Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 65 of 199
Found at i:24701558 original size:21 final size:21
Alignment explanation
Indices: 24701532--24701630 Score: 121
Period size: 21 Copynumber: 4.8 Consensus size: 21
24701522 TGAATACACC
*
24701532 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
24701553 AACAGAAGCTTG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTA
*
24701572 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * *
24701593 AACAGAAACTCATAAGAGTTA
1 AACAGAAGCTCGTAAGAGCTA
*
24701614 AACAGAAGCTCATAAGA
1 AACAGAAGCTCGTAAGA
24701631 ATTGAACAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 14 0.21
20 4 0.06
21 49 0.73
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:24705517 original size:19 final size:19
Alignment explanation
Indices: 24705493--24705562 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
24705483 TACGATTATG
*
24705493 GAAATGTTAGATTATGGGT
1 GAAATGTAAGATTATGGGT
*
24705512 GAAATGTAAGATTAT--TT
1 GAAATGTAAGATTATGGGT
*
24705529 GAAATGTTAGATTATGGGT
1 GAAATGTAAGATTATGGGT
24705548 GAAATGTAAGATTAT
1 GAAATGTAAGATTAT
24705563 TTTGTTTGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
17 15 0.34
19 29 0.66
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (19 bp):
GAAATGTAAGATTATGGGT
Found at i:24705533 original size:17 final size:17
Alignment explanation
Indices: 24705511--24705564 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
24705501 AGATTATGGG
24705511 TGAAATGTAAGATTATT
1 TGAAATGTAAGATTATT
* *
24705528 TGAAATGTTAGATTATGGG
1 TGAAATGTAAGATTAT--T
24705547 TGAAATGTAAGATTATT
1 TGAAATGTAAGATTATT
24705564 T
1 T
24705565 TGTTTGGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 16 0.52
19 15 0.48
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (17 bp):
TGAAATGTAAGATTATT
Found at i:24705536 original size:36 final size:36
Alignment explanation
Indices: 24705493--24705564 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
24705483 TACGATTATG
24705493 GAAATGTTAGATTATGGGTGAAATGTAAGATTATTT
1 GAAATGTTAGATTATGGGTGAAATGTAAGATTATTT
24705529 GAAATGTTAGATTATGGGTGAAATGTAAGATTATTT
1 GAAATGTTAGATTATGGGTGAAATGTAAGATTATTT
24705565 TGTTTGGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (36 bp):
GAAATGTTAGATTATGGGTGAAATGTAAGATTATTT
Found at i:24710701 original size:17 final size:16
Alignment explanation
Indices: 24710650--24710695 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
24710640 AATAAATATA
*
24710650 TTTATTTTTAAAATTT
1 TTTAATTTTAAAATTT
24710666 TTTAATTTTAAAATTT
1 TTTAATTTTAAAATTT
24710682 TTTAATTTTAAAAT
1 TTTAATTTTAAAAT
24710696 ACTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAATTTTAAAATTT
Found at i:24710740 original size:11 final size:11
Alignment explanation
Indices: 24710720--24710753 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
24710710 TTAAAAAATA
24710720 AAAATATTTTT
1 AAAATATTTTT
*
24710731 AAAATGTTTTT
1 AAAATATTTTT
24710742 AAAATACTTTTT
1 AAAATA-TTTTT
24710754 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:24720337 original size:21 final size:21
Alignment explanation
Indices: 24720311--24720351 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24720301 ATCTGCTCAA
* *
24720311 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
24720332 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
24720352 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:24729842 original size:39 final size:37
Alignment explanation
Indices: 24729775--24729867 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
24729765 ACCAGAATGG
* *
24729775 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
24729814 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
24729851 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
24729868 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:24730062 original size:24 final size:26
Alignment explanation
Indices: 24730011--24730071 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
24730001 ACATATATTC
24730011 TCAATTCAATCACACTTTTTCACACTT
1 TCAATTCAAT-ACACTTTTTCACACTT
24730038 TCAATTCAAT-CA-TTTTTC-CACCTT
1 TCAATTCAATACACTTTTTCACA-CTT
24730062 TCAA-TCAATA
1 TCAATTCAATA
24730072 ATTAATCCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.22
24 13 0.41
25 2 0.06
27 10 0.31
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (26 bp):
TCAATTCAATACACTTTTTCACACTT
Found at i:24730264 original size:18 final size:18
Alignment explanation
Indices: 24730222--24730265 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
24730212 ATTCCCACTC
*
24730222 ATAATAATAATACTAATA
1 ATAATACTAATACTAATA
24730240 ATAATACTAATACTAATA
1 ATAATACTAATACTAATA
*
24730258 TTAATACT
1 ATAATACT
24730266 TACCTCACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATACTAATACTAATA
Found at i:24730265 original size:12 final size:12
Alignment explanation
Indices: 24730223--24730263 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
24730213 TTCCCACTCA
24730223 TAATAATAATAC
1 TAATAATAATAC
24730235 TAATAATAATAC
1 TAATAATAATAC
* *
24730247 TAATACTAATAT
1 TAATAATAATAC
24730259 TAATA
1 TAATA
24730264 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:24730990 original size:16 final size:16
Alignment explanation
Indices: 24730971--24731005 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24730961 TTCTTTGTTC
24730971 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
* *
24730987 TTTCTGTTTTGTTTCT
1 TTTCTATTCTGTTTCT
24731003 TTT
1 TTT
24731006 ATATATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:24731079 original size:28 final size:29
Alignment explanation
Indices: 24731008--24731071 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
24730998 TTTCTTTTAT
*
24731008 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
24731039 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
24731067 ATATA
1 ATATA
24731072 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:24736028 original size:21 final size:21
Alignment explanation
Indices: 24735986--24736028 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24735976 TTCACTATAC
*
24735986 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
24736007 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
24736028 A
1 A
24736029 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:24736391 original size:17 final size:17
Alignment explanation
Indices: 24736369--24736407 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
24736359 TATTTTTCAT
24736369 AAACCCCCTGCAAATTA
1 AAACCCCCTGCAAATTA
24736386 AAACCCCCTGCAAATTA
1 AAACCCCCTGCAAATTA
24736403 AAACC
1 AAACC
24736408 ATATAGTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.36, G:0.05, T:0.15
Consensus pattern (17 bp):
AAACCCCCTGCAAATTA
Found at i:24737155 original size:39 final size:37
Alignment explanation
Indices: 24737088--24737180 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
24737078 ACCAGAATGG
* *
24737088 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
24737127 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
24737164 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
24737181 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:24737375 original size:24 final size:26
Alignment explanation
Indices: 24737324--24737384 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
24737314 ACATATATTC
24737324 TCAATTCAATCACACTTTTTCACACTT
1 TCAATTCAAT-ACACTTTTTCACACTT
24737351 TCAATTCAAT-CA-TTTTTC-CACCTT
1 TCAATTCAATACACTTTTTCACA-CTT
24737375 TCAA-TCAATA
1 TCAATTCAATA
24737385 ATTAATCCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.22
24 13 0.41
25 2 0.06
27 10 0.31
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (26 bp):
TCAATTCAATACACTTTTTCACACTT
Found at i:24737567 original size:18 final size:18
Alignment explanation
Indices: 24737536--24737580 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
24737526 ATTCCCACTC
24737536 ATAAT-ATA-TAATACTA
1 ATAATAATACTAATACTA
24737552 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
24737570 ATATTAATACT
1 ATAATAATACT
24737581 TACCTCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 5 0.19
17 3 0.12
18 18 0.69
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:24737580 original size:12 final size:12
Alignment explanation
Indices: 24737537--24737578 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
24737527 TTCCCACTCA
24737537 TAATATATAATAC
1 TAATA-ATAATAC
24737550 TAATAATAATAC
1 TAATAATAATAC
* *
24737562 TAATACTAATAT
1 TAATAATAATAC
24737574 TAATA
1 TAATA
24737579 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:24738313 original size:16 final size:16
Alignment explanation
Indices: 24738277--24738319 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
24738267 ATTCTGTTTC
24738277 TTTTG-TTC-TTTCTA
1 TTTTGTTTCTTTTCTA
* *
24738291 TTCTGTTTCTTTTCTG
1 TTTTGTTTCTTTTCTA
24738307 TTTTGTTTCTTTT
1 TTTTGTTTCTTTT
24738320 ATATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.17
15 3 0.12
16 17 0.71
ACGTcount: A:0.02, C:0.14, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTTGTTTCTTTTCTA
Found at i:24738393 original size:28 final size:29
Alignment explanation
Indices: 24738322--24738385 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
24738312 TTTCTTTTAT
*
24738322 ATATAATAATATAATATTTATAATGTAATTA
1 ATATAATAATAT-A-CTTTATAATGTAATTA
* *
24738353 ATTTAATAATATACTTTATAAT-TAATTT
1 ATATAATAATATACTTTATAATGTAATTA
24738381 ATATA
1 ATATA
24738386 TTTATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 1 0.03
31 11 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATAATATACTTTATAATGTAATTA
Found at i:24739862 original size:9 final size:8
Alignment explanation
Indices: 24739833--24739863 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
24739823 CAACATTTAA
24739833 TTAAAATT
1 TTAAAATT
24739841 TTAAAATT
1 TTAAAATT
24739849 TTAAAATAT
1 TTAAAAT-T
24739858 TTAAAA
1 TTAAAA
24739864 ACGCTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATT
Found at i:24740687 original size:28 final size:26
Alignment explanation
Indices: 24740645--24740742 Score: 74
Period size: 28 Copynumber: 3.6 Consensus size: 26
24740635 ATATGTCACG
* *
24740645 TTAACAAATAATTAAAATTTTTAAAAAA
1 TTAA-AAATTATT-AAATTTTAAAAAAA
24740673 TTCAAAAATTATT-AATTTTAACAAAAA
1 TT-AAAAATTATTAAATTTTAA-AAAAA
* *
24740700 TAAAAAAAGTTATTACA-TTTAAAAAAA
1 T-TAAAAA-TTATTAAATTTTAAAAAAA
*
24740727 TTTAAAATTATATAAA
1 TTAAAAATTAT-TAAA
24740743 ATTATTTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
25 4 0.07
26 14 0.25
27 17 0.30
28 19 0.33
29 3 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (26 bp):
TTAAAAATTATTAAATTTTAAAAAAA
Found at i:24740733 original size:27 final size:26
Alignment explanation
Indices: 24740660--24740737 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
24740650 AAATAATTAA
* *
24740660 AATTTTTAAAAAATTCAAAAATTATT
1 AATTTTAAAAAAATTAAAAAATTATT
*
24740686 AATTTTAACAAAAATAAAAAAAGTTATT
1 AATTTTAA-AAAAATTAAAAAA-TTATT
*
24740714 ACA-TTTAAAAAAATT-TAAAATTAT
1 A-ATTTTAAAAAAATTAAAAAATTAT
24740738 ATAAAATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.09
26 11 0.25
27 17 0.39
28 11 0.25
29 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (26 bp):
AATTTTAAAAAAATTAAAAAATTATT
Found at i:24741656 original size:21 final size:22
Alignment explanation
Indices: 24741617--24741665 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
24741607 TCCTATTTAG
* * *
24741617 TATATTTTAAATTCTAATATAC
1 TATATTTAAAATTCAAATAAAC
*
24741639 TATATTTAAAATT-AAATAAAT
1 TATATTTAAAATTCAAATAAAC
24741660 TATATT
1 TATATT
24741666 AGTATCATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATTTAAAATTCAAATAAAC
Found at i:24743005 original size:16 final size:16
Alignment explanation
Indices: 24742984--24743025 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
24742974 TACTTCACTT
24742984 GAAAAAGAAACGAAA-C
1 GAAAAAGAAAC-AAATC
*
24743000 GAAAAAAAAACAAATC
1 GAAAAAGAAACAAATC
24743016 GAAAAAGAAA
1 GAAAAAGAAA
24743026 AAGAAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.74, C:0.10, G:0.14, T:0.02
Consensus pattern (16 bp):
GAAAAAGAAACAAATC
Found at i:24744009 original size:44 final size:44
Alignment explanation
Indices: 24743961--24744151 Score: 179
Period size: 44 Copynumber: 4.3 Consensus size: 44
24743951 GTATTGGCGT
* * * * *
24743961 GAAGTAGATCGAATATAGCAGGTCATGTCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATACTGGTAGC
* * *
24744005 GAAGTGGATCGAAGATGCAAATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGC
* ** *** * *
24744049 GAAGTAGATCGAAAAAAACAGATCTTGTCTTCATGTATTGATAG-
1 GAAGTAGATCG-AAGATGCAGATCTTGTCTTCCCATACTGGTAGC
* * *
24744093 GAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGC
24744137 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
24744152 AAATAGATCT
Statistics
Matches: 112, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
43 44 0.39
44 46 0.41
45 22 0.20
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGC
Found at i:24744161 original size:88 final size:88
Alignment explanation
Indices: 24743961--24744162 Score: 296
Period size: 88 Copynumber: 2.3 Consensus size: 88
24743951 GTATTGGCGT
* * * * * * * *
24743961 GAAGTAGATCGAATATAGCAGGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAAA
1 GAAGTAGATCGAAAAAAACAGATCTTGTCTTCATATATTGATAGGAAGTGGATCAAAGATGCAAA
24744026 TCTTGTCTTCCCATACTGGTGGC
66 TCTTGTCTTCCCATACTGGTGGC
* *
24744049 GAAGTAGATCGAAAAAAACAGATCTTGTCTTCATGTATTGATAGGAAGTGGATCAAAGATGCAGA
1 GAAGTAGATCGAAAAAAACAGATCTTGTCTTCATATATTGATAGGAAGTGGATCAAAGATGCAAA
24744114 TCTTGTCTTCCCATACTGGTGGC
66 TCTTGTCTTCCCATACTGGTGGC
* *
24744137 GAAGTAGATCGAAGAAAATAGATCTT
1 GAAGTAGATCGAAAAAAACAGATCTT
24744163 ATCTCTCTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 102 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (88 bp):
GAAGTAGATCGAAAAAAACAGATCTTGTCTTCATATATTGATAGGAAGTGGATCAAAGATGCAAA
TCTTGTCTTCCCATACTGGTGGC
Found at i:24744309 original size:50 final size:50
Alignment explanation
Indices: 24744246--24744707 Score: 243
Period size: 50 Copynumber: 9.2 Consensus size: 50
24744236 GCTACGACGA
* * *
24744246 CGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTGAAGCCGCAACGG
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
* * * * * ** * ** *
24744296 CGAATCTTACTTCCCTGGCAGTACAGTGGAACTGATTAAAGCTACAACAG
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
* * ** * **
24744346 TGAATCTTGCTTCCCCAACATTGCAATTTAAAAGATTGAAGCCGCAACAA
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
* **** *** * ** * **
24744396 CGAATCTTACTTCCTTGGTGGTGCAGCGGGACTGATTAAAGCTACAACGG
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
* * * *
24744446 TGAATCTTACTTTCCC-GATATTGCAATTTAAAAGATTGAAGCCGCAATGG
1 CGAATCTTAC-TTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
* * * * ** * * **
24744496 CGAATCTTACTTCCATGGCGA-TGCAGTGGAGCATATTAAAGCTACAACGG
1 CGAATCTTACTTCCCTGAC-ATTGCAATTGAAAAGATTGAAGCCGCAACGG
* * * *
24744546 TGAATCTTGCTTCCCTGACATTGCAATTAAAAAGATTGAAGCCGCAATGG
1 CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
* * * * * **
24744596 CGAATCTTACTTCCCT-AGCGA-TACAGTGGAGCAA-ATTAAAGCTACAACGG
1 CGAATCTTACTTCCCTGA-C-ATTGCAATTGA-AAAGATTGAAGCCGCAACGG
* * * **
24744646 CGAATCTTGCTT-CCTCGACATTGTAATTTAAAAGATTGAAGCCGCAACAA
1 CGAATCTTACTTCCCT-GACATTGCAATTGAAAAGATTGAAGCCGCAACGG
24744696 CGAATCTTACTT
1 CGAATCTTACTT
24744708 ACTTGGTGGT
Statistics
Matches: 282, Mismatches: 119, Indels: 22
0.67 0.28 0.05
Matches are distributed among these distances:
49 12 0.04
50 261 0.93
51 9 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (50 bp):
CGAATCTTACTTCCCTGACATTGCAATTGAAAAGATTGAAGCCGCAACGG
Found at i:24744782 original size:100 final size:100
Alignment explanation
Indices: 24744210--24744770 Score: 683
Period size: 100 Copynumber: 5.6 Consensus size: 100
24744200 CCTTATCTCT
* * * * * * *
24744210 CTGGCGGTACAGTGGAGCAGATTAAAGCTACGACGACGAATCTTGCTTCCCTGATATTGCAATTT
1 CTGGCGGTGCAGTGGAACTGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTT
24744275 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
66 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
* * * * *
24744310 CTGGCAGTACAGTGGAACTGATTAAAGCTACAACAGTGAATCTTGCTTCCCCAACATTGCAATTT
1 CTGGCGGTGCAGTGGAACTGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTT
**
24744375 AAAAGATTGAAGCCGCAACAACGAATCTTACTTCC
66 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
* * * * * * * *
24744410 TTGGTGGTGCAGCGGGACTGATTAAAGCTACAACGGTGAATCTTACTTTCCCGATATTGCAATTT
1 CTGGCGGTGCAGTGGAACTGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTT
*
24744475 AAAAGATTGAAGCCGCAATGGCGAATCTTACTTCC
66 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
* * * * *
24744510 ATGGCGATGCAGTGGAGCAT-ATTAAAGCTACAACGGTGAATCTTGCTTCCCTGACATTGCAATT
1 CTGGCGGTGCAGTGGAAC-TGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATT
* *
24744574 AAAAAGATTGAAGCCGCAATGGCGAATCTTACTTCC
65 TAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
* * * * ** * *
24744610 CTAGCGATACAGTGGAGCAAATTAAAGCTACAACGGCGAATCTTGCTTCCTCGACATTGTAATTT
1 CTGGCGGTGCAGTGGAACTGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTT
** *
24744675 AAAAGATTGAAGCCGCAACAACGAATCTTACTTAC
66 AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
* * * ** *
24744710 TTGGTGGTGCAGCGGAACTGATTAAAGCTACAACAACGAATCTTGCTTCCCCGACAATGCA
1 CTGGCGGTGCAGTGGAACTGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
24744771 GTTAATCAGA
Statistics
Matches: 395, Mismatches: 64, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
100 394 1.00
101 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (100 bp):
CTGGCGGTGCAGTGGAACTGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTT
AAAAGATTGAAGCCGCAACGGCGAATCTTACTTCC
Found at i:24744838 original size:40 final size:40
Alignment explanation
Indices: 24744794--24745250 Score: 312
Period size: 40 Copynumber: 10.9 Consensus size: 40
24744784 AAACCACAGA
**
24744794 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* *
24744834 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAAT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-----AAATCAAG
** * ** *
24744878 TC-TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATCA-AG
*
24744920 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
*
24744961 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAAAATACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---AAAT--CAAG
* ** * * * * *
24745005 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATCA-AG
**
24745048 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
* *
24745089 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACTGAAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-T----CAAATCAAG
* ** * * * * *
24745133 TCCTATCTCCCTAAAGTTGCAGTGGAACGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCAAATCA-AG
* * * *
24745176 ATCTTACCTCTCTAAGCAGTAGTGGAGCATATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
24745217 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAA
24745251 AGAAACCAAT
Statistics
Matches: 320, Mismatches: 67, Indels: 61
0.71 0.15 0.14
Matches are distributed among these distances:
39 4 0.01
40 118 0.37
41 21 0.07
42 18 0.06
43 55 0.17
44 70 0.22
45 34 0.11
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAATCAAG
Found at i:24745079 original size:128 final size:127
Alignment explanation
Indices: 24744779--24745298 Score: 898
Period size: 128 Copynumber: 4.1 Consensus size: 127
24744769 CAGTTAATCA
*
24744779 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
1 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
* *
24744844 CTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATTCTATCTCCCTGAAGTTGCAGTGGAGTG
66 CTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
*
24744906 GATTAAAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
1 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
* *
24744971 CTAAGCAGTAGTGGAGCAGACCGAAAAATACCAATCCTATCTCCCTGAAGTTGCAGTAGAGCG
66 CTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
*
24745034 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
1 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
* *
24745099 CTAAGCAGTAGTGGAGCAGACTGAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAACG
66 CTAAGCAGTAGTGGAGCAGAC-GAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
* * *
24745162 GATTAAAACCACAGATCTTACCTCTCTAAGCAGTAGTGGAGCATATCACATCAAGTCTTATCTCC
1 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
24745227 CTAAGCAGTAGTGGAGCAGAC-AAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
66 CTAAGCAGTAGTGGAGCAGACGAAAA-AAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
24745289 GATTAAAACC
1 GATTAAAACC
24745299 CAATCTCATC
Statistics
Matches: 372, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
126 4 0.01
127 128 0.34
128 240 0.65
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (127 bp):
GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCC
CTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
Found at i:24745261 original size:255 final size:255
Alignment explanation
Indices: 24744779--24745298 Score: 918
Period size: 255 Copynumber: 2.0 Consensus size: 255
24744769 CAGTTAATCA
24744779 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
1 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
* * **
24744844 CTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATTCTATCTCCCTGAAGTTGCAGTGGAGTGGAT
66 CTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAACGGAT
* *
24744909 TAAAATCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
131 TAAAACCACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
*
24744974 AGCAGTAGTGGAGCAGACCGAAAAATACCAATCCTATCTCCCTGAAGTTGCAGTAGAGCG
196 AGCAGTAGTGGAGCAGACCGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTAGAGCG
24745034 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
1 GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
24745099 CTAAGCAGTAGTGGAGCAGACTGAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAACGGA
66 CTAAGCAGTAGTGGAGCAGAC-GAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAACGGA
* *
24745164 TTAAAACCACAGATCTTACCTCTCTAAGCAGTAGTGGAGCATATCACATCAAGTCTTATCTCCCT
130 TTAAAACCACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCT
*
24745229 AAGCAGTAGTGGAGCAGA-C-AAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCG
195 AAGCAGTAGTGGAGCAGACCGAAAA-AAACCAATCCTATCTCCCTGAAGTTGCAGTAGAGCG
24745289 GATTAAAACC
1 GATTAAAACC
24745299 CAATCTCATC
Statistics
Matches: 253, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
254 4 0.02
255 131 0.52
256 118 0.47
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (255 bp):
GATTAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCC
CTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAACGGAT
TAAAACCACAGATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTA
AGCAGTAGTGGAGCAGACCGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAGTAGAGCG
Found at i:24751955 original size:4 final size:4
Alignment explanation
Indices: 24751946--24751974 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
24751936 AGGTGCTTGC
24751946 CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
24751975 ATCGACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:24757429 original size:15 final size:16
Alignment explanation
Indices: 24757383--24757435 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
24757373 GAGATATTAA
24757383 ATCTAATTTAATATTT
1 ATCTAATTTAATATTT
24757399 ATCTAGA--TAATA-TT
1 ATCTA-ATTTAATATTT
24757413 AT-TAATTTAATATTT
1 ATCTAATTTAATATTT
*
24757428 ATGTAATT
1 ATCTAATT
24757436 AATTCTAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 1 0.03
13 2 0.06
14 9 0.28
15 9 0.28
16 10 0.31
17 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (16 bp):
ATCTAATTTAATATTT
Found at i:24759112 original size:23 final size:23
Alignment explanation
Indices: 24759063--24759112 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
24759053 CCTTCCGCTT
* * *
24759063 GTAATATCCTGAAAATTACAACT
1 GTAATACCCCGAAAATTACAACA
*
24759086 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACAACA
24759109 GTAA
1 GTAA
24759113 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACAACA
Found at i:24781481 original size:167 final size:168
Alignment explanation
Indices: 24781181--24781483 Score: 464
Period size: 167 Copynumber: 1.8 Consensus size: 168
24781171 ATAGATAATC
* * * * *
24781181 AAGAAAAGTTGTTCAGTATTCATCACTGATTCATTTCAGCTATCTAATGAAGTTCCAGTTCCAAC
1 AAGAAAAGCTGTTCAATATTCATCAATGATTCATTTCAGCAATCTAATGAAGTTCCAATTCCAAC
* * *
24781246 ACAGATGAATGAATGATTGTCTAATTAACAGGTGCTAGTTCAAGAACAATGACTTCCAATTATTA
66 ACAGATCAATGAATGATTGTCTAATTAACAGCTGCTAGTTCAAGAACAATAACTTCCAATTATTA
24781311 CCCAATATTTAACGTTTCATTTCAGCAATTTGTAAATA
131 CCCAATATTTAACGTTTCATTTCAGCAATTTGTAAATA
* * *
24781349 AAGAAAA-CTGTTCAATATTCATCAATGTTTCATTTCAGCAATTTAATGAAGTTCCAATTCCAAT
1 AAGAAAAGCTGTTCAATATTCATCAATGATTCATTTCAGCAATCTAATGAAGTTCCAATTCCAAC
* * * *
24781413 ACAGATCAATGAATGATTGTGTAATTAACAGCTGCTAGTTCAAGAACAATAACTTTCATTTTTTA
66 ACAGATCAATGAATGATTGTCTAATTAACAGCTGCTAGTTCAAGAACAATAACTTCCAATTATTA
24781478 CCCAAT
131 CCCAAT
24781484 CTTTCAAGCA
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
167 113 0.94
168 7 0.06
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (168 bp):
AAGAAAAGCTGTTCAATATTCATCAATGATTCATTTCAGCAATCTAATGAAGTTCCAATTCCAAC
ACAGATCAATGAATGATTGTCTAATTAACAGCTGCTAGTTCAAGAACAATAACTTCCAATTATTA
CCCAATATTTAACGTTTCATTTCAGCAATTTGTAAATA
Found at i:24782305 original size:59 final size:62
Alignment explanation
Indices: 24782225--24782361 Score: 135
Period size: 63 Copynumber: 2.2 Consensus size: 62
24782215 AAAATATAAA
* *
24782225 AAATAATTTATTATAACTTA-TTGTT-AATATT-TT-AATATATAATATTA-ATTTTAAATATTT
1 AAATAATTAATTATAACTTATTTATTAAAT-TTATTAAATATATAA-ATTATA-TTTAAATATTT
24782285 AAATAATTAA-TATTAA-TTATTTATTAAATTTAATTAGAATATATAAATTATATTTAAATATTT
1 AAATAATTAATTA-TAACTTATTTATTAAATTT-ATTA-AATATATAAATTATATTTAAATATTT
*
24782348 AAATATAATAATTA
1 AAATA-ATTAATTA
24782362 AATATTTGTA
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
59 5 0.08
60 18 0.28
61 3 0.05
62 2 0.03
63 20 0.31
64 14 0.22
65 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (62 bp):
AAATAATTAATTATAACTTATTTATTAAATTTATTAAATATATAAATTATATTTAAATATTT
Found at i:24782333 original size:19 final size:18
Alignment explanation
Indices: 24782283--24782366 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 18
24782273 TTTTAAATAT
*
24782283 TTAAATA-ATTAATATTAA
1 TTAAATATATAAAT-TTAA
**
24782301 TTATTTAT-TAAATTTAA
1 TTAAATATATAAATTTAA
*
24782318 TTAGAATATATAAATTATAT
1 TTA-AATATATAAATT-TAA
*
24782338 TTAAATATTTAAATATAATAA
1 TTAAATATATAAAT-T--TAA
24782359 TTAAATAT
1 TTAAATAT
24782367 TTGTAATTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
17 7 0.13
18 12 0.23
19 16 0.31
20 6 0.12
21 11 0.21
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TTAAATATATAAATTTAA
Found at i:24782360 original size:27 final size:26
Alignment explanation
Indices: 24782279--24782361 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 26
24782269 TTAATTTTAA
24782279 ATATTTAAATAATT-AATAT-TAATT
1 ATATTTAAATAATTAAATATATAATT
*
24782303 ATTTATTAAATTTAATTAGAATATATAAATT
1 ATAT-TTAAA--TAATTA-AATATAT-AATT
*
24782334 ATATTTAAATATTTAAATATAATAATT
1 ATATTTAAATAATTAAATAT-ATAATT
24782361 A
1 A
24782362 AATATTTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
24 3 0.06
25 5 0.10
27 15 0.31
28 7 0.15
29 5 0.10
30 6 0.12
31 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
ATATTTAAATAATTAAATATATAATT
Found at i:24783868 original size:71 final size:71
Alignment explanation
Indices: 24783784--24783967 Score: 359
Period size: 71 Copynumber: 2.6 Consensus size: 71
24783774 GGCGAGCAAA
*
24783784 CAATTAAACTTCAAAACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
1 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
24783849 TTCCAG
66 TTCCAG
24783855 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
1 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
24783920 TTCCAG
66 TTCCAG
24783926 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAG
1 CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAG
24783968 GTTTTCACAA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 112 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (71 bp):
CAATTAAACTTCAAGACACGTACTAGATAATTCTGTGATAAGTTTAATACTTCTAGATCCAAATA
TTCCAG
Found at i:24784506 original size:4 final size:4
Alignment explanation
Indices: 24784497--24784842 Score: 496
Period size: 4 Copynumber: 86.5 Consensus size: 4
24784487 TTAGCTTTCA
* * * *
24784497 ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATTT ATGT ATGG ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
24784545 ATGT ATGG ATGT ATGT ATGG ATGT ATGT ATGT ATGG ATGG ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
24784593 ATGT ATGT ATGT ATGG ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
24784641 ATGT ATGT ATGT ATGT ATGT ATGG ATGT ATGT ATGT ATGT ATGG ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
24784689 ATGG ATGT ATGG ATGT ATGT ATGT ATGG ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
24784737 ATGT ATGC ATGT ATAG- ATGC ATGT ATGT ATGC ATGT ATGT ATGT ATGG
1 ATGT ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24784785 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
24784833 ATGT ATGT AT
1 ATGT ATGT AT
24784843 AAGACTCTGT
Statistics
Matches: 307, Mismatches: 33, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
3 1 0.00
4 305 0.99
5 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:24786534 original size:25 final size:25
Alignment explanation
Indices: 24786498--24786559 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
24786488 ATGGTGGAGA
* *
24786498 AGAGGAACAAAGAACCGGCACAGGGC
1 AGAGG-ACAAAGAACCAGCACAGGAC
*
24786524 AGAGGACAAAGAACCAGCAGAGGAC
1 AGAGGACAAAGAACCAGCACAGGAC
24786549 AGA--ACAAAGAA
1 AGAGGACAAAGAA
24786560 TCAGTAGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.24
25 20 0.61
26 5 0.15
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (25 bp):
AGAGGACAAAGAACCAGCACAGGAC
Found at i:24786559 original size:23 final size:23
Alignment explanation
Indices: 24786502--24786569 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
24786492 TGGAGAAGAG
* * *
24786502 GAACAAAGAACCGGCACAGGGCA
1 GAACAAAGAACCAGCAGAGGACA
24786525 GAGGACAAAGAACCAGCAGAGGACA
1 GA--ACAAAGAACCAGCAGAGGACA
* *
24786550 GAACAAAGAATCAGTAGAGG
1 GAACAAAGAACCAGCAGAGG
24786570 GTAGAGATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 18 0.47
25 20 0.53
ACGTcount: A:0.47, C:0.19, G:0.31, T:0.03
Consensus pattern (23 bp):
GAACAAAGAACCAGCAGAGGACA
Found at i:24786686 original size:14 final size:15
Alignment explanation
Indices: 24786660--24786688 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24786650 TATTAAGATC
24786660 ATTTTTAATAATATA
1 ATTTTTAATAATATA
24786675 ATTTTTAA-AATATA
1 ATTTTTAATAATATA
24786689 TATTACCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTTAATAATATA
Found at i:24790357 original size:42 final size:42
Alignment explanation
Indices: 24790287--24790423 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 42
24790277 CCGAAGGCTG
* ** * * * *
24790287 AACAAAAGCTCATGAGAGCTAAAAAGAAACCCATAAGGGTTG
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAGGTTA
** *
24790329 AA-AGAAAGCTCGTAAGAGCTGACCAGAAACCCATAAAGGTTA
1 AACAG-AAGCTCAAAAGAGCTGAACAGAAACCCATAAAGGTTA
* *
24790371 AACAGAAGCTCAAAAGAGCTGAACAGAAACTCAT-ATGAGTTA
1 AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAG-GTTA
*
24790413 AATAGAAGCTC
1 AACAGAAGCTC
24790424 GTGAAAGCTA
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
41 3 0.04
42 73 0.94
43 2 0.03
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTGAACAGAAACCCATAAAGGTTA
Found at i:24797643 original size:42 final size:41
Alignment explanation
Indices: 24797571--24797727 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 41
24797561 GCCCGAAGGC
*
24797571 TAAACAAAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGT
1 TAAAC-AAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* ** *
24797613 TGAACGAAAGCTCATAAGAGCTGGATAGAAACCCATAAGGGT
1 TAAAC-AAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * * ***
24797655 TAAACATAAGCTCAAAAGAGCTCAACGGAAACTCATATTAGT
1 TAAACA-AAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * *
24797697 TAAACAAAAGCTCGTGAGAGCTAAACGGAAA
1 TAAAC-AAAGCTCATAAGAGCTAAACAGAAA
24797728 GTAAACATGA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
41 1 0.01
42 91 0.98
43 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
TAAACAAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:24799988 original size:29 final size:29
Alignment explanation
Indices: 24799947--24800035 Score: 117
Period size: 29 Copynumber: 3.0 Consensus size: 29
24799937 ATATATTTAT
*
24799947 TTTTTAAA-ATTTTTTAATTTTAAAATAC
1 TTTTTAAATTTTTTTTAATTTTAAAATAC
*
24799975 TTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTTAAATTTTTTTTAATTTTAAAATAC
24800004 TTTTTAAATACTTTTTTTTAATTTTTAAAATA
1 TTTTT-AA-A-TTTTTTTTAA-TTTTAAAATA
24800036 AATTTTTGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
28 8 0.15
29 23 0.43
30 2 0.04
31 1 0.02
32 10 0.19
33 10 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTTAAATTTTTTTTAATTTTAAAATAC
Found at i:24799996 original size:18 final size:18
Alignment explanation
Indices: 24799975--24800010 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24799965 TTTAAAATAC
* *
24799975 TTTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTTAA
24799993 TTTTAAAATATTTTTTAA
1 TTTTAAAATATTTTTTAA
24800011 ATACTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAAATATTTTTTAA
Found at i:24800789 original size:20 final size:20
Alignment explanation
Indices: 24800766--24800806 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
24800756 TAAATTTTTA
24800766 TAAAAAC-ATATAAAAATTAT
1 TAAAAACTA-ATAAAAATTAT
*
24800786 TAAAAACTAATAAATATTAT
1 TAAAAACTAATAAAAATTAT
24800806 T
1 T
24800807 CAATTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAACTAATAAAAATTAT
Found at i:24801314 original size:18 final size:17
Alignment explanation
Indices: 24801284--24801318 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24801274 TACCTAATAA
*
24801284 TTATAGTATATTCGAAT
1 TTATAGTAGATTCGAAT
24801301 TTATGAGTAGATTCGAAT
1 TTAT-AGTAGATTCGAAT
24801319 AATTTATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (17 bp):
TTATAGTAGATTCGAAT
Found at i:24814112 original size:124 final size:123
Alignment explanation
Indices: 24813984--24814237 Score: 350
Period size: 124 Copynumber: 2.1 Consensus size: 123
24813974 AAATAGTGGG
** * * * *
24813984 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCATCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCATCGTGGACGCGATT
*
24814049 TCACTACAG-TGGTCATGT-GAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCACTACAGTTGGTCATGTAG-GAAATAA-TTTTTTTGACG-TTTCTGAGCAAATAGTATA
* * *
24814108 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCATCGTGGACGCGATT
* * *
24814173 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCACTACAGTTGGTCATGTAGGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
24814231 AAATCGC
1 AAATCGC
24814238 GCCCTCGTGG
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
123 23 0.20
124 75 0.65
125 16 0.14
126 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (123 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCATCGTGGACGCGATT
TCACTACAGTTGGTCATGTAGGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:24817458 original size:28 final size:28
Alignment explanation
Indices: 24817414--24818088 Score: 623
Period size: 28 Copynumber: 24.5 Consensus size: 28
24817404 AATTAGGGTT
*
24817414 TTTAATTAAA-TAGGGTTAGGGTTTTCAA
1 TTTAATTAAATTA-GGTTAGGGTTTTTAA
*
24817442 TTTAATTAAATTAGGTTAGGATTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
24817470 -TTAAGT--A--GGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
24817493 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
24817521 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
24817544 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* * *
24817572 -TTAAGT--A--GGGTTACGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
24817595 TTTAATTAAATAAGGTTAGGGTTTTAAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
24817623 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
24817651 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
24817679 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
24817707 TTTAATAAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
*
24817736 TTTAATTAAATTAGGTTATGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
24817764 -TTAAGT--A--GGGTTTAGGGTTTTTAA
1 TTTAATTAAATTAGG-TTAGGGTTTTTAA
*
24817788 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
24817816 TTTAATTAAATTAGGTTAGGGTTAGGGTT--
1 TTTAATTAAATTAGGTTAGGGTT---TTTAA
* *
24817845 TTTAATTAAATAAAGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
24817873 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
24817901 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
24817929 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
24817957 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
24817985 TTTAATTAAATTAGGTTA-GGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* ** * *
24818012 TTAAATTAGGTTAGGTTA-GGTTAGGTTAGGGTT
1 TTTAATTAAATTAGGTTAGGGTT--TTTA----A
*
24818045 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAATTA-GG-TTAGGGTTTTTAA
24818074 TTTAATTAAATTAGG
1 TTTAATTAAATTAGG
24818089 ATTTTTAATT
Statistics
Matches: 526, Mismatches: 79, Indels: 83
0.76 0.11 0.12
Matches are distributed among these distances:
23 48 0.09
24 24 0.05
25 7 0.01
26 7 0.01
27 45 0.09
28 309 0.59
29 58 0.11
30 4 0.01
31 4 0.01
32 2 0.00
33 11 0.02
34 3 0.01
35 4 0.01
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.46
Consensus pattern (28 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:24817553 original size:18 final size:21
Alignment explanation
Indices: 24817503--24817545 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
24817493 TTTAATTAAA
24817503 TAAG-GTTAGGGTTTTTAATT
1 TAAGAGTTAGGGTTTTTAATT
24817523 TAAGTAGGTTAGGGTTTTTAATT
1 TAAG-A-GTTAGGGTTTTTAATT
24817546 AAATTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
23 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TAAGAGTTAGGGTTTTTAATT
Found at i:24817743 original size:24 final size:24
Alignment explanation
Indices: 24817715--24817817 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 24
24817705 AATTTAATAA
*
24817715 AATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
* *
24817739 AATTAAATTA-GGTTATGGTTTTT
1 AATTAAGTTAGGGTTAGGGTTTTT
24817762 AATTAAG-TAGGGTTTAGGGTTTTT
1 AATTAAGTTAGGG-TTAGGGTTTTT
* *
24817786 AATTTAATTAAATAAGGTTAGGGTTTTT
1 AA-TTAAGT---TAGGGTTAGGGTTTTT
24817814 AATT
1 AATT
24817818 TAATTAAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
22 2 0.03
23 20 0.31
24 20 0.31
25 4 0.06
27 2 0.03
28 13 0.20
29 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (24 bp):
AATTAAGTTAGGGTTAGGGTTTTT
Found at i:24818010 original size:22 final size:22
Alignment explanation
Indices: 24817985--24818028 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24817975 GGGTTTTTAA
24817985 TTTAATTAAATTAGGTTAGGTT
1 TTTAATTAAATTAGGTTAGGTT
24818007 TTTAATTAAATTAGGTTAGGTT
1 TTTAATTAAATTAGGTTAGGTT
24818029 AGGTTAGGTT
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:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (22 bp):
TTTAATTAAATTAGGTTAGGTT
Found at i:24818025 original size:5 final size:5
Alignment explanation
Indices: 24818017--24818041 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24818007 TTTAATTAAA
24818017 TTAGG TTAGG TTAGG TTAGG TTAGG
1 TTAGG TTAGG TTAGG TTAGG TTAGG
24818042 GTTTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (5 bp):
TTAGG
Found at i:24818049 original size:60 final size:64
Alignment explanation
Indices: 24817962--24818081 Score: 151
Period size: 62 Copynumber: 1.9 Consensus size: 64
24817952 TTTAATTAAA
*
24817962 TTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTA-GG-TTA-GGTTTTTAATTAAATTAGGTT
1 TTAGGTTAGGTTAGGG--TTT-ATTTAATT-AAGTAGGGTTTAGGGTTTTTAATTAAATTAGGTT
24818024 AGG
62 AGG
*
24818027 TTAGGTTAGGTTAGGG-TT-TTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTA
1 TTAGGTTAGGTTAGGGTTTATTTAATTAAGTAGGGTTTAGGGTTTTTAATTAAATTA
24818082 AATTAGGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
59 4 0.08
60 9 0.18
61 3 0.06
62 18 0.36
65 16 0.32
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (64 bp):
TTAGGTTAGGTTAGGGTTTATTTAATTAAGTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:24818064 original size:24 final size:23
Alignment explanation
Indices: 24818035--24818120 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
24818025 GGTTAGGTTA
24818035 GGTTAGGGTTTTTAATTAAGTAG
1 GGTTAGGGTTTTTAATTAAGTAG
*
24818058 GGTTTAGGGTTTTTAATTTAATTA-
1 GG-TTAGGGTTTTTAA-TTAAGTAG
** *
24818082 AATTAGGATTTTTAATTAAGTAG
1 GGTTAGGGTTTTTAATTAAGTAG
*
24818105 GGTTAGGGATTTTAAT
1 GGTTAGGGTTTTTAAT
24818121 CAAATAATGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 6 0.12
23 26 0.51
24 13 0.25
25 6 0.12
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAGTAG
Found at i:24819698 original size:23 final size:23
Alignment explanation
Indices: 24819672--24819747 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
24819662 ATAAGTGCCA
24819672 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24819695 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
24819718 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24819741 CACTGAT
1 CACTGAT
24819748 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24819852 original size:8 final size:8
Alignment explanation
Indices: 24819833--24819863 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
24819823 CACCCGGGAA
24819833 TAACAC-G
1 TAACACTG
24819840 TAACACTG
1 TAACACTG
24819848 TAACACTG
1 TAACACTG
24819856 TAACACTG
1 TAACACTG
24819864 GTCTCTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (8 bp):
TAACACTG
Found at i:24819997 original size:18 final size:17
Alignment explanation
Indices: 24819971--24820009 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24819961 ATTTTCCTTC
24819971 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
24819988 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
24820006 CACA
1 CACA
24820010 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:24827036 original size:23 final size:23
Alignment explanation
Indices: 24827010--24827085 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
24827000 ATAAGTGCCA
24827010 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24827033 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
24827056 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
24827079 CACTGAT
1 CACTGAT
24827086 CAATAACACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:24827185 original size:8 final size:8
Alignment explanation
Indices: 24827172--24827200 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24827162 ACCCGGGACT
24827172 CACTGTAA
1 CACTGTAA
24827180 CACTGTAA
1 CACTGTAA
24827188 CACTGTAA
1 CACTGTAA
24827196 CACTG
1 CACTG
24827201 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:24827331 original size:18 final size:17
Alignment explanation
Indices: 24827305--24827343 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
24827295 ATTTTCCTTC
24827305 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
24827322 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
24827340 CACA
1 CACA
24827344 ATTTATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:24830315 original size:18 final size:19
Alignment explanation
Indices: 24830285--24830321 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24830275 ATCCGTCCAT
24830285 TTTTGAAAATA-TTAAAAA
1 TTTTGAAAATATTTAAAAA
24830303 TTTT-AAAATTATTTAAAAA
1 TTTTGAAAA-TATTTAAAAA
24830322 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTTGAAAATATTTAAAAA
Found at i:24830425 original size:22 final size:22
Alignment explanation
Indices: 24830395--24830436 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24830385 ATTTGGAGAT
*
24830395 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
24830417 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
24830437 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:24830457 original size:52 final size:51
Alignment explanation
Indices: 24830386--24830488 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
24830376 TTAATATGGA
* * *
24830386 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
24830437 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
24830489 AAATTTTGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:24830463 original size:22 final size:22
Alignment explanation
Indices: 24830438--24830529 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 22
24830428 ATTTGAGAGT
24830438 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTT-GAAGGAAA
* *
24830460 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAGGAAA
24830482 TTGAGAGAAATTTTGACAGG-AA
1 TTGAGAGAAATTTTGA-AGGAAA
* *
24830504 TTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAGGAAA
24830526 TTGA
1 TTGA
24830530 TATTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
21 2 0.03
22 51 0.82
23 9 0.15
ACGTcount: A:0.41, C:0.01, G:0.27, T:0.30
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAGGAAA
Found at i:24835410 original size:34 final size:35
Alignment explanation
Indices: 24835366--24835432 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24835356 AAGTAAAATA
24835366 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
24835400 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
24835433 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:24841227 original size:9 final size:9
Alignment explanation
Indices: 24841214--24841247 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
24841204 GAATAGCATT
24841214 ACAAAATAA
1 ACAAAATAA
*
24841223 TCAAAATAA
1 ACAAAATAA
*
24841232 ACAAAAGAA
1 ACAAAATAA
24841241 ACAAAAT
1 ACAAAAT
24841248 GAGTAAGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (9 bp):
ACAAAATAA
Found at i:24842255 original size:31 final size:30
Alignment explanation
Indices: 24842220--24842288 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
24842210 TTTTTCTGAT
24842220 TTTTATAGA-AATTT-AATATGTTTTTATAAAA
1 TTTTATA-ATAATTTAAATATG-TTTTAT-AAA
*
24842251 TTTTA-AATAATTTAAATATGTTTTATTAA
1 TTTTATAATAATTTAAATATGTTTTATAAA
24842280 TTTTATAAT
1 TTTTATAAT
24842289 TTATTAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 8 0.24
30 15 0.44
31 11 0.32
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (30 bp):
TTTTATAATAATTTAAATATGTTTTATAAA
Found at i:24842304 original size:27 final size:27
Alignment explanation
Indices: 24842274--24842345 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
24842264 AAATATGTTT
24842274 TATTAATTTTATAATTTATTAGAATTG
1 TATTAATTTTATAATTTATTAGAATTG
*
24842301 TATTAATTTTATAATTTATTAGAATTT
1 TATTAATTTTATAATTTATTAGAATTG
* *
24842328 TTTTATTTTTTATAATTT
1 TATTA-ATTTTATAATTT
24842346 TATAACTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 30 0.73
28 11 0.27
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTAATTTTATAATTTATTAGAATTG
Found at i:24842328 original size:18 final size:18
Alignment explanation
Indices: 24842305--24842350 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
24842295 GAATTGTATT
24842305 AATTTTATAATTTATTAG
1 AATTTTATAATTTATTAG
* * * *
24842323 AATTTTTTTATTTTTTAT
1 AATTTTATAATTTATTAG
24842341 AATTTTATAA
1 AATTTTATAA
24842351 CTTGATATCA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
AATTTTATAATTTATTAG
Found at i:24842376 original size:10 final size:10
Alignment explanation
Indices: 24842361--24842434 Score: 59
Period size: 9 Copynumber: 7.9 Consensus size: 10
24842351 CTTGATATCA
24842361 ATTTTTATAT
1 ATTTTTATAT
*
24842371 ATTTTTA-AA
1 ATTTTTATAT
*
24842380 ATATTTA-AT
1 ATTTTTATAT
* *
24842389 A-ATTTGTAT
1 ATTTTTATAT
*
24842398 ATTTTTAAAT
1 ATTTTTATAT
*
24842408 ATTTTTAT-G
1 ATTTTTATAT
24842417 ATTTTTA-AT
1 ATTTTTATAT
24842426 ATTTTTATA
1 ATTTTTATA
24842435 GAAAAAATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 4 0.08
9 26 0.52
10 20 0.40
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:24842411 original size:18 final size:17
Alignment explanation
Indices: 24842361--24842434 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 17
24842351 CTTGATATCA
*
24842361 ATTTTTATATATTTTTAAA
1 ATTTTTA-ATATTTTT-AT
* *
24842380 ATATTTAATAATTTGTAT
1 ATTTTTAAT-ATTTTTAT
24842398 ATTTTTAAATATTTTTAT
1 ATTTTT-AATATTTTTAT
24842416 GATTTTTAATATTTTTAT
1 -ATTTTTAATATTTTTAT
24842434 A
1 A
24842435 GAAAAAATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 1 0.02
18 26 0.55
19 20 0.43
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTTAATATTTTTAT
Found at i:24842424 original size:37 final size:36
Alignment explanation
Indices: 24842361--24842434 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
24842351 CTTGATATCA
*
24842361 ATTTTTATATATTTTTAAAATATTTAATAATTTGTAT
1 ATTTTTAAATATTTTTAAAATATTTAAT-ATTTGTAT
** * *
24842398 ATTTTTAAATATTTTTATGATTTTTAATATTTTTAT
1 ATTTTTAAATATTTTTAAAATATTTAATATTTGTAT
24842434 A
1 A
24842435 GAAAAAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (36 bp):
ATTTTTAAATATTTTTAAAATATTTAATATTTGTAT
Found at i:24844547 original size:28 final size:27
Alignment explanation
Indices: 24844516--24844571 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
24844506 TTTTTCCTTC
*
24844516 ACATTACTTATCTTATACTTTTATATAT
1 ACATTACTTATCTTAT-CTTATATATAT
* *
24844544 ACATTATTTATTTTATCTTATATATAT
1 ACATTACTTATCTTATCTTATATATAT
24844571 A
1 A
24844572 TATCATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (27 bp):
ACATTACTTATCTTATCTTATATATAT
Found at i:24844579 original size:27 final size:28
Alignment explanation
Indices: 24844523--24844579 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
24844513 TTCACATTAC
* *
24844523 TTATCTTATACTTTTATATATACATTAT
1 TTATCTTATACTTATATATATACATCAT
* *
24844551 TTATTTTAT-CTTATATATATATATCAT
1 TTATCTTATACTTATATATATACATCAT
24844578 TT
1 TT
24844580 TTTGTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATCTTATACTTATATATATACATCAT
Found at i:24844591 original size:27 final size:27
Alignment explanation
Indices: 24844523--24844591 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
24844513 TTCACATTAC
* * *
24844523 TTATCTTATACTTTTATATATACATTAT
1 TTATTTTATA-TTATATATATACATCAT
* *
24844551 TTATTTTATCTTATATATATATATCAT
1 TTATTTTATATTATATATATACATCAT
24844578 TT-TTTGTATATTAT
1 TTATTT-TATATTAT
24844592 TTACCTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 3 0.09
27 23 0.68
28 8 0.24
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (27 bp):
TTATTTTATATTATATATATACATCAT
Found at i:24868415 original size:27 final size:27
Alignment explanation
Indices: 24868385--24868440 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
24868375 GAACATTTTT
* *
24868385 AATATTAGACCCACGTGATGGATGTTG
1 AATATGAGACCCACGTGATGAATGTTG
* *
24868412 AATATGCGGCCCACGTGATGAATGTTG
1 AATATGAGACCCACGTGATGAATGTTG
24868439 AA
1 AA
24868441 CATGCGGCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (27 bp):
AATATGAGACCCACGTGATGAATGTTG
Found at i:24868445 original size:27 final size:27
Alignment explanation
Indices: 24868394--24868456 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
24868384 TAATATTAGA
* *
24868394 CCCACGTGATGGATGTTGAATATGCGG
1 CCCACGTGATGAATGTTGAACATGCGG
24868421 CCCACGTGATGAATGTTGAACATGCGG
1 CCCACGTGATGAATGTTGAACATGCGG
*
24868448 CCCATGTGA
1 CCCACGTGA
24868457 CGCACAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (27 bp):
CCCACGTGATGAATGTTGAACATGCGG
Found at i:24872892 original size:17 final size:17
Alignment explanation
Indices: 24872870--24872905 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24872860 CAAGTTTACG
24872870 CCCCCAAAGTGATTGAA
1 CCCCCAAAGTGATTGAA
24872887 CCCCCAAAGTGATTGAA
1 CCCCCAAAGTGATTGAA
24872904 CC
1 CC
24872906 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (17 bp):
CCCCCAAAGTGATTGAA
Found at i:24880720 original size:17 final size:17
Alignment explanation
Indices: 24880681--24880726 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
24880671 ACTCGCCTTA
24880681 TTTACTTTCCCTC-AAACT
1 TTTA-TTTCCC-CAAAACT
24880699 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAAC-T
24880716 TTTATTTCCCC
1 TTTATTTCCCC
24880727 CCCTAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 5 0.20
18 10 0.40
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATTTCCCCAAAACT
Found at i:24888191 original size:31 final size:31
Alignment explanation
Indices: 24888156--24888216 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
24888146 TTAATAGCCC
24888156 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTTT
*
24888187 AGTGATTTAAATAAAAACTTTTGAATAGTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTT
24888217 CAATGACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTT
Found at i:24892651 original size:60 final size:60
Alignment explanation
Indices: 24892564--24892702 Score: 208
Period size: 60 Copynumber: 2.3 Consensus size: 60
24892554 TATGATTTTT
*
24892564 TTTTCTTTTTTTGGTCACTTAAATATGAAAAGTTACAAAACGGTTACCCAACTATTAGTAA
1 TTTTC-TTTTTTGGTCACTTAAATATGAAAAGTTACAAAACGGTCACCCAACTATTAGTAA
* * *
24892625 TTTTCTTTTTTGGTCA-TATAACTATGAAAAGTTACAAAATGGTCACTCAACTATTAGTAA
1 TTTTCTTTTTTGGTCACT-TAAATATGAAAAGTTACAAAACGGTCACCCAACTATTAGTAA
*
24892685 ATTTCTTTTTTGGTCACT
1 TTTTCTTTTTTGGTCACT
24892703 CAACTTTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
59 1 0.01
60 64 0.90
61 6 0.08
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (60 bp):
TTTTCTTTTTTGGTCACTTAAATATGAAAAGTTACAAAACGGTCACCCAACTATTAGTAA
Found at i:24896976 original size:14 final size:15
Alignment explanation
Indices: 24896957--24896995 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
24896947 ATCATTTAAA
*
24896957 ATTTTAAAA-AATAT
1 ATTTTAAAATAAAAT
24896971 ATTTTAAAATAAAAT
1 ATTTTAAAATAAAAT
*
24896986 ATTATAAAAT
1 ATTTTAAAAT
24896996 GTATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAAATAAAAT
Found at i:24897025 original size:22 final size:23
Alignment explanation
Indices: 24896973--24897033 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
24896963 AAAAATATAT
*
24896973 TTTAAAATA-AAATATTATAAAA
1 TTTAAAATATATATATTATAAAA
* *
24896995 TGTATAAATATATATTTTA-AAAA
1 TTTA-AAATATATATATTATAAAA
24897018 TTTAAAATAATATATA
1 TTTAAAAT-ATATATA
24897034 AAATTAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.23
23 18 0.58
24 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TTTAAAATATATATATTATAAAA
Found at i:24897072 original size:20 final size:19
Alignment explanation
Indices: 24897007--24897072 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
24896997 TATAAATATA
*
24897007 TATTTTAAAAATTTAAAAT
1 TATTTAAAAAATTTAAAAT
* * * *
24897026 AATATATAAAATTAAAAAT
1 TATTTAAAAAATTTAAAAT
24897045 T-TTGTAAAAAATTTCAAAAT
1 TATT-TAAAAAATTT-AAAAT
24897065 TATTTAAA
1 TATTTAAA
24897073 TTTTAGAAAC
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
18 1 0.03
19 22 0.63
20 10 0.29
21 2 0.06
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TATTTAAAAAATTTAAAAT
Found at i:24897564 original size:20 final size:22
Alignment explanation
Indices: 24897532--24897575 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
24897522 AGAAATATTG
24897532 TTAAAATGTTTAA-ATT-TTTT
1 TTAAAATGTTTAACATTATTTT
24897552 TTAAAAT-TATTAACATTATTTT
1 TTAAAATGT-TTAACATTATTTT
24897574 TT
1 TT
24897576 TCTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.05
20 11 0.52
21 3 0.14
22 6 0.29
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTAAAATGTTTAACATTATTTT
Found at i:24900392 original size:20 final size:20
Alignment explanation
Indices: 24900367--24900417 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 20
24900357 AGGGGTGTGC
24900367 AAAATTCGGTTAAAACCGAA
1 AAAATTCGGTTAAAACCGAA
*
24900387 AAAATTCGGTT--AACCGAC
1 AAAATTCGGTTAAAACCGAA
*
24900405 CAAATTCGGTTAA
1 AAAATTCGGTTAA
24900418 TCGGTCGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 16 0.59
20 11 0.41
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (20 bp):
AAAATTCGGTTAAAACCGAA
Found at i:24900647 original size:7 final size:7
Alignment explanation
Indices: 24900635--24900693 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
24900625 CCAAGAACAA
24900635 TTCATGT
1 TTCATGT
24900642 TTCATGT
1 TTCATGT
24900649 TTCATGT
1 TTCATGT
*
24900656 TTCACGAT
1 TTCATG-T
24900664 TTCATGT
1 TTCATGT
**
24900671 TTCATAC
1 TTCATGT
*
24900678 TGCATGT
1 TTCATGT
24900685 TTCATGT
1 TTCATGT
24900692 TT
1 TT
24900694 TATTCTGTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.53
Consensus pattern (7 bp):
TTCATGT
Found at i:24901042 original size:36 final size:37
Alignment explanation
Indices: 24900937--24901045 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
24900927 TTTATGTGTT
*
24900937 AAAGACTTATGTAATGTTTTTAATTATTTAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
* * *
24900974 AAA-AATTGATGTAATGTTTTTAGTTATGTAGTGATTC
1 AAAGACTT-ATGTAATGTTTTTAATTATATAGTGATTC
24901011 AAAGACTTATGTAAT-TTTTTAATTATATAGTGATT
1 AAAGACTTATGTAATGTTTTTAATTATATAGTGATT
24901046 TAAATCGGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
36 21 0.33
37 40 0.62
38 3 0.05
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
AAAGACTTATGTAATGTTTTTAATTATATAGTGATTC
Found at i:24901064 original size:9 final size:9
Alignment explanation
Indices: 24901045--24901137 Score: 116
Period size: 9 Copynumber: 10.4 Consensus size: 9
24901035 ATATAGTGAT
*
24901045 TTAAATCGG
1 TTAAGTCGG
*
24901054 TTAAGTTGG
1 TTAAGTCGG
*
24901063 TTAAATCGG
1 TTAAGTCGG
* *
24901072 TTAAATTGG
1 TTAAGTCGG
24901081 TTAAGTCGG
1 TTAAGTCGG
24901090 TTAAGTCGG
1 TTAAGTCGG
*
24901099 TTAAATCGG
1 TTAAGTCGG
24901108 TTAAGTCGG
1 TTAAGTCGG
24901117 TTAA-TCGG
1 TTAAGTCGG
*
24901125 TTAAATCGG
1 TTAAGTCGG
24901134 TTAA
1 TTAA
24901138 TTTTTAACCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
8 8 0.11
9 66 0.89
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (9 bp):
TTAAGTCGG
Found at i:24901068 original size:18 final size:18
Alignment explanation
Indices: 24901045--24901137 Score: 134
Period size: 18 Copynumber: 5.2 Consensus size: 18
24901035 ATATAGTGAT
*
24901045 TTAAATCGGTTAAGTTGG
1 TTAAATCGGTTAAGTCGG
* *
24901063 TTAAATCGGTTAAATTGG
1 TTAAATCGGTTAAGTCGG
*
24901081 TTAAGTCGGTTAAGTCGG
1 TTAAATCGGTTAAGTCGG
24901099 TTAAATCGGTTAAGTCGG
1 TTAAATCGGTTAAGTCGG
*
24901117 TT-AATCGGTTAAATCGG
1 TTAAATCGGTTAAGTCGG
24901134 TTAA
1 TTAA
24901138 TTTTTAACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
17 16 0.24
18 52 0.76
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (18 bp):
TTAAATCGGTTAAGTCGG
Found at i:24901075 original size:27 final size:27
Alignment explanation
Indices: 24901045--24901137 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
24901035 ATATAGTGAT
*
24901045 TTAAATCGGTTAAGTTGGTTAAATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
* *
24901072 TTAAATTGGTTAAGTCGGTTAAGTCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
24901099 TTAAATCGGTTAAGTCGGTT-AATCGG
1 TTAAATCGGTTAAGTCGGTTAAATCGG
24901125 TTAAATCGGTTAA
1 TTAAATCGGTTAA
24901138 TTTTTAACCA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 18 0.30
27 43 0.70
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (27 bp):
TTAAATCGGTTAAGTCGGTTAAATCGG
Found at i:24901259 original size:29 final size:29
Alignment explanation
Indices: 24901199--24901260 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
24901189 GGTTTAACTG
**
24901199 AAAAAAATTCGGTTCGGTTAATTTTTTTAA
1 AAAAAAATTCGGTTCGGTTAA-TCGTTTAA
*
24901229 AAAAAATTTCGGTTCGGTTAA-CGTTTAA
1 AAAAAAATTCGGTTCGGTTAATCGTTTAA
24901257 AAAA
1 AAAA
24901261 TTTTGGAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 9 0.31
30 20 0.69
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (29 bp):
AAAAAAATTCGGTTCGGTTAATCGTTTAA
Found at i:24903639 original size:24 final size:24
Alignment explanation
Indices: 24903612--24903658 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24903602 ATTTATTTTC
24903612 TTTTTTGTTT-CTCTATTTGTTTGA
1 TTTTTT-TTTACTCTATTTGTTTGA
*
24903636 TTTTTTTTTACTCTTTTTGTTTG
1 TTTTTTTTTACTCTATTTGTTTG
24903659 GAGTATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.06, C:0.09, G:0.11, T:0.74
Consensus pattern (24 bp):
TTTTTTTTTACTCTATTTGTTTGA
Found at i:24906110 original size:34 final size:35
Alignment explanation
Indices: 24906054--24906120 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
24906044 CAAACAGCAG
* *
24906054 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
24906089 AAAACATTTTCCA-AAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
24906121 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:24906538 original size:23 final size:24
Alignment explanation
Indices: 24906502--24906552 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
24906492 AAATTATTTC
*
24906502 TATTTTTCATGTTATTATTATAAT
1 TATTTTTCATGTTACTATTATAAT
* *
24906526 TATTTTTTA-GTTACTATTATTAT
1 TATTTTTCATGTTACTATTATAAT
24906549 TATT
1 TATT
24906553 CCTATTGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (24 bp):
TATTTTTCATGTTACTATTATAAT
Found at i:24908055 original size:21 final size:21
Alignment explanation
Indices: 24908031--24908081 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
24908021 CATTATTTCT
* *
24908031 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
24908052 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
24908073 AATCTCACC
1 AATCTCACC
24908082 TCCACCACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:24909100 original size:29 final size:30
Alignment explanation
Indices: 24909054--24909122 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
24909044 AAATCATTTT
24909054 AAAAATTAC-ATAGTATCAATTT-AATTAA
1 AAAAATTACAATAGTATCAATTTAAATTAA
*
24909082 AAAAATTACAAATA-TATCATTTTAAATTAA
1 AAAAATTAC-AATAGTATCAATTTAAATTAA
*
24909112 AATAAAATACA
1 AA-AAATTACA
24909123 TTATTAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 9 0.26
29 8 0.23
30 12 0.34
31 6 0.17
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.33
Consensus pattern (30 bp):
AAAAATTACAATAGTATCAATTTAAATTAA
Found at i:24909573 original size:19 final size:20
Alignment explanation
Indices: 24909535--24909574 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24909525 TTAACAAAAG
*
24909535 ATTTATTTTAATTTCTTTAT
1 ATTTATTTTAATTTCATTAT
*
24909555 ATTT-TTTTAATTTGATTAT
1 ATTTATTTTAATTTCATTAT
24909574 A
1 A
24909575 CACCTTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTATTTTAATTTCATTAT
Found at i:24909740 original size:16 final size:18
Alignment explanation
Indices: 24909714--24909746 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24909704 AATCTGATGC
24909714 ATTTGTGCTTA-AATTTT
1 ATTTGTGCTTACAATTTT
24909731 ATTT-TGCTTACAATTT
1 ATTTGTGCTTACAATTT
24909747 AATCTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (18 bp):
ATTTGTGCTTACAATTTT
Found at i:24917623 original size:3 final size:3
Alignment explanation
Indices: 24917615--24917642 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24917605 TGAGATACAT
24917615 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
24917643 TCACCAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:24925239 original size:30 final size:31
Alignment explanation
Indices: 24925205--24925274 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
24925195 TTGCCCATGA
* *
24925205 GTAAATATTTAAAATTTGAAGGGTTAA-AGT
1 GTAAATATTTAAAAGTTGAAGGATTAATAGT
* *
24925235 GTAAATA-TAAAAAGTTGAAGGATTAATTGT
1 GTAAATATTTAAAAGTTGAAGGATTAATAGT
*
24925265 GCAAATATTT
1 GTAAATATTT
24925275 TAAGGGTGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 16 0.50
30 15 0.47
31 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (31 bp):
GTAAATATTTAAAAGTTGAAGGATTAATAGT
Found at i:24925629 original size:5 final size:5
Alignment explanation
Indices: 24925619--24925653 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
24925609 AACCAACGTT
24925619 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A-AAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
24925654 AAGTTTTGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:24933046 original size:20 final size:19
Alignment explanation
Indices: 24933031--24933068 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
24933021 TAATTTTATC
*
24933031 TTTAATTTTAAGATTTTTA
1 TTTAAATTTAAGATTTTTA
24933050 TTTAAATTT-A-ATTTTTA
1 TTTAAATTTAAGATTTTTA
24933067 TT
1 TT
24933069 CGAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTAAATTTAAGATTTTTA
Found at i:24938570 original size:13 final size:13
Alignment explanation
Indices: 24938552--24938585 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24938542 ACTAGAGATA
*
24938552 ATTTTATCACTAT
1 ATTTTAACACTAT
*
24938565 ATTTTAACTCTAT
1 ATTTTAACACTAT
24938578 ATTTTAAC
1 ATTTTAAC
24938586 CAGAGATAAT
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:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTTAACACTAT
Found at i:24941597 original size:15 final size:15
Alignment explanation
Indices: 24941552--24941659 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
24941542 CCAATATCTC
*
24941552 GATACTCATATCTTT
1 GATACCCATATCTTT
** *
24941567 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
24941582 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
24941597 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
24941612 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
24941627 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
24941642 GATACCCATATCTTT
1 GATACCCATATCTTT
24941657 GAT
1 GAT
24941660 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 14 0.21
15 41 0.60
16 13 0.19
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:24941666 original size:30 final size:30
Alignment explanation
Indices: 24941552--24941666 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
24941542 CCAATATCTC
* *
24941552 GATACTCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
24941582 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
24941612 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
*
24941642 GATACCCATATCTTTGATTTTCCAT
1 GATACCCATATCTTTGACTTTCCAT
24941667 AAATATGGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCATTATTT
Found at i:24947217 original size:10 final size:9
Alignment explanation
Indices: 24947188--24947214 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
24947178 TTTTACTATT
24947188 TATTTTTAA
1 TATTTTTAA
24947197 TATTTTTAA
1 TATTTTTAA
24947206 TATTTTTAA
1 TATTTTTAA
24947215 ATACAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTTAA
Found at i:24950819 original size:15 final size:16
Alignment explanation
Indices: 24950796--24950831 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
24950786 GAGGAAGAAA
*
24950796 AAAGGAAAAAG-ATAT
1 AAAGTAAAAAGAATAT
24950811 AAAGTAAAAAGAATAT
1 AAAGTAAAAAGAATAT
24950827 AAAGT
1 AAAGT
24950832 TTTAAAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (16 bp):
AAAGTAAAAAGAATAT
Found at i:24952571 original size:4 final size:4
Alignment explanation
Indices: 24952562--24952600 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
24952552 GCACTAGAAT
24952562 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
24952601 TATTTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:24959568 original size:17 final size:17
Alignment explanation
Indices: 24959546--24959588 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
24959536 TCGTTTTGAA
*
24959546 GACCCGATCTGAACGGT
1 GACCCGACCTGAACGGT
24959563 GACCCGACCTGAACGGT
1 GACCCGACCTGAACGGT
24959580 GACCCGACC
1 GACCCGACC
24959589 CGGGAAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.37, G:0.28, T:0.12
Consensus pattern (17 bp):
GACCCGACCTGAACGGT
Found at i:24962569 original size:87 final size:87
Alignment explanation
Indices: 24962418--24962592 Score: 305
Period size: 87 Copynumber: 2.0 Consensus size: 87
24962408 GTTTTAGAAA
*
24962418 CAGAGAGTTCTGTATTCTGAATACTGTAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
1 CAGAGAGTTCTGTATTCTGAATACTGAAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
24962483 TAGTTTAGGCCCTTAATCATTT
66 TAGTTTAGGCCCTTAATCATTT
* * * *
24962505 CAGAGAGTTCTGTATTCTGAATATTGAAGCTTGAAATTTTTTTTTACACCATGTTTATGTATTTA
1 CAGAGAGTTCTGTATTCTGAATACTGAAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
24962570 TAGTTTAGGCCCTTAATCATTT
66 TAGTTTAGGCCCTTAATCATTT
24962592 C
1 C
24962593 TTAACTACTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (87 bp):
CAGAGAGTTCTGTATTCTGAATACTGAAGCTTGAAAATCTTTTTTACACCATGTTTATGCATTTA
TAGTTTAGGCCCTTAATCATTT
Found at i:24962635 original size:43 final size:43
Alignment explanation
Indices: 24962587--24962673 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
24962577 GGCCCTTAAT
24962587 CATTTCTTAA-CTACTTAACTATTATAACTAACAACCCAATAAC
1 CATTTCTTAATC-ACTTAACTATTATAACTAACAACCCAATAAC
* * * * *
24962630 CATTTCTTAATCATTTGATTATTATAATTAACAACTCAATAAC
1 CATTTCTTAATCACTTAACTATTATAACTAACAACCCAATAAC
24962673 C
1 C
24962674 CACTAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.37
Consensus pattern (43 bp):
CATTTCTTAATCACTTAACTATTATAACTAACAACCCAATAAC
Found at i:24970459 original size:25 final size:25
Alignment explanation
Indices: 24970425--24970476 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24970415 TCATTTAGGA
24970425 AGTGTTTGGTTGAATAGAAAAGTGG
1 AGTGTTTGGTTGAATAGAAAAGTGG
24970450 AGTGTTTGGTTGAATAGAAAAGTGG
1 AGTGTTTGGTTGAATAGAAAAGTGG
24970475 AG
1 AG
24970477 GGATGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.37, T:0.31
Consensus pattern (25 bp):
AGTGTTTGGTTGAATAGAAAAGTGG
Found at i:24975510 original size:19 final size:20
Alignment explanation
Indices: 24975488--24975536 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
24975478 TTTTAGGAGG
24975488 TAATTTTTATTT-T-TTATTT
1 TAATTTTTATTTCTATT-TTT
*
24975507 TAATATTTTGTTTCTATTTTT
1 TAAT-TTTTATTTCTATTTTT
24975528 TAATTTTTA
1 TAATTTTTA
24975537 ATCAAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 8 0.32
22 2 0.08
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TAATTTTTATTTCTATTTTT
Found at i:24978248 original size:24 final size:24
Alignment explanation
Indices: 24978215--24978266 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
24978205 TTTAATCATA
*
24978215 AAAAATAAAAATTTC-TAAAAATTAT
1 AAAAATAAAAA-CTCATAAAAA-TAT
24978240 AAAAA-AAAAACTCATAAAAATAT
1 AAAAATAAAAACTCATAAAAATAT
24978263 AAAA
1 AAAA
24978267 CTCTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 9 0.36
24 11 0.44
25 5 0.20
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (24 bp):
AAAAATAAAAACTCATAAAAATAT
Done.