Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 80 of 141
Found at i:26178351 original size:50 final size:50
Alignment explanation
Indices: 26178234--26178467 Score: 242
Period size: 50 Copynumber: 4.7 Consensus size: 50
26178224 AACATGTCCA
* * * *
26178234 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TGT-ACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATCTCAGTGCCAAT
* * * * * *
26178283 GCCATATCCCAGATATGGTCTAACATGGGAGTTCTCATATCAGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCAGTGCCAAT
* * * * *
26178333 GCCATGTCCCAAACATGGTCTTAC-GGAGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATG-GGAGCTCTCATCTCAGTGCCAAT
* * *
26178383 GCCATGTCCCAGACATGGTCTTACATAGGAGCTCTTATCTCGGTGCCAACT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCAGTGCCAA-T
*
26178434 -CCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGCTCT
26178468 TTACCCAAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 5 0.03
49 30 0.19
50 119 0.77
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGCTCTCATCTCAGTGCCAAT
Found at i:26182048 original size:9 final size:9
Alignment explanation
Indices: 26181952--26182232 Score: 129
Period size: 9 Copynumber: 31.0 Consensus size: 9
26181942 TAAGCATAAT
26181952 TAAGTTATG
1 TAAGTTATG
*
26181961 TAACTTATG
1 TAAGTTATG
* *
26181970 ATAAGAATATA
1 -TAAG-TTATG
26181981 TAA-TTATG
1 TAAGTTATG
26181989 T-A-TTATG
1 TAAGTTATG
*
26181996 CAA-TTATG
1 TAAGTTATG
26182004 TAAGTTATG
1 TAAGTTATG
* *
26182013 ATAATAGTATTTA
1 -T-A-AGT-TATG
*
26182026 TAAGTTGT-
1 TAAGTTATG
26182034 TAAGTTATG
1 TAAGTTATG
26182043 TAAGTTATG
1 TAAGTTATG
*
26182052 TGAGTTATG
1 TAAGTTATG
26182061 T-AGATTATG
1 TAAG-TTATG
* * *
26182070 ATATGATACATA
1 -TAAG-T-TATG
26182082 TAAGTTAT-
1 TAAGTTATG
*
26182090 TAAGTTAGG
1 TAAGTTATG
26182099 TAAGTTATG
1 TAAGTTATG
*
26182108 CAAGTTATG
1 TAAGTTATG
26182117 TAAGTTATG
1 TAAGTTATG
**
26182126 --A-TATACA
1 TAAGT-TATG
*
26182133 TAAGTTGT-
1 TAAGTTATG
*
26182141 TAACTTATG
1 TAAGTTATG
26182150 TAAGTTATG
1 TAAGTTATG
*
26182159 TGAGTTATG
1 TAAGTTATG
26182168 T-AGATTATG
1 TAAG-TTATG
* * *
26182177 ATATGATACATA
1 -TAAG-T-TATG
26182189 TAAGTTAT-
1 TAAGTTATG
*
26182197 TAAGTTAGG
1 TAAGTTATG
26182206 TAAGTTATG
1 TAAGTTATG
*
26182215 CAAGTTATG
1 TAAGTTATG
26182224 TAAGTTATG
1 TAAGTTATG
26182233 ATATACATAA
Statistics
Matches: 209, Mismatches: 39, Indels: 48
0.71 0.13 0.16
Matches are distributed among these distances:
6 1 0.00
7 9 0.04
8 43 0.21
9 114 0.55
10 15 0.07
11 17 0.08
12 8 0.04
13 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:26182093 original size:56 final size:56
Alignment explanation
Indices: 26181991--26182236 Score: 294
Period size: 56 Copynumber: 4.5 Consensus size: 56
26181981 TAATTATGTA
** * *
26181991 TTATGCAA-TTATGTAAGTTATGATAAT-AGTATTTATAAGTTGTTAAGTTATGTAAG
1 TTATGCAAGTTATGTAAGTTATGAT-ATGA-TACATATAAGTTATTAAGTTAGGTAAG
**
26182047 TTATGTGAGTTATGT-AGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
1 TTATGCAAGTTATGTAAG-TTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
* * *
26182103 TTATGCAAGTTATGTAAGTTATG--AT-ATAC--ATAAGTTGTTAACTTATGTAAG
1 TTATGCAAGTTATGTAAGTTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
**
26182154 TTATGTGAGTTATGT-AGATTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
1 TTATGCAAGTTATGTAAG-TTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
26182210 TTATGCAAGTTATGTAAGTTATGATAT
1 TTATGCAAGTTATGTAAGTTATGATAT
26182237 ACATAAGTTG
Statistics
Matches: 161, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
50 2 0.01
51 37 0.23
53 6 0.04
54 6 0.04
56 92 0.57
57 18 0.11
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (56 bp):
TTATGCAAGTTATGTAAGTTATGATATGATACATATAAGTTATTAAGTTAGGTAAG
Found at i:26182149 original size:107 final size:107
Alignment explanation
Indices: 26182025--26182254 Score: 451
Period size: 107 Copynumber: 2.1 Consensus size: 107
26182015 AATAGTATTT
*
26182025 ATAAGTTGTTAAGTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTAT
1 ATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTAT
26182090 TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGATATAC
66 TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGATATAC
26182132 ATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTAT
1 ATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTAT
26182197 TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGATATAC
66 TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGATATAC
26182239 ATAAGTTGTTAACTTA
1 ATAAGTTGTTAACTTA
26182255 CTAATAATGT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 122 1.00
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (107 bp):
ATAAGTTGTTAACTTATGTAAGTTATGTGAGTTATGTAGATTATGATATGATACATATAAGTTAT
TAAGTTAGGTAAGTTATGCAAGTTATGTAAGTTATGATATAC
Found at i:26184162 original size:39 final size:38
Alignment explanation
Indices: 26184095--26184170 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 38
26184085 TGATACATTA
26184095 ATATGACATTATTTTTAATTGTTAAATTTTCTAAAATTTTC
1 ATATGACATTA-TTTTAATTGTTAAA-TTT-TAAAATTTTC
*
26184136 ATATGACATTA-TTTAATTGTTCAATTTTAAAATTT
1 ATATGACATTATTTTAATTGTTAAATTTTAAAATTT
26184171 AATATAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 8 0.24
38 3 0.09
39 12 0.35
41 11 0.32
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.53
Consensus pattern (38 bp):
ATATGACATTATTTTAATTGTTAAATTTTAAAATTTTC
Found at i:26184474 original size:29 final size:29
Alignment explanation
Indices: 26184426--26184501 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
26184416 GAATACCCTA
* * **
26184426 AAACTTTAAAACCCATAAACCATAAAATGT
1 AAACTATAATACCC-TAAACCATAAAACAT
*
26184456 AAACTATAATACCCTAAACCGTAAAACAT
1 AAACTATAATACCCTAAACCATAAAACAT
*
26184485 AAACTCTAAT-CCCTAAA
1 AAACTATAATACCCTAAA
26184502 TCCAAAAGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 7 0.17
29 21 0.52
30 12 0.30
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (29 bp):
AAACTATAATACCCTAAACCATAAAACAT
Found at i:26184600 original size:20 final size:20
Alignment explanation
Indices: 26184565--26184603 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26184555 GAAGCCTTAA
*
26184565 ACCCTAAACCATAAATATAC
1 ACCCTAAACCAGAAATATAC
*
26184585 ACCCTAAACCCGAAATATA
1 ACCCTAAACCAGAAATATA
26184604 AATATTATAA
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:0.49, C:0.31, G:0.03, T:0.18
Consensus pattern (20 bp):
ACCCTAAACCAGAAATATAC
Found at i:26184666 original size:14 final size:14
Alignment explanation
Indices: 26184649--26184692 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
26184639 TTTAAACACT
26184649 AAACTCCAAACCTC
1 AAACTCCAAACCTC
*
26184663 AAACTCTAAACCTC
1 AAACTCCAAACCTC
*
26184677 AATC-CCAAACC-C
1 AAACTCCAAACCTC
26184689 AAAC
1 AAAC
26184693 CTTAAACCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 16 0.62
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (14 bp):
AAACTCCAAACCTC
Found at i:26185079 original size:21 final size:21
Alignment explanation
Indices: 26185055--26185133 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
26185045 TCCAACCCCT
26185055 AACCCATAAACCTTAAATCCC
1 AACCCATAAACCTTAAATCCC
* *
26185076 AACCCTTAAACCAT-AATCCC
1 AACCCATAAACCTTAAATCCC
* *
26185096 TAATCCATAATCCTTAAAT-CC
1 -AACCCATAAACCTTAAATCCC
*
26185117 ACACTCCCTAAACCTTA
1 A-AC-CCATAAACCTTA
26185134 CACTATTAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
20 7 0.16
21 25 0.56
22 13 0.29
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCATAAACCTTAAATCCC
Found at i:26185507 original size:20 final size:19
Alignment explanation
Indices: 26185466--26185509 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
26185456 AATTTTAATT
* *
26185466 AATATAAATAAACCAATTA
1 AATATAAATAAACAAATAA
*
26185485 AATAGTAAATAGACAAATAA
1 AATA-TAAATAAACAAATAA
26185505 AATAT
1 AATAT
26185510 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:26185655 original size:40 final size:41
Alignment explanation
Indices: 26185514--26185726 Score: 234
Period size: 40 Copynumber: 5.2 Consensus size: 41
26185504 AAATATTTTT
* *
26185514 GCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* ** ** *
26185555 -CGGTGCTCCTTGGAAAACGCCGCTATAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
26185595 GTGGCGCTTTTTCAAAAACGCCGCTAAATCCCCGA-CTTTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
26185635 GCGGCGCTTTTTCAACAACGCCGCTAAAGCCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
26185676 GCAGTGCTTTTTTTAAAAA-GCCGCTAAAGCCCTGAGCATTA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
*
26185717 GTGGCGCTTT
1 GCGGCGCTTT
26185727 CTAAAGCCCT
Statistics
Matches: 138, Mismatches: 31, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
40 70 0.51
41 59 0.43
42 9 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:26185655 original size:81 final size:80
Alignment explanation
Indices: 26185514--26185726 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 80
26185504 AAATATTTTT
* * * *
26185514 GCGGCGCTTTTTCAAAAATGCTGCTAAAGCCCCGAGCATTA-CGGTGCTCCTTGGAAAACGCCGC
1 GCGGCGCTTTTTCAAAAA-GCCGCTAAAGCCCCGAGCATTAGCGGCGCT-TTTGCAAAACGCCGC
*
26185578 TATAGCCCCGAGCATTA
64 TAAAGCCCCGAGCATTA
* * * *
26185595 GTGGCGCTTTTTCAAAAACGCCGCTAAATCCCCGA-CTTTAGCGGCGCTTTTTCAACAACGCCGC
1 GCGGCGCTTTTTCAAAAA-GCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTGCAA-AACGCCGC
*
26185659 TAAAGCCTCGAGCATTA
64 TAAAGCCCCGAGCATTA
* * * * *
26185676 GCAGTGCTTTTTTTAAAAAGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTT
1 GCGGCGC-TTTTTCAAAAAGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTT
26185727 CTAAAGCCCT
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
80 8 0.07
81 78 0.72
82 23 0.21
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCGGCGCTTTTTCAAAAAGCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTGCAAAACGCCGCTA
AAGCCCCGAGCATTA
Found at i:26208550 original size:35 final size:35
Alignment explanation
Indices: 26208494--26208691 Score: 229
Period size: 35 Copynumber: 5.6 Consensus size: 35
26208484 TACTCTCTAT
* *
26208494 TTGGCGTGTTTCAGTTAGACTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
*
26208529 TTGACGTGTTTCGGTTGGACTAGCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
26208564 TTGGCGTGTTTTGGTTGGACTAGTTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* *
26208599 TTGGCGTGTTCCGGTTGGACTACCTCTTATGAGCA
1 TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
* * ** * *
26208634 TTTGGTGTGTTTTGGAGGGA-TTGACTCGTATGAGCA
1 -TTGGCGTGTTTCGGTTGGACTAG-CTCTTATGAGCA
26208670 TCTGGCGTGTTAT-GGTTGGACT
1 T-TGGCGTGTT-TCGGTTGGACT
26208692 GACGATGTGC
Statistics
Matches: 137, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
35 97 0.71
36 38 0.28
37 2 0.01
ACGTcount: A:0.16, C:0.15, G:0.31, T:0.38
Consensus pattern (35 bp):
TTGGCGTGTTTCGGTTGGACTAGCTCTTATGAGCA
Found at i:26222478 original size:66 final size:66
Alignment explanation
Indices: 26222372--26222501 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
26222362 TTTCCATTTC
* *
26222372 AGAGAGCACACTCCTGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
26222437 A
66 A
* * * *
26222438 AGAGAGCACACTCCCGCGAACGTTATTCTTACAGTAGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTG
26222502 TAATATAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
A
Found at i:26227050 original size:171 final size:171
Alignment explanation
Indices: 26226756--26227090 Score: 526
Period size: 171 Copynumber: 2.0 Consensus size: 171
26226746 TGGTGACATG
*
26226756 GCCGTGTGTCATTTGTGAGTTTCTTAGTGTACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
1 GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
* * * * *
26226821 TGGCATACGGGGGTGTAGGGCTACTCAGTGAGTTACACGAGTGTGGACATAGGCTGGGACACGGT
66 TGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGAGGACACAAGCTGGGACACGGT
*
26226886 CGTATGTCCCTTGTTTGAAAGTTACACGGCCTGGCGACACA
131 CGTATGTCCCTTGTTCGAAAGTTACACGGCCTGGCGACACA
* * * *
26226927 GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAGAGAGTTACACAGCTTAGCATATGGCC
1 GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
* *
26226992 TGGCACACGGGCGTGTGGGGCTACTCAGTGAGTTACACGGGTGAGGACACAAGCTGGGACACGGT
66 TGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGAGGACACAAGCTGGGACACGGT
* * *
26227057 TGTGTGTCCCTTGTTCGAAAGTTATACGGCCTGG
131 CGTATGTCCCTTGTTCGAAAGTTACACGGCCTGG
26227091 GTGATTTCAC
Statistics
Matches: 148, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
171 148 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (171 bp):
GCCGTGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAAAGAGTTACACAGCCTAGCACATGACC
TGGCACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGAGGACACAAGCTGGGACACGGT
CGTATGTCCCTTGTTCGAAAGTTACACGGCCTGGCGACACA
Found at i:26229146 original size:7 final size:7
Alignment explanation
Indices: 26229136--26229169 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
26229126 TTGTTTTTCT
26229136 TTTTAAA
1 TTTTAAA
26229143 TTTTAAA
1 TTTTAAA
26229150 TTTTAAA
1 TTTTAAA
26229157 TTTTAAA
1 TTTTAAA
26229164 TTTTAA
1 TTTTAA
26229170 GTTAATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:26231750 original size:29 final size:31
Alignment explanation
Indices: 26231709--26231768 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
26231699 CTAGTAATAA
26231709 AAAAAAGATAAATTT-GAATAGTTGAGTGATC
1 AAAAAAGA-AAATTTAGAATAGTTGAGTGATC
*
26231740 AAAAAAG-AAATTTACTAATAGTTGAGTGA
1 AAAAAAGAAAATTTA-GAATAGTTGAGTGA
26231769 CATCTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
31 20 0.77
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAAAAGAAAATTTAGAATAGTTGAGTGATC
Found at i:26236375 original size:9 final size:9
Alignment explanation
Indices: 26236358--26236390 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
26236348 TCGAGTTGAT
*
26236358 TCGAATAAC
1 TCGATTAAC
26236367 TCGATTAAC
1 TCGATTAAC
26236376 TCGATTAAC
1 TCGATTAAC
26236385 TCGATT
1 TCGATT
26236391 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:26240467 original size:418 final size:418
Alignment explanation
Indices: 26239690--26240525 Score: 1647
Period size: 418 Copynumber: 2.0 Consensus size: 418
26239680 TATTCGTTGA
26239690 TAATGTCGCAAACACCTTCAACATCATTGTTCTACCGAGGTGAATCATGTTCGCAACCACCTATT
1 TAATGTCGCAAACACCTTCAACATCATTGTTCTACCGAGGTGAATCATGTTCGCAACCACCTATT
26239755 ACTAGAATGGACGATATATGAGGACAATCTTGGATGACACGACACTCAAGCACGAAGGAATAATA
66 ACTAGAATGGACGATATATGAGGACAATCTTGGATGACACGACACTCAAGCACGAAGGAATAATA
26239820 CGATGATGAAGATGAAAAAGATGAGTAGTCGAAACCCCAAATATGAAGAAATCCTACTCGCAATT
131 CGATGATGAAGATGAAAAAGATGAGTAGTCGAAACCCCAAATATGAAGAAATCCTACTCGCAATT
26239885 GACACCCACTGAGTTGTGACACACATTCGACCCTGATGATGCCGATGATTTTTTTTTAAATTCAT
196 GACACCCACTGAGTTGTGACACACATTCGACCCTGATGATGCCGATGATTTTTTTTTAAATTCAT
26239950 TTAAATCATCATTTACTTTTCTAACTTTTAATTTCTATTGTATTAATTTTTTTCCATCCATAATG
261 TTAAATCATCATTTACTTTTCTAACTTTTAATTTCTATTGTATTAATTTTTTTCCATCCATAATG
26240015 TACTTATTCTAATTATATATATAAAGTTGTTCTGTTGTATTTTACATCAATAATATACTTATTTA
326 TACTTATTCTAATTATATATATAAAGTTGTTCTGTTGTATTTTACATCAATAATATACTTATTTA
26240080 CAATCTAAGAAAAAAAATTTAAAAATTG
391 CAATCTAAGAAAAAAAATTTAAAAATTG
26240108 TAATGTCGCAAACACCTTCAACATCATTGTTCTACCGAGGTGAATCATGTTCGCAACCACCTATT
1 TAATGTCGCAAACACCTTCAACATCATTGTTCTACCGAGGTGAATCATGTTCGCAACCACCTATT
26240173 ACTAGAATGGACGATATATGAGGACAATCTTGGATGACACGACACTCAAGCACGAAGGAATAATA
66 ACTAGAATGGACGATATATGAGGACAATCTTGGATGACACGACACTCAAGCACGAAGGAATAATA
26240238 CGATGATGAAGATGAAAAAGATGAGTAGTCGAAACCCCAAATATGAAGAAATCCTACTCGCAATT
131 CGATGATGAAGATGAAAAAGATGAGTAGTCGAAACCCCAAATATGAAGAAATCCTACTCGCAATT
26240303 GACACCCACTGAGTTGTGACACACATTCGACCCTGATGATGCCGATGATTTTTTTTTAAATTCAT
196 GACACCCACTGAGTTGTGACACACATTCGACCCTGATGATGCCGATGATTTTTTTTTAAATTCAT
26240368 TTAAATCATCATTTACTTTTCTAACTTTTAATTTCTATTGTATTAATTTTTTTCCATCCATAATG
261 TTAAATCATCATTTACTTTTCTAACTTTTAATTTCTATTGTATTAATTTTTTTCCATCCATAATG
26240433 TACTTATTCTAATTATTATATATAAA-TTGTTCTGTTGTATTTTACATCAATAATATACTTATTT
326 TACTTATTCTAATTA-TATATATAAAGTTGTTCTGTTGTATTTTACATCAATAATATACTTATTT
*
26240497 ACAATCTAAGAAAAACAATTTAAAAATTG
390 ACAATCTAAGAAAAAAAATTTAAAAATTG
26240526 GTTTATTGTA
Statistics
Matches: 416, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
418 406 0.98
419 10 0.02
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (418 bp):
TAATGTCGCAAACACCTTCAACATCATTGTTCTACCGAGGTGAATCATGTTCGCAACCACCTATT
ACTAGAATGGACGATATATGAGGACAATCTTGGATGACACGACACTCAAGCACGAAGGAATAATA
CGATGATGAAGATGAAAAAGATGAGTAGTCGAAACCCCAAATATGAAGAAATCCTACTCGCAATT
GACACCCACTGAGTTGTGACACACATTCGACCCTGATGATGCCGATGATTTTTTTTTAAATTCAT
TTAAATCATCATTTACTTTTCTAACTTTTAATTTCTATTGTATTAATTTTTTTCCATCCATAATG
TACTTATTCTAATTATATATATAAAGTTGTTCTGTTGTATTTTACATCAATAATATACTTATTTA
CAATCTAAGAAAAAAAATTTAAAAATTG
Found at i:26240613 original size:80 final size:80
Alignment explanation
Indices: 26240462--26240645 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
26240452 ATATAAATTG
* **
26240462 TTCTGTTGTATTTTACATCAAT-A-ATATAC----TTATTTACAATCTAAGAAAAACAATTTAAA
1 TTCTATTGTATTTTACATCAATAATATATACTTATTTATTTACAATCTAAGAAAAACAATAAAAA
*
26240521 AATTGGTTTATTGTA
66 AATTCGTTTATTGTA
*
26240536 TTTTATTGT-TTTT-CATACCAATAATATATACTTATTTATTTACAATCTAAG-AAAA-AATGAA
1 TTCTATTGTATTTTACAT--CAATAATATATACTTATTTATTTACAATCTAAGAAAAACAAT-AA
*
26240597 AAAAATTCTTTATATTGTA
63 AAAAATTCGTT-TATTGTA
26240616 TTCTATTGTATTTTACATCAATAATATATA
1 TTCTATTGTATTTTACATCAATAATATATA
26240646 AATATTTACA
Statistics
Matches: 91, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
72 3 0.03
73 4 0.04
74 11 0.12
75 1 0.01
76 6 0.07
78 3 0.03
79 13 0.14
80 43 0.47
81 4 0.04
82 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (80 bp):
TTCTATTGTATTTTACATCAATAATATATACTTATTTATTTACAATCTAAGAAAAACAATAAAAA
AATTCGTTTATTGTA
Found at i:26248836 original size:15 final size:15
Alignment explanation
Indices: 26248813--26248844 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26248803 ACTTAATATG
26248813 TATAAGTTATAATAA
1 TATAAGTTATAATAA
*
26248828 TATATGTTATAATAA
1 TATAAGTTATAATAA
26248843 TA
1 TA
26248845 AGAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
TATAAGTTATAATAA
Found at i:26248885 original size:26 final size:26
Alignment explanation
Indices: 26248835--26248887 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
26248825 TAATATATGT
*
26248835 TATAATAATAAGAAATAAAATGAAAA
1 TATAATAATAAGAAATAAAAAGAAAA
*
26248861 TATAATTA-AAGAAATAATAAAGAAAA
1 TATAATAATAAGAAATAA-AAAGAAAA
26248887 T
1 T
26248888 GGAAAGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (26 bp):
TATAATAATAAGAAATAAAAAGAAAA
Found at i:26250106 original size:19 final size:20
Alignment explanation
Indices: 26250045--26250109 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 20
26250035 ACAAAGTTAA
* *
26250045 GAAATGAAA-ATGAGATGA-
1 GAAATGAAATATGAAATCAT
*
26250063 GAAATGAAATATGAAATGAT
1 GAAATGAAATATGAAATCAT
* *
26250083 GAAATGAAATGTG-AATCTT
1 GAAATGAAATATGAAATCAT
26250102 GAAATGAA
1 GAAATGAA
26250110 TTCAAGTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 9 0.22
19 20 0.49
20 12 0.29
ACGTcount: A:0.52, C:0.02, G:0.23, T:0.23
Consensus pattern (20 bp):
GAAATGAAATATGAAATCAT
Found at i:26258756 original size:16 final size:15
Alignment explanation
Indices: 26258735--26258764 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26258725 AATTAAATAC
26258735 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
26258751 AACAACATTTTTAA
1 AACAACATTTTTAA
26258765 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:26270071 original size:34 final size:33
Alignment explanation
Indices: 26270033--26270199 Score: 167
Period size: 34 Copynumber: 5.0 Consensus size: 33
26270023 AAGCAAGTTT
*
26270033 ATTGCTACCGTAATGATCTGTTATAAGCATGCTA
1 ATTGCTACTGTAATGATCTGTTATAAGCATG-TA
* * *
26270067 ATTGCTACTGT-ATCAGTTTGTTATAAGCATGTTT
1 ATTGCTACTGTAATGA-TCTGTTATAAGCATG-TA
*
26270101 ATTGCTACTGTAATGATCTATTATAAGCATGATA
1 ATTGCTACTGTAATGATCTGTTATAAGCATG-TA
* * * *
26270135 ATTGTTATTGTATTGA-CTTGTTATAAGCATGTT
1 ATTGCTACTGTAATGATC-TGTTATAAGCATGTA
* * *
26270168 ATTGCTACTGTATTGATTTGTTATAAGTATGT
1 ATTGCTACTGTAATGATCTGTTATAAGCATGT
26270200 CATGTTGCAT
Statistics
Matches: 110, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
33 32 0.29
34 75 0.68
35 3 0.03
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (33 bp):
ATTGCTACTGTAATGATCTGTTATAAGCATGTA
Found at i:26270130 original size:68 final size:68
Alignment explanation
Indices: 26270021--26270194 Score: 235
Period size: 68 Copynumber: 2.6 Consensus size: 68
26270011 CAAATGTATG
* * * *
26270021 ATAAGCAAGTTTATTGCTACCGTAATGATCTGTTATAAGCATGCTAATTGCTACTGTATCAG-TT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGATAATTGCTACTGTAT-AGACT
26270085 TGTT
65 TGTT
* * * *
26270089 ATAAGCATGTTTATTGCTACTGTAATGATCTATTATAAGCATGATAATTGTTATTGTATTGACTT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGATAATTGCTACTGTATAGACTT
26270154 GTT
66 GTT
* *
26270157 ATAAGCATG-TTATTGCTACTGTATTGATTTGTTATAAG
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAG
26270195 TATGTCATGT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
67 27 0.29
68 67 0.71
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (68 bp):
ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGATAATTGCTACTGTATAGACTT
GTT
Found at i:26270293 original size:24 final size:24
Alignment explanation
Indices: 26270266--26270334 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
26270256 CTACAATGAC
* *
26270266 CAGTGGTTCATCCACAACGTTTTT
1 CAGTGGTTTATCCACAACGTATTT
* *
26270290 CAGTGGTTTATCCACAATGCATTT
1 CAGTGGTTTATCCACAACGTATTT
* *
26270314 CAATGGTTTATCCATAACGTA
1 CAGTGGTTTATCCACAACGTA
26270335 CTAGTAACTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (24 bp):
CAGTGGTTTATCCACAACGTATTT
Found at i:26271793 original size:99 final size:99
Alignment explanation
Indices: 26271679--26271888 Score: 395
Period size: 99 Copynumber: 2.1 Consensus size: 99
26271669 ATTATTTTAT
26271679 ATATTTTAAATTTTAAATAATTATAATTTTAGTTATTTTATAATAATTTTATTTTTGTAATTATG
1 ATATTTTAAA-TTTAAATAATTATAATTTTAGTTATTTTATAATAATTTTATTTTTGTAATTATG
26271744 TTTTTGAATTTTTAAAATTAAGACCAAATTGATAG
65 TTTTTGAATTTTTAAAATTAAGACCAAATTGATAG
26271779 ATATTTTAAATTTAAATAATTATAATTTTAGTTATTTTATAATAATTTTATTTTTGTAATTATGT
1 ATATTTTAAATTTAAATAATTATAATTTTAGTTATTTTATAATAATTTTATTTTTGTAATTATGT
26271844 TTTTGAATTTTTAAAATTAAGACCAAATTGATAG
66 TTTTGAATTTTTAAAATTAAGACCAAATTGATAG
26271878 A-ATTTGTAAAT
1 ATATTT-TAAAT
26271889 ATTGAAGACT
Statistics
Matches: 109, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
98 4 0.04
99 95 0.87
100 10 0.09
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (99 bp):
ATATTTTAAATTTAAATAATTATAATTTTAGTTATTTTATAATAATTTTATTTTTGTAATTATGT
TTTTGAATTTTTAAAATTAAGACCAAATTGATAG
Found at i:26271917 original size:60 final size:61
Alignment explanation
Indices: 26271852--26271968 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 61
26271842 GTTTTTGAAT
* * * *
26271852 TTTTAAAATTAAGACCAAATTGATAGAATTTGT-AAATATTGAAGACTAAAATTATTTAAA
1 TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAAGATTAAAGACTAAAATTATTTAAA
* * * *
26271912 TTTTAAATTTATGACTAAATTGACAGAATGTGTAAAAGATTAAAGACTAAATTTATT
1 TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAAGATTAAAGACTAAAATTATT
26271969 ATGCTAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
60 28 0.58
61 20 0.42
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (61 bp):
TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAAGATTAAAGACTAAAATTATTTAAA
Found at i:26275007 original size:22 final size:21
Alignment explanation
Indices: 26274979--26275041 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
26274969 ACGGGTTTAG
26274979 CACTTTTATGCTCTCTGTTCAA
1 CACTTTTATGCTCTCTGTT-AA
*
26275001 CACTTTTGTGCTCTCTGCTTAA
1 CACTTTTATGCTCTCTG-TTAA
** *
26275023 CACTTCAATTCTCTCTGTT
1 CACTTTTATGCTCTCTGTT
26275042 TAGCACTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.16, C:0.29, G:0.10, T:0.46
Consensus pattern (21 bp):
CACTTTTATGCTCTCTGTTAA
Found at i:26276038 original size:20 final size:20
Alignment explanation
Indices: 26276015--26276066 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
26276005 ACTTGTAAAG
*
26276015 GAGTATTGATACCATAATTC
1 GAGTATCGATACCATAATTC
26276035 GAGTATCGATACCATAATTC
1 GAGTATCGATACCATAATTC
*
26276055 AAGTATCGATAC
1 GAGTATCGATAC
26276067 TTGGAGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
GAGTATCGATACCATAATTC
Found at i:26278655 original size:37 final size:34
Alignment explanation
Indices: 26278588--26278700 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 34
26278578 GCCCTAGGCA
* *
26278588 AGTA-CAGTCTGGGCCTAAGCCCAATT-CAATAAC
1 AGTATCAGTGTGGGCCTTAGCCC-ATTACAATAAC
* *
26278621 AGTTTAGTTCAGT-TGGTCCTTAGCCCATTACAATATC
1 AG--TA--TCAGTGTGGGCCTTAGCCCATTACAATAAC
* *
26278658 AGTATCAGTGTGGGCCTTAGCCCATTACAGTGAC
1 AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
*
26278692 AGTAGCAGT
1 AGTATCAGT
26278701 TCAGACATGC
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
33 7 0.11
34 28 0.43
35 4 0.06
36 3 0.05
37 19 0.29
38 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (34 bp):
AGTATCAGTGTGGGCCTTAGCCCATTACAATAAC
Found at i:26279009 original size:27 final size:27
Alignment explanation
Indices: 26278973--26279061 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
26278963 TAAAGCATAT
* *
26278973 AGTCATTTTATAACATAGCGGCATAAC
1 AGTCATTTTACAACATAGGGGCATAAC
*
26279000 AATCATTTTACAACATAGGGGCATAAC
1 AGTCATTTTACAACATAGGGGCATAAC
* *
26279027 AGTCATTTTACCACGTAGGGGCATAAC
1 AGTCATTTTACAACATAGGGGCATAAC
26279054 AGTCATTT
1 AGTCATTT
26279062 CATATCATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
AGTCATTTTACAACATAGGGGCATAAC
Found at i:26279503 original size:9 final size:9
Alignment explanation
Indices: 26279489--26279519 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26279479 GTTAAACGAA
26279489 TCGAGTTAT
1 TCGAGTTAT
*
26279498 TCGAGTTAA
1 TCGAGTTAT
26279507 TCGAGTTAT
1 TCGAGTTAT
26279516 TCGA
1 TCGA
26279520 ATTAACTCGA
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:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:26279510 original size:18 final size:18
Alignment explanation
Indices: 26279487--26279529 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
26279477 GAGTTAAACG
*
26279487 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAATT
26279505 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
26279523 AACTCGA
1 AA-TCGA
26279530 ATTTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:26279589 original size:9 final size:9
Alignment explanation
Indices: 26279572--26279608 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26279562 TGAGTTTTCG
26279572 AATTCGAAT
1 AATTCGAAT
*
26279581 AACTCGAAT
1 AATTCGAAT
26279590 AATTCGAAT
1 AATTCGAAT
26279599 AATTCGAAT
1 AATTCGAAT
26279608 A
1 A
26279609 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26283751 original size:22 final size:22
Alignment explanation
Indices: 26283723--26283768 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
26283713 ATGAGTACCC
26283723 AAGCATCAGATATGTTTGTCAA
1 AAGCATCAGATATGTTTGTCAA
26283745 AAGCATCAGATATGTTTGTCAA
1 AAGCATCAGATATGTTTGTCAA
26283767 AA
1 AA
26283769 TTATGTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (22 bp):
AAGCATCAGATATGTTTGTCAA
Found at i:26288614 original size:1 final size:1
Alignment explanation
Indices: 26288610--26288638 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
26288600 AAATTTTCAA
26288610 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
26288639 AAGGGGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:26294859 original size:18 final size:18
Alignment explanation
Indices: 26294836--26294874 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
26294826 ACCTAATCCA
*
26294836 AACCCAAGTATCCAACCC
1 AACCCAAGTACCCAACCC
* *
26294854 AACCCAATTACCCAACTC
1 AACCCAAGTACCCAACCC
26294872 AAC
1 AAC
26294875 ACAATCACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.44, G:0.03, T:0.13
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:26295124 original size:25 final size:26
Alignment explanation
Indices: 26295096--26295158 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 26
26295086 CATTTTAATT
26295096 ATGTGTTAATTTC-AAGACTTATGTA
1 ATGTGTTAATTTCAAAGACTTATGTA
*
26295121 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT--TTCAAAGACTTATGTA
*
26295147 ATGCTTTTAATT
1 ATG-TGTTAATT
26295159 ATGTAGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
23 6 0.21
25 4 0.14
26 13 0.45
27 1 0.03
29 5 0.17
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (26 bp):
ATGTGTTAATTTCAAAGACTTATGTA
Found at i:26295185 original size:9 final size:9
Alignment explanation
Indices: 26295171--26295221 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
26295161 GTAGTGATTC
26295171 AATTCGGGT
1 AATTCGGGT
*
26295180 AATTCGGTT
1 AATTCGGGT
**
26295189 AATTCAAGT
1 AATTCGGGT
*
26295198 GATTCGGGT
1 AATTCGGGT
*
26295207 AATTCGGTT
1 AATTCGGGT
26295216 AATTCG
1 AATTCG
26295222 ATTAACTAAC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (9 bp):
AATTCGGGT
Found at i:26295573 original size:36 final size:38
Alignment explanation
Indices: 26295502--26295573 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
26295492 GGTTTAACAT
*
26295502 TACAATCTCCCTTAAGATTTATACCTCAAATCTTAATA
1 TACAATCTCCCTTAAGATTTATACCTCAAACCTTAATA
* **
26295540 TACAA-CTCCCTTAAGGTTT-TTTCTCAAACCTTAA
1 TACAATCTCCCTTAAGATTTATACCTCAAACCTTAA
26295574 GAATTAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.40
37 13 0.43
38 5 0.17
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (38 bp):
TACAATCTCCCTTAAGATTTATACCTCAAACCTTAATA
Found at i:26295605 original size:4 final size:4
Alignment explanation
Indices: 26295596--26295620 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26295586 TCTCAAAGAG
26295596 AACA AACA AACA AACA AACA AACA A
1 AACA AACA AACA AACA AACA AACA A
26295621 TCCTTATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:26295763 original size:30 final size:30
Alignment explanation
Indices: 26295727--26295787 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
26295717 AAAATGCATG
26295727 AAAGAATTAAACTCTAGGTTGTTTTGATTT
1 AAAGAATTAAACTCTAGGTTGTTTTGATTT
26295757 AAAGAATTAAACTCTAGGTTGTTTTGATTT
1 AAAGAATTAAACTCTAGGTTGTTTTGATTT
26295787 A
1 A
26295788 CTTTTAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (30 bp):
AAAGAATTAAACTCTAGGTTGTTTTGATTT
Found at i:26302673 original size:25 final size:25
Alignment explanation
Indices: 26302637--26302690 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
26302627 TGTCAAGAAT
*
26302637 GAGGCTGGAACAAGTAAACCAGATG
1 GAGGCTGAAACAAGTAAACCAGATG
*
26302662 GAGGCTGAAACAAGTAAACTAGATG
1 GAGGCTGAAACAAGTAAACCAGATG
26302687 GAGG
1 GAGG
26302691 TGGAACACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.33, T:0.13
Consensus pattern (25 bp):
GAGGCTGAAACAAGTAAACCAGATG
Found at i:26306357 original size:72 final size:73
Alignment explanation
Indices: 26306209--26306362 Score: 222
Period size: 72 Copynumber: 2.1 Consensus size: 73
26306199 AACTCTTCTC
*
26306209 CCAAAAATACTAAATTGTATTATTAAAAAATATACTATAAGTATAAAAATAAAAATAATATTTTA
1 CCAAAAATACTAAATTGTATTATTAAAAAATATA-TATAAGTATAAAAATAAAAATAATATATTA
*
26306274 TTATACTTA
65 TTATACATA
* * * *
26306283 CCAAAAATACTAAATTGTTTTATTACAAAAA-AT-TATCATTATAAAAATACAAATAATATATTA
1 CCAAAAATACTAAATTGTATTATTA-AAAAATATATATAAGTATAAAAATAAAAATAATATATTA
26306346 TTATACATA
65 TTATACATA
26306355 CCAAAAAT
1 CCAAAAAT
26306363 TCAACATATA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 42 0.58
74 26 0.36
75 5 0.07
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (73 bp):
CCAAAAATACTAAATTGTATTATTAAAAAATATATATAAGTATAAAAATAAAAATAATATATTAT
TATACATA
Found at i:26306953 original size:27 final size:27
Alignment explanation
Indices: 26306916--26306974 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
26306906 AATATATAAT
26306916 AAATATATTTTTTATTTTTTAATTTTA
1 AAATATATTTTTTATTTTTTAATTTTA
* *
26306943 AAATATTTTTTTTATTTTTTATTTTTA
1 AAATATATTTTTTATTTTTTAATTTTA
26306970 AAATA
1 AAATA
26306975 AAATTTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
AAATATATTTTTTATTTTTTAATTTTA
Found at i:26306981 original size:26 final size:27
Alignment explanation
Indices: 26306916--26306981 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
26306906 AATATATAAT
**
26306916 AAATATATTTTTTATTTTTTAATTTTA
1 AAATATAAATTTTATTTTTTAATTTTA
*** *
26306943 AAATATTTTTTTTATTTTTTATTTTTA
1 AAATATAAATTTTATTTTTTAATTTTA
26306970 AAATA-AAATTTT
1 AAATATAAATTTT
26306982 GGTGTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (27 bp):
AAATATAAATTTTATTTTTTAATTTTA
Found at i:26306981 original size:27 final size:27
Alignment explanation
Indices: 26306924--26306981 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
26306914 ATAAATATAT
***
26306924 TTTTTATTTTTTAATTTTAAAATATTT
1 TTTTTATTTTTTAATTTTAAAATAAAA
*
26306951 TTTTTATTTTTTATTTTTAAAATAAAA
1 TTTTTATTTTTTAATTTTAAAATAAAA
26306978 TTTT
1 TTTT
26306982 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTATTTTTTAATTTTAAAATAAAA
Found at i:26312309 original size:52 final size:53
Alignment explanation
Indices: 26312222--26312490 Score: 168
Period size: 52 Copynumber: 5.0 Consensus size: 53
26312212 AATATGTAGG
* *
26312222 TCCCAAACTTTTTCTCTTGAATAAGTTAAT-T--TTTTTTTTTTGAATAAGTTGA
1 TCCCAAACTTTTT-T-TTAAATAAGTTCATCTAATTTTTTTTTTGAATAAGTTGA
* * * *
26312274 TCCCAAACTTTTTTTT-AATAAGTTCATCTAATTTTTTTGTTAAACAAATTGA
1 TCCCAAACTTTTTTTTAAATAAGTTCATCTAATTTTTTTTTTGAATAAGTTGA
* *
26312326 TTCCAAACTTTTTTTTTAAAATAAGTTTATCT--TTTCTTTTTGTTGAATAAGTTGA
1 TCCCAAAC-TTTTTTTT-AAATAAGTTCATCTAATTT-TTTTT-TTGAATAAGTTGA
** * * * *
26312381 TCCC-AA-TTTTTTTTTTATAAGTTCTTCCCAAGCTATTTTTTTTGTGTCTAGATATGTAGA
1 TCCCAAACTTTTTTTTAAATAAGTTCAT-CTAA--T-TTTTTTTT-TG---A-ATAAGTTGA
*
26312441 TCCCAAACTTTTTTTTGAATAAG----T-TAATTTTTTTTGTTGAATAAGTTGA
1 TCCCAAACTTTTTTTTAAATAAGTTCATCTAATTTTTTTT-TTGAATAAGTTGA
26312490 T
1 T
26312491 TCTGTTATGA
Statistics
Matches: 171, Mismatches: 24, Indels: 47
0.71 0.10 0.19
Matches are distributed among these distances:
49 18 0.11
50 4 0.02
51 9 0.05
52 46 0.27
53 20 0.12
54 8 0.05
55 26 0.15
56 10 0.06
57 2 0.01
58 1 0.01
59 1 0.01
60 11 0.06
61 2 0.01
62 13 0.08
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.52
Consensus pattern (53 bp):
TCCCAAACTTTTTTTTAAATAAGTTCATCTAATTTTTTTTTTGAATAAGTTGA
Found at i:26312342 original size:55 final size:52
Alignment explanation
Indices: 26312282--26312404 Score: 133
Period size: 55 Copynumber: 2.3 Consensus size: 52
26312272 GATCCCAAAC
26312282 TTTTTTTTAATAAGTTCATCTAATT-TTTTTGTTAAACAAATTGATTCCAAACTT
1 TTTTTTTTAATAAGTTCATCT-ATTCTTTTTGTTAAACAAATTGA-TCCAAA-TT
* * * * * * *
26312336 TTTTTTTAAAATAAGTTTATCTTTTCTTTTTGTTGAATAAGTTGATCCCAATT
1 TTTTTTT-TAATAAGTTCATCTATTCTTTTTGTTAAACAAATTGATCCAAATT
26312389 TTTTTTTT-ATAAGTTC
1 TTTTTTTTAATAAGTTC
26312405 TTCCCAAGCT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
51 7 0.12
53 9 0.16
54 14 0.24
55 28 0.48
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (52 bp):
TTTTTTTTAATAAGTTCATCTATTCTTTTTGTTAAACAAATTGATCCAAATT
Found at i:26312391 original size:26 final size:27
Alignment explanation
Indices: 26312254--26312393 Score: 81
Period size: 26 Copynumber: 5.2 Consensus size: 27
26312244 AAGTTAATTT
* *
26312254 TTTTTTTTTGAATAAGTTGATCCCAAAC
1 TTTTTTGTTAAATAAGTTGATCCC-AAC
* * *
26312282 TTTTTT-TT-AATAAGTTCAT-CTAAT
1 TTTTTTGTTAAATAAGTTGATCCCAAC
* * *
26312306 TTTTTTGTTAAACAAATTGATTCCAAAC
1 TTTTTTGTTAAATAAGTTGA-TCCCAAC
* * ****
26312334 TTTTTTTTTAAAATAAGTTTATCTTTTC
1 TTTTTTGTT-AAATAAGTTGATCCCAAC
* *
26312362 -TTTTTGTTGAATAAGTTGATCCCAAT
1 TTTTTTGTTAAATAAGTTGATCCCAAC
26312388 TTTTTT
1 TTTTTT
26312394 TTTATAAGTT
Statistics
Matches: 82, Mismatches: 24, Indels: 13
0.69 0.20 0.11
Matches are distributed among these distances:
24 8 0.10
25 3 0.04
26 28 0.34
27 15 0.18
28 20 0.24
29 8 0.10
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.54
Consensus pattern (27 bp):
TTTTTTGTTAAATAAGTTGATCCCAAC
Found at i:26314741 original size:20 final size:20
Alignment explanation
Indices: 26314703--26314742 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
26314693 TAAATTGTAT
26314703 ATATTTATATGTTTGAATTGA
1 ATATTTATATG-TTGAATTGA
26314724 ATATTGTATATG-TGAATTG
1 ATATT-TATATGTTGAATTG
26314743 TATAAATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
ATATTTATATGTTGAATTGA
Found at i:26315068 original size:26 final size:26
Alignment explanation
Indices: 26315039--26315089 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
26315029 CCCGATATAT
26315039 GGCTCTTTGTGAGCTT-CTCGATTAAA
1 GGCTCTTTGTGAGCTTCCT-GATTAAA
*
26315065 GGCTCTTTGTGGGCTTCCTGATTAA
1 GGCTCTTTGTGAGCTTCCTGATTAA
26315090 TGGTTCTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAA
Found at i:26315154 original size:25 final size:23
Alignment explanation
Indices: 26315096--26315156 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
26315086 TTAATGGTTC
*
26315096 TCTAGAGCTTCCCATTATGACTC
1 TCTAGAGCTTCCCATTATGACTA
* * * *
26315119 GCTTGAACTTCCCGATATATGGCTA
1 TCTAGAGCTTCCC-AT-TATGACTA
26315144 TCTAGAGCTTCCC
1 TCTAGAGCTTCCC
26315157 TTTAATGGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 10 0.36
24 2 0.07
25 16 0.57
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (23 bp):
TCTAGAGCTTCCCATTATGACTA
Found at i:26315212 original size:72 final size:73
Alignment explanation
Indices: 26315100--26315240 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 73
26315090 TGGTTCTCTA
* *
26315100 GAGCTTCCCATTATGACTCGCTTGAACTTCCCGATATATGGCTATCTA-GAGCTTCCCT-TTA-A
1 GAGCTACCCATTATGACTCGCTTGAACTTCCCAATATATGGCT-TCTATGAGCTT-CCTGTTATA
26315162 TGGCTCTTCG
64 TGGCTCTTCG
* * * *
26315172 GAGCTACCCATTATTGGCTTGCTTGAGCTTCCCAAT-TATGGCTTTTATGAGCTTCCTGTTATAT
1 GAGCTACCCATTA-TGACTCGCTTGAACTTCCCAATATATGGCTTCTATGAGCTTCCTGTTATAT
26315236 GGCTC
65 GGCTC
26315241 GAGAGAGGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
71 6 0.10
72 28 0.47
73 25 0.42
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (73 bp):
GAGCTACCCATTATGACTCGCTTGAACTTCCCAATATATGGCTTCTATGAGCTTCCTGTTATATG
GCTCTTCG
Found at i:26320228 original size:30 final size:30
Alignment explanation
Indices: 26320104--26320260 Score: 111
Period size: 29 Copynumber: 5.1 Consensus size: 30
26320094 ACAGATCCCA
* *
26320104 TTTTTTTTT-TGTATAAGTTCACCCCAAAC
1 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
* * * * **
26320133 TTTTTTCTTGTGTCAACAAATTCTTCCTGAAC
1 TTTTTT-TT-TGTGAATAAGTTCATCCCAAAC
* * ** *
26320165 TTTGTTTTTTTGTATAGATATGTAGATCTCAAAC
1 -TT-TTTTTTTGT-GA-ATAAGTTCATCCCAAAC
26320199 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
1 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
* *
26320229 TTTTTTTTT-TGAATAAATTCCTCCCAAAC
1 TTTTTTTTTGTGAATAAGTTCATCCCAAAC
26320258 TTT
1 TTT
26320261 AATTCTTCCT
Statistics
Matches: 96, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
29 27 0.28
30 24 0.25
31 2 0.02
32 24 0.25
33 7 0.07
34 12 0.12
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (30 bp):
TTTTTTTTTGTGAATAAGTTCATCCCAAAC
Found at i:26320562 original size:27 final size:27
Alignment explanation
Indices: 26320523--26320575 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
26320513 ATTTTAAAAT
*
26320523 AAATTTAATAATTTTTTGAATT-TTTAA
1 AAATTTAATAATTATTT-AATTGTTTAA
26320550 AAATTTCAA-AATTATTTAATTGTTTA
1 AAATTT-AATAATTATTTAATTGTTTA
26320576 TGTGGCATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
27 17 0.74
28 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
AAATTTAATAATTATTTAATTGTTTAA
Found at i:26322946 original size:42 final size:42
Alignment explanation
Indices: 26322900--26323013 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
26322890 TTTCACAGGA
** *
26322900 GCGTGTACCTCAGTTGCACGG-CTGTATTTCTCAACCACACGG
1 GCGTGTACCTCAGTCACACGGTC-GTATTTCTCAACCACAAGG
*
26322942 GCGTGTACCTCAGTCACACGGTCGTGTTTCTCAACCACAAGG
1 GCGTGTACCTCAGTCACACGGTCGTATTTCTCAACCACAAGG
* ** * *
26322984 GTGTGTGGCTTAGTCACACGATCGTGATTT
1 GCGTGTACCTCAGTCACACGGTCGT-ATTT
26323014 TCCTACTTCC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 56 0.93
43 4 0.07
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.28
Consensus pattern (42 bp):
GCGTGTACCTCAGTCACACGGTCGTATTTCTCAACCACAAGG
Found at i:26322953 original size:21 final size:21
Alignment explanation
Indices: 26322929--26322989 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
26322919 GGCTGTATTT
26322929 CTCAACCACACGGGCGTGTAC
1 CTCAACCACACGGGCGTGTAC
** * **
26322950 CTCAGTCACACGGTCGTGTTT
1 CTCAACCACACGGGCGTGTAC
* *
26322971 CTCAACCACAAGGGTGTGT
1 CTCAACCACACGGGCGTGT
26322990 GGCTTAGTCA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (21 bp):
CTCAACCACACGGGCGTGTAC
Found at i:26323255 original size:21 final size:21
Alignment explanation
Indices: 26323229--26323277 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
26323219 CAGCCACACA
26323229 GCCGTGTGC-CTCTATCACATG
1 GCCGTGT-CACTCTATCACATG
* *
26323250 GGCGTGTCACTCTTTCACATG
1 GCCGTGTCACTCTATCACATG
26323271 GCCGTGT
1 GCCGTGT
26323278 AGACCCCTCA
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:0.12, C:0.31, G:0.27, T:0.31
Consensus pattern (21 bp):
GCCGTGTCACTCTATCACATG
Found at i:26327483 original size:19 final size:18
Alignment explanation
Indices: 26327454--26327512 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
26327444 TATAAAAGCA
*
26327454 TTTTAATAATTTGAAAGT
1 TTTTAAGAATTTGAAAGT
* **
26327472 TTTTGAAGAATTATAAAACA
1 TTTT-AAGAATT-TGAAAGT
*
26327492 TTTTAATAATTTGAAAGT
1 TTTTAAGAATTTGAAAGT
26327510 TTT
1 TTT
26327513 AATTTAGATG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 11 0.35
19 12 0.39
20 8 0.26
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (18 bp):
TTTTAAGAATTTGAAAGT
Found at i:26327503 original size:38 final size:39
Alignment explanation
Indices: 26327436--26327512 Score: 147
Period size: 38 Copynumber: 2.0 Consensus size: 39
26327426 GGATATATTG
26327436 TGAAGAATTATAAAAGCATTTTAATAATTTGAAAGTTTT
1 TGAAGAATTATAAAAGCATTTTAATAATTTGAAAGTTTT
26327475 TGAAGAATTATAAAA-CATTTTAATAATTTGAAAGTTTT
1 TGAAGAATTATAAAAGCATTTTAATAATTTGAAAGTTTT
26327513 AATTTAGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.42
Consensus pattern (39 bp):
TGAAGAATTATAAAAGCATTTTAATAATTTGAAAGTTTT
Found at i:26329345 original size:21 final size:21
Alignment explanation
Indices: 26329321--26329361 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26329311 ACTATACTAC
26329321 CATGT-ATCTCAGCCACACGGG
1 CATGTGAT-TCAGCCACACGGG
*
26329342 CATGTGATTTAGCCACACGG
1 CATGTGATTCAGCCACACGG
26329362 TCGTGTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (21 bp):
CATGTGATTCAGCCACACGGG
Found at i:26331988 original size:34 final size:35
Alignment explanation
Indices: 26331902--26331989 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
26331892 CTTTAAGCTT
26331902 ATAATAGAGTAAGACCATAGTTGGGCTATGACATC
1 ATAATAGAGTAAGACCATAGTTGGGCTATGACATC
* * *
26331937 ATAATAAAGTAAGACCATTGTTGGGCTGT-AGCATC
1 ATAATAGAGTAAGACCATAGTTGGGCTATGA-CATC
*
26331972 AT-ATAGTGTAAGACCATA
1 ATAATAGAGTAAGACCATA
26331990 TCTAAGATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 14 0.30
35 32 0.70
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (35 bp):
ATAATAGAGTAAGACCATAGTTGGGCTATGACATC
Found at i:26332575 original size:82 final size:82
Alignment explanation
Indices: 26332453--26332645 Score: 241
Period size: 82 Copynumber: 2.4 Consensus size: 82
26332443 GATTGAAATA
* * * * * * *
26332453 TTTGTCAGG-ATTATCATA-T-CAGGGAAGTTCACCATGGACTATCTTGTGGGACATTCATTGGG
1 TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACCATAGACTATCTCGTGGGACATCCATAGGG
*
26332515 ACTATTTATACTAGAGG
66 ACTATTTATACTAGAAG
* *
26332532 TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACTATAGACTATCTCGTGGGACGTCCATAGGG
1 TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACCATAGACTATCTCGTGGGACATCCATAGGG
26332597 ACTATTTATACTAGAAG
66 ACTATTTATACTAGAAG
* *
26332614 TCTGTC-GTGTATTATCAAAGTAAAAGGAAGTC
1 TTTGTCAG-GTATTATCAAAGTAAAGGGAAGTC
26332646 TTCTAGGATT
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
79 9 0.09
80 8 0.08
81 2 0.02
82 79 0.81
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (82 bp):
TTTGTCAGGTATTATCAAAGTAAAGGGAAGTCCACCATAGACTATCTCGTGGGACATCCATAGGG
ACTATTTATACTAGAAG
Found at i:26335639 original size:25 final size:26
Alignment explanation
Indices: 26335605--26335723 Score: 151
Period size: 25 Copynumber: 4.8 Consensus size: 26
26335595 AGGCTTCATT
*
26335605 ACAAAGGCTTTCCTTTTGGA-TT-GCC
1 ACAAAGGCTTTCCTTTT-CATTTCGCC
*
26335630 ACAAAGGCTTT-CTTTTCAGTTCGCC
1 ACAAAGGCTTTCCTTTTCATTTCGCC
*
26335655 ACAAAGGC-TTCCTTTTCATTTCACC
1 ACAAAGGCTTTCCTTTTCATTTCGCC
*
26335680 ACAAAGGC-TCCCTTTTCATTTCGCC
1 ACAAAGGCTTTCCTTTTCATTTCGCC
26335705 ACAAAGGCTTT-CTTTTCAT
1 ACAAAGGCTTTCCTTTTCAT
26335724 GCGCGTTTAT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
23 1 0.01
24 9 0.11
25 73 0.87
26 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (26 bp):
ACAAAGGCTTTCCTTTTCATTTCGCC
Found at i:26336022 original size:13 final size:13
Alignment explanation
Indices: 26336004--26336032 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
26335994 CAATTTAATA
26336004 CAAACTATGCATG
1 CAAACTATGCATG
26336017 CAAACTATGCATG
1 CAAACTATGCATG
26336030 CAA
1 CAA
26336033 GGCCCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (13 bp):
CAAACTATGCATG
Found at i:26354484 original size:3 final size:3
Alignment explanation
Indices: 26354476--26354541 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
26354466 TTCCCTAAGC
26354476 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26354523 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
26354542 AAGCTTAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:26357932 original size:89 final size:89
Alignment explanation
Indices: 26357781--26358324 Score: 869
Period size: 89 Copynumber: 6.1 Consensus size: 89
26357771 AAAACAAAGA
* * * *
26357781 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATTTTTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
** *
26357846 GACAATGTCT-TCTTTCTTTGATCT
66 GACAAAATCTGT-TTTCTTCGATCT
*
26357870 GCTTCGTCACCAGTATGGGAAGGCAAGATCTGTTATCT-TGGATCTACTTCACGCCAGTACATGA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCT-GATCTACTTCACGCCAGTACATGA
* * *
26357934 AGACAAGATCTGCTTTCTTTGATCT
65 AGACAAAATCTGTTTTCTTCGATCT
* * * *
26357959 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
* * * *
26358024 GA-TAGATCTGCTTTCTTTGATCT
66 GACAAAATCTGTTTTCTTCGATCT
*
26358047 GCTTCGCCGCCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
26358112 GACAAAATCTGTTTTCTTCGATCT
66 GACAAAATCTGTTTTCTTCGATCT
26358136 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
26358201 GACAAAATCTGTTTTCTTCGATCT
66 GACAAAATCTGTTTTCTTCGATCT
26358225 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
26358290 GACAAAATCTGTTTTCTTCGATCT
66 GACAAAATCTGTTTTCTTCGATCT
26358314 GCTTCGCCACC
1 GCTTCGCCACC
26358325 GATATCATGA
Statistics
Matches: 429, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
88 83 0.19
89 345 0.80
90 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (89 bp):
GCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
GACAAAATCTGTTTTCTTCGATCT
Found at i:26358255 original size:266 final size:267
Alignment explanation
Indices: 26357781--26358324 Score: 869
Period size: 266 Copynumber: 2.0 Consensus size: 267
26357771 AAAACAAAGA
* *
26357781 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATTTTTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAA
** * *
26357846 GACAATGTCTTCTTTCTTTGATCTGCTTCGTCACCAGTATGGGAAGGCAAGATCTGTTATCTTGG
66 GACAAAATCTTCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTGG
* *
26357911 ATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATG
131 ATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATG
* * *
26357976 GGAAGACAAGATCTGGTATCTTTGATCTACTTCAAGCCAGTACATGAAGA-TAGATCTGCTTTCT
196 GGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCCAGTACATGAAGACAAAATCTGCTTTCT
*
26358040 TTGATCT
261 TCGATCT
* * *
26358047 GCTTCGCCGCCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAA
1 GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAA
26358112 GACAAAATCTGT-TTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCT
66 GACAAAATCT-TCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCT-T
*
26358176 -GATCTACTTCACGCCAGTACATGAAGACAAAATCTGTTTTCTTCGATCTGCTTCGCCACCAGTA
129 GGATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTTTCTTCGATCTGCTTCGCCACCAGTA
* * * *
26358240 TGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAAATCTGTTTT
194 TGGGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCCAGTACATGAAGACAAAATCTGCTTT
26358305 CTTCGATCT
259 CTTCGATCT
26358314 GCTTCGCCACC
1 GCTTCGCCACC
26358325 GATATCATGA
Statistics
Matches: 254, Mismatches: 21, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
266 225 0.89
267 29 0.11
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (267 bp):
GCTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAA
GACAAAATCTTCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTGG
ATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATG
GGAAGACAAGATCTGGTATCTCTGATCTACTTCAAGCCAGTACATGAAGACAAAATCTGCTTTCT
TCGATCT
Found at i:26361245 original size:31 final size:31
Alignment explanation
Indices: 26361210--26361282 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
26361200 AAATTTATTA
* *
26361210 TTTTAGTTAC-TCTAGTTAGTTGAATTTCATG
1 TTTTAGTCACTTCTA-TTAGTTAAATTTCATG
* *
26361241 TTTTAGTCACTTCTATTTGTTAAATTTCTTG
1 TTTTAGTCACTTCTATTAGTTAAATTTCATG
*
26361272 TTTTAGCCACT
1 TTTTAGTCACT
26361283 CCTCATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (31 bp):
TTTTAGTCACTTCTATTAGTTAAATTTCATG
Found at i:26366369 original size:17 final size:18
Alignment explanation
Indices: 26366341--26366374 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
26366331 GGAGGGGGGA
26366341 TGAGAGGAGAGTAAAAGG
1 TGAGAGGAGAGTAAAAGG
26366359 TGAGA-GAGAGTAAAAG
1 TGAGAGGAGAGTAAAAG
26366375 TTTTGAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (18 bp):
TGAGAGGAGAGTAAAAGG
Found at i:26367697 original size:13 final size:14
Alignment explanation
Indices: 26367679--26367709 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
26367669 TGAAAAATTT
26367679 TAAAAATAAAAA-A
1 TAAAAATAAAAATA
26367692 TAAAAATAAAAATA
1 TAAAAATAAAAATA
26367706 TAAA
1 TAAA
26367710 CATTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAATAAAAATA
Found at i:26370542 original size:43 final size:42
Alignment explanation
Indices: 26370482--26370578 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 42
26370472 TTCCTAAAAG
*
26370482 ATAATATCCATTAGGAATCAAATTGCTAAGAGATAATATCAT
1 ATAATATCCATTAGGAATCAAATTGCTAAAAGATAATATCAT
26370524 ATAATATTCCATTAGGAATCAAATTGCTAAAAGATAATATACCAT
1 ATAATA-TCCATTAGGAATCAAATTGCTAAAAGATAATAT--CAT
26370569 AATAATATCC
1 -ATAATATCC
26370579 TAACATCCCC
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
42 6 0.12
43 32 0.64
45 6 0.12
46 6 0.12
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (42 bp):
ATAATATCCATTAGGAATCAAATTGCTAAAAGATAATATCAT
Found at i:26376100 original size:40 final size:40
Alignment explanation
Indices: 26375992--26376102 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
26375982 GCGTTATTGA
* *
26375992 CAGTTTATCTGCATCACTGGTGGCTTGTCCACATTACTGG
1 CAGTTTATCTGCATTATTGGTGGCTTGTCCACATTACTGG
* * * * * * *
26376032 TAGCTTGTCTGTAATATTCGTGGCTTGTCCACATTTCTGG
1 CAGTTTATCTGCATTATTGGTGGCTTGTCCACATTACTGG
* *
26376072 CAGTTTATCTACATTATTGGTGGTTTGTCCA
1 CAGTTTATCTGCATTATTGGTGGCTTGTCCA
26376103 TAAGCTGGTG
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.41
Consensus pattern (40 bp):
CAGTTTATCTGCATTATTGGTGGCTTGTCCACATTACTGG
Found at i:26376205 original size:24 final size:24
Alignment explanation
Indices: 26376173--26376220 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
26376163 GTTGGATAGG
*
26376173 ACCTTTTTCTGAAAACACTGCATT
1 ACCTTTTTCTAAAAACACTGCATT
*
26376197 ACCTTTTTCTAAAAACATTGCATT
1 ACCTTTTTCTAAAAACACTGCATT
26376221 GACATGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (24 bp):
ACCTTTTTCTAAAAACACTGCATT
Found at i:26376868 original size:14 final size:14
Alignment explanation
Indices: 26376857--26376883 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26376847 TTTTCTAATG
26376857 ATACTATTCTAACT
1 ATACTATTCTAACT
26376871 ATACTATTCTAAC
1 ATACTATTCTAAC
26376884 ATGTAATTTG
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:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACTATTCTAACT
Found at i:26378155 original size:14 final size:14
Alignment explanation
Indices: 26378136--26378166 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26378126 AACTTGTAAC
26378136 AAATTTTGTAATAT
1 AAATTTTGTAATAT
*
26378150 AAATTTTGTTATAT
1 AAATTTTGTAATAT
26378164 AAA
1 AAA
26378167 GTAAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
AAATTTTGTAATAT
Found at i:26381312 original size:27 final size:27
Alignment explanation
Indices: 26381279--26381352 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
26381269 ATACTAGGTA
26381279 TGTCGCCTATCAGATAGACATCACTAG
1 TGTCGCCTATCAGATAGACATCACTAG
*** *
26381306 TGTCGCCTATCAGATAGGGGTCACTGG
1 TGTCGCCTATCAGATAGACATCACTAG
*
26381333 TGCCGCCTATCAGATAGACA
1 TGTCGCCTATCAGATAGACA
26381353 CCACACCCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (27 bp):
TGTCGCCTATCAGATAGACATCACTAG
Found at i:26381724 original size:8 final size:8
Alignment explanation
Indices: 26381711--26381741 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
26381701 GATCGAGAAT
26381711 AAAAAATA
1 AAAAAATA
26381719 AAAAAATAA
1 AAAAAAT-A
26381728 AAAAAATA
1 AAAAAATA
26381736 AAAAAA
1 AAAAAA
26381742 ACAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:26381733 original size:17 final size:17
Alignment explanation
Indices: 26381711--26381750 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
26381701 GATCGAGAAT
26381711 AAAAAATAAAAAAATA-A
1 AAAAAATAAAAAAA-ACA
26381728 AAAAAATAAAAAAAACA
1 AAAAAATAAAAAAAACA
26381745 AAAAAA
1 AAAAAA
26381751 AACACTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAATAAAAAAAACA
Found at i:26381747 original size:8 final size:9
Alignment explanation
Indices: 26381711--26381751 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
26381701 GATCGAGAAT
26381711 AAAAAAT-A
1 AAAAAATAA
26381719 AAAAAATAA
1 AAAAAATAA
26381728 AAAAAATAA
1 AAAAAATAA
*
26381737 AAAAAACAA
1 AAAAAATAA
26381746 AAAAAA
1 AAAAAA
26381752 ACACTAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 7 0.23
9 24 0.77
ACGTcount: A:0.90, C:0.02, G:0.00, T:0.07
Consensus pattern (9 bp):
AAAAAATAA
Found at i:26381858 original size:8 final size:8
Alignment explanation
Indices: 26381845--26381870 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
26381835 TATTATTTTA
26381845 ATTTTAAT
1 ATTTTAAT
26381853 ATTTTAAT
1 ATTTTAAT
26381861 ATTTTAAT
1 ATTTTAAT
26381869 AT
1 AT
26381871 ACTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTTAAT
Found at i:26383707 original size:11 final size:11
Alignment explanation
Indices: 26383693--26383733 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
26383683 CTGATTTTAT
26383693 AAATTTTTTTG
1 AAATTTTTTTG
*
26383704 AAATTTTTCT-
1 AAATTTTTTTG
26383714 -AATTTTTTTG
1 AAATTTTTTTG
26383724 ACAATTTTTT
1 A-AATTTTTT
26383734 ATTTTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
11 9 0.36
12 8 0.32
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:26383709 original size:20 final size:21
Alignment explanation
Indices: 26383693--26383732 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
26383683 CTGATTTTAT
26383693 AAATTTTTTTGA-AATTTTTC
1 AAATTTTTTTGACAATTTTTC
*
26383713 TAATTTTTTTGACAATTTTT
1 AAATTTTTTTGACAATTTTT
26383733 TATTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
AAATTTTTTTGACAATTTTTC
Found at i:26383711 original size:21 final size:21
Alignment explanation
Indices: 26383687--26383732 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
26383677 TTTTGTCTGA
26383687 TTTTATAAATTTTTTTGA-AAT
1 TTTTAT-AATTTTTTTGACAAT
*
26383708 TTTTCTAATTTTTTTGACAAT
1 TTTTATAATTTTTTTGACAAT
26383729 TTTT
1 TTTT
26383733 TATTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTTTTGACAAT
Found at i:26383976 original size:47 final size:48
Alignment explanation
Indices: 26383909--26384006 Score: 180
Period size: 47 Copynumber: 2.0 Consensus size: 48
26383899 TTTTATATAA
26383909 TTCTATATATTTTTATTTTATAATTTTTTGCTTTTATTTATTTTCTTAT
1 TTCTATATA-TTTTATTTTATAATTTTTTGCTTTTATTTATTTTCTTAT
26383958 TTCTATATA-TTTATTTTATAATTTTTTGCTTTTATTTATTTTCTTAT
1 TTCTATATATTTTATTTTATAATTTTTTGCTTTTATTTATTTTCTTAT
26384005 TT
1 TT
26384007 ATTTTCCTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 40 0.82
49 9 0.18
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (48 bp):
TTCTATATATTTTATTTTATAATTTTTTGCTTTTATTTATTTTCTTAT
Found at i:26383992 original size:16 final size:15
Alignment explanation
Indices: 26383918--26383984 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
26383908 ATTCTATATA
26383918 TTTTTATTTTATAAT
1 TTTTTATTTTATAAT
* *
26383933 TTTTTGCTTTTATTTAT
1 TTTTT-ATTTTA-TAAT
26383950 TTTCTTATTTCTAT-A-
1 TTT-TTATTT-TATAAT
*
26383965 TATTTATTTTATAAT
1 TTTTTATTTTATAAT
26383980 TTTTT
1 TTTTT
26383985 GCTTTTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
13 3 0.07
14 7 0.17
15 11 0.27
16 6 0.15
17 10 0.24
18 4 0.10
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTTATTTTATAAT
Found at i:26384006 original size:25 final size:25
Alignment explanation
Indices: 26383920--26383999 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
26383910 TCTATATATT
26383920 TTTATTTTATAATTTTTTGCTTTTA
1 TTTATTTTATAATTTTTTGCTTTTA
* * *
26383945 TTTA-TTT-T-CTTATTT-CTATATA
1 TTTATTTTATAATTTTTTGCT-TTTA
26383967 TTTATTTTATAATTTTTTGCTTTTA
1 TTTATTTTATAATTTTTTGCTTTTA
26383992 TTTATTTT
1 TTTATTTT
26384000 CTTATTTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 2 0.05
22 12 0.27
23 4 0.09
24 4 0.09
25 20 0.45
26 2 0.05
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTATTTTATAATTTTTTGCTTTTA
Found at i:26395662 original size:41 final size:41
Alignment explanation
Indices: 26395614--26395802 Score: 179
Period size: 41 Copynumber: 4.7 Consensus size: 41
26395604 ATGGGGTGTT
* *
26395614 ATTCAGGCTTTGTGCATAGCAGGCTTAGCGTCGGTGTATTG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
* * *
26395655 ATTCAGGCTTCATGCCTAGCAAGCTTAGTGTCGGTGTATTG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
* * * * * * *
26395696 ATTCAAGCTTCGTGCTTAGAAAGTTTAGTGTCGGTGTATAG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
** * *
26395737 ATTCAAACTTTGTGTCTAGCAGGCTTA-CTGTCGGTG--TT-
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGC-GTCGGTGTATTG
**
26395775 ATTCAGGCTTAATGCCTAGCAGGCTTAG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAG
26395803 TGCCAATGTT
Statistics
Matches: 121, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
38 22 0.18
39 1 0.01
41 98 0.81
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (41 bp):
ATTCAGGCTTCGTGCCTAGCAGGCTTAGCGTCGGTGTATTG
Found at i:26395794 original size:38 final size:39
Alignment explanation
Indices: 26395608--26395838 Score: 162
Period size: 41 Copynumber: 5.8 Consensus size: 39
26395598 ATTAAAATGG
** * *
26395608 GGTGTT-ATTCAGGCTTTGTGCATAGCAGGCTTAGCGTC
1 GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
* *
26395646 GGTGTATTGATTCAGGCTTCATGCCTAGCAAGCTTAGTGTC
1 GGTG--TTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
* ** * * * *
26395687 GGTGTATTGATTCAAGCTTCGTGCTTAGAAAGTTTAGTGTC
1 GGTG--TTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
** ** * *
26395728 GGTGTATAGATTCAAACTTTGTGTCTAGCAGGCTTACTGTC
1 GGTGT-T-GATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
*
26395769 GGTGTT-ATTCAGGCTTAATGCCTAGCAGGCTTAGTGCC
1 GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
** * * *
26395807 AATGTT-ACTCAGGCTTAAAGCCTAGTAGGCTT
1 GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTT
26395839 GATGCTGGTG
Statistics
Matches: 158, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 56 0.35
39 1 0.01
40 4 0.03
41 97 0.61
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (39 bp):
GGTGTTGATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
Found at i:26401733 original size:22 final size:22
Alignment explanation
Indices: 26401708--26401750 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
26401698 AACTTAATTC
*
26401708 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
26401730 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
26401751 AGGAGCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:26403862 original size:17 final size:16
Alignment explanation
Indices: 26403836--26403870 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
26403826 TATTACAATG
26403836 ACATAGAAATAATGTAA
1 ACATAGAAATAATG-AA
*
26403853 ACATATAAATAATGAA
1 ACATAGAAATAATGAA
26403869 AC
1 AC
26403871 TAACAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (16 bp):
ACATAGAAATAATGAA
Found at i:26403942 original size:18 final size:19
Alignment explanation
Indices: 26403907--26403943 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
26403897 GACATATAAG
26403907 AATATCAAATAAATAAACA
1 AATATCAAATAAATAAACA
26403926 AATAT-AAATGAAA-AAACA
1 AATATCAAAT-AAATAAACA
26403944 TAAGTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.70, C:0.08, G:0.03, T:0.19
Consensus pattern (19 bp):
AATATCAAATAAATAAACA
Found at i:26404244 original size:18 final size:18
Alignment explanation
Indices: 26404218--26404272 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
26404208 AAAAATATTA
*
26404218 ATATGTATACATACATAT
1 ATATATATACATACATAT
*
26404236 ATATATATACA-AGA-AT
1 ATATATATACATACATAT
* *
26404252 AAATATATATATACATAT
1 ATATATATACATACATAT
26404270 ATA
1 ATA
26404273 GATTATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 11 0.38
17 4 0.14
18 14 0.48
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (18 bp):
ATATATATACATACATAT
Found at i:26404304 original size:20 final size:22
Alignment explanation
Indices: 26404274--26404328 Score: 87
Period size: 20 Copynumber: 2.6 Consensus size: 22
26404264 ACATATATAG
*
26404274 ATTATAAAAATAATTACA-TAT
1 ATTAAAAAAATAATTACATTAT
26404295 A-TAAAAAAATAATTACATTAT
1 ATTAAAAAAATAATTACATTAT
26404316 ATTAAAAAAATAA
1 ATTAAAAAAATAA
26404329 ATATGCGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 15 0.48
21 5 0.16
22 11 0.35
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
ATTAAAAAAATAATTACATTAT
Found at i:26408259 original size:18 final size:18
Alignment explanation
Indices: 26408231--26408274 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
26408221 AGTAAAATTT
26408231 ATATGAAAATCTCT-GAAGG
1 ATAT-AAAATC-CTAGAAGG
*
26408250 ATTTAAAATCCTAGAAGG
1 ATATAAAATCCTAGAAGG
26408268 ATATAAA
1 ATATAAA
26408275 GTTTCTCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (18 bp):
ATATAAAATCCTAGAAGG
Found at i:26416582 original size:29 final size:28
Alignment explanation
Indices: 26416545--26416624 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
26416535 TTAAAATTTT
*
26416545 AAAATATAAAAAATATATTTAGAA-ATTA
1 AAAATATAAAAAATATA-TTAAAAGATTA
*
26416573 AAAATCATAAAAATTATATTAAAAGTATTA
1 AAAAT-ATAAAAAATATATTAAAAG-ATTA
26416603 AAAATATAAAAAAT-TAATTAAA
1 AAAATATAAAAAATAT-ATTAAA
26416625 CCATATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 11 0.24
29 25 0.56
30 9 0.20
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAATATAAAAAATATATTAAAAGATTA
Found at i:26416622 original size:20 final size:20
Alignment explanation
Indices: 26416545--26416624 Score: 53
Period size: 20 Copynumber: 4.1 Consensus size: 20
26416535 TTAAAATTTT
*
26416545 AAAATATAAAAAATATATTTA
1 AAAATATAAAAAAT-TAATTA
* *
26416566 GAAAT-T-AAAAA-TCA-TA
1 AAAATATAAAAAATTAATTA
* *
26416582 AAAATTATATTAAAAGT-ATTA
1 AAAA-TATA-AAAAATTAATTA
26416603 AAAATATAAAAAATTAATTA
1 AAAATATAAAAAATTAATTA
26416623 AA
1 AA
26416625 CCATATATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
16 5 0.11
17 2 0.04
18 1 0.02
19 10 0.22
20 16 0.36
21 11 0.24
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAATATAAAAAATTAATTA
Found at i:26430046 original size:25 final size:25
Alignment explanation
Indices: 26429988--26430050 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
26429978 GAAGAAAGGT
26429988 TTTTCT-TTTTTCCTTTTCTCGATTG
1 TTTTCTCTTTTT-CTTTTCTCGATTG
**
26430013 GGTTC-CTTTTTCTTTTC-CGATTG
1 TTTTCTCTTTTTCTTTTCTCGATTG
26430036 CTTTTCTCTTTTTCT
1 -TTTTCTCTTTTTCT
26430051 GTTTTGCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 6 0.19
24 9 0.29
25 16 0.52
ACGTcount: A:0.03, C:0.22, G:0.10, T:0.65
Consensus pattern (25 bp):
TTTTCTCTTTTTCTTTTCTCGATTG
Found at i:26430082 original size:12 final size:11
Alignment explanation
Indices: 26430063--26430096 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
26430053 TTTGCTATTA
26430063 AACATATATAT
1 AACATATATAT
26430074 AAGCATATATAT
1 AA-CATATATAT
26430086 -ACATATATAT
1 AACATATATAT
26430096 A
1 A
26430097 TATAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 9 0.43
11 3 0.14
12 9 0.43
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (11 bp):
AACATATATAT
Found at i:26430950 original size:2 final size:2
Alignment explanation
Indices: 26430945--26430970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26430935 ATATACGTGC
26430945 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26430971 TATTTAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26441689 original size:50 final size:50
Alignment explanation
Indices: 26441603--26441711 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
26441593 GTGTGTGTCT
*
26441603 AGGCCGTGTAACTCACGGTTTTGGATTTAGGATCACACGGGCGTGCGTCC
1 AGGCCGTGTAACTCACGGTTTTGGATTTAGGATCACACGGGCGTGCGCCC
* * * * *
26441653 AGGCCGTGTAACTTACTGTTTTGGGTTTATGG-TCACATGGGCGTGTGCCC
1 AGGCCGTGTAACTCACGGTTTTGGATTTA-GGATCACACGGGCGTGCGCCC
26441703 AGGCCGTGT
1 AGGCCGTGT
26441712 GAGGGGTTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 50 0.96
51 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (50 bp):
AGGCCGTGTAACTCACGGTTTTGGATTTAGGATCACACGGGCGTGCGCCC
Found at i:26447959 original size:27 final size:28
Alignment explanation
Indices: 26447922--26447977 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
26447912 AATACTATTT
26447922 CAAAATAG-AAAAACTATTTTGTCTTTC
1 CAAAATAGAAAAAACTATTTTGTCTTTC
*
26447949 CAAAATGGAAAAAAAACTATTTTGTCTTT
1 CAAAAT--AGAAAAAACTATTTTGTCTTT
26447978 TCATGTCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 6 0.24
29 1 0.04
30 18 0.72
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (28 bp):
CAAAATAGAAAAAACTATTTTGTCTTTC
Found at i:26454514 original size:24 final size:24
Alignment explanation
Indices: 26454474--26454520 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26454464 AATGGGAAAT
*
26454474 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
26454498 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
26454521 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:26454804 original size:126 final size:127
Alignment explanation
Indices: 26454568--26454820 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 127
26454558 TCGAGACAGC
26454568 AGCAGTAGTCTGATTTTGAAAATCAACTAAAAATCGTATAAATTGAATTAGAGGATGAAAAAAAT
1 AGCAGTAGTCTGATTTTGAAAATCAACTAAAAATCGTATAAATTGAATTAGAGGATGAAAAAAAT
26454633 AATAAATTAAATCTTATTGGGTCTATTTTCTCATAGAAGAAACGGTGTAAGCAATGGAATTG
66 AATAAATTAAATCTTATTGGGTCTATTTTCTCATAGAAGAAACGGTGTAAGCAATGGAATTG
26454695 AGCAGTAGTC-GATTTTGAAAATCAACTAAAAATCGTATAAATTGAATTAGAGGATGAAAAAAAT
1 AGCAGTAGTCTGATTTTGAAAATCAACTAAAAATCGTATAAATTGAATTAGAGGATGAAAAAAAT
26454759 AATAAATTAAATCTTATTGGGTCTATTTTCTCATAGAAGAAACGGTGTAAGCAATGGAATTG
66 AATAAATTAAATCTTATTGGGTCTATTTTCTCATAGAAGAAACGGTGTAAGCAATGGAATTG
26454821 CAAATTATGA
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 116 0.92
127 10 0.08
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (127 bp):
AGCAGTAGTCTGATTTTGAAAATCAACTAAAAATCGTATAAATTGAATTAGAGGATGAAAAAAAT
AATAAATTAAATCTTATTGGGTCTATTTTCTCATAGAAGAAACGGTGTAAGCAATGGAATTG
Found at i:26456171 original size:24 final size:24
Alignment explanation
Indices: 26456131--26456177 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26456121 AATGGGAAAT
*
26456131 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
26456155 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
26456178 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:26459279 original size:6 final size:6
Alignment explanation
Indices: 26459268--26459345 Score: 75
Period size: 6 Copynumber: 12.5 Consensus size: 6
26459258 TTTTGTTCTA
* * *
26459268 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TGTACT ATTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
26459316 TTCATT GTTAGTT GTTTTTAT TTTATT TTT
1 TTTATT TTTA-TT -TTTAT-T TTTATT TTT
26459346 GAGACTTATA
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
6 47 0.82
7 7 0.12
8 3 0.05
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:26462902 original size:18 final size:18
Alignment explanation
Indices: 26462879--26462920 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
26462869 CTTAATTTCA
26462879 ATGATTGCTTTGCAAAAG
1 ATGATTGCTTTGCAAAAG
26462897 ATGATTGCTTTGCAAAAG
1 ATGATTGCTTTGCAAAAG
*
26462915 TTGATT
1 ATGATT
26462921 CCCCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (18 bp):
ATGATTGCTTTGCAAAAG
Found at i:26466780 original size:85 final size:85
Alignment explanation
Indices: 26466631--26466893 Score: 355
Period size: 85 Copynumber: 3.1 Consensus size: 85
26466621 ACCACCGATA
* * * *
26466631 ATTTGCAGTTATTGCCACTTGTTGTAGGTGCACACCATATTTGCAGAATAAACGAACTACCACTT
1 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTACAGATTAAACGAACTACCACTT
*
26466696 GGTTCGTGATCGAACCGCAT
66 GGTTCGTGATCGAACCACAT
* * * * * **
26466716 ATTTGCAGTTATTGTCACTTATTGTGGGTGCACAACATATTTAAAGATTATATGAACTGTCACTT
1 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTACAGATTAAACGAACTACCACTT
* *
26466781 GGTTCATGATCGAACTACAT
66 GGTTCGTGATCGAACCACAT
* * *
26466801 ATTTGCAATTACTACCACTTGTTGTGGGTGCACAACATATTTACAGATTAAACGAACTACCACTT
1 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTACAGATTAAACGAACTACCACTT
*
26466866 GGTTCGTGATCAAACCACATT
66 GGTTCGTGATCGAACCACA-T
26466887 ATTTGCA
1 ATTTGCA
26466894 TATTATTAAA
Statistics
Matches: 150, Mismatches: 27, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 142 0.95
86 8 0.05
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (85 bp):
ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTACAGATTAAACGAACTACCACTT
GGTTCGTGATCGAACCACAT
Found at i:26472089 original size:5 final size:5
Alignment explanation
Indices: 26472081--26472135 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
26472071 AGTTAAGTTA
26472081 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
26472131 TATAT
1 TATAT
26472136 AAGAAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:26473124 original size:25 final size:25
Alignment explanation
Indices: 26473096--26473197 Score: 108
Period size: 22 Copynumber: 4.3 Consensus size: 25
26473086 ACTTTAGCGC
* **
26473096 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGTCAGT
26473121 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
* *
26473146 GCTCTCTGA-T--TAGCACATCTGT
1 GCTCTCTGATTACTAGCACGTCAGT
*
26473168 GCTCTCTG--TA-TAGCACTTCAGT
1 GCTCTCTGATTACTAGCACGTCAGT
26473190 GCTCTCTG
1 GCTCTCTG
26473198 TTCATTAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
21 1 0.01
22 36 0.52
24 1 0.01
25 31 0.45
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGTCAGT
Found at i:26473125 original size:23 final size:24
Alignment explanation
Indices: 26473099--26473157 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
26473089 TTAGCGCGCT
* **
26473099 CTCTGATTATTAGCACGTTGGTGC
1 CTCTGATTACTAGCACGTCAGTGC
26473123 TCTCTGATTACTAGCACGTCAGTGC
1 -CTCTGATTACTAGCACGTCAGTGC
26473148 TCTCTGATTA
1 -CTCTGATTA
26473158 GCACATCTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (24 bp):
CTCTGATTACTAGCACGTCAGTGC
Found at i:26473205 original size:47 final size:48
Alignment explanation
Indices: 26473096--26473205 Score: 131
Period size: 47 Copynumber: 2.3 Consensus size: 48
26473086 ACTTTAGCGC
*
26473096 GCTCTCTGATTATTAGCACGTTGGTGCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTG-TTATTAGCACATTGGTGCTCTCTGA-TACTAGCACGTCAGT
*
26473146 GCTCTCTG--ATTAGCACATCT-GTGCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGTTATTAGCACAT-TGGTGCTCTCTGATACTAGCACGTCAGT
26473190 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
26473206 TGAATAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
44 19 0.35
45 2 0.04
47 24 0.44
48 1 0.02
50 8 0.15
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.37
Consensus pattern (48 bp):
GCTCTCTGTTATTAGCACATTGGTGCTCTCTGATACTAGCACGTCAGT
Found at i:26473996 original size:54 final size:54
Alignment explanation
Indices: 26473910--26474025 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
26473900 AACACGACAA
* * * *
26473910 GAATGAATAGCCTTTATGGCACACTCTAAAAGAATTGCCTCTGTGGTAAG-CTCT
1 GAATGAACAACCTTTATGGCACACTCGAAAAGAACTGCCTCTGTGG-AAGACTCT
* * * * *
26473964 GAATGAACAACCTTTGTGGCGCACTCGGAAAGAACTGCCTTTGTGGCAGACTCT
1 GAATGAACAACCTTTATGGCACACTCGAAAAGAACTGCCTCTGTGGAAGACTCT
26474018 GAATGAAC
1 GAATGAAC
26474026 TGCCTCTGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (54 bp):
GAATGAACAACCTTTATGGCACACTCGAAAAGAACTGCCTCTGTGGAAGACTCT
Found at i:26474045 original size:27 final size:27
Alignment explanation
Indices: 26473945--26474074 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 27
26473935 CTAAAAGAAT
* **
26473945 TGCCTCTGTGGTAAGCTCTGAATGAAC
1 TGCCTCTGTGGCAAAATCTGAATGAAC
** * ** * * *
26473972 AACCTTTGTGGCGCACTCGGAAAGAAC
1 TGCCTCTGTGGCAAAATCTGAATGAAC
* * *
26473999 TGCCTTTGTGGCAGACTCTGAATGAAC
1 TGCCTCTGTGGCAAAATCTGAATGAAC
*
26474026 TGCCTCTGTGGAAAAATCTGAATGAAC
1 TGCCTCTGTGGCAAAATCTGAATGAAC
* * *
26474053 TACCTCGGTGGCATAATCTGAA
1 TGCCTCTGTGGCAAAATCTGAA
26474075 AGGATTTCCT
Statistics
Matches: 80, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (27 bp):
TGCCTCTGTGGCAAAATCTGAATGAAC
Found at i:26474076 original size:81 final size:81
Alignment explanation
Indices: 26473919--26474091 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 81
26473909 AGAATGAATA
* * * ** **
26473919 GCCTTTATGGCACACTCTAAAAGAATTGCCTCTGTGGTAAGCTCTGAATGAACAACCTTTGTGGC
1 GCCTTTGTGGCACACTCTAAAAGAACTGCCTCTGTGGAAAAATCTGAATGAACAACCTCGGTGGC
* *
26473984 GCACTCGGAAAGAACT
66 ACAATCGGAAAGAACT
* * * *
26474000 GCCTTTGTGGCAGACTCTGAATGAACTGCCTCTGTGGAAAAATCTGAATGAACTACCTCGGTGGC
1 GCCTTTGTGGCACACTCTAAAAGAACTGCCTCTGTGGAAAAATCTGAATGAACAACCTCGGTGGC
* * * *
26474065 ATAATCTGAAAGGATT
66 ACAATCGGAAAGAACT
*
26474081 TCCTTTGTGGC
1 GCCTTTGTGGC
26474092 GTACATTAAT
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (81 bp):
GCCTTTGTGGCACACTCTAAAAGAACTGCCTCTGTGGAAAAATCTGAATGAACAACCTCGGTGGC
ACAATCGGAAAGAACT
Found at i:26475911 original size:19 final size:19
Alignment explanation
Indices: 26475882--26476030 Score: 244
Period size: 19 Copynumber: 7.8 Consensus size: 19
26475872 AATCTTCAGG
26475882 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
26475901 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26475920 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
26475939 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26475958 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
26475977 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26475996 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
26476015 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
26476031 AGATATGATT
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 118 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:26475927 original size:38 final size:38
Alignment explanation
Indices: 26475882--26476037 Score: 280
Period size: 38 Copynumber: 4.2 Consensus size: 38
26475872 AATCTTCAGG
26475882 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
26475920 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
26475958 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
**
26475996 GATATGCAATCTTAGATATGATATGCAATCTTAGA-A-
1 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
26476032 GATATG
1 GATATG
26476038 ATTTTGTAAT
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
36 6 0.05
37 1 0.01
38 109 0.94
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATATAATCTTAGATAT
Done.