:20
Alignment explanation
Indices: 267561--267602 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
267551 ACAATTCGCT
267561 ACAAATATTTAAAAAAAAAAA
1 ACAAATA-TTAAAAAAAAAAA
*
267582 ACAACTATTACAAAAAAAAAA
1 ACAAATATTA-AAAAAAAAAA
267603 TTCTCAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
ACAAATATTAAAAAAAAAAA
Found at i:284069 original size:110 final size:109
Alignment explanation
Indices: 283886--284100 Score: 265
Period size: 110 Copynumber: 2.0 Consensus size: 109
283876 TTAGTCATGG
* *
283886 AAAATGAGAAACTTGGTTCTTTACATCTACATAAACAAAAAGTCTAATATTCAATGGAAATAATA
1 AAAATGACAAACTTGGTTCTTTACATCTACATAAACAAAAAATCTAATATTCAATGGAAATAATA
283951 TATATTAGGATGATACTAAAATATATAGTTTTTAG-GTATTAAT
66 TATATTAGGATGATACTAAAATATATAGTTTTTAGTGTATTAAT
* * ** ** *
283994 AAAATGACAAATCTTGGTTCTTTATATCTCCATAAACGAAAAAAAT-TCGTATTTGATGGGAATA
1 AAAATGACAAA-CTTGGTTCTTTACATCTACATAAAC--AAAAAATCTAATATTCAATGGAAATA
* * *
284058 ACT-TATATTAGGATGATCCTACAATATATGGTTTTTAGTGTAT
63 A-TATATATTAGGATGATACTAAAATATATAGTTTTTAGTGTAT
284101 CTTAGTCTTG
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
108 10 0.11
109 23 0.26
110 46 0.51
111 11 0.12
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (109 bp):
AAAATGACAAACTTGGTTCTTTACATCTACATAAACAAAAAATCTAATATTCAATGGAAATAATA
TATATTAGGATGATACTAAAATATATAGTTTTTAGTGTATTAAT
Found at i:296968 original size:20 final size:19
Alignment explanation
Indices: 296943--297057 Score: 99
Period size: 18 Copynumber: 5.8 Consensus size: 19
296933 GACCAGATCA
296943 AAAAATTGTAATAAAATATT
1 AAAAATTGTAA-AAAATATT
*
296963 AAAAATCGTAAAAAATA-T
1 AAAAATTGTAAAAAATATT
*
296981 AAAAATTGAAAAAAATATT
1 AAAAATTGTAAAAAATATT
* * * *
297000 -TAGATTATTAAAATATATTT
1 AAAAATT-GTAAAAAATA-TT
297020 AAAAATTGTAAAAAATAAATGTT
1 AAAAATTGTAAAAAAT--A--TT
297043 AAAAATTGTAAAAAA
1 AAAAATTGTAAAAAA
297058 AAAAAGTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
18 20 0.27
19 14 0.19
20 19 0.25
21 4 0.05
22 1 0.01
23 17 0.23
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAAATTGTAAAAAATATT
Found at i:297048 original size:23 final size:23
Alignment explanation
Indices: 297009--297066 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
296999 TTAGATTATT
*
297009 AAAATATAT-TTAAAAATTGTAA
1 AAAATAAATGTTAAAAATTGTAA
297031 AAAATAAATGTTAAAAATTGTAA
1 AAAATAAATGTTAAAAATTGTAA
* *
297054 AAAAAAAAAGTTA
1 AAAATAAATGTTA
297067 TTAAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (23 bp):
AAAATAAATGTTAAAAATTGTAA
Found at i:297112 original size:20 final size:20
Alignment explanation
Indices: 297092--297142 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
297082 ATTATTTAAT
297092 TTTTAAA-AATTATTAAAAA
1 TTTTAAATAATTATTAAAAA
297111 TTTTAAATAATTATTAAAAA
1 TTTTAAATAATTATTAAAAA
*
297131 -ATTAAATAATTA
1 TTTTAAATAATTA
297143 ACTAATCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTTAAATAATTATTAAAAA
Found at i:297413 original size:19 final size:20
Alignment explanation
Indices: 297366--297415 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
297356 CACCAATTCA
* *
297366 CATTTTTAATGATTATTTAT
1 CATTTTTAATAATTATTTAG
* *
297386 AAATTTTAATAATTATTT-G
1 CATTTTTAATAATTATTTAG
297405 CATTTTTAATA
1 CATTTTTAATA
297416 TTTTCCCCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (20 bp):
CATTTTTAATAATTATTTAG
Found at i:297470 original size:21 final size:21
Alignment explanation
Indices: 297444--297494 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
297434 AATTTTAACA
*
297444 AATTTTAAATAAGGTTTTTAT
1 AATTTTAAATAAGGTTTTTAC
* **
297465 AATTTTTAATAATTTTTTTAC
1 AATTTTAAATAAGGTTTTTAC
*
297486 AATATTAAA
1 AATTTTAAA
297495 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
AATTTTAAATAAGGTTTTTAC
Found at i:297476 original size:10 final size:10
Alignment explanation
Indices: 297427--297481 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
297417 TTTCCCCAAA
297427 TTTTAATAA-
1 TTTTAATAAT
*
297436 TTTTAACAAAT
1 TTTTAA-TAAT
*
297447 TTTAAATAAGGT
1 TTTTAATAA--T
297459 TTTT-ATAAT
1 TTTTAATAAT
297468 TTTTAATAAT
1 TTTTAATAAT
297478 TTTT
1 TTTT
297482 TTACAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
9 11 0.30
10 13 0.35
11 9 0.24
12 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:297493 original size:20 final size:21
Alignment explanation
Indices: 297428--297532 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 21
297418 TTCCCCAAAT
297428 TTTAATAA--TTTTAACAA-A
1 TTTAATAATTTTTTAACAATA
* * *
297446 TTTTAAATAAGGTTTTT-ATAATT
1 -TTT-AATAA-TTTTTTAACAATA
*
297469 TTTAATAATTTTTTTACAATA
1 TTTAATAATTTTTTAACAATA
297490 -TTAA-AATATTTTTAACAATA
1 TTTAATAAT-TTTTTAACAATA
*
297510 TTTAATAA-TTATTAA-AATA
1 TTTAATAATTTTTTAACAATA
297529 TTTA
1 TTTA
297533 TTTTTTTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
19 14 0.20
20 31 0.44
21 13 0.19
22 8 0.11
23 4 0.06
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTAATAATTTTTTAACAATA
Found at i:297516 original size:19 final size:19
Alignment explanation
Indices: 297474--297551 Score: 63
Period size: 20 Copynumber: 4.2 Consensus size: 19
297464 TAATTTTTAA
*
297474 TAAT-TTTTTTACAATATT
1 TAATATTTTTAACAATATT
*
297492 AAAATATTTTTAACAATATT
1 -TAATATTTTTAACAATATT
*
297512 TAATAATTATTAA-AATATT
1 TAAT-ATTTTTAACAATATT
* * *
297531 T-ATTTTTTTTACAATTTT
1 TAATATTTTTAACAATATT
297549 TAA
1 TAA
297552 ATGTTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
17 5 0.11
18 8 0.17
19 14 0.30
20 20 0.43
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATTTTTAACAATATT
Found at i:297571 original size:21 final size:23
Alignment explanation
Indices: 297533--297580 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
297523 AAAATATTTA
*
297533 TTTTTTTTACAATTTTTAA-ATGT
1 TTTTTTTTACAATGTTTAACAT-T
297556 TTTTTTTTA-AA-GTTTAACATT
1 TTTTTTTTACAATGTTTAACATT
297577 TTTT
1 TTTT
297581 AATAGTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 10 0.43
22 4 0.17
23 9 0.39
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
TTTTTTTTACAATGTTTAACATT
Found at i:297595 original size:17 final size:17
Alignment explanation
Indices: 297557--297598 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
297547 TTTAAATGTT
297557 TTTTTTTAAAGTTTAAC
1 TTTTTTTAAAGTTTAAC
*
297574 ATTTTTTAATAGTTTAA-
1 TTTTTTTAA-AGTTTAAC
297591 TTTTTTTA
1 TTTTTTTA
297599 CAATATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTTTTAAAGTTTAAC
Found at i:298275 original size:29 final size:31
Alignment explanation
Indices: 298221--298282 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
298211 ATATCAAAAT
*
298221 TATATATGAATTTTGATTTAATATGCAATTA
1 TATATATGAATTTTAATTTAATATGCAATTA
298252 TATATATGAATTTTAATTT-A-ATGCAATTA
1 TATATATGAATTTTAATTTAATATGCAATTA
298281 TA
1 TA
298283 CGCATGAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 11 0.37
30 1 0.03
31 18 0.60
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.48
Consensus pattern (31 bp):
TATATATGAATTTTAATTTAATATGCAATTA
Found at i:298289 original size:29 final size:31
Alignment explanation
Indices: 298226--298290 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
298216 AAAATTATAT
* * *
298226 ATGAATTTTGATTTAATATGCAATTATATAT
1 ATGAATTTTAATTTAATATGCAATTATACAC
*
298257 ATGAATTTTAATTT-A-ATGCAATTATACGC
1 ATGAATTTTAATTTAATATGCAATTATACAC
298286 ATGAA
1 ATGAA
298291 ACTCTAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 16 0.53
30 1 0.03
31 13 0.43
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (31 bp):
ATGAATTTTAATTTAATATGCAATTATACAC
Found at i:302227 original size:3 final size:3
Alignment explanation
Indices: 302219--302243 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
302209 AACGGCGTCC
302219 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
302244 GTCTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:312336 original size:5 final size:5
Alignment explanation
Indices: 312326--312350 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
312316 ACATAATTAG
312326 CCCTT CCCTT CCCTT CCCTT CCCTT
1 CCCTT CCCTT CCCTT CCCTT CCCTT
312351 TTCATCTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CCCTT
Found at i:314302 original size:24 final size:24
Alignment explanation
Indices: 314265--314310 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
314255 CCAATTAGGG
314265 AATTATTGTTTAGA-TTTAATTCA
1 AATTATTGTTTAGATTTTAATTCA
*
314288 AATTATCTTTTTAGATTTTAATT
1 AATTAT-TGTTTAGATTTTAATT
314311 TGGATCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (24 bp):
AATTATTGTTTAGATTTTAATTCA
Found at i:315292 original size:19 final size:18
Alignment explanation
Indices: 315260--315296 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
315250 AAATTGATTC
315260 AAATTTATTTTTAAATTT
1 AAATTTATTTTTAAATTT
315278 AAATTTATCTTTTAAATTT
1 AAATTTAT-TTTTAAATTT
315297 TCTTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
AAATTTATTTTTAAATTT
Found at i:316136 original size:16 final size:15
Alignment explanation
Indices: 316099--316137 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
316089 AATAATGATA
316099 AAATTAATAATAAAT
1 AAATTAATAATAAAT
316114 AATATTAATAATAACAT
1 AA-ATTAATAATAA-AT
*
316131 TAATTAA
1 AAATTAA
316138 AAAAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 16 0.76
17 3 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTAATAATAAAT
Found at i:317207 original size:29 final size:29
Alignment explanation
Indices: 317129--317447 Score: 297
Period size: 29 Copynumber: 10.8 Consensus size: 29
317119 GAAGGTCTCT
*
317129 AAACTTCCAAAAATTCCATTTTTACAACCCC
1 AAACTTCCAAAAATTCCATTTTTAC--CCTC
* *
317160 AAAACTTCTAAAAAATCCATTTTTATCCC-C
1 -AAACTTCCAAAAATTCCATTTTTA-CCCTC
*
317190 AAACTTCCAAAAATTCCATTTTTAACCTC
1 AAACTTCCAAAAATTCCATTTTTACCCTC
* *
317219 AAAACATCCAAAAGTTCCATTTTTACCC-C
1 -AAACTTCCAAAAATTCCATTTTTACCCTC
* * ** *
317248 TGAACTTCCAAAAACTATATTTTTAACCCTA
1 -AAACTTCCAAAAATTCCATTTTT-ACCCTC
*
317279 AAACTTCCAAAATTTCCATTTTTACCCTC
1 AAACTTCCAAAAATTCCATTTTTACCCTC
* * *
317308 GAGCTTCTAAAAATTCCA-TTTTACCCTC
1 AAACTTCCAAAAATTCCATTTTTACCCTC
* *
317336 GAACTTCCAAAAATTCCATTTTTAACCCTA
1 AAACTTCCAAAAATTCCATTTTT-ACCCTC
**
317366 AAACTTTTAAAAATT-CATTTTTTACCCTC
1 AAACTTCCAAAAATTCCA-TTTTTACCCTC
*
317395 GAACTTCCAAAAATTCCATTTTTGACCC-C
1 AAACTTCCAAAAATTCCATTTTT-ACCCTC
* *
317424 GAAACTTTCAGAAATTACCATTTT
1 -AAACTTCCAAAAATT-CCATTTT
317448 GCCCCTAGAT
Statistics
Matches: 236, Mismatches: 39, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
28 28 0.12
29 89 0.38
30 87 0.37
31 9 0.04
32 22 0.09
33 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCTC
Found at i:317254 original size:59 final size:59
Alignment explanation
Indices: 317130--317447 Score: 292
Period size: 59 Copynumber: 5.4 Consensus size: 59
317120 AAGGTCTCTA
* * * *
317130 AACTTCCAAAAATTCCATTTTTACAACCCCAAAACTTCTAAAAAATCCATTTTTATCCCC-A
1 AACTTCCAAAAATTCCATTTTT--AACCTCAAAACTTCCAAAAATTCCATTTTTA-CCCCTG
* *
317191 AACTTCCAAAAATTCCATTTTTAACCTCAAAACATCCAAAAGTTCCATTTTTACCCCTG
1 AACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTCCATTTTTACCCCTG
* ** *
317250 AACTTCCAAAAACTATATTTTTAACC-CTAAAACTTCCAAAATTTCCATTTTTA-CCCTCG
1 AACTTCCAAAAATTCCATTTTTAACCTC-AAAACTTCCAAAAATTCCATTTTTACCCCT-G
* * * * * *
317309 AGCTTCTAAAAATTCCA-TTTTACCCTC-GAACTTCCAAAAATTCCATTTTTAACCCTAA
1 AACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTCCATTTTTACCCCT-G
** * *
317367 AACTTTTAAAAATT-CATTTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTGACCCC-G
1 AACTTCCAAAAATTCCA-TTTTTAACCTCAAAACTTCCAAAAATTCCATTTTT-ACCCCTG
* *
317425 AAACTTTCAGAAATTACCATTTT
1 -AACTTCCAAAAATT-CCATTTT
317448 GCCCCTAGAT
Statistics
Matches: 219, Mismatches: 27, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
57 24 0.11
58 32 0.15
59 131 0.60
60 8 0.04
61 24 0.11
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.35
Consensus pattern (59 bp):
AACTTCCAAAAATTCCATTTTTAACCTCAAAACTTCCAAAAATTCCATTTTTACCCCTG
Found at i:317466 original size:59 final size:58
Alignment explanation
Indices: 317403--317568 Score: 185
Period size: 59 Copynumber: 2.8 Consensus size: 58
317393 TCGAACTTCC
317403 AAAAATTCCATTTTTGACCCCGAAACTTTCAGAAATTACCATTTTGCCCCTAG-ATGTCT
1 AAAAATTCCATTTTTGACCCCGAAACTTTCA-AAATTACCATTTTGCCCC-AGAATGTCT
* * * * * * * *
317462 AAAAACTACATTTTCGATCTCGAAACTCTCAAAATTATCC-TTTTACCCCCGAATGTCT
1 AAAAATTCCATTTTTGACCCCGAAACTTTCAAAATTA-CCATTTTGCCCCAGAATGTCT
*
317520 AAAAATTCCATTTTTAACCCCG-AACTTTCCCAAAATTACCATTTTGCCC
1 AAAAATTCCATTTTTGACCCCGAAACTTT--CAAAATTACCATTTTGCCC
317569 TCGAGAATCC
Statistics
Matches: 86, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
57 6 0.07
58 38 0.44
59 42 0.49
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (58 bp):
AAAAATTCCATTTTTGACCCCGAAACTTTCAAAATTACCATTTTGCCCCAGAATGTCT
Found at i:317534 original size:29 final size:29
Alignment explanation
Indices: 317502--317564 Score: 65
Period size: 29 Copynumber: 2.1 Consensus size: 29
317492 AAAATTATCC
*
317502 TTTTACCCCCGAA-TGTCTAAAAATTCCAT
1 TTTTACCCCCGAACT-TCCAAAAATTCCAT
* *
317531 TTTTAACCCCGAACTTTCCCAAAATTACCAT
1 TTTTACCCCCGAAC-TTCCAAAAATT-CCAT
317562 TTT
1 TTT
317565 GCCCTCGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
29 12 0.43
30 8 0.29
31 8 0.29
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.37
Consensus pattern (29 bp):
TTTTACCCCCGAACTTCCAAAAATTCCAT
Found at i:319461 original size:21 final size:21
Alignment explanation
Indices: 319435--319487 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
319425 CCTATTCTAG
319435 GTCTCGAGACAAGAACCCCTT
1 GTCTCGAGACAAGAACCCCTT
319456 GTCTCGAGACAAGAACCCCTT
1 GTCTCGAGACAAGAACCCCTT
319477 GTCTCGAGACA
1 GTCTCGAGACA
319488 TCCAAACATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (21 bp):
GTCTCGAGACAAGAACCCCTT
Found at i:322524 original size:3 final size:3
Alignment explanation
Indices: 322516--322541 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
322506 TCTAGATAAC
322516 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
322542 CGACAACGAC
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:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:327835 original size:20 final size:20
Alignment explanation
Indices: 327810--327847 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
327800 CTTAATGAGT
327810 CTATTTTCAATAGAAACAAA
1 CTATTTTCAATAGAAACAAA
327830 CTATTTTCAATAGAAACA
1 CTATTTTCAATAGAAACA
327848 GACAGGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (20 bp):
CTATTTTCAATAGAAACAAA
Found at i:328428 original size:23 final size:23
Alignment explanation
Indices: 328398--328473 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
328388 CGCTAGCGCA
328398 CTTACTGTTCAGCACTGT-GTGTG
1 CTTACTGTTCAGCACT-TCGTGTG
**
328421 CTTACTGTTTTGCACTTCGTGTG
1 CTTACTGTTCAGCACTTCGTGTG
*
328444 CTTACTGTTTC-GCACCTCGTGTG
1 CTTACTG-TTCAGCACTTCGTGTG
*
328467 CCTACTG
1 CTTACTG
328474 ATTTGCGCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 43 0.93
24 2 0.04
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.41
Consensus pattern (23 bp):
CTTACTGTTCAGCACTTCGTGTG
Found at i:328526 original size:23 final size:22
Alignment explanation
Indices: 328409--328541 Score: 108
Period size: 23 Copynumber: 5.9 Consensus size: 22
328399 TTACTGTTCA
* *
328409 GCACTGTGTGTGCTTACTGTTTT
1 GCACTGTGTGTGCCTACTG-ATT
* *
328432 GCACT-TCGTGTGCTTACTGTTT
1 GCACTGT-GTGTGCCTACTGATT
*
328454 CGCACCT-CGTGTGCCTACTGATTT
1 -GCA-CTGTGTGTGCCTACTGA-TT
* * *
328478 GCGCTATGTGCGCCTACTGATT
1 GCACTGTGTGTGCCTACTGATT
*
328500 GCACTGTGTGTGCCTAATGGATT
1 GCACTGTGTGTGCCTACT-GATT
*
328523 GCACTGTGTGTGCTTACTG
1 GCACTGTGTGTGCCTACTG
328542 TTTCCCCAGT
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
22 23 0.25
23 65 0.71
24 4 0.04
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.38
Consensus pattern (22 bp):
GCACTGTGTGTGCCTACTGATT
Found at i:328559 original size:26 final size:26
Alignment explanation
Indices: 328529--328595 Score: 134
Period size: 26 Copynumber: 2.6 Consensus size: 26
328519 GATTGCACTG
328529 TGTGTGCTTACTGTTTCCCCAGTACT
1 TGTGTGCTTACTGTTTCCCCAGTACT
328555 TGTGTGCTTACTGTTTCCCCAGTACT
1 TGTGTGCTTACTGTTTCCCCAGTACT
328581 TGTGTGCTTACTGTT
1 TGTGTGCTTACTGTT
328596 AAGTACTTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (26 bp):
TGTGTGCTTACTGTTTCCCCAGTACT
Found at i:328600 original size:22 final size:24
Alignment explanation
Indices: 328529--328603 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 24
328519 GATTGCACTG
*
328529 TGTGTGCTTACTGTTTCCCCAGTACT
1 TGTGTGCTTACTGTTT--CAAGTACT
*
328555 TGTGTGCTTACTGTTTCCCCAGTACT
1 TGTGTGCTTACTGTTT--CAAGTACT
328581 TGTGTGCTTACTG-TT-AAGTACT
1 TGTGTGCTTACTGTTTCAAGTACT
328603 T
1 T
328604 CGGTACTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
22 7 0.15
25 2 0.04
26 39 0.81
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (24 bp):
TGTGTGCTTACTGTTTCAAGTACT
Found at i:329514 original size:15 final size:15
Alignment explanation
Indices: 329494--329525 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
329484 CTAAAATAGT
*
329494 CCTCCACCATCAAAA
1 CCTCCACCACCAAAA
329509 CCTCCACCACCAAAA
1 CCTCCACCACCAAAA
329524 CC
1 CC
329526 AACTCCCCAA
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:0.38, C:0.53, G:0.00, T:0.09
Consensus pattern (15 bp):
CCTCCACCACCAAAA
Found at i:346471 original size:96 final size:96
Alignment explanation
Indices: 346306--346844 Score: 666
Period size: 96 Copynumber: 5.6 Consensus size: 96
346296 TTGGAGTCTG
* * *** * *
346306 GGGCTAACTCTAGTATTTGGTGTCTTTCTTGAATCAGGAACAT-TCTGTATCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCT-TATCTTCTCAATGTTGG
* * *
346370 AGTTATCATCATTTGGTAGATTTTGTAACCTT
65 AGTTATCACCATTAGGTAGATTTTGAAACCTT
* * * * * *
346402 GGGCTAACTCTAGCATTTGACGTCTTTCTTGAGTCAGTTGCATCCCATATCGTCTCAATGTTTGC
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCTTATCTTCTCAATGTTGGA
* * * *
346467 GTTATCAACATTTGGTACATTTTGGAACCTT
66 GTTATCACCATTAGGTAGATTTTGAAACCTT
** ** * *
346498 GGGCTAACTCTAGTATTTGATGTCTTTAGTGAGAGAGCTGCATCCCTTATCTTCTCATTGTTGGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCTTATCTTCTCAATGTTGGA
*
346563 GTTATCACCATTAGGTAGATTTTGGAACCTT
66 GTTATCACCATTAGGTAGATTTTGAAACCTT
* * ** * *
346594 GGGCTAACTCTAGTATTAGATGTCTTTGTTGAGGGAGTTGCATCCCTTTTCTTCTCATTGTTGGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCTTATCTTCTCAATGTTGGA
*
346659 GTTAACACCATTAGGTAGATTTTGAAACCTT
66 GTTATCACCATTAGGTAGATTTTGAAACCTT
* ** * *
346690 GGGCTAACTCTAGTATTTGATGTCTTTGTTGAGGGAGTTGCATCCCTTTTCTTCTCATTGTTGGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCTTATCTTCTCAATGTTGGA
*
346755 GTTACCACCATTAGGTAGATTTTGAAACCTT
66 GTTATCACCATTAGGTAGATTTTGAAACCTT
* * * *
346786 GGGCTAACTCTAGTATTTGATGCCGTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAT
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCTTATCTTCTCAAT
346845 ATTTGGTAGA
Statistics
Matches: 394, Mismatches: 48, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
96 393 1.00
97 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCTTATCTTCTCAATGTTGGA
GTTATCACCATTAGGTAGATTTTGAAACCTT
Found at i:346635 original size:192 final size:190
Alignment explanation
Indices: 346353--347008 Score: 863
Period size: 192 Copynumber: 3.5 Consensus size: 190
346343 GAACATTCTG
* * * * * * *
346353 TATCTTCTCAATGTTTGAGTTATCATCATTTGGTAGATTTTGTAACCTTGGGCTAACTCTAGCAT
1 TATCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
*
346418 TTGACGTCTTTCTTGAGTCAGTTGCATCCCATATCGTCTCAATGTTTGCGTTATCAACATTTGGT
66 TTGATGTCTTTCTTGAGTCAGTTGCATCCCATATC-TCTC-ATGTTTGCGTTATCAACATTTGGT
* *
346483 ACATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTAG-TGAGAGAGCTGCATCCCT
129 AGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTT-GTTGAGAGAGTTGCATCCCT
* *
346545 TATCTTCTCATTGTTGGAGTTATCACCATTAGGTAGATTTTGGAACCTTGGGCTAACTCTAGTAT
1 TATCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
* * ** * * * * * * *
346610 TAGATGTCTTTGTTGAGGGAGTTGCATCCCTTTTCTTCTCATTGTTGGAGTTAACACCATTAGGT
66 TTGATGTCTTTCTTGAGTCAGTTGCATCCCATATC-TCTCA-TGTTTGCGTTATCAACATTTGGT
* *
346675 AGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGGGAGTTGCATCCCT
129 AGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
*
346737 TTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
1 TATCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
* * * *
346802 TTGATGCCGTTCTTGAGTCGGTTGCATCCCATA----TC----TT-C----TCAATATTTGGTAG
66 TTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTCTCATGTTTGCGTTATCAACATTTGGTAG
* *
346854 ATTTTGGAGCCTTGGGCTAGCTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
131 ATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
* *
346914 TTTCTTCTCATTGTTGGACTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
1 TATCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
346979 TTGATGTCTTTCTTGAGTCAGTTGCATCCC
66 TTGATGTCTTTCTTGAGTCAGTTGCATCCC
347009 CCATCTTCTC
Statistics
Matches: 413, Mismatches: 49, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
177 157 0.38
182 1 0.00
187 2 0.00
191 2 0.00
192 251 0.61
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (190 bp):
TATCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
TTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTCTCATGTTTGCGTTATCAACATTTGGTAG
ATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
Found at i:346907 original size:81 final size:81
Alignment explanation
Indices: 346768--346923 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
346758 ACCACCATTA
*
346768 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGCCGTTCTTGAGTCGGTTGCATCCCA
1 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGCCGTTCTTGAGTAGGTTGCATCCCA
346833 TATCTTCTCAATATTT
66 TATCTTCTCAATATTT
* * * * * *
346849 GGTAGATTTTGGAGCCTTGGGCTAGCTCTAGTATTTGATGTCTTTGTTGAG-AGAGTTGCATCCC
1 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGCCGTTCTTGAGTAG-GTTGCATCCC
* *
346913 TTTTCTTCTCA
65 ATATCTTCTCA
346924 TTGTTGGACT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 1 0.02
81 64 0.98
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (81 bp):
GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGCCGTTCTTGAGTAGGTTGCATCCCA
TATCTTCTCAATATTT
Found at i:347086 original size:177 final size:177
Alignment explanation
Indices: 346672--347076 Score: 677
Period size: 177 Copynumber: 2.3 Consensus size: 177
346662 AACACCATTA
* *
346672 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGGGAGTTGCATCCCT
1 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
*
346737 TTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
66 TTTCTTCTCATTGTTGGACTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
* *
346802 TTGATGCCGTTCTTGAGTCGGTTGCATCCCATATCTTCTCAATATTT
131 TTGATGCCGTTCTTGAGTCAGTTGCATCCCACATCTTCTCAATATTT
* *
346849 GGTAGATTTTGGAGCCTTGGGCTAGCTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
1 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
346914 TTTCTTCTCATTGTTGGACTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
66 TTTCTTCTCATTGTTGGACTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
* * *
346979 TTGATGTCTTTCTTGAGTCAGTTGCATCCCCCATCTTCTCAA-ATTTT
131 TTGATGCCGTTCTTGAGTCAGTTGCATCCCACATCTTCTCAATA-TTT
* * *
347026 GGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTGCTGAG
1 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAG
347077 TCCGTTGCAT
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
176 1 0.00
177 211 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (177 bp):
GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATCCCT
TTTCTTCTCATTGTTGGACTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTAT
TTGATGCCGTTCTTGAGTCAGTTGCATCCCACATCTTCTCAATATTT
Found at i:347155 original size:69 final size:69
Alignment explanation
Indices: 347044--347180 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
347034 TTGGAACCTC
* * *
347044 GGGCTAACTCTAGTATTTGATATCTTTGCTGAGTCCGTTGCATTCCGTATCTTCACAATCTTTGA
1 GGGCTAACTCTAGTATTTGACATCTTTCCAGAGTCCGTTGCATTCCGTATCTTCACAATCTTTGA
347109 GTTA
66 GTTA
* * * *
347113 GGGCTAACTCTAGTATTTGACGTCTTTCCAGAG-CCAGTTGCATTCCTTATCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGACATCTTTCCAGAGTCC-GTTGCATTCCGTATCTTCACAATCTTTG
347177 AGTT
65 AGTT
347181 CCCAACTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 2 0.03
69 58 0.97
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (69 bp):
GGGCTAACTCTAGTATTTGACATCTTTCCAGAGTCCGTTGCATTCCGTATCTTCACAATCTTTGA
GTTA
Found at i:347250 original size:96 final size:96
Alignment explanation
Indices: 347113--347315 Score: 262
Period size: 96 Copynumber: 2.1 Consensus size: 96
347103 CTTTGAGTTA
* * *
347113 GGGCTAACTCTAGTATTTGACGTCTTTCCAGAGCCAGTTGCATTCCTTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAACGTCTTTCCAGAGCCAGTTGCATTCCATATCTTCTCAATGTTCGA
* * *
347178 GTTCCCAACTTTTAGTAAATTTTGAAACCTT
66 GCTACCAACGTTTAGTAAATTTTGAAACCTT
* * ** **
347209 GGGCTAACTCTAGTATTTAATGTGTTTCTTGATTCAGTTGCATTCCATATCTTCTCAATGTTCGA
1 GGGCTAACTCTAGTATTTAACGTCTTTCCAGAGCCAGTTGCATTCCATATCTTCTCAATGTTCGA
* * *
347274 GCTACCACCGTTTGGTAGATTTTGAAACCTT
66 GCTACCAACGTTTAGTAAATTTTGAAACCTT
*
347305 GGACTAACTCT
1 GGGCTAACTCT
347316 TCGCTGTATT
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTAACGTCTTTCCAGAGCCAGTTGCATTCCATATCTTCTCAATGTTCGA
GCTACCAACGTTTAGTAAATTTTGAAACCTT
Done.