Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 35 of 211
Found at i:9341538 original size:14 final size:14
Alignment explanation
Indices: 9341521--9341547 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9341511 TTAATTTTTT
9341521 TAATTTAACTCGAA
1 TAATTTAACTCGAA
9341535 TAATTTAACTCGA
1 TAATTTAACTCGA
9341548 CTCAAATTTT
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:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (14 bp):
TAATTTAACTCGAA
Found at i:9346574 original size:178 final size:177
Alignment explanation
Indices: 9346338--9346867 Score: 925
Period size: 178 Copynumber: 3.0 Consensus size: 177
9346328 CTAACCTCCA
* *
9346338 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCGGAGTTATTTCATAT
1 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAG-AGAGTTATTTCATAC
9346403 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
65 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
*
9346468 ACTCAAAGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAACAT
130 ACTCAAGGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAACAT
* * *
9346516 ATATACCACTTACTAACGACAGATAATGTGTTTAAGTATAACAGTGCAGAGAAGTTATTTCATAC
1 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGAG-AGTTATTTCATAC
* * *
9346581 ACAAAACATAAACATATGAGCTTATGAAATATCAAATGAAAGGTTTGCATGTCAACAGTAAAAAC
65 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
* * *
9346646 ACTCAAGGGTTCGTAAACAATAAATAACATAAGTTTGCATAGTAGCAT
130 ACTCAAGGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAACAT
9346694 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGCAGAGTTATTTCATAC
1 ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAG-AGAGTTATTTCATAC
9346759 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
65 ACAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAAC
9346824 ACTCAAGGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCA
130 ACTCAAGGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCA
9346868 GCATCATGAG
Statistics
Matches: 330, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
177 1 0.00
178 327 0.99
179 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.26
Consensus pattern (177 bp):
ACACACCACTTACTAACGACAGATAATGTGTTTAAGTATAACATTGCAGAGAGTTATTTCATACA
CAAAATATAAACATATGAGCTTATAAAATATCAAAGGAAAGGTTTGCATGTCAACAGTAAAAACA
CTCAAGGGTTCGCAAACAATAAATAACATAAGTTTGCATAGCAACAT
Found at i:9349869 original size:21 final size:21
Alignment explanation
Indices: 9349823--9349890 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
9349813 TGAATACACC
9349823 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
9349842 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
9349863 GATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
9349884 AACAGAA
1 AACAGAA
9349891 AGTAAAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.28
20 2 0.05
21 29 0.67
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:9351711 original size:39 final size:40
Alignment explanation
Indices: 9351648--9351726 Score: 151
Period size: 39 Copynumber: 2.0 Consensus size: 40
9351638 TGATACTTAG
9351648 CTGAATATAAAAAAAAAGAAGAAGAAAAGGAAGTTTTCAT
1 CTGAATATAAAAAAAAAGAAGAAGAAAAGGAAGTTTTCAT
9351688 CTGAATATAAAAAAAAA-AAGAAGAAAAGGAAGTTTTCAT
1 CTGAATATAAAAAAAAAGAAGAAGAAAAGGAAGTTTTCAT
9351727 GCGTTTTAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 22 0.56
40 17 0.44
ACGTcount: A:0.58, C:0.05, G:0.16, T:0.20
Consensus pattern (40 bp):
CTGAATATAAAAAAAAAGAAGAAGAAAAGGAAGTTTTCAT
Found at i:9352616 original size:42 final size:44
Alignment explanation
Indices: 9352514--9352622 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
9352504 AATGTGATAT
* * * *
9352514 CGTGTAAGACTAAGTCTGGGACGTTGGCATCGATTTAAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATAAGATTTA
* *
9352558 CGTGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATAAGATTTA
* *
9352600 CGTGTAAGACCCTGTCTAGGACA
1 CGTGTAAGACCATGTCTGGGACA
9352623 GTGACATCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 24 0.42
43 5 0.09
44 28 0.49
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATAAGATTTA
Found at i:9354229 original size:17 final size:17
Alignment explanation
Indices: 9354207--9354249 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9354197 GGGTCGCTTA
*
9354207 AATTAAATTAATTATAG-
1 AATTAAATTAATT-CAGT
*
9354224 AATTAATTTAATTCAGT
1 AATTAAATTAATTCAGT
9354241 AATTAAATT
1 AATTAAATT
9354250 TCCAACACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (17 bp):
AATTAAATTAATTCAGT
Found at i:9357712 original size:17 final size:17
Alignment explanation
Indices: 9357677--9357713 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9357667 TTGTCGCTTG
*
9357677 AATTAATTTAATTATAT
1 AATTAATTTAATTAGAT
*
9357694 AATTAATTTAATTGGAT
1 AATTAATTTAATTAGAT
9357711 AAT
1 AAT
9357714 CAAATATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
AATTAATTTAATTAGAT
Found at i:9360585 original size:39 final size:39
Alignment explanation
Indices: 9360417--9360582 Score: 242
Period size: 39 Copynumber: 4.3 Consensus size: 39
9360407 GTATTGCGAT
*
9360417 ATATATGCTTGAATTTTATGTGATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* * *
9360456 ACATATGCTTGAATGTTATGTGATTACATAAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* *
9360495 ATATATGCTTGAACGTTATGTAATTATATGAGTATTGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
* * * *
9360534 ATATATGCTTAAATGTTATGTGGTTATATGTGTAATGTG
1 ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
9360573 ATATATGCTT
1 ATATATGCTT
9360583 AAAAGTGAAC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (39 bp):
ATATATGCTTGAATGTTATGTGATTATATGAGTATTGTG
Found at i:9361991 original size:22 final size:22
Alignment explanation
Indices: 9361965--9362009 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9361955 AGATCAACAC
9361965 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
**
9361987 AAATATCAATTTCATCATATCA
1 AAATATCAATCACATCATATCA
9362009 A
1 A
9362010 TCATCATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:9362202 original size:22 final size:22
Alignment explanation
Indices: 9362177--9362225 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
9362167 GGACAAGCCA
*
9362177 CCACTGATTTGTAGATAAACTG
1 CCACTGATTTGCAGATAAACTG
9362199 CCACTGATTTGCAGATAAACTG
1 CCACTGATTTGCAGATAAACTG
9362221 CCACT
1 CCACT
9362226 AATAACACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (22 bp):
CCACTGATTTGCAGATAAACTG
Found at i:9366962 original size:6 final size:6
Alignment explanation
Indices: 9366951--9366976 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9366941 TTCATTGTGA
9366951 TAGTGC TAGTGC TAGTGC TAGTGC TA
1 TAGTGC TAGTGC TAGTGC TAGTGC TA
9366977 AGCTGCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (6 bp):
TAGTGC
Found at i:9370660 original size:3 final size:3
Alignment explanation
Indices: 9370652--9370680 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9370642 ATCAAAGCAA
9370652 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9370681 AGAAACTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9374385 original size:28 final size:28
Alignment explanation
Indices: 9374352--9374480 Score: 134
Period size: 28 Copynumber: 4.6 Consensus size: 28
9374342 GAATATAGTT
9374352 TGTGGCGAACTCTGAAAAAAATAGCCTG
1 TGTGGCGAACTCTGAAAAAAATAGCCTG
* * * *
9374380 TATGGCAAAC-CATGAAAAAAATAACCTA
1 TGTGGCGAACTC-TGAAAAAAATAGCCTG
* * * *
9374408 TGTGTCGAACTATGAAAAGAATAGCTTG
1 TGTGGCGAACTCTGAAAAAAATAGCCTG
** * *
9374436 TGTGGTAAACTCTGAAAAGAATAGCCCG
1 TGTGGCGAACTCTGAAAAAAATAGCCTG
9374464 TGTGGCGAACTCTGAAA
1 TGTGGCGAACTCTGAAA
9374481 GGGATGCCTT
Statistics
Matches: 79, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
27 1 0.01
28 78 0.99
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (28 bp):
TGTGGCGAACTCTGAAAAAAATAGCCTG
Found at i:9374417 original size:56 final size:56
Alignment explanation
Indices: 9374352--9374480 Score: 152
Period size: 56 Copynumber: 2.3 Consensus size: 56
9374342 GAATATAGTT
*
9374352 TGTGGCGAACTCTGAAAAAAATAGCCTGTATGGCAAAC-CATGAAAAAAATAACCTA
1 TGTGGCGAACTCTGAAAAAAATAGCCTGTATGGCAAACTC-TGAAAAAAATAACCCA
* * * * * * * * *
9374408 TGTGTCGAACTATGAAAAGAATAGCTTGTGTGGTAAACTCTGAAAAGAATAGCCCG
1 TGTGGCGAACTCTGAAAAAAATAGCCTGTATGGCAAACTCTGAAAAAAATAACCCA
9374464 TGTGGCGAACTCTGAAA
1 TGTGGCGAACTCTGAAA
9374481 GGGATGCCTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 59 0.98
57 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (56 bp):
TGTGGCGAACTCTGAAAAAAATAGCCTGTATGGCAAACTCTGAAAAAAATAACCCA
Found at i:9376262 original size:34 final size:34
Alignment explanation
Indices: 9376219--9376342 Score: 158
Period size: 34 Copynumber: 3.6 Consensus size: 34
9376209 ACATATACGA
* * *
9376219 ATATCATATCAGAATGTCACATTACCAAAAACAT
1 ATATCAGATCAGAATGTCATATTTCCAAAAACAT
* *
9376253 ATATCATATCAAAATGTCATATTTCCAAAAACAT
1 ATATCAGATCAGAATGTCATATTTCCAAAAACAT
* * *
9376287 ATATCAGATTAGAATGTCATATTTTCATAAACAT
1 ATATCAGATCAGAATGTCATATTTCCAAAAACAT
* *
9376321 ATATTAGATCAGAATGTTATAT
1 ATATCAGATCAGAATGTCATAT
9376343 CAAATCAGAA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 79 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (34 bp):
ATATCAGATCAGAATGTCATATTTCCAAAAACAT
Found at i:9394420 original size:23 final size:24
Alignment explanation
Indices: 9394392--9394439 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9394382 CATCATCATC
9394392 AAAAAA-T-TAAATAAATTTATAAA
1 AAAAAATTGTAAA-AAATTTATAAA
*
9394415 AAAAAATTGTAAACAATTTATAAA
1 AAAAAATTGTAAAAAATTTATAAA
9394439 A
1 A
9394440 TATAAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 12 0.55
25 4 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAAAATTGTAAAAAATTTATAAA
Found at i:9404711 original size:17 final size:17
Alignment explanation
Indices: 9404689--9404744 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
9404679 TACACCCCAA
9404689 ATTTTATTTTATAAAAT
1 ATTTTATTTTATAAAAT
*
9404706 ATTTTATTTTATGAAAT
1 ATTTTATTTTATAAAAT
* *
9404723 ATTATCA-TTTAAAAAAT
1 ATT-TTATTTTATAAAAT
9404740 ATTTT
1 ATTTT
9404745 TGAATTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 1 0.03
17 30 0.91
18 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTTATTTTATAAAAT
Found at i:9405693 original size:22 final size:21
Alignment explanation
Indices: 9405660--9405704 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9405650 GATAGTTTTG
*
9405660 TTATTTTGTTATTTTTATTTAT
1 TTATTTTGTTA-TTTTAGTTAT
9405682 TTATTTAT-TTATTTTAGTTAT
1 TTATTT-TGTTATTTTAGTTAT
9405703 TT
1 TT
9405705 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 11 0.52
22 9 0.43
23 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (21 bp):
TTATTTTGTTATTTTAGTTAT
Found at i:9406476 original size:3 final size:3
Alignment explanation
Indices: 9406468--9406506 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
9406458 TTTTAACTGT
9406468 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9406507 AACACAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9406698 original size:10 final size:9
Alignment explanation
Indices: 9406683--9406707 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9406673 TATACATATG
9406683 TTTTTTTCA
1 TTTTTTTCA
9406692 TTTTTTTCA
1 TTTTTTTCA
9406701 TTTTTTT
1 TTTTTTT
9406708 AAACTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:9414470 original size:27 final size:26
Alignment explanation
Indices: 9414417--9414489 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
9414407 ACAAAGTGTA
* * *
9414417 AAAACATTTTAAGTAATTAATTAATAT
1 AAAATATTTTAA-AAATTAATAAATAT
*
9414444 AAATTA-TTTATAAAATTAATAATATAT
1 AAAATATTTTA-AAAATTAATAA-ATAT
9414471 AAAATATTTTAAAAATTAA
1 AAAATATTTTAAAAATTAA
9414490 ATATAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 12 0.32
27 22 0.58
28 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (26 bp):
AAAATATTTTAAAAATTAATAAATAT
Found at i:9414498 original size:26 final size:25
Alignment explanation
Indices: 9414417--9414498 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 25
9414407 ACAAAGTGTA
* *
9414417 AAAACATTTTAAGTAATTAAT-TAAT
1 AAAATATTTTAA-AAATTAATATAAT
9414442 ATAAAT-TATTTATAAAATTAATAATATAT
1 A-AAATAT-TTTA-AAAATTAAT-ATA-AT
9414471 AAAATATTTTAAAAATTAAATATAAT
1 AAAATATTTTAAAAATT-AATATAAT
9414497 AA
1 AA
9414499 TAAATGAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
25 2 0.04
26 18 0.38
27 10 0.21
28 13 0.28
29 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (25 bp):
AAAATATTTTAAAAATTAATATAAT
Found at i:9414533 original size:31 final size:32
Alignment explanation
Indices: 9414478--9414550 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
9414468 TATAAAATAT
9414478 TTTAAA-AA-TTAAATATAATAATAAA-TGAGA
1 TTTAAATAATTTAAATATAATAATAAACT-AGA
* *
9414508 TTTAAATAATTTAAA-ATAATGATAAACTATA
1 TTTAAATAATTTAAATATAATAATAAACTAGA
9414539 TTTAAATAATTT
1 TTTAAATAATTT
9414551 CATTTAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 6 0.16
31 26 0.68
32 6 0.16
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (32 bp):
TTTAAATAATTTAAATATAATAATAAACTAGA
Found at i:9415145 original size:16 final size:17
Alignment explanation
Indices: 9415124--9415157 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
9415114 TGTTTAGGAC
9415124 TGCTATTTTT-AGTGTT
1 TGCTATTTTTAAGTGTT
9415140 TGCTATTTTTAAGTGTT
1 TGCTATTTTTAAGTGTT
9415157 T
1 T
9415158 TGTTATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.15, C:0.06, G:0.18, T:0.62
Consensus pattern (17 bp):
TGCTATTTTTAAGTGTT
Found at i:9419536 original size:17 final size:16
Alignment explanation
Indices: 9419490--9419537 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
9419480 TTTAGGACTC
*
9419490 CTATTTTTAGTGTGTA
1 CTATTTTTAGTGTTTA
* *
9419506 CTATTTTTAATGTTTG
1 CTATTTTTAGTGTTTA
9419522 CTATTTTTAGGTGTTT
1 CTATTTTTA-GTGTTT
9419538 TGTTATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (16 bp):
CTATTTTTAGTGTTTA
Found at i:9423473 original size:23 final size:24
Alignment explanation
Indices: 9423426--9423469 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
9423416 AATTTCAAAA
9423426 ATAAAACATAATATAATATTTATT
1 ATAAAACATAATATAATATTTATT
*
9423450 ATAAAA-ATAA-ATATTATTTA
1 ATAAAACATAATATAATATTTA
9423470 ATTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAAAACATAATATAATATTTATT
Found at i:9423510 original size:22 final size:20
Alignment explanation
Indices: 9423473--9423525 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 20
9423463 TTATTTAATT
9423473 AAAATAATTTTTTTAAAG-G
1 AAAATAATTTTTTTAAAGTG
*
9423492 AAAATAATATTTATCTTAATGTG
1 AAAATAAT-TTT-T-TTAAAGTG
9423515 AAAATTAATTT
1 AAAA-TAATTT
9423526 AATATTTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.29
20 3 0.11
21 1 0.04
22 5 0.18
23 7 0.25
24 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (20 bp):
AAAATAATTTTTTTAAAGTG
Found at i:9428048 original size:9 final size:9
Alignment explanation
Indices: 9428034--9428099 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
9428024 AACTTTGGAT
9428034 CATAACTTA
1 CATAACTTA
9428043 CATAACTTA
1 CATAACTTA
9428052 CATAA--TA
1 CATAACTTA
*
9428059 CATAA-ATA
1 CATAACTTA
* * *
9428067 TATATCATA
1 CATAACTTA
9428076 TCATAACTTA
1 -CATAACTTA
9428086 CATAACTTA
1 CATAACTTA
9428095 CATAA
1 CATAA
9428100 AACTTTGGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
7 7 0.14
8 5 0.10
9 31 0.63
10 6 0.12
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:9428227 original size:7 final size:7
Alignment explanation
Indices: 9428215--9428239 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9428205 ACACCTATTA
9428215 GATACTT
1 GATACTT
9428222 GATACTT
1 GATACTT
9428229 GATACTT
1 GATACTT
9428236 GATA
1 GATA
9428240 TGTATTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (7 bp):
GATACTT
Found at i:9432362 original size:33 final size:31
Alignment explanation
Indices: 9432319--9432399 Score: 91
Period size: 26 Copynumber: 2.7 Consensus size: 31
9432309 AAAATACGGT
*
9432319 GGAATTAGCACTTAGCAACCACCAATGATTTGG
1 GGAATCAGCACTTAGCAACC-CCAAT-ATTTGG
*
9432352 GGAATCAGCACTTAGCAATCCC-----TTGG
1 GGAATCAGCACTTAGCAACCCCAATATTTGG
9432378 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
9432400 CTTCACATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 25 0.56
32 2 0.04
33 18 0.40
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (31 bp):
GGAATCAGCACTTAGCAACCCCAATATTTGG
Found at i:9432430 original size:101 final size:102
Alignment explanation
Indices: 9432178--9432504 Score: 557
Period size: 101 Copynumber: 3.2 Consensus size: 102
9432168 ATCGGTGGAT
* * *
9432178 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACCAAT
1 TCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACCACCAAT
* *
9432243 GATTCGGGGAATCAACACTTAGCAACCCCTTGGGGGAA
65 GATTAGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
* *
9432281 TTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATTAGCACTTAGCAACCACCAATG
1 TCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATG
* *
9432346 ATTTGGGGAATCAGCACTTAGCAATCCCTT-GGGGAA
66 ATTAGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
9432382 TCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATG
1 TCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATG
9432447 ATTAGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
66 ATTAGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
9432484 TCAGCACTTAGCAACCCCCTT
1 TCAGCACTTAGCAACCCCCTT
9432505 TATATTCAAT
Statistics
Matches: 211, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
101 97 0.46
102 86 0.41
103 28 0.13
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (102 bp):
TCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATG
ATTAGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
Found at i:9432462 original size:33 final size:27
Alignment explanation
Indices: 9432420--9432501 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 27
9432410 AAAATACGGT
9432420 GGAATCAGCACTTAGCAACCACCAATGATTAGG
1 GGAATCAGCACTTAGCAACC-CC-----TTAGG
*
9432453 GGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCCCTTAGG
9432480 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
9432502 CTTTATATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 26 0.54
32 2 0.04
33 20 0.42
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTAGG
Found at i:9447410 original size:20 final size:19
Alignment explanation
Indices: 9447377--9447414 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
9447367 TTTTAATTTA
9447377 ATAATAATTAAAATATTTTT
1 ATAATAATTAAAAT-TTTTT
9447397 ATAATTAATT-AAATTTTT
1 ATAA-TAATTAAAATTTTT
9447415 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATAATTAAAATTTTTT
Found at i:9463423 original size:21 final size:20
Alignment explanation
Indices: 9463382--9463420 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9463372 ATTTTAAAAT
9463382 ATTTTAAAATACTTTTTTTA
1 ATTTTAAAATACTTTTTTTA
*
9463402 ATTTTAAAATGCTTTTTTT
1 ATTTTAAAATACTTTTTTT
9463421 TAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTAAAATACTTTTTTTA
Found at i:9463452 original size:11 final size:11
Alignment explanation
Indices: 9463436--9463475 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
9463426 AAAAATTTAA
9463436 TTTTAAAATAT
1 TTTTAAAATAT
9463447 TTTTAAAATACT
1 TTTTAAAATA-T
* *
9463459 TTTTTAAATTT
1 TTTTAAAATAT
9463470 TTTTAA
1 TTTTAA
9463476 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:9466060 original size:9 final size:9
Alignment explanation
Indices: 9466042--9466072 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9466032 TTTATTTAAA
9466042 AATTAACCG
1 AATTAACCG
*
9466051 AATTACCCG
1 AATTAACCG
9466060 AATTAACCG
1 AATTAACCG
9466069 AATT
1 AATT
9466073 GAATCACTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:9466215 original size:18 final size:18
Alignment explanation
Indices: 9466175--9466218 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
9466165 AATTTTTATG
**
9466175 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
9466193 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
9466211 CTTGGGTT
1 ATTGGGTT
9466219 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:9471386 original size:24 final size:24
Alignment explanation
Indices: 9471356--9471405 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
9471346 TATAATTGTT
*
9471356 ATTATTATTATTATTATATATATACAC
1 ATTATT-TT-TTATAATA-ATATACAC
9471383 ATTATTTTTTATAATAATATACA
1 ATTATTTTTTATAATAATATACA
9471406 TACATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 2 0.09
27 6 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTATTTTTTATAATAATATACAC
Found at i:9474956 original size:13 final size:13
Alignment explanation
Indices: 9474938--9474962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9474928 TCACCAAATA
9474938 TTTTTTTTATTTG
1 TTTTTTTTATTTG
9474951 TTTTTTTTATTT
1 TTTTTTTTATTT
9474963 AAATATAATT
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:0.08, C:0.00, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTATTTG
Found at i:9489747 original size:9 final size:9
Alignment explanation
Indices: 9489733--9489764 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
9489723 AACTTGGTGC
9489733 ATTTTGTTT
1 ATTTTGTTT
9489742 ATTTTGTTT
1 ATTTTGTTT
9489751 ATTTTGTTT
1 ATTTTGTTT
9489760 ATTTT
1 ATTTT
9489765 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:9489872 original size:23 final size:23
Alignment explanation
Indices: 9489842--9489890 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
9489832 ATTGAAACAA
9489842 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
9489865 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
9489888 CAT
1 CAT
9489891 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:9491726 original size:7 final size:7
Alignment explanation
Indices: 9491716--9491742 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9491706 ATTTTATATT
9491716 TTAAAAC
1 TTAAAAC
9491723 TTAAAAC
1 TTAAAAC
9491730 TTAAAAC
1 TTAAAAC
9491737 TTAAAA
1 TTAAAA
9491743 TTATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAAAC
Found at i:9494364 original size:20 final size:20
Alignment explanation
Indices: 9494335--9494380 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9494325 TCCTTGGCAA
9494335 TTTA-CAAACATTAAA-ATTT
1 TTTATCAAACATTAAACA-TT
9494354 TTTATCAAACATTAAACATT
1 TTTATCAAACATTAAACATT
9494374 TTTATCA
1 TTTATCA
9494381 CTTCAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.16
20 20 0.80
21 1 0.04
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTATCAAACATTAAACATT
Found at i:9496080 original size:51 final size:50
Alignment explanation
Indices: 9495957--9496243 Score: 149
Period size: 51 Copynumber: 5.7 Consensus size: 50
9495947 TATCGATGAA
** * * * * *
9495957 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAG-TAATGG
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGCACCAAGAAGCT-TTGG
* * * *
9496007 TCACATGTGTGGCACTAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAG
1 -CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGCACCAAGAAGCTTTG-G
** * * * * * **
9496059 CACGTGTGTAGTACTGTGTGAATGCTACCACGTGTC-TC-GGTAAACTACGG
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTG-CACCAAG-AAGCTTTGG
* ** * * *
9496109 TTATATGTGTAGTACTAAGTGAAGGCTACTATGTGAACTAAGAAGC-TTGAG
1 -CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGCACCAAGAAGCTTTG-G
* * *
9496160 CACGTGTGTAGTACTGAGTGAAGGCTACTACGTG-AGTCGTAA-AA-C-TTGTT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGCA--C-CAAGAAGCTTTG-G
*
9496210 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTG
9496244 AATTGTAAAA
Statistics
Matches: 177, Mismatches: 48, Indels: 23
0.71 0.19 0.09
Matches are distributed among these distances:
49 1 0.01
50 68 0.38
51 101 0.57
52 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGCACCAAGAAGCTTTGG
Found at i:9496133 original size:102 final size:101
Alignment explanation
Indices: 9495957--9496298 Score: 367
Period size: 102 Copynumber: 3.4 Consensus size: 101
9495947 TATCGATGAA
* * *
9495957 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAGTAATGGTCACATGTGTGGCAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAACTAACGGTCACATGTGTAGCAC
*
9496022 TAAGTGAAGGCTACTATGTGCACCAAGAAGCTTTGAG
66 TAAGTGAAGGCTACTATGTGAACCAAGAAGC-TTGAG
* * * * * * *
9496059 CACGTGTGTAGTACTGTGTGAATGCTACCACGTGTCTCGGTAAACT-ACGGTTATATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGAT-AACTAACGGTCACATGTGTAGCA
*
9496123 CTAAGTGAAGGCTACTATGTGAACTAAGAAGCTTGAG
65 CTAAGTGAAGGCTACTATGTGAACCAAGAAGCTTGAG
* * *
9496160 CACGTGTGTAGTACTGAGTGAAGGCTACTACGTG-AGTCG-TAA--AACTTGTTCACGTGTGTAG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGATAACTAAC--GGTCACATGTGTAG
* * * ** *
9496221 TACTATGTGAAGGCTACTACGTGAATTGTAA-AA-C-TGAT
63 CACTAAGTGAAGGCTACTATGTGAA--CCAAGAAGCTTGAG
*
9496259 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
9496299 ATGATAAAAA
Statistics
Matches: 205, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
98 2 0.01
99 40 0.20
100 36 0.18
101 41 0.20
102 83 0.40
103 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAACTAACGGTCACATGTGTAGCAC
TAAGTGAAGGCTACTATGTGAACCAAGAAGCTTGAG
Found at i:9496281 original size:49 final size:49
Alignment explanation
Indices: 9496114--9496292 Score: 238
Period size: 50 Copynumber: 3.6 Consensus size: 49
9496104 TACGGTTATA
* * * *
9496114 TGTGTAGTACTAAGTGAAGGCTACTATGTGAA-CTAAGAAGCTTGAGCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATGTAA-AA-CTTGATCACG
* *
9496164 TGTGTAGTACTGA-GTGAAGGCTACTACGTGAGTCGTAAAACTTGTTCACG
1 TGTGTAGTACT-ATGTGAAGGCTACTACGTGAAT-GTAAAACTTGATCACG
9496214 TGTGTAGTACTATGTGAAGGCTACTACGTGAATTGTAAAAC-TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAA-TGTAAAACTTGATCACG
9496263 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
9496293 TATCGAATGA
Statistics
Matches: 117, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
49 38 0.32
50 72 0.62
51 4 0.03
52 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATGTAAAACTTGATCACG
Found at i:9501520 original size:23 final size:25
Alignment explanation
Indices: 9501480--9501528 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
9501470 TATTGAACCT
* *
9501480 AAATTTTTAAATTAAAAAAT-TAAA
1 AAATTTTAAAAATAAAAAATATAAA
9501504 AAATTTTAAAAAT-AAAAATATAAA
1 AAATTTTAAAAATAAAAAATATAAA
9501528 A
1 A
9501529 TTAAATTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATTTTAAAAATAAAAAATATAAA
Found at i:9501749 original size:22 final size:22
Alignment explanation
Indices: 9501723--9501766 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9501713 ATATGTAAGA
9501723 ACATCATTTTGGTGCAACATTT
1 ACATCATTTTGGTGCAACATTT
9501745 ACATCATTTTGGTGCAACATTT
1 ACATCATTTTGGTGCAACATTT
9501767 CAGGTGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
ACATCATTTTGGTGCAACATTT
Found at i:9505301 original size:60 final size:60
Alignment explanation
Indices: 9505208--9505330 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
9505198 GTTTTGCTTG
9505208 TAACCTTTTTGCAGATATAATTAGCACATAAGAGAGCACCATGGAAAAGTCATTTGAGCT
1 TAACCTTTTTGCAGATATAATTAGCACATAAGAGAGCACCATGGAAAAGTCATTTGAGCT
9505268 TAACCTTTTTGCAGATATAATTAGCACATAAGAGAGCACCATGGAAAAGTCATTTGAGCT
1 TAACCTTTTTGCAGATATAATTAGCACATAAGAGAGCACCATGGAAAAGTCATTTGAGCT
9505328 TAA
1 TAA
9505331 TTAGAGGAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (60 bp):
TAACCTTTTTGCAGATATAATTAGCACATAAGAGAGCACCATGGAAAAGTCATTTGAGCT
Found at i:9520439 original size:19 final size:19
Alignment explanation
Indices: 9520415--9520469 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 19
9520405 GAAAATAAAT
9520415 ATAATTGTAATAATTTTTA
1 ATAATTGTAATAATTTTTA
* *
9520434 ATAATT-T-ATTATTTTTT
1 ATAATTGTAATAATTTTTA
*
9520451 GTAATTGTTAAATAATTTT
1 ATAATTG-T-AATAATTTT
9520470 AAAAACTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 7 0.25
21 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATAATTGTAATAATTTTTA
Found at i:9520629 original size:21 final size:21
Alignment explanation
Indices: 9520582--9520630 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
9520572 ACCGCTGTTT
*
9520582 CTAATCTCACTGCTACAGTAC
1 CTAATCTCACTGCTACAGTAA
*
9520603 CCAATCTCA-TCGCTACAGTAA
1 CTAATCTCACT-GCTACAGTAA
9520624 CTAATCT
1 CTAATCT
9520631 TACCGCCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (21 bp):
CTAATCTCACTGCTACAGTAA
Found at i:9520987 original size:18 final size:17
Alignment explanation
Indices: 9520964--9521000 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
9520954 AATTATTATT
9520964 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
9520980 AAATATATGATTTAATA
1 AAATATATGATTTAATA
9520997 AAAT
1 AAAT
9521001 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:9521049 original size:47 final size:46
Alignment explanation
Indices: 9520983--9521223 Score: 164
Period size: 47 Copynumber: 5.3 Consensus size: 46
9520973 TTAATTAAAA
*
9520983 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
9521030 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
9521075 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
9521121 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * * *
9521166 TA-AT-AATGATATATAATTTCATATAATTCTTAATAATAAATGTTCT
1 TATATGAAT-TTATATAATTTAAAATAATT-ATAATAATAAATTTTCT
9521212 TATATGAATTTA
1 TATATGAATTTA
9521224 CTAAAATCAT
Statistics
Matches: 151, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.04
44 48 0.32
45 15 0.10
46 13 0.09
47 59 0.39
48 10 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:9521092 original size:44 final size:43
Alignment explanation
Indices: 9521042--9521193 Score: 139
Period size: 44 Copynumber: 3.4 Consensus size: 43
9521032 TATGAATTTG
9521042 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
9521086 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
9521133 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* *
9521177 TATAATTTCATATAATT
1 TATAATTTAAAATAATT
9521194 CTTAATAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
43 3 0.03
44 38 0.44
45 10 0.12
46 10 0.12
47 22 0.26
48 3 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:9521113 original size:91 final size:91
Alignment explanation
Indices: 9521017--9521223 Score: 360
Period size: 91 Copynumber: 2.3 Consensus size: 91
9521007 TAATTATAAC
* *
9521017 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
9521082 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
9521108 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
9521173 GATATATAATTTCATATAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
9521199 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
9521224 CTAAAATCAT
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 110 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:9523062 original size:17 final size:17
Alignment explanation
Indices: 9523031--9523064 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9523021 CATGGTAAAT
* *
9523031 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
9523048 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
9523065 TAAGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:9524897 original size:87 final size:87
Alignment explanation
Indices: 9524788--9525075 Score: 348
Period size: 87 Copynumber: 3.3 Consensus size: 87
9524778 GACCTACTCT
9524788 GCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAG
9524853 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
* * * *** * * **
9524875 GCTGTAATCTCGGGGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACTTCAGGG-GATA
1 GCTGTAACCTCAGAGAGATAAGATCCT-TTATTTTAACCCACTCCACTGTAACTTCAGGGAGATA
* * * *
9524938 AGAT-CTGCAATTCTTCGGTCTACTCC
65 GGATAGTG----TCTTCGATCTGCTCC
*
9524964 ACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAG
1 GCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAG
9525029 GATAGTGTCTTCGATCTGCTCC
66 GATAGTGTCTTCGATCTGCTCC
* * *
9525051 GCTGTAATCTCGGGGAGATAAGATC
1 GCTGTAACCTCAGAGAGATAAGATC
9525076 TCTAATTCTT
Statistics
Matches: 160, Mismatches: 33, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
85 2 0.01
86 9 0.06
87 80 0.50
89 58 0.36
90 9 0.06
91 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
GCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAG
GATAGTGTCTTCGATCTGCTCC
Found at i:9524986 original size:89 final size:87
Alignment explanation
Indices: 9524828--9525246 Score: 254
Period size: 89 Copynumber: 4.8 Consensus size: 87
9524818 TTTTAACCCA
* * * * * * *
9524828 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCGGGGAGA
1 CTCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGAGAGA
9524893 TAAGATCTCTGGCTTCAATCTG
66 TAAGATCTCTGGCTTCAATCTG
*
9524915 CTCCACTGTAACTTCAGGG-GATAAGATCTGCAAT-TCTTCGGTCTACTCCACTGTAACCTCAGA
1 CTCCACTGTAACTTCAGGGAGATAAGA--T--AATGTCTTCGATCTACTCCACTGTAACCTCAGA
*** * * **
9524978 GAGATAAGATC-CTTTATTTTAACCCA
62 GAGATAAGATCTC-TGGCTTCAATCTG
* * * * * * *
9525004 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCGGGGAGA
1 CTCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGAGAGA
** **
9525069 TAAGATCTCTAATTCTTCGGTCTG
66 TAAGATCTCT--GGCTTCAATCTG
* * * * *
9525093 TTCCACTGTAA-TCTCAGGGAGATAAGACCTGATG---T-GATCTTCTCTACTGTAACTTCAGAG
1 CTCCACTGTAACT-TCAGGGAGATAAGA--TAATGTCTTCGATCTACTCCACTGTAACCTCAGAG
*
9525153 AGATAAGATC-CT---TT-AATCCG
63 AGATAAGATCTCTGGCTTCAATCTG
* * * * * * * * * *
9525173 CTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGA
1 CTCCACTGTAACT-TCAGGGAGATAAGA-TAATGTCTTCGATCTACTCCACTGTAACCTCAGAGA
9525237 GATAAGATCT
64 GATAAGATCT
9525247 GATGTGATCT
Statistics
Matches: 255, Mismatches: 59, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
79 2 0.01
80 26 0.10
81 2 0.01
82 1 0.00
83 29 0.11
86 10 0.04
87 82 0.32
88 6 0.02
89 86 0.34
90 8 0.03
91 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (87 bp):
CTCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGAGAGA
TAAGATCTCTGGCTTCAATCTG
Found at i:9524994 original size:176 final size:173
Alignment explanation
Indices: 9524734--9525246 Score: 614
Period size: 176 Copynumber: 3.0 Consensus size: 173
9524724 GTTTGTGGTT
** * * * * * **
9524734 TTCAATCTATTCCACTG-CATCTTCAGGGAAATAAGACTTGATGCGACCTACTCTGCTGTAACCT
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGACCTGATGTGATCTACTCCACTGTAACCT
9524798 CAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCT
65 CAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCT
9524863 TCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCT-GGC
130 TCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTAGGC
* * *
9524906 TTCAATCTGCTCCACTGTAA-CTTCAGGG-GATAAGATCTGCAATTCTTCGGTCTACTCCACTGT
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGACCTG--A-T-GT-GATCTACTCCACTGT
9524969 AACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAG
60 AACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAG
**
9525034 TGTCTTCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTAATTC
125 TGTCTTCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCT-AGGC
** * * * *
9525084 TTCGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTACTCCACTGTAACCTC
* * * * * *
9525149 AGAGAGATAAGATCC-----TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATC
66 AGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACT-TCAGGGAGATAGGA-TAGTGTC
* *
9525208 TTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
129 TTCGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCT
9525247 GATGTGATCT
Statistics
Matches: 298, Mismatches: 31, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
168 1 0.00
169 30 0.10
170 42 0.14
171 8 0.03
172 23 0.08
173 2 0.01
174 33 0.11
175 1 0.00
176 122 0.41
177 1 0.00
178 24 0.08
179 11 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (173 bp):
TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTACTCCACTGTAACCTC
AGAGAGATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTT
CGATCTGCTCCGCTGTAATCTCGGGGAGATAAGATCTCTAGGC
Found at i:9525238 original size:44 final size:42
Alignment explanation
Indices: 9524828--9525370 Score: 301
Period size: 44 Copynumber: 12.7 Consensus size: 42
9524818 TTTTAACCCA
* * * *
9524828 CTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-CTATCTTTGATCTG
* * * **
9524871 CTCCGCTGTAATCTCGGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAT--CTTTGATCTG
* * *
9524915 CTCCACTGTAA-CTTCAGGG-GATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGATCT---A-TCTTTGATCTG
* * * * **
9524960 CTCCACTGTAACCTCAGAGAGATAAGATCCTTTAT-TTTAACCCA
1 CTCCACTGTAATCTCAGGGAGATAAGAT-C--TATCTTTGATCTG
* * * *
9525004 CTCCACTGTAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-CTATCTTTGATCTG
* * * *
9525047 CTCCGCTGTAATCTCGGGGAGATAAGATCTCTAATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA--TCT-A-TCTTTGATCTG
* * * *
9525093 TTCCACTGTAATCTCAGGGAGATAAGACCTGA--TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ATCTTTGATCTG
* * * *
9525134 CTCTACTGTAA-CTTCAGAGAGATAAGATC---CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTATCTTTGATCTG
* * *
9525173 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA-T-CTATCTTTGATCTG
* * *
9525217 CTCCGCTGTAATCTCAGGGAGATAAGATCTGA--TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ATCTTTGATCTG
* * * *
9525258 CTCTACTGTAA-CTTCAGAGAGATAAGATC---CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTATCTTTGATCTG
* * *
9525297 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA-T-CTATCTTTGATCTG
*
9525341 CTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT
9525371 GATGTCTTCA
Statistics
Matches: 381, Mismatches: 82, Indels: 75
0.71 0.15 0.14
Matches are distributed among these distances:
39 50 0.13
40 6 0.02
41 61 0.16
42 8 0.02
43 64 0.17
44 120 0.31
45 25 0.07
46 44 0.12
47 2 0.01
49 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTATCTTTGATCTG
Found at i:9525242 original size:124 final size:124
Alignment explanation
Indices: 9525089--9525375 Score: 547
Period size: 124 Copynumber: 2.3 Consensus size: 124
9525079 AATTCTTCGG
* * *
9525089 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
9525154 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
66 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
9525213 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
9525278 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
66 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
9525337 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGT
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGT
9525376 CTTCAACCAG
Statistics
Matches: 160, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 160 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (124 bp):
TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
Found at i:9526713 original size:1 final size:1
Alignment explanation
Indices: 9526707--9526732 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9526697 CTCTCCAAAG
9526707 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
9526733 AGGAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9543532 original size:21 final size:19
Alignment explanation
Indices: 9543503--9543551 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
9543493 GGTTGTTTAA
*
9543503 GGGTATTGGGCTAGGTTAGTT
1 GGGTTTTGGGCTA-GTT-GTT
*
9543524 GGGTTTTGGGTTAGTTGTT
1 GGGTTTTGGGCTAGTTGTT
9543543 -GGTTTTGGG
1 GGGTTTTGGG
9543552 GTGGCCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
20 3 0.12
21 11 0.42
ACGTcount: A:0.08, C:0.02, G:0.45, T:0.45
Consensus pattern (19 bp):
GGGTTTTGGGCTAGTTGTT
Found at i:9543537 original size:16 final size:17
Alignment explanation
Indices: 9543516--9543551 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
9543506 TATTGGGCTA
9543516 GGTTAGTTG-GGTTTTG
1 GGTTAGTTGTGGTTTTG
9543532 GGTTAGTTGTTGGTTTTG
1 GGTTAGTTG-TGGTTTTG
9543550 GG
1 GG
9543552 GTGGCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.06, C:0.00, G:0.44, T:0.50
Consensus pattern (17 bp):
GGTTAGTTGTGGTTTTG
Found at i:9545789 original size:44 final size:43
Alignment explanation
Indices: 9545740--9546114 Score: 161
Period size: 44 Copynumber: 8.7 Consensus size: 43
9545730 ACCTACTCTG
* * *
9545740 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCA
1 CTGTAACCTCAGGGAGATAAGAT-CTTTATTTTAATCTACTCCA
* * * * * ** * *
9545784 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGAT-CTTTATTTTAATCTACTCCA
* *** * *
9545827 CTGTAATCTC-GGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCT-TTATTTTAATCTACTCCA
* ** **
9545870 CTGTAACTTCAGGG-GATAAGATCTGCAATTCTTCGTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCT-TTATT-TTAATCTACTCCA
* * *
9545914 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCA
1 CTGTAACCTCAGGGAGATAAGAT-CTTTATTTTAATCTACTCCA
* * * * * ** * *
9545958 CTGTAACTTCAGGGAGATAGGATAGTGT-CTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGAT-CTTTATTTTAATCTACTCCA
* *** **
9546001 CTGTAACCTC-GGGAGATAAGATCTCTAATCTTCGGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCT-TTAT-TTTAATCTACTCCA
* * * * * * *
9546045 CTGTAATCTCAGGGAGATAAGA-CCTGA-TGTGATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCTTTATTTTAATCTACTCCA
* *
9546086 CTGTAACTTCAGAGAGATAAGATCCTTTA
1 CTGTAACCTCAGGGAGATAAGAT-CTTTA
9546115 ATCCGCTCCA
Statistics
Matches: 243, Mismatches: 76, Indels: 25
0.71 0.22 0.07
Matches are distributed among these distances:
41 29 0.12
42 22 0.09
43 70 0.29
44 98 0.40
45 22 0.09
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCTTTATTTTAATCTACTCCA
Found at i:9545864 original size:43 final size:43
Alignment explanation
Indices: 9545779--9545893 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
9545769 TTTTAACCCA
* ** * *
9545779 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGG-GATAAGATCTCTGGCTTCAATCTG
*
9545822 CTCCGCTGTAA-TCTC-GGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGG-GATAAGATCTCTGGCTTCAATCTG
9545865 CTCCACTGTAACTTCAGGGGATAAGATCT
1 CTCCACTGTAACTTCAGGGGATAAGATCT
9545894 GCAATTCTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 12 0.20
43 45 0.74
44 4 0.07
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (43 bp):
CTCCACTGTAACTTCAGGGGATAAGATCTCTGGCTTCAATCTG
Found at i:9545939 original size:174 final size:172
Alignment explanation
Indices: 9545707--9546188 Score: 590
Period size: 174 Copynumber: 2.8 Consensus size: 172
9545697 CACTGCATCT
* * * * **
9545707 TCAGGGAAATAAGACTTGATGCGACCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATGTGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTT
9545772 TAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
66 TAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
*
9545837 GGGAGATAAGATCTCT-GGCTTCAATCTGCTCCACTGTAA-C
131 GGGAGATAAGATCTCTAAGCTTCAATCTGCTCCACTGTAATC
* *
9545877 TTCAGGG-GATAAGATCTGCAATTCTTCG-TCTACTCCACTGTAACCTCAGAGAGATAAGATCCT
1 -TCAGGGAGATAAGACCTG--A-T-GT-GATCTACTCCACTGTAACCTCAGAGAGATAAGATCCT
9545940 TTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGT
60 TTATTTTAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGT
* * ** *
9546005 AACCTCGGGAGATAAGATCTCTAATCTTCGGTCTGTTCCACTGTAATC
125 AATCTCGGGAGATAAGATCTCTAAGCTTCAATCTGCTCCACTGTAATC
* * *
9546053 TCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCC-----TT
1 TCAGGGAGATAAGACCTGATGTGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTT
* * * * * * *
9546113 TAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGC-GTAATC
66 TAACCCACTCCACTGTAACT-TCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGTAATC
9546176 TCAGGGAGATAAG
129 TC-GGGAGATAAG
9546189 CTGATGTGAT
Statistics
Matches: 272, Mismatches: 27, Indels: 27
0.83 0.08 0.08
Matches are distributed among these distances:
166 1 0.00
167 37 0.14
168 29 0.11
170 8 0.03
171 7 0.03
172 33 0.12
173 2 0.01
174 119 0.44
175 25 0.09
176 11 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (172 bp):
TCAGGGAGATAAGACCTGATGTGATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTATTT
TAACCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTC
GGGAGATAAGATCTCTAAGCTTCAATCTGCTCCACTGTAATC
Found at i:9546142 original size:39 final size:39
Alignment explanation
Indices: 9546099--9546265 Score: 115
Period size: 39 Copynumber: 4.2 Consensus size: 39
9546089 TAACTTCAGA
9546099 GAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAG
1 GAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAG
* * * ** *
9546138 GAGATAGGATTACTATCTTTGATCTGCTCC-GCGTAATCTCAGG
1 GAGATAAGA-T-C---CTTTAATCCGCTCCATTGTAATCTCAAG
* ** * * * * *
9546181 GAGATAAGCTGATGTGATTCTGCTCTACTGTAA-CTTC-AG
1 GAGATAAGATCCT-TTAATCCGCTCCATTGTAATC-TCAAG
9546220 AGAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAG
1 -GAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAG
9546260 GAGATA
1 GAGATA
9546266 GGATTACTAT
Statistics
Matches: 92, Mismatches: 25, Indels: 22
0.66 0.18 0.16
Matches are distributed among these distances:
38 1 0.01
39 40 0.43
40 20 0.22
41 1 0.01
42 1 0.01
43 17 0.18
44 12 0.13
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (39 bp):
GAGATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAG
Found at i:9546221 original size:122 final size:123
Alignment explanation
Indices: 9546036--9546317 Score: 489
Period size: 122 Copynumber: 2.3 Consensus size: 123
9546026 TAATCTTCGG
* * *
9546036 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CTGATGTGATCTGCTCTACTGTAACTTCAGAGA
9546101 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
65 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
9546160 TCTGCTCCGC-GTAATCTCAGGGAGATAAG-CTGATGTGATTCTGCTCTACTGTAACTTCAGAGA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACTGATGTGA-TCTGCTCTACTGTAACTTCAGAGA
9546223 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
65 GATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
9546282 TCTGCTCCGCTGTAATCTCA-GGAGATAAGATCTGAT
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CTGAT
9546318 TTCTTCAACC
Statistics
Matches: 151, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
121 9 0.06
122 101 0.67
123 28 0.19
124 13 0.09
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (123 bp):
TCTGCTCCGCTGTAATCTCAGGGAGATAAGACTGATGTGATCTGCTCTACTGTAACTTCAGAGAG
ATAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
Found at i:9558432 original size:17 final size:17
Alignment explanation
Indices: 9558401--9558434 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9558391 CATGGTAAAT
* *
9558401 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
9558418 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
9558435 TAAGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:9573447 original size:21 final size:22
Alignment explanation
Indices: 9573423--9573463 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9573413 ATCTTGAGCT
*
9573423 CTAAAATT-CAATCCCTAAATA
1 CTAAAATTCCAAACCCTAAATA
9573444 CTAAAATTCCAAACCCTAAA
1 CTAAAATTCCAAACCCTAAA
9573464 CCCTTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (22 bp):
CTAAAATTCCAAACCCTAAATA
Found at i:9576966 original size:33 final size:33
Alignment explanation
Indices: 9576924--9576996 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
9576914 ATAAGCAAAT
9576924 TATGACACCTTTTCCATTTTCAAATTTGCTATA
1 TATGACACCTTTTCCATTTTCAAATTTGCTATA
*
9576957 TATGACACCTTTTCCGTTTTCAAATTTGCTATA
1 TATGACACCTTTTCCATTTTCAAATTTGCTATA
9576990 TAT-ACAC
1 TATGACAC
9576997 TTATCAGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (33 bp):
TATGACACCTTTTCCATTTTCAAATTTGCTATA
Found at i:9580367 original size:32 final size:32
Alignment explanation
Indices: 9580331--9580391 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
9580321 AAATAAGCAC
9580331 ATAATTATTCATTT-AATA-TTATAACTATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAACTATTCAA
*
9580363 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAACTATT
9580392 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAACTATTCAA
Found at i:9583385 original size:6 final size:6
Alignment explanation
Indices: 9583343--9583395 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
9583333 CTAAATAAGT
* *
9583343 AAAAT- AAAAT- AAAAT- AAAATA ATAAAT- AGAGTA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA
9583388 AAAATA AA
1 AAAATA AA
9583396 GCTTGTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 17 0.41
6 20 0.49
7 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:9588467 original size:18 final size:19
Alignment explanation
Indices: 9588446--9588485 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9588436 TTGCATCAAA
9588446 GTGCCA-CTCACTTGCATC
1 GTGCCATCTCACTTGCATC
*
9588464 GTGCCATTTTCACTTGCATC
1 GTGCCA-TCTCACTTGCATC
9588484 GT
1 GT
9588486 AATGCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.15, C:0.33, G:0.17, T:0.35
Consensus pattern (19 bp):
GTGCCATCTCACTTGCATC
Found at i:9590862 original size:21 final size:21
Alignment explanation
Indices: 9590837--9590878 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9590827 AACAAGCTAA
*
9590837 CAAATCTCCCTAGGACTTAGT
1 CAAATCTCCCTAAGACTTAGT
9590858 CAAATCTCCCTAAGACTTAGT
1 CAAATCTCCCTAAGACTTAGT
9590879 TTTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (21 bp):
CAAATCTCCCTAAGACTTAGT
Found at i:9609716 original size:95 final size:95
Alignment explanation
Indices: 9609599--9609796 Score: 324
Period size: 95 Copynumber: 2.1 Consensus size: 95
9609589 TTTAAATATA
* *
9609599 AAAAAAATTTTAAAAAAATTTAAATGAACTGATGGCGCTATTTAGAATGGCTCCACCAAAAAAAT
1 AAAAAAATTTTAAAAAAATTTAAATGAACTGATGGAGCCATTTAGAATGGCTCCACCAAAAAAAT
9609664 ATACATTTAAAATATTATAAAACAAATAAT
66 ATACATTTAAAATATTATAAAACAAATAAT
* * *
9609694 AAAAAAATTTTAAAAAAGTTTAAATGAACTGGTGGAGCCATTTAGAATGGCTCCACCAAAAATAT
1 AAAAAAATTTTAAAAAAATTTAAATGAACTGATGGAGCCATTTAGAATGGCTCCACCAAAAAAAT
* *
9609759 ATATATTTAAAATATTATGAAACAAATAAT
66 ATACATTTAAAATATTATAAAACAAATAAT
9609789 AATAAAAA
1 AA-AAAAA
9609797 GGACAGAAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 90 0.95
96 5 0.05
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (95 bp):
AAAAAAATTTTAAAAAAATTTAAATGAACTGATGGAGCCATTTAGAATGGCTCCACCAAAAAAAT
ATACATTTAAAATATTATAAAACAAATAAT
Found at i:9610780 original size:12 final size:13
Alignment explanation
Indices: 9610763--9610791 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9610753 TCTGCCTTTG
9610763 TTTTTGTTT-TTT
1 TTTTTGTTTGTTT
9610775 TTTTTGTTTGTTT
1 TTTTTGTTTGTTT
9610788 TTTT
1 TTTT
9610792 AATGAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTTGTTTGTTT
Found at i:9621996 original size:16 final size:16
Alignment explanation
Indices: 9621972--9622002 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9621962 ACAAGTTATT
*
9621972 TATGCATACATGTATA
1 TATGAATACATGTATA
9621988 TATGAATACATGTAT
1 TATGAATACATGTAT
9622003 GTATATGCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (16 bp):
TATGAATACATGTATA
Found at i:9622771 original size:6 final size:6
Alignment explanation
Indices: 9622760--9622787 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
9622750 TGAAGCGGAT
9622760 GATGGG GATGGG GATGGG GATGGG GATG
1 GATGGG GATGGG GATGGG GATGGG GATG
9622788 ACGAGGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.64, T:0.18
Consensus pattern (6 bp):
GATGGG
Found at i:9631890 original size:20 final size:20
Alignment explanation
Indices: 9631862--9631901 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9631852 AAATAAACAC
* *
9631862 ATAATTATTCATTTAATATT
1 ATAACTATTCATATAATATT
9631882 ATAACTATTCATATAATATT
1 ATAACTATTCATATAATATT
9631902 GTTTGAATAG
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:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAACTATTCATATAATATT
Found at i:9639098 original size:22 final size:22
Alignment explanation
Indices: 9639070--9639129 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 22
9639060 AATACATCAA
9639070 AAATATTAAAAAACATT-AAAAT
1 AAATATTAAAAAA-ATTGAAAAT
*
9639092 AAATATTTTCAAACAAATTGAAAAT
1 AAATA--TT-AAAAAAATTGAAAAT
*
9639117 AAATTTTAAAAAA
1 AAATATTAAAAAA
9639130 TATGTATACT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 10 0.32
23 2 0.06
24 5 0.16
25 14 0.45
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATATTAAAAAAATTGAAAAT
Found at i:9639255 original size:14 final size:14
Alignment explanation
Indices: 9639236--9639263 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9639226 TCCAAACAAA
9639236 AACAACATAATAGT
1 AACAACATAATAGT
9639250 AACAACATAATAGT
1 AACAACATAATAGT
9639264 GAAATGGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
AACAACATAATAGT
Found at i:9640766 original size:28 final size:28
Alignment explanation
Indices: 9640704--9640773 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
9640694 TGACCATACG
**
9640704 AGCTGTGATATTTGAATTTGATCACATG
1 AGCTGTGATATTTGAATTTGATCACACA
* **
9640732 AGTTGTGATATTTGAATTTTCTCACACA
1 AGCTGTGATATTTGAATTTGATCACACA
*
9640760 AGCTGTGACATTTG
1 AGCTGTGATATTTG
9640774 GGATACTCTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (28 bp):
AGCTGTGATATTTGAATTTGATCACACA
Found at i:9648322 original size:10 final size:10
Alignment explanation
Indices: 9648307--9648331 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9648297 CTGATACTCT
9648307 TGGAACCCTA
1 TGGAACCCTA
9648317 TGGAACCCTA
1 TGGAACCCTA
9648327 TGGAA
1 TGGAA
9648332 AAAAAAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (10 bp):
TGGAACCCTA
Found at i:9649958 original size:41 final size:41
Alignment explanation
Indices: 9649891--9649971 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
9649881 ATATTGGGTT
* *
9649891 TTGAACCTAGCAGGTTTCGTGCCGGTGTAATGATTCAGGCC
1 TTGAACCTAGCAGCTTTCGTGCCGGTGTAATGAATCAGGCC
* * *
9649932 TTGAGCCTAGCAGACTTT-GTGTCGGTGTAGTGAATCAGGC
1 TTGAACCTAGCAG-CTTTCGTGCCGGTGTAATGAATCAGGC
9649972 ATCTGTAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 31 0.91
42 3 0.09
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.30
Consensus pattern (41 bp):
TTGAACCTAGCAGCTTTCGTGCCGGTGTAATGAATCAGGCC
Found at i:9653336 original size:14 final size:14
Alignment explanation
Indices: 9653317--9653351 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
9653307 GCTATGCATG
*
9653317 CAAAATATAAAAGA
1 CAAAATACAAAAGA
9653331 CAAAATACAAAAGA
1 CAAAATACAAAAGA
*
9653345 CATAATA
1 CAAAATA
9653352 GTGAAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.11, G:0.06, T:0.14
Consensus pattern (14 bp):
CAAAATACAAAAGA
Found at i:9655008 original size:20 final size:18
Alignment explanation
Indices: 9654961--9655040 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 18
9654951 CAAGATAAAC
9654961 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
9654978 ATT-AATATAATCACTTTAAT
1 ATTAAAT-TAAT-A-TTTAAT
** *
9654998 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
9655017 ATTAAATTTA-ATTTAAT
1 ATTAAATTAATATTTAAT
9655034 ATTAAAT
1 ATTAAAT
9655041 ATATTAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
16 3 0.06
17 17 0.34
19 13 0.26
20 14 0.28
21 3 0.06
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:9655047 original size:20 final size:19
Alignment explanation
Indices: 9654970--9655047 Score: 54
Period size: 20 Copynumber: 4.1 Consensus size: 19
9654960 CATTAAATTA
*
9654970 AATTTAATATTAATATAATC
1 AATTTAATATTAATAT-ATT
* *
9654990 ACTTTAATATTAA-ATTAAT
1 AATTTAATATTAATA-TATT
** *
9655009 AAAATACTATTAA-AT-TT
1 AATTTAATATTAATATATT
9655026 AATTTAATATTAAATATATT
1 AATTTAATATT-AATATATT
9655046 AA
1 AA
9655048 AATAAAATTA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
17 9 0.21
18 3 0.07
19 14 0.33
20 17 0.40
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTAATATTAATATATT
Found at i:9659614 original size:19 final size:21
Alignment explanation
Indices: 9659587--9659628 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
9659577 TTAATTTTAA
*
9659587 TTACTTTGATT-AATTTAATT
1 TTACTTTGATTAAAATTAATT
9659607 TTAC-TTGATTAAAATTAATT
1 TTACTTTGATTAAAATTAATT
9659627 TT
1 TT
9659629 CTAAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTACTTTGATTAAAATTAATT
Found at i:9665170 original size:19 final size:20
Alignment explanation
Indices: 9665139--9665187 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
9665129 AATAATATAG
*
9665139 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
9665159 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
9665178 ATTTTGAATT
1 ATTTTGAATT
9665188 ATTTTGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:9681518 original size:48 final size:48
Alignment explanation
Indices: 9681466--9681608 Score: 223
Period size: 48 Copynumber: 3.0 Consensus size: 48
9681456 CAACAACTAT
* *
9681466 ACATAACATATAACACATACAGAGTCATATTAACTTACTCTTTTCAAG
1 ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAAG
* * *
9681514 ACATAACATATAACACATACAAAGTTATTTTAACTTACTCTTATCAAT
1 ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAAG
* *
9681562 ACATAACATATAACACATACAGAGTTATTTTAACATACTTTTTTCAA
1 ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAA
9681609 ATCCTTCATT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (48 bp):
ACATAACATATAACACATACAGAGTTATTTTAACTTACTCTTTTCAAG
Found at i:9683103 original size:14 final size:13
Alignment explanation
Indices: 9683084--9683121 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
9683074 CCAGAAAAGT
9683084 AAATCATTTTCCAG
1 AAATCATTTTCC-G
9683098 AAATCATTTTCCG
1 AAATCATTTTCCG
9683111 AAAGTCATTTT
1 AAA-TCATTTT
9683122 TAGTGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:9687683 original size:6 final size:6
Alignment explanation
Indices: 9687672--9687709 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
9687662 TTTTACTGTC
9687672 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
9687710 GATTTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:9692810 original size:20 final size:20
Alignment explanation
Indices: 9692793--9692831 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9692783 CAAATTGATT
*
9692793 AGTGACATGGCATGTTGACC
1 AGTGACATAGCATGTTGACC
*
9692813 AGTGACATAGTATGTTGAC
1 AGTGACATAGCATGTTGAC
9692832 TAAGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
AGTGACATAGCATGTTGACC
Found at i:9695450 original size:66 final size:67
Alignment explanation
Indices: 9695378--9695503 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 67
9695368 TGTAACAAAA
** *
9695378 TTTTTTCTCTCATTTTCTCTCTTGCCAAACACTACTTTT-TTCTTCAAAACACATGGTTGCTGCC
1 TTTTTTCTCTCATTAACTCTCTTGCCAAACACCACTTTTCTTCTTCAAAACACATGGTTGCTGCC
9695442 AT
66 AT
* *
9695444 TTTTTTCTCTCATTAACTCTCTTGCCAAACACCATTTTTCTTCTTCAAAACATATGGTTG
1 TTTTTTCTCTCATTAACTCTCTTGCCAAACACCACTTTTCTTCTTCAAAACACATGGTTG
9695504 GCTCATTTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 35 0.65
67 19 0.35
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (67 bp):
TTTTTTCTCTCATTAACTCTCTTGCCAAACACCACTTTTCTTCTTCAAAACACATGGTTGCTGCC
AT
Found at i:9697388 original size:6 final size:6
Alignment explanation
Indices: 9697377--9697487 Score: 222
Period size: 6 Copynumber: 18.5 Consensus size: 6
9697367 TTTTGGTATG
9697377 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
9697425 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
9697473 GTATAT GTATAT GTA
1 GTATAT GTATAT GTA
9697488 ATAGTTTGTT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 105 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:9700921 original size:18 final size:18
Alignment explanation
Indices: 9700879--9700921 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9700869 TTTTATTAAA
*
9700879 AAAACATTTTTTACATTT
1 AAAATATTTTTTACATTT
*
9700897 AATATATTTTTTA-ATTT
1 AAAATATTTTTTACATTT
9700914 CAAAATAT
1 -AAAATAT
9700922 ATGGTGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATATTTTTTACATTT
Found at i:9701211 original size:15 final size:15
Alignment explanation
Indices: 9701191--9701219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9701181 AAAATTTTAT
9701191 TTGAATTCAACATGA
1 TTGAATTCAACATGA
9701206 TTGAATTCAACATG
1 TTGAATTCAACATG
9701220 GAAAATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (15 bp):
TTGAATTCAACATGA
Found at i:9701307 original size:13 final size:13
Alignment explanation
Indices: 9701289--9701322 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9701279 AAATTCAACA
*
9701289 TATTTATTTAATT
1 TATTTATGTAATT
9701302 TATTTATGTAATT
1 TATTTATGTAATT
*
9701315 TTTTTATG
1 TATTTATG
9701323 AGATGTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (13 bp):
TATTTATGTAATT
Found at i:9701719 original size:25 final size:25
Alignment explanation
Indices: 9701664--9701720 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
9701654 CTCACAATTT
*
9701664 TTTGACTTTATTTGCAATAAAAGAC
1 TTTGACTTTATTTGCAACAAAAGAC
9701689 TCTTGACTTTATTTGCAAC-AAAGAAC
1 T-TTGACTTTATTTGCAACAAAAG-AC
9701715 TTTGAC
1 TTTGAC
9701721 AATAATTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (25 bp):
TTTGACTTTATTTGCAACAAAAGAC
Found at i:9701975 original size:41 final size:42
Alignment explanation
Indices: 9701925--9702006 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
9701915 TAAACATTAA
* * *
9701925 AAAATTATTTTAAAA-ATAAAAAAAAATAAAAAAATTATTTT
1 AAAAGTATTTTAAAATATAAAAATAAAAAAAAAAATTATTTT
* * *
9701966 AAAAGTATTTTAAAATTTAAAAATAAAAAAAATATTTATTT
1 AAAAGTATTTTAAAATATAAAAATAAAAAAAAAAATTATTT
9702007 ATTATATTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 14 0.41
42 20 0.59
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (42 bp):
AAAAGTATTTTAAAATATAAAAATAAAAAAAAAAATTATTTT
Found at i:9705442 original size:228 final size:228
Alignment explanation
Indices: 9705034--9706364 Score: 1368
Period size: 228 Copynumber: 5.8 Consensus size: 228
9705024 ATTCAAATAG
* * * *
9705034 ATGCAAAT-TTTCGTCAAGACCCTCACCGGCAAGACCATCACCCTT-GAGGTGGAAAGCTCCGAC
1 ATGCAAATCTTT-GTGAAGACCCTCACCGGAAAGACCATCA-CCTTGGAGGTTGAAAGCTCAGAC
* * * * * *
9705097 ACCATCGATAATGTCAAGGCCAAGATCCAAGATAAAGAAGGAATCCCACCAGATCAACAGAGGCT
64 ACCATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCAGACCAACAGAGG-T
* * * * * * * * *
9705162 T-ATCTTTGCTGGTAAGCAGCTAGAGGATGGTCGTACACTTGCTGACTACAACATTCAGAAGGAG
128 TGATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAG
* * * *
9705226 TCCACCCTCCACTTGGTCCTTCGT-TTGAGGGGTGGT
193 TCCACCCTCCATTTGGTGCTTCGTCTT-CGTGGTGGT
* * * * * * *
9705262 ATGCAAATCTTTGTTAAGACCCTCACCGGCAAGACTATCACCCTCGAGGTGGAAAGCTCGGACAC
1 ATGCAAATCTTTGTGAAGACCCTCACCGGAAAGACCATCACCTTGGAGGTTGAAAGCTCAGACAC
* * *
9705327 CATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCAGACCAGCAGAGACTT-
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCAGACCAACAGAG-GTTG
* *
9705391 ATCTTTGCCGGTAAGCAACTAGAAGATGGCCGTACCCTGGCTGATTACAACATCCAAAAGGAGTC
130 ATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGTC
* * * *
9705456 CACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGA
195 CACCCTCCATTTGGTGCTTCGTCTTCGTGGTGGT
* * * * * * * * *
9705490 ATGCAAATCTTTGTTAAGACCTTGACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATCTTTGTGAAGACCCTCACCGGAAAGACCATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * * * *
9705555 CATTGACAATGTCAAGGCTAAGATCCAGGAC-AAGGAGGGTATTCCGCCAGACCAGCAGAGGTTG
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGG-ATCCCTCCAGACCAACAGAGGTTG
* * * *
9705619 ATCTTTGCTGGTAAGCAATTAGAAGATGGTCGCACCCTGGCTGACTACAACATCCAAAAGGAATC
130 ATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGTC
9705684 CACCCTCCATTTGGTGCTTCGTCTTCGTGGTGGT
195 CACCCTCCATTTGGTGCTTCGTCTTCGTGGTGGT
* * * * * * * *
9705718 ATGCAAATATTTGTGAAGACTCTTACCGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATCTTTGTGAAGACCCTCACCGGAAAGACCATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * *
9705783 CATTGACAAAGTCAAGGCTAAGATCCAGGAC-AAGGAGGGTATTCCC-CCAGACCAACAGAGGTT
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGG-A-TCCCTCCAGACCAACAGAGGTT
* * * * *
9705846 GATCTTTGCCGGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAAAAGGAAT
129 GATCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGT
*
9705911 CCACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
194 CCACCCTCCATTTGGTGCTTCGTCTTCGTGGTGGT
* * * * * * *
9705946 ATGCAGATTTTTGTGAAGACTCTTACCGGGAAA-ACCATCACCTTGGAAGTTGAGAGCTCCGACA
1 ATGCAAATCTTTGTGAAGACCCTCACC-GGAAAGACCATCACCTTGGAGGTTGAAAGCTCAGACA
* * * * *
9706010 CTATTGACAATGTCAAGGCCAAAATCCAGGACAAGGAAGGTATCCCTCCAGACCAACAGAGGTTG
65 CCATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCAGACCAACAGAGGTTG
* * * * * * * * * *
9706075 AT-TTTCGCGGGTAAGCAGCTTGAGGATGGCAGGACACTTGCAGACTACAACATTCAAAAGGAGT
130 ATCTTT-GCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGT
* * *
9706139 CGACCCTCCATTTGGTTCTTCGTCTTCGTGGTGGG
194 CCACCCTCCATTTGGTGCTTCGTCTTCGTGGTGGT
* ** * * * * *
9706174 ATGCAAATTTTTGTGAAGACATTGACAGGAAAGACCATCACTTTGGAAGTTGAAAGCTCGGACAC
1 ATGCAAATCTTTGTGAAGACCCTCACCGGAAAGACCATCACCTTGGAGGTTGAAAGCTCAGACAC
* * * * * * *
9706239 TATTGATAATGTCAAGGCCAAGATCCAAGATAAGGAAGGAATCCCCCCAGACCAGCAGAGGTTGA
66 CATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCAGACCAACAGAGGTTGA
* * * * ** * * * *
9706304 TCTTCGCAGGGAAGCAACTTGAAGATGGAAGGACCTTGGCAGACTACAACATCCAGAAGGA
131 TCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGA
9706365 ATCGACTCTG
Statistics
Matches: 959, Mismatches: 131, Indels: 26
0.86 0.12 0.02
Matches are distributed among these distances:
227 24 0.03
228 915 0.95
229 20 0.02
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (228 bp):
ATGCAAATCTTTGTGAAGACCCTCACCGGAAAGACCATCACCTTGGAGGTTGAAAGCTCAGACAC
CATTGACAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCAGACCAACAGAGGTTGA
TCTTTGCCGGTAAGCAACTAGAAGATGGCCGCACCCTGGCTGACTACAACATCCAAAAGGAGTCC
ACCCTCCATTTGGTGCTTCGTCTTCGTGGTGGT
Found at i:9706353 original size:684 final size:684
Alignment explanation
Indices: 9705109--9706367 Score: 1612
Period size: 684 Copynumber: 1.8 Consensus size: 684
9705099 CATCGATAAT
* * *
9705109 GTCAAGGCCAAGATCCAAGATAAAGAAGGAATCCCACCAGATCAACAGAGGCTTATCTTTGCTGG
1 GTCAAGGCCAAGATCCAAGACAAAGAAGGAATCCCACCAGACCAACAGAGGCTTATCTTTGCCGG
* * * * * * * *
9705174 TAAGCAGCTAGAGGATGGTCGTACACTTGCTGACTACAACATTCAGAAGGAGTCCACCCTCCACT
66 TAAGCAACTAGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCCACCCTCCACT
* * *
9705239 TGGTCCTTCGTTTGAGGGGTGGTATGCAAATCTTTGTTAAGACCCTCACCGGCAAGACTATCACC
131 TGGTCCTTCGTTTGAGGGGTGGTATGCAAATCTTTGTGAAGACCCTCACCGGCAAAACCATCACC
* * * *
9705304 CTCGAGGTGGAAAGCTCGGACACCATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGAT
196 CTCGAAGTGGAAAGCTCCGACACCATTGACAATGTCAAGGCCAAAATCCAAGACAAAGAAGGGAT
* * * * *
9705369 CCCTCCAGACCAGCAGAGACTTATCTTTGCCGGTAAGCAACTAGAAGATGGCCGTACCCTGGCTG
261 CCCTCCAGACCAACAGAGACTTATCTTTGCCGGTAAGCAACTAGAAGATGGCAGGACACTGGCAG
*
9705434 ATTACAACATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGAATGCAAATC
326 ACTACAACATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGAATGCAAATC
* * * * * * * *
9705499 TTTGTTAAGACCTTGACCGGAAAGACAATTACTTTGGAGGTTGAGAGTTCAGATACCATTGACAA
391 TTTGTGAAGACATTGACAGGAAAGACAATCACTTTGGAAGTTGAAAGCTCAGACACCATTGACAA
* * * * * * * *
9705564 TGTCAAGGCTAAGATCCAGGACAAGGAGGGTATTCCGCCAGACCAGCAGAGGTTGATCTTTGCTG
456 TGTCAAGGCCAAGATCCAAGACAAGGAAGGAATCCCCCCAGACCAGCAGAGGTTGATCTTCGCAG
* ** *
9705629 GTAAGCAATTAGAAGATGGTCGCACCCTGGCTGACTACAACATCCAAAAGGAATCCACCCTCCAT
521 GGAAGCAATTAGAAGATGGAAGCACCCTGGCAGACTACAACATCCAAAAGGAATCCACCCTCCAT
9705694 TTGGTGCTTCGTCTTCGTGGTGGTATGCAAATATTTGTGAAGACTCTTACCGGAAAGACCATTAC
586 TTGGTGCTTCGTCTTCGTGGTGGTATGCAAATATTTGTGAAGACTCTTACCGGAAAGACCATTAC
9705759 TTTGGAGGTTGAGAGTTCAGATACCATTGACAAA
651 TTTGGAGGTTGAGAGTTCAGATACCATTGACAAA
* * * * *
9705793 GTCAAGGCTAAGATCCAGGACAAGGAGGGTATTCCC-CCAGACCAACAGAGG-TTGATCTTTGCC
1 GTCAAGGCCAAGATCCAAGACAAAGAAGG-AATCCCACCAGACCAACAGAGGCTT-ATCTTTGCC
* * *
9705856 GGTAAGCAACTTGAAGATGGCCGCACTCTCGCTGATTACAACATCCAAAAGGAATCCACCCTCCA
64 GGTAAGCAACTAGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCCACCCTCCA
* * * * * * * *
9705921 CTTGGTGCTTCGTCTT-CGTGGTGGTATGCAGATTTTTGTGAAGACTCTTACCGGGAAAACCATC
129 CTTGGTCCTTCGT-TTGAGGGGTGGTATGCAAATCTTTGTGAAGACCCTCACCGGCAAAACCATC
* * * * * * *
9705985 ACCTTGGAAGTTGAGAGCTCCGACACTATTGACAATGTCAAGGCCAAAATCCAGGACAAGGAAGG
193 ACCCTCGAAGTGGAAAGCTCCGACACCATTGACAATGTCAAGGCCAAAATCCAAGACAAAGAAGG
* * * * * *
9706050 TATCCCTCCAGACCAACAGAG-GTTGAT-TTTCGCGGGTAAGCAGCTTGAGGATGGCAGGACACT
258 GATCCCTCCAGACCAACAGAGACTT-ATCTTT-GCCGGTAAGCAACTAGAAGATGGCAGGACACT
* * * * * * * *
9706113 TGCAGACTACAACATTCAAAAGGAGTCGACCCTCCATTTGGTTCTTCGTCTTCGTGGTGGGATGC
321 GGCAGACTACAACATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGAATGC
* * * *
9706178 AAATTTTTGTGAAGACATTGACAGGAAAGACCATCACTTTGGAAGTTGAAAGCTCGGACACTATT
386 AAATCTTTGTGAAGACATTGACAGGAAAGACAATCACTTTGGAAGTTGAAAGCTCAGACACCATT
* *
9706243 GATAATGTCAAGGCCAAGATCCAAGATAAGGAAGGAATCCCCCCAGACCAGCAGAGGTTGATCTT
451 GACAATGTCAAGGCCAAGATCCAAGACAAGGAAGGAATCCCCCCAGACCAGCAGAGGTTGATCTT
* * *
9706308 CGCAGGGAAGCAACTT-GAAGATGGAAGGACCTTGGCAGACTACAACATCCAGAAGGAATC
516 CGCAGGGAAGCAA-TTAGAAGATGGAAGCACCCTGGCAGACTACAACATCCAAAAGGAATC
9706368 GACTCTGCAC
Statistics
Matches: 479, Mismatches: 90, Indels: 12
0.82 0.15 0.02
Matches are distributed among these distances:
683 7 0.01
684 463 0.97
685 9 0.02
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (684 bp):
GTCAAGGCCAAGATCCAAGACAAAGAAGGAATCCCACCAGACCAACAGAGGCTTATCTTTGCCGG
TAAGCAACTAGAAGATGGCCGCACACTCGCTGACTACAACATCCAAAAGGAATCCACCCTCCACT
TGGTCCTTCGTTTGAGGGGTGGTATGCAAATCTTTGTGAAGACCCTCACCGGCAAAACCATCACC
CTCGAAGTGGAAAGCTCCGACACCATTGACAATGTCAAGGCCAAAATCCAAGACAAAGAAGGGAT
CCCTCCAGACCAACAGAGACTTATCTTTGCCGGTAAGCAACTAGAAGATGGCAGGACACTGGCAG
ACTACAACATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGAATGCAAATC
TTTGTGAAGACATTGACAGGAAAGACAATCACTTTGGAAGTTGAAAGCTCAGACACCATTGACAA
TGTCAAGGCCAAGATCCAAGACAAGGAAGGAATCCCCCCAGACCAGCAGAGGTTGATCTTCGCAG
GGAAGCAATTAGAAGATGGAAGCACCCTGGCAGACTACAACATCCAAAAGGAATCCACCCTCCAT
TTGGTGCTTCGTCTTCGTGGTGGTATGCAAATATTTGTGAAGACTCTTACCGGAAAGACCATTAC
TTTGGAGGTTGAGAGTTCAGATACCATTGACAAA
Found at i:9707364 original size:26 final size:26
Alignment explanation
Indices: 9707318--9707375 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
9707308 ATAAGAGCCA
*
9707318 TAATCAGGAAGTTCACAAAGAACTTT
1 TAATCAGGAAGTTCACAAAGAACCTT
* *
9707344 TAATCAGGAAGCTT-ACGAAGAGCCTT
1 TAATCAGGAAG-TTCACAAAGAACCTT
9707370 TAATCA
1 TAATCA
9707376 AGAGCTCCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (26 bp):
TAATCAGGAAGTTCACAAAGAACCTT
Found at i:9708495 original size:17 final size:18
Alignment explanation
Indices: 9708465--9708502 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9708455 TGATGATATT
*
9708465 TTTATTTATTTTTTATCA
1 TTTATTTATCTTTTATCA
*
9708483 TTTA-TTATCTTTTATTA
1 TTTATTTATCTTTTATCA
9708500 TTT
1 TTT
9708503 CACTTTCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATCTTTTATCA
Found at i:9711334 original size:41 final size:41
Alignment explanation
Indices: 9711243--9711387 Score: 166
Period size: 41 Copynumber: 3.6 Consensus size: 41
9711233 AAGCTAAGCG
* **** *
9711243 CCTAGCAGGCTAAATGCCGGTGA-ATTTTTCAGACTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * *
9711283 TCTAGCAGGCTAAGTGCCGGTGATCGGAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * * *
9711324 CCTAGCAGGCTACGTGCCGGTGATATGAATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
9711365 CCTAGCAGGCTAAGTGCCGGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
9711388 ATATGTTAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 21 0.24
41 66 0.76
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
Found at i:9719086 original size:41 final size:41
Alignment explanation
Indices: 9718995--9719139 Score: 175
Period size: 41 Copynumber: 3.6 Consensus size: 41
9718985 AAGCTAAGCG
* **** *
9718995 CCTAGCAGGCTAAATGCCGGTGA-ATTTTTCAGACTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * *
9719035 TCTAGCAGGCTAAGTGCCGGTGATCGGAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
* * *
9719076 CCTAGCAGGCTACGTGCCGGTGATATGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
9719117 CCTAGCAGGCTAAGTGCCGGTGA
1 CCTAGCAGGCTAAGTGCCGGTGA
9719140 ATATGTTAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 21 0.24
41 67 0.76
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATAGGAATCAGGCTATAAA
Found at i:9720340 original size:45 final size:45
Alignment explanation
Indices: 9720276--9720365 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9720266 AAAGCTAAAA
*
9720276 CTAAACTAATGTGTGTCTTCCTCCTCCTCAGCCAAATTTGGTTGT
1 CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
9720321 CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
1 CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
9720366 TTTAGGCTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (45 bp):
CTAAACTAATGTGTGTCTTCCTCATCCTCAGCCAAATTTGGTTGT
Found at i:9726173 original size:228 final size:228
Alignment explanation
Indices: 9725776--9726662 Score: 1161
Period size: 228 Copynumber: 3.9 Consensus size: 228
9725766 GACACAACAG
* * * * *
9725776 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
* *
9725841 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * * *
9725906 TCTTCGCCGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
131 TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
9725971 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
196 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * *
9726004 ATGCAGATCTTCGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCTGACAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
* * *
9726069 AATTGATAATGTCAAGGCTAAGATCCAGGATAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * *
9726134 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
131 TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
*
9726199 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
196 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * *
9726232 ATGCAAATATTTGTCAAAACCCTTACTGGCAAGACAATCACCCTTGAAGTAGAAAGCTCCGACAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
*
9726297 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
* * *
9726362 TCTTTGCTGGTAAACAACTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
131 TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCA-AAAGGAGTC
*
9726426 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
195 TACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * * * *
9726460 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTT-GAGGTGGAAAGCTCCGACA
* * * * * * *
9726524 CAATTGATAACGTTAAGGCCAAGATTCAGGAC-AAGGAGGGCATCCCACCTGACCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGG-ATCCCTCCTGACCAACAGAGGCT
* * * * * * * * *
9726587 TAATTTTTGCTGGGAAACAGCTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAG
129 T-ATCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAG
9726652 TCTACCCTCCA
193 TCTACCCTCCA
9726663 TTTGGTGTTG
Statistics
Matches: 578, Mismatches: 76, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
227 14 0.02
228 561 0.97
229 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (228 bp):
ATGCAGATCTTTGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTGGAAAGCTCCGACAC
AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
TCTTTGCCGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:9726694 original size:456 final size:455
Alignment explanation
Indices: 9725776--9726902 Score: 1284
Period size: 456 Copynumber: 2.5 Consensus size: 455
9725766 GACACAACAG
* * * * * * * *
9725776 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAAATATTTGTGAAAACCCTTACTGGAAAGACAATCACCCTTGAAGTAGAAAGCTCCGACAC
*
9725841 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGAAT-CCCCCTGACCAACAGAGGCTTA
* * * *
9725906 TCTTCGCCGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCA-AAAGGAGTC
130 TCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAA-GAGTC
* * *
9725970 CACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTAAAAACCCTTACTGGCA
194 TACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTAAAAACCCTCACTGGAA
* * * *
9726035 AGACAATCACCCTTGAGGTTGAAAGCTCTGACACAATTGATAATGTCAAGGCTAAGATCCAGGAT
259 AAACAATCACCCTTGAGGTGGAAAGCTCTGACACAATTGATAACGTCAAGGCCAAGATCCAGGAT
* * *
9726100 AAAGAAGGGATCCCTCCTGACCAACAGAGGCTTATCTTTGCCGGTAAGCAACTGGAAGATGGTCG
324 AAAGAAGGGATCCCACCTGACCAACAGAGGCTTATCTTTGCCGGGAAACAACTGGAAGATGGTCG
* *
9726165 CACCCTTGCTGACTACAACATTCAAAAAGAGTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTG
389 AACCCTTGCAGACTACAACATTCAAAAAGAGTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTG
9726230 GC
454 GC
* *
9726232 ATGCAAATATTTGTCAAAACCCTTACTGGCAAGACAATCACCCTTGAAGTAGAAAGCTCCGACAC
1 ATGCAAATATTTGTGAAAACCCTTACTGGAAAGACAATCACCCTTGAAGTAGAAAGCTCCGACAC
* *
9726297 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGAATCCC-CCTGACCAACAGAGGCTTA
* * *
9726362 TCTTTGCTGGTAAACAACTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAAGAGTCT
130 TCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGTCT
* * *
9726427 ACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGCATGCAGATCTTTGTAAAAACGCTCACTGGAAA
195 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTAAAAACCCTCACTGGAAA
* * * * * * *
9726492 AACCATCA-CTTTAGAGGTGGAGAGTTCTGATACAATTGATAACGTTAAGGCCAAGATTCAGGA-
260 AACAATCACCCTT-GAGGTGGAAAGCTCTGACACAATTGATAACGTCAAGGCCAAGATCCAGGAT
* * * * * * *
9726555 CAAGGAGGGCATCCCACCTGACCAGCAGAGG-TTAATTTTTGCTGGGAAACAGCTTGAAGATGG-
324 AAAGAAGGG-ATCCCACCTGACCAACAGAGGCTT-ATCTTTGCCGGGAAACAACTGGAAGATGGT
* * *
9726618 CAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCTACCCTCCA-TTTGGTG-TTGCGTCTTC-
387 C-GAACCCTTGCAGACTACAACATTCAAAAAGAGTCTACCCTCCACCTT-GTGCTT-CGTC-TCA
* *
9726680 GTGGTGGT
448 GGGGTGGC
* * * * * * * * * * *
9726688 ATGCAAATTTTTGTGAAGACCCTCACAGGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATA
1 ATGCAAATATTTGTGAAAACCCTTACTGGAAAGACAATCACCCTT-GAAGTAGAAAGCTCCGACA
* * * * * * * * * * *
9726752 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCCCCGGATCAGCAGAGG-TT
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGAA-TCCCCCTGACCAACAGAGGCTT
* * * * * * * *
9726816 GATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACTCTAGCTGACTACAATATCCAGAAGGAGT
129 -ATCTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGT
* * *
9726881 CTACTCTGCATCTTGTCCTTCG
193 CTACCCTCCACCTTGTCCTTCG
9726903 CCTCCGTGGT
Statistics
Matches: 568, Mismatches: 91, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
455 26 0.05
456 533 0.94
457 9 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (455 bp):
ATGCAAATATTTGTGAAAACCCTTACTGGAAAGACAATCACCCTTGAAGTAGAAAGCTCCGACAC
AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGAATCCCCCTGACCAACAGAGGCTTAT
CTTTGCTGGGAAACAGCTGGAGGATGGCCGAACCCTTGCTGACTACAACATCCAGAAAGAGTCTA
CCCTCCACCTTGTCCTTCGTCTCAGGGGTGGCATGCAGATCTTCGTAAAAACCCTCACTGGAAAA
ACAATCACCCTTGAGGTGGAAAGCTCTGACACAATTGATAACGTCAAGGCCAAGATCCAGGATAA
AGAAGGGATCCCACCTGACCAACAGAGGCTTATCTTTGCCGGGAAACAACTGGAAGATGGTCGAA
CCCTTGCAGACTACAACATTCAAAAAGAGTCTACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
Found at i:9726746 original size:228 final size:227
Alignment explanation
Indices: 9725776--9726902 Score: 1120
Period size: 228 Copynumber: 4.9 Consensus size: 227
9725766 GACACAACAG
* * * * * * * * * *
9725776 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTTGAAAGCTCTGACAC
* *
9725841 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGACAAGG-AGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * * * *
9725906 TCTTCGCCGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
130 TCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
9725971 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
195 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * *
9726004 ATGCAGATCTTCGTAAAAACCCTTACTGGCAAGACAATCACCCTTGAGGTTGAAAGCTCTGACAC
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTTGAAAGCTCTGACAC
* * *
9726069 AATTGATAATGTCAAGGCTAAGATCCAGGATAAAGAAGGGATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGA-CAAGGAGGGATCCCTCCTGACCAACAGAGGCTTA
* * * * * *
9726134 TCTTTGCCGGTAAGCAACTGGAAGATGGTCGCACCCTTGCTGACTACAACATTCAAAAAGAGTCT
130 TCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCT
*
9726199 ACCCTCCACCTTGTGCTTCGTCTCAGGGGTGGC
195 ACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * *
9726232 ATGCAAATATTTGTCAAAACCCTTACTGGCAAGACAATCACCCTTGAAGTAGAAAGCTCCGACAC
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTTGAAAGCTCTGACAC
* * *
9726297 AATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTTA
66 AATTGATAATGTCAAGGCCAAGATCCAGGAC-AAGGAGGGATCCCTCCTGACCAACAGAGGCTTA
* *
9726362 TCTTTGCTGGTAAACAACTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAGTC
130 TCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCA-AAAGGAGTC
*
9726426 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGC
194 TACCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
* * * * * * * * * *
9726460 ATGCAGATCTTTGTAAAAACGCTCACTGGAAAAACCATCA-CTTTAGAGGTGGAGAGTTCTGATA
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTT-GAAGTTGAAAGCTCTGACA
* * * * *
9726524 CAATTGATAACGTTAAGGCCAAGATTCAGGACAAGGAGGGCATCCCACCTGACCAGCAGAGG-TT
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAGGG-ATCCCTCCTGACCAACAGAGGCTT
* * * * * * * *
9726588 AATTTTTGCTGGGAAACAGCTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGT
129 -ATCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGT
* * * *
9726653 CTACCCTCCA-TTTGGT-GTTGCGTCTTC-GTGGTGGT
193 CTACCCTCCACCTT-GTCCTT-CGTC-TCAGGGGTGGC
* * * * * * * * *
9726688 ATGCAAATTTTTGTGAAGACCCTCACAGGAAAGACTATTA-CCTTGGAAGTTGAGAGTTCTGATA
1 ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTT-GAAGTTGAAAGCTCTGACA
* * * * * * * * *
9726752 CGATTGACAATGTAAAAGCAAAGATTCAGGACAAGGAGGGAATTCCC-CCGGATCAGCAGAGG-T
65 CAATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAGGG-A-TCCCTCCTGACCAACAGAGGCT
* ** * * * * * * * *
9726815 TGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCGAACTCTAGCTGACTACAATATCCAGAAGGAG
128 T-ATCTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAG
* * *
9726880 TCTACTCTGCATCTTGTCCTTCG
192 TCTACCCTCCACCTTGTCCTTCG
9726903 CCTCCGTGGT
Statistics
Matches: 763, Mismatches: 123, Indels: 26
0.84 0.13 0.03
Matches are distributed among these distances:
227 18 0.02
228 730 0.96
229 15 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (227 bp):
ATGCAAATCTTTGTAAAAACCCTCACTGGAAAGACAATCACCCTTGAAGTTGAAAGCTCTGACAC
AATTGATAATGTCAAGGCCAAGATCCAGGACAAGGAGGGATCCCTCCTGACCAACAGAGGCTTAT
CTTTGCTGGGAAACAACTGGAAGATGGCCGCACCCTTGCTGACTACAACATCCAAAAGGAGTCTA
CCCTCCACCTTGTCCTTCGTCTCAGGGGTGGC
Found at i:9727071 original size:43 final size:43
Alignment explanation
Indices: 9727010--9727097 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
9727000 CAAAACCTTC
*
9727010 TATTAGTTGAAGGTCCTTGTGTTTTTTATTTTTAAGGTAATGA
1 TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
9727053 TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
1 TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
9727096 TA
1 TA
9727098 CTTTGGTGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.05, G:0.19, T:0.51
Consensus pattern (43 bp):
TATTAGTTGAAGATCCTTGTGTTTTTTATTTTTAAGGTAATGA
Found at i:9728786 original size:9 final size:9
Alignment explanation
Indices: 9728772--9728803 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9728762 CCATTTGTTC
9728772 TTGCATCTG
1 TTGCATCTG
9728781 TTGCATCTG
1 TTGCATCTG
9728790 TTGCATC-G
1 TTGCATCTG
9728798 TTGCAT
1 TTGCAT
9728804 GTCTTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (9 bp):
TTGCATCTG
Found at i:9730190 original size:30 final size:30
Alignment explanation
Indices: 9730149--9730207 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
9730139 ACTTAACAAG
9730149 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
9730179 CAAATGTCTCTAAAATAATAACAAAATTA
1 CAAATGCCTCTAAAATAATAACAAAATTA
9730208 TCAATAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:9732723 original size:3 final size:3
Alignment explanation
Indices: 9732715--9732765 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
9732705 ATAAATTTGA
* * * *
9732715 TAT TAT TAT GAT TAT GAT TAT TAT TAT TAT TAT CAT TAG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9732763 TAT
1 TAT
9732766 ATTTCTATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9732736 original size:18 final size:18
Alignment explanation
Indices: 9732715--9732765 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
9732705 ATAAATTTGA
* *
9732715 TATTATTATGATTATGAT
1 TATTATTATTATTATCAT
9732733 TATTATTATTATTATCAT
1 TATTATTATTATTATCAT
*
9732751 TAGTATTATTATTAT
1 TATTATTATTATTAT
9732766 ATTTCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTATCAT
Found at i:9737492 original size:14 final size:14
Alignment explanation
Indices: 9737473--9737502 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9737463 AATTCGAATT
9737473 TCGAGTTAATCGAA
1 TCGAGTTAATCGAA
*
9737487 TCGAGTTATTCGAA
1 TCGAGTTAATCGAA
9737501 TC
1 TC
9737503 AACTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (14 bp):
TCGAGTTAATCGAA
Found at i:9737567 original size:9 final size:9
Alignment explanation
Indices: 9737553--9737580 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9737543 TGAGTTTTCA
9737553 AATTCGAAT
1 AATTCGAAT
9737562 AATTCGAAT
1 AATTCGAAT
9737571 AATTCGAAT
1 AATTCGAAT
9737580 A
1 A
9737581 TCAAACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9739704 original size:19 final size:19
Alignment explanation
Indices: 9739680--9739716 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9739670 AAATTCCTTA
9739680 TTCCA-TTCGCCAACTAACT
1 TTCCATTTC-CCAACTAACT
9739699 TTCCATTTCCCAACTAAC
1 TTCCATTTCCCAACTAAC
9739717 ATGTAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.27, C:0.38, G:0.03, T:0.32
Consensus pattern (19 bp):
TTCCATTTCCCAACTAACT
Done.