Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 75 of 145
Found at i:24881384 original size:26 final size:26
Alignment explanation
Indices: 24881351--24881417 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
24881341 AGATTTTCAT
24881351 AAAGGCTTCCATTT-TAAATTTGCCAC
1 AAAGGCTTCCATTTATAAA-TTGCCAC
* * * *
24881377 AAATGCTTCCGTTTCATAGATTGCTAC
1 AAAGGCTTCCATTT-ATAAATTGCCAC
24881404 AAAGGCTTCCATTT
1 AAAGGCTTCCATTT
24881418 CTAATAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 12 0.36
27 18 0.55
28 3 0.09
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (26 bp):
AAAGGCTTCCATTTATAAATTGCCAC
Found at i:24883344 original size:33 final size:34
Alignment explanation
Indices: 24883281--24883356 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
24883271 ACTCTATATA
* * *
24883281 TGGTGTGATGGTTGGTTTAGCTCTTATGAGCAT-
1 TGGTGTGATGGATGGATTAGCTCTGATGAGCATC
*
24883314 TGGTGTGATGGATGGATTGGCT-TGAGTGAGCATC
1 TGGTGTGATGGATGGATTAGCTCTGA-TGAGCATC
*
24883348 TAGTGTGAT
1 TGGTGTGAT
24883357 TGGTTGGACT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.06
33 26 0.72
34 8 0.22
ACGTcount: A:0.17, C:0.08, G:0.37, T:0.38
Consensus pattern (34 bp):
TGGTGTGATGGATGGATTAGCTCTGATGAGCATC
Found at i:24887034 original size:27 final size:27
Alignment explanation
Indices: 24887001--24887055 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
24886991 TTCTCAAAGA
*
24887001 TAGATCTCAGATCTAGGCATTATCAAT
1 TAGATCTCAAATCTAGGCATTATCAAT
* *
24887028 TAGATCTCAAATCTGGGTATTATCAAT
1 TAGATCTCAAATCTAGGCATTATCAAT
24887055 T
1 T
24887056 GAAAGTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
TAGATCTCAAATCTAGGCATTATCAAT
Found at i:24890598 original size:33 final size:33
Alignment explanation
Indices: 24890561--24890644 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
24890551 CTATTTGATA
* * *
24890561 TGATGGTTGGTTTAGCTCTTGTGAGCATTGGTC
1 TGATGGTTGGATTAGCTCTTATGAGCATTAGTC
*
24890594 TGATGGTTGGATTAGCTCTTATGAGCATTAGTG
1 TGATGGTTGGATTAGCTCTTATGAGCATTAGTC
* *
24890627 TGATGGATGGATTGGCTC
1 TGATGGTTGGATTAGCTC
24890645 AAGTGAGCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.17, C:0.11, G:0.33, T:0.39
Consensus pattern (33 bp):
TGATGGTTGGATTAGCTCTTATGAGCATTAGTC
Found at i:24890652 original size:33 final size:34
Alignment explanation
Indices: 24890561--24890662 Score: 102
Period size: 33 Copynumber: 3.1 Consensus size: 34
24890551 CTATTTGATA
* * * * *
24890561 TGATGGTTGGTTTAGCTCT-TGTGAGCATTGGTC
1 TGATGGATGGATTAGCTCTAAGTGAGCATTAGTG
* *
24890594 TGATGGTTGGATTAGCTCTTA-TGAGCATTAGTG
1 TGATGGATGGATTAGCTCTAAGTGAGCATTAGTG
*
24890627 TGATGGATGGATTGGCTC-AAGTGAGCATCTAGTG
1 TGATGGATGGATTAGCTCTAAGTGAGCAT-TAGTG
24890661 TG
1 TG
24890663 TTTGGTTGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.02
33 51 0.86
34 7 0.12
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.37
Consensus pattern (34 bp):
TGATGGATGGATTAGCTCTAAGTGAGCATTAGTG
Found at i:24897066 original size:19 final size:20
Alignment explanation
Indices: 24897044--24897085 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24897034 TAAAGTTTAC
*
24897044 AAATATAATTTT-ATTTATT
1 AAATATAATTTTCATTTAAT
* *
24897063 AAATTTTATTTTCATTTAAT
1 AAATATAATTTTCATTTAAT
24897083 AAA
1 AAA
24897086 ATATTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AAATATAATTTTCATTTAAT
Found at i:24904353 original size:42 final size:43
Alignment explanation
Indices: 24904209--24904361 Score: 202
Period size: 43 Copynumber: 3.6 Consensus size: 43
24904199 CAATGACAAC
* *
24904209 GTCCCAGAC-GTGGTCTTACATGTAATCAAATAACGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGTAATTAAATAACGATGCCACT
*
24904252 GTCCCAGACAGGGTCTTACACGTAATTAAATAACGATGCTACT
1 GTCCCAGACAGGGTCTTACACGTAATTAAATAACGATGCCACT
* * * *
24904295 GTCCTAGACAGGGTCTTACACGTAATTATAT-ACGACGCCAAT
1 GTCCCAGACAGGGTCTTACACGTAATTAAATAACGATGCCACT
**
24904337 GTCCCAGACTTGGTCTTACACGTAA
1 GTCCCAGACAGGGTCTTACACGTAA
24904362 ATCTCAAATC
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
42 30 0.31
43 67 0.68
44 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAATTAAATAACGATGCCACT
Found at i:24905364 original size:135 final size:136
Alignment explanation
Indices: 24905191--24905454 Score: 467
Period size: 135 Copynumber: 1.9 Consensus size: 136
24905181 TTTTTCTTTC
* *
24905191 TTCTTTTCATTTGAAGTTTCGGCTAAGGATGAACTATGCATGGCTATTTTGTTTTTCATTAACTT
1 TTCTTTTCATTTGAAGTTTCAGCCAAGGATGAACTATGCATGGCTATTTTGTTTTTCATTAACTT
*
24905256 TAATTATATGTTA-TTTTTTCTATTTACTATTTTAACCTTAATTATAAAACATAATAATTAATTA
66 TAATTATATGTTATTTTTTTCCATTTACTATTTTAACCTTAATTATAAAACATAATAATTAATTA
24905320 ATATAT
131 ATATAT
* *
24905326 TTCTTTTCTTTTGAAGTTTCAGCCAAGGATGAACTATGCATGGCTATTTTGTTTTTCATTTACTT
1 TTCTTTTCATTTGAAGTTTCAGCCAAGGATGAACTATGCATGGCTATTTTGTTTTTCATTAACTT
24905391 TAATTATATGTTATTTTTTTTCCATTTACTATTTTAACCTTAATTATAAAACATAATAATTAAT
66 TAATTATATGTTA-TTTTTTTCCATTTACTATTTTAACCTTAATTATAAAACATAATAATTAAT
24905455 ATATGTCTAT
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
135 74 0.61
137 48 0.39
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (136 bp):
TTCTTTTCATTTGAAGTTTCAGCCAAGGATGAACTATGCATGGCTATTTTGTTTTTCATTAACTT
TAATTATATGTTATTTTTTTCCATTTACTATTTTAACCTTAATTATAAAACATAATAATTAATTA
ATATAT
Found at i:24906599 original size:7 final size:7
Alignment explanation
Indices: 24906587--24906625 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
24906577 AGAACATTAC
24906587 TAAAAAT
1 TAAAAAT
24906594 TAAAAAT
1 TAAAAAT
24906601 TAAAAAT
1 TAAAAAT
24906608 TAAAAAT
1 TAAAAAT
24906615 TAAAAAT
1 TAAAAAT
24906622 TAAA
1 TAAA
24906626 CCACGTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAAAT
Found at i:24910094 original size:6 final size:6
Alignment explanation
Indices: 24910085--24910115 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
24910075 CCAAAAAAAA
24910085 AAATTT AAATTT AAATTT AAAATTT AAATTT
1 AAATTT AAATTT AAATTT -AAATTT AAATTT
24910116 TTTATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:24910109 original size:13 final size:12
Alignment explanation
Indices: 24910085--24910115 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
24910075 CCAAAAAAAA
24910085 AAATTTAAATTT
1 AAATTTAAATTT
24910097 AAATTTAAAATTT
1 AAATTT-AAATTT
24910110 AAATTT
1 AAATTT
24910116 TTTATTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATTTAAATTT
Found at i:24917124 original size:42 final size:43
Alignment explanation
Indices: 24917078--24917158 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
24917068 TATTCTAGAA
* * *
24917078 AAAAAAGAATTTAAAAA-AGGAGAAGATAATCTTGGGTTGTTG
1 AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTTGTTG
24917120 AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTT
1 AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTT
24917159 ATTGGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 17 0.49
43 18 0.51
ACGTcount: A:0.53, C:0.02, G:0.22, T:0.22
Consensus pattern (43 bp):
AAAAAAGAATTTAAAAAGAGGAAAAGATAAACATGGGTTGTTG
Found at i:24920989 original size:12 final size:12
Alignment explanation
Indices: 24920970--24921002 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24920960 TTCACTTCAT
*
24920970 AATTTTTTATTC
1 AATTTTTTTTTC
24920982 -ATTTTTTTTTC
1 AATTTTTTTTTC
24920993 AATTTTTTTT
1 AATTTTTTTT
24921003 AGAACAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:24921971 original size:6 final size:6
Alignment explanation
Indices: 24921956--24922038 Score: 50
Period size: 6 Copynumber: 14.5 Consensus size: 6
24921946 TATAATTCTG
* * ** * *
24921956 AAAAAT -AAAAT -AAAA- ACAAAT AACAAT AAAAAT AAATGT ACAACT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
24922001 AAAAAT AAAAAG AAAAAT --AAAT AAAACAT AAAACT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAA
24922039 TAGACTCAGT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 36 0.62
7 6 0.10
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:24921985 original size:16 final size:15
Alignment explanation
Indices: 24921958--24921992 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
24921948 TAATTCTGAA
24921958 AAATAAAATAAAAAC
1 AAATAAAATAAAAAC
*
24921973 AAATAACAATAAAAAT
1 AAATAA-AATAAAAAC
24921989 AAAT
1 AAAT
24921993 GTACAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAAAAC
Found at i:24922007 original size:24 final size:22
Alignment explanation
Indices: 24921956--24922038 Score: 78
Period size: 24 Copynumber: 3.7 Consensus size: 22
24921946 TATAATTCTG
24921956 AAAAAT-AAAATAAAAACAAAT
1 AAAAATAAAAATAAAAACAAAT
* * *
24921977 AACAATAAAAATAAATGTACAACT
1 AAAAATAAAAATAAA--AACAAAT
* *
24922001 AAAAATAAAAAGAAAAATAAAT
1 AAAAATAAAAATAAAAACAAAT
*
24922023 AAAACATAAAACTAAA
1 AAAA-ATAAAAATAAA
24922039 TAGACTCAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
21 5 0.10
22 16 0.33
23 9 0.19
24 18 0.38
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (22 bp):
AAAAATAAAAATAAAAACAAAT
Found at i:24922024 original size:16 final size:17
Alignment explanation
Indices: 24922003--24922040 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24921993 GTACAACTAA
24922003 AAATAAAA-AGAAAAAT
1 AAATAAAACAGAAAAAT
* *
24922019 AAATAAAACATAAAACT
1 AAATAAAACAGAAAAAT
24922036 AAATA
1 AAATA
24922041 GACTCAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATAAAACAGAAAAAT
Found at i:24930025 original size:72 final size:72
Alignment explanation
Indices: 24929942--24930157 Score: 396
Period size: 72 Copynumber: 3.0 Consensus size: 72
24929932 AAGGAAATTT
*
24929942 AATATATAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGTGGTCTTTCTTCA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGTGGTCTTTCTTCA
24930007 ACTTTGC
66 ACTTTGC
24930014 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGTGGTCTTTCTTCA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGTGGTCTTTCTTCA
24930079 ACTTTGC
66 ACTTTGC
* * *
24930086 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCGTCCATGCGATCTTTCTTCA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGTGGTCTTTCTTCA
24930151 ACTTTGC
66 ACTTTGC
24930158 CGGATATGAA
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 140 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (72 bp):
AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATGTGGTCTTTCTTCA
ACTTTGC
Found at i:24936379 original size:23 final size:24
Alignment explanation
Indices: 24936352--24936398 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
24936342 TAGACATAAA
24936352 TTTGAAA-AA-AAATATTTTTGAGG
1 TTTGAAAGAAGAAA-ATTTTTGAGG
24936375 TTTGAAAGAAGTAAAATTTTTGAG
1 TTTGAAAGAAG-AAAATTTTTGAG
24936399 AGAAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
24 2 0.10
25 9 0.43
26 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (24 bp):
TTTGAAAGAAGAAAATTTTTGAGG
Found at i:24936408 original size:20 final size:20
Alignment explanation
Indices: 24936383--24936431 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
24936373 GGTTTGAAAG
*
24936383 AAGTAAAA-TTTTTGAGAGAA
1 AAGTAAAAGTTTTAGAG-GAA
*
24936403 AAGTAAACGTTTTAGAGGAA
1 AAGTAAAAGTTTTAGAGGAA
24936423 AAGTAAAAG
1 AAGTAAAAG
24936432 AAAAAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.24
Consensus pattern (20 bp):
AAGTAAAAGTTTTAGAGGAA
Found at i:24940069 original size:2 final size:2
Alignment explanation
Indices: 24940062--24940087 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24940052 ATACTATTAA
24940062 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
24940088 TTGATAGATT
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24945831 original size:15 final size:15
Alignment explanation
Indices: 24945807--24945839 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24945797 AACTTAATCT
24945807 ATATAAGTTATAATA
1 ATATAAGTTATAATA
*
24945822 ATATATGTTATAATA
1 ATATAAGTTATAATA
24945837 ATA
1 ATA
24945840 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTTATAATA
Found at i:24946655 original size:43 final size:43
Alignment explanation
Indices: 24946601--24946686 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
24946591 TATGTGATTG
*
24946601 ATATTGAAATGGAAAATATGAGAAATGAATATGTGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGAATATGAGATGAGAAA
* * *
24946644 ATATTGGAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGAGAAATGAATATGAGATGAGAAA
24946687 TGAGATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.49, C:0.01, G:0.24, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATGAGAAATGAATATGAGATGAGAAA
Found at i:24948789 original size:20 final size:20
Alignment explanation
Indices: 24948764--24948802 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
24948754 TGGAACAGGA
*
24948764 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
24948784 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
24948803 AATTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:24950772 original size:23 final size:23
Alignment explanation
Indices: 24950746--24950800 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
24950736 GACTAAGCGC
24950746 GCAAGTGATAATGGCACTATAGT
1 GCAAGTGATAATGGCACTATAGT
* * *
24950769 GCAAGTGTTAGTGGCACTTTAGT
1 GCAAGTGATAATGGCACTATAGT
24950792 GCAAAGTGA
1 GC-AAGTGA
24950801 CATCCACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (23 bp):
GCAAGTGATAATGGCACTATAGT
Found at i:24953825 original size:16 final size:16
Alignment explanation
Indices: 24953789--24953821 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
24953779 GTCAGATCCC
24953789 TATTTATTCAATTTTA
1 TATTTATTCAATTTTA
24953805 TATTTATT--ATTTTA
1 TATTTATTCAATTTTA
24953819 TAT
1 TAT
24953822 ATTTGAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTCAATTTTA
Found at i:24956580 original size:126 final size:126
Alignment explanation
Indices: 24956434--24956853 Score: 682
Period size: 126 Copynumber: 3.3 Consensus size: 126
24956424 AGTGTTAATT
* * *
24956434 TAAAA-AAGCTTCCACGTGGACGCT-CTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGAA
1 TAAAAGAAGCTCCCACGTGGACG-TGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCA
* *
24956497 GACATTTTTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGACAACAAAAGTAC
65 GACGTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGACAACAAAAGTAC
24956559 TAAAAGAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCAG
1 TAAAAGAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCAG
* * * * *
24956624 ACGGTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTAC
66 ACGTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGACAACAAAAGTAC
* * * * *
24956685 TGAAAGAAGCTCCCACATGGACGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTCGAGCAG
1 TAAAAGAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCAG
24956750 ACGTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGACAACAAAAGTAC
66 ACGTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGACAACAAAAGTAC
24956811 TAAAAGAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGCTC
1 TAAAAGAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGCTC
24956854 ATGTTTGGCC
Statistics
Matches: 269, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
125 6 0.02
126 263 0.98
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (126 bp):
TAAAAGAAGCTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGCAG
ACGTTTCTGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGACAACAAAAGTAC
Found at i:24960239 original size:21 final size:21
Alignment explanation
Indices: 24960215--24960261 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
24960205 TTGTCCAGCT
* *
24960215 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTGTGGTTCC
*
24960236 TCCGGCGGGGATTTTGGTTCC
1 TCCGGCGGGGATTGTGGTTCC
24960257 TCCGG
1 TCCGG
24960262 TAGGGGATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.23, G:0.45, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTGTGGTTCC
Found at i:24960541 original size:18 final size:18
Alignment explanation
Indices: 24960515--24960557 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
24960505 GGTTAGAAAA
* * *
24960515 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
24960533 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
24960551 AGGATAC
1 AGGATAC
24960558 GCGCCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:24962413 original size:11 final size:11
Alignment explanation
Indices: 24962399--24962435 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
24962389 AGCTTTTTTA
24962399 AGAGGAATTTG
1 AGAGGAATTTG
24962410 AGAGGAATTTG
1 AGAGGAATTTG
*
24962421 AAAGGAATTTG
1 AGAGGAATTTG
24962432 AGAG
1 AGAG
24962436 AATATTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:24962426 original size:22 final size:24
Alignment explanation
Indices: 24962401--24962457 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 24
24962391 CTTTTTTAAG
24962401 AGGAATTTGAGAGGAAT-TT-GAA
1 AGGAATTTGAGAGGAATATTGGAA
24962423 AGGAATTTGAGA-GAATATTGGAA
1 AGGAATTTGAGAGGAATATTGGAA
*
24962446 A-GAAATTGAGAG
1 AGGAATTTGAGAG
24962458 AAAGGATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 4 0.13
22 23 0.74
23 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.25
Consensus pattern (24 bp):
AGGAATTTGAGAGGAATATTGGAA
Found at i:24969133 original size:5 final size:5
Alignment explanation
Indices: 24969123--24969160 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
24969113 AACTTGGATA
24969123 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
24969161 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:24969577 original size:51 final size:51
Alignment explanation
Indices: 24969414--24969598 Score: 184
Period size: 51 Copynumber: 3.6 Consensus size: 51
24969404 TATACACGTA
* * * *
24969414 GGTCACATGTGTAGTACTATGTGCGGGCTACTAAGTGTACCGGAATG-ATA-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACT-AGTGCATCGGAATGAAAAT
* ***
24969464 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA-TGCATACTGG-AT-AGCTT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTAGTGCAT-C-GGAATGAAAAT
* *
24969514 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGCATC-GAATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA-GTGCATCGGAATGAAAAT
*
24969566 GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
24969599 TGTGAACCGG
Statistics
Matches: 110, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
48 3 0.03
49 4 0.04
50 33 0.30
51 62 0.56
52 3 0.03
53 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTAGTGCATCGGAATGAAAAT
Found at i:24969596 original size:102 final size:101
Alignment explanation
Indices: 24969416--24969600 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
24969406 TACACGTAGG
* * * *
24969416 TCACATGTGTAGTACTATGTGCGGGCTACTAAGTGTACCGGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAGGCTACTAAGTGCACCGGAATGAAAGGTCACATGTGTAGTAC
24969481 TATGTGCAGGCTACTATGCATACTGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCATACTGGATAGCTTCGA
* * *
24969517 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGCATC-GAATGAAAATGGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAAGTGCACCGGAATG-AAA-GGTCACATGTGTAGT
*
24969581 ACTATGTGTAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
24969601 TGAACCGGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 5 0.07
101 36 0.49
102 33 0.45
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTAAGTGCACCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCATACTGGATAGCTTCGA
Found at i:24969987 original size:21 final size:21
Alignment explanation
Indices: 24969963--24970003 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24969953 CTAACTTTGG
24969963 AAAATAATTAAAAATTATAAA
1 AAAATAATTAAAAATTATAAA
* *
24969984 AAAATAATTATAAGTTATAA
1 AAAATAATTAAAAATTATAA
24970004 TTTATATGCT
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:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATAATTAAAAATTATAAA
Found at i:24976984 original size:23 final size:20
Alignment explanation
Indices: 24976920--24976998 Score: 74
Period size: 20 Copynumber: 3.9 Consensus size: 20
24976910 TAAAACTTGT
*
24976920 TAAAAATTAATTAAAAACCA
1 TAAAAATTTATTAAAAACCA
*
24976940 T-AAAA-TT-TTAAAAACTTTA
1 TAAAAATTTATTAAAAAC--CA
24976959 TAAAAACAATTTATTAAAAACCA
1 T--AAA-AATTTATTAAAAACCA
24976982 TAAAAATTTATTAAAAA
1 TAAAAATTTATTAAAAA
24976999 ATAAATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
17 8 0.17
18 1 0.02
19 6 0.12
20 14 0.29
21 3 0.06
22 2 0.04
23 4 0.08
24 2 0.04
25 8 0.17
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATTTATTAAAAACCA
Found at i:24977294 original size:51 final size:51
Alignment explanation
Indices: 24977230--24977502 Score: 227
Period size: 51 Copynumber: 5.6 Consensus size: 51
24977220 AAATATTTAA
*
24977230 TTTTTTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATT
1 TTTTTTAT-AATTTTAATGGTTTTAAATTAATTTCTAACAATTTATATAATT
* * * * *
24977282 TTTTTTCTAATTTTAATGGTTTTTAA-TAAATT-T----ATTTTTATAA-A
1 TTTTTTATAATTTTAATGGTTTTAAATTAATTTCTAACAATTTATATAATT
* * * *
24977326 TATTATAAATTTTT-ATGGTTTTAAATTAATTTCTAACAATTTATATAATT
1 TTTTTTATAATTTTAATGGTTTTAAATTAATTTCTAACAATTTATATAATT
* * * * *
24977376 TTTTTTCTAATTTTAATGGTTTTTAA-TAAATT-T----ATTTTTATAA-A
1 TTTTTTATAATTTTAATGGTTTTAAATTAATTTCTAACAATTTATATAATT
* * * *
24977420 TATTATAAATTTTT-ATGGTTTTAAATTAATTTCTAACAATTTATATAATT
1 TTTTTTATAATTTTAATGGTTTTAAATTAATTTCTAACAATTTATATAATT
* * *
24977470 TTTTTTCTAATTTTAATGGTTTTTAATAAATTT
1 TTTTTTATAATTTTAATGGTTTTAAATTAATTT
24977503 ATTTTTATAA
Statistics
Matches: 165, Mismatches: 40, Indels: 33
0.69 0.17 0.14
Matches are distributed among these distances:
43 20 0.12
44 28 0.17
45 20 0.12
49 20 0.12
50 28 0.17
51 42 0.25
52 7 0.04
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (51 bp):
TTTTTTATAATTTTAATGGTTTTAAATTAATTTCTAACAATTTATATAATT
Found at i:24977344 original size:43 final size:43
Alignment explanation
Indices: 24977290--24977539 Score: 196
Period size: 43 Copynumber: 5.5 Consensus size: 43
24977280 TTTTTTTTCT
24977290 AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
1 AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
* * * * * * * *
24977333 AATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCT
1 AATTTTAATGGTTTTTAA-TAAATT-T----ATTTTTATAA-ATATTAT-A
24977384 AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
1 AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
* * * * * * * *
24977427 AATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCT
1 AATTTTAATGGTTTTTAA-TAAATT-T----ATTTTTATAA-ATATTAT-A
24977478 AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
1 AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
*
24977521 AATTTTTAT-GTTTTTAATA
1 AATTTTAATGGTTTTTAATA
24977540 TTTTAATGAT
Statistics
Matches: 158, Mismatches: 33, Indels: 33
0.71 0.15 0.15
Matches are distributed among these distances:
42 10 0.06
43 40 0.25
44 18 0.11
45 20 0.13
49 20 0.13
50 18 0.11
51 32 0.20
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (43 bp):
AATTTTAATGGTTTTTAATAAATTTATTTTTATAAATATTATA
Found at i:24977568 original size:94 final size:94
Alignment explanation
Indices: 24977234--24977537 Score: 599
Period size: 94 Copynumber: 3.2 Consensus size: 94
24977224 ATTTAATTTT
24977234 TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
1 TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
24977299 GGTTTTTAATAAATTTATTTTTATAAATA
66 GGTTTTTAATAAATTTATTTTTATAAATA
24977328 TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
1 TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
24977393 GGTTTTTAATAAATTTATTTTTATAAATA
66 GGTTTTTAATAAATTTATTTTTATAAATA
24977422 TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
1 TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
24977487 GGTTTTTAATAAATTTATTTTTATAAATA
66 GGTTTTTAATAAATTTATTTTTATAAATA
*
24977516 TTATAAATTTTTATGTTTTTAA
1 TTATAAATTTTTATGGTTTTAA
24977538 TATTTTAATG
Statistics
Matches: 209, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 209 1.00
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (94 bp):
TTATAAATTTTTATGGTTTTAAATTAATTTCTAACAATTTATATAATTTTTTTTCTAATTTTAAT
GGTTTTTAATAAATTTATTTTTATAAATA
Found at i:24985793 original size:9 final size:10
Alignment explanation
Indices: 24985769--24985816 Score: 53
Period size: 9 Copynumber: 4.6 Consensus size: 10
24985759 GTATTTGACT
*
24985769 AAAATAATAC
1 AAAAAAATAC
24985779 AAAAAAATA-
1 AAAAAAATAC
24985788 AAAAAAATAC
1 AAAAAAATAC
24985798 TAAAATAATATAC
1 -AAAA-AA-ATAC
24985811 AAAAAA
1 AAAAAA
24985817 GTTTATTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 9 0.27
10 8 0.24
11 6 0.18
12 6 0.18
13 4 0.12
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:24985816 original size:22 final size:19
Alignment explanation
Indices: 24985769--24985807 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24985759 GTATTTGACT
*
24985769 AAAATAATACAAAAAAATA
1 AAAAAAATACAAAAAAATA
*
24985788 AAAAAAATACTAAAATAATA
1 AAAAAAATAC-AAAAAAATA
24985808 TACAAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAAATACAAAAAAATA
Found at i:24986324 original size:149 final size:151
Alignment explanation
Indices: 24986051--24986702 Score: 895
Period size: 149 Copynumber: 4.3 Consensus size: 151
24986041 TTAGTGTGTT
* *
24986051 TTTTTATTGAAAGTAAGAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTTT
1 TTTTT-TT-AAAGTAATAAAATC-CGGAAAAAAATACGAACAAAGGGCCGAAATAAGG-TTTTTT
*
24986116 TAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
62 TTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
24986181 AAATAATAAAATTAGAAAATAGT-T-
127 AAATAAT-AAATTAGAAAATAGTATA
*
24986205 TTTTTTTAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGACCGAAATAATGG-TTTTTTT-
1 TTTTTTTAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAA-GGTTTTTTTTA
* * * * *
24986268 AAATTTATTTAAAAAACACAGTAAGTTAATACATTTCAAACATGATTTACTAAAATAATGTAAAA
65 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
* * * *
24986333 TAATAAAATACAAAAATAATATC
130 TAATAAATTA-GAAAATAGTATA
* *
24986356 TTTTTATTGAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTTTT
1 TTTTT-TT-AAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAG-G--TTTTT
** *
24986421 TTTAAAAATTTAAATAAAAAGCACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
61 TTT-AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATG
24986486 TAAAATAATAAATTAGAAAATAGTATA
125 TAAAATAATAAATTAGAAAATAGTATA
* * * *
24986513 TTTTTTAAAAGTAATAAAATCCGAGGAAAAAATACGAACAAAGGGCTGAAATAAGG-ATTTTTT-
1 TTTTTTTAAAGTAATAAAATCCG-GAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTA
* *
24986576 -AATTTATTTAAAAAACACGCTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
65 AAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
24986640 TAATAAATTAGAAAATAGTATA
130 TAATAAATTAGAAAATAGTATA
* *
24986662 TTTTTTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAA
1 TTTTTTTAAAGTAATAAAATCCGGAAAAAAATACGAACAAA
24986703 TGGTTGAAAT
Statistics
Matches: 447, Mismatches: 38, Indels: 32
0.86 0.07 0.06
Matches are distributed among these distances:
148 23 0.05
149 175 0.39
150 7 0.02
151 35 0.08
152 24 0.05
153 46 0.10
154 5 0.01
155 16 0.04
156 36 0.08
157 14 0.03
158 66 0.15
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.30
Consensus pattern (151 bp):
TTTTTTTAAAGTAATAAAATCCGGAAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTAA
AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
AATAAATTAGAAAATAGTATA
Found at i:24986582 original size:307 final size:302
Alignment explanation
Indices: 24986050--24986705 Score: 989
Period size: 307 Copynumber: 2.2 Consensus size: 302
24986040 TTTAGTGTGT
* * *
24986050 TTTTTTATTGAAAGTAAGAAAATCTGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGATTTTT
1 TTTTTTATTGAAAGTAATAAAAT-TCGGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTT
**
24986115 TTAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
65 TTAAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
*
24986180 AAAATAATAAAATTAGAAAATAGTTTTTTTTTAAAGTAATAAAATCCGGAAAAAAATACGAACAA
130 AAAATAATAAAATTAGAAAATAGTTTTTTTTAAAAGTAATAAAATCCGGAAAAAAATACGAACAA
* *
24986245 AGGACCGAAATAATGGTTTTTTTAAATTTATTTAAAAAACACAG-TAAGTTAATACATTTCAAAC
195 AGGACCGAAATAATGGATTTTTTAAATTTATTTAAAAAACAC-GCTAAATTAATACATTTCAAAC
* *
24986309 ATGATTTACTAAAATAATGTAAAATAATAAAATACAAAAATAATA
259 ATAATGTACTAAAATAATGTAAAATAATAAAATA-AAAAATAATA
*
24986354 TCTTTTTATTGAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGGCCGAAATAAGAGTTTTT
1 T-TTTTTATTGAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGGCCGAAATAAG-G--ATT
*
24986419 TTTTTAAAAATTTAAATAAAAAGCACACTAAATGAATACATTTCAAACATAATGTACTAAAATAA
62 TTTTTAAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAA
*
24986484 TGTAAAATAAT-AAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATCCGAGGAAAAAATAC
127 TGTAAAATAATAAAATTAGAAAATAGT-T-TTTTTTAAAAGTAATAAAATCCG-GAAAAAAATAC
* *
24986548 GAACAAAGGGCTGAAATAA-GGATTTTTT-AATTTATTTAAAAAACACGCTAAATTAATACATTT
189 GAACAAAGGACCGAAATAATGGATTTTTTAAATTTATTTAAAAAACACGCTAAATTAATACATTT
* * *
24986611 CAAACATAATGTACTAAAATAATGTAAAATAATAAATTAGAAAATAGTA
254 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAATAATA
* * * *
24986660 TATTTT-TTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAATGG
1 TTTTTTATTGAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGG
24986706 TTGAAATACG
Statistics
Matches: 322, Mismatches: 22, Indels: 16
0.89 0.06 0.04
Matches are distributed among these distances:
304 70 0.22
305 26 0.08
306 25 0.08
307 144 0.45
308 30 0.09
309 27 0.08
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (302 bp):
TTTTTTATTGAAAGTAATAAAATTCGGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTT
TAAAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
AAATAATAAAATTAGAAAATAGTTTTTTTTAAAAGTAATAAAATCCGGAAAAAAATACGAACAAA
GGACCGAAATAATGGATTTTTTAAATTTATTTAAAAAACACGCTAAATTAATACATTTCAAACAT
AATGTACTAAAATAATGTAAAATAATAAAATAAAAAATAATA
Found at i:24987048 original size:10 final size:10
Alignment explanation
Indices: 24987015--24987063 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
24987005 GGAAATAAAC
24987015 TTTTTTGTAT
1 TTTTTTGTAT
24987025 ATTATTTTGGTAT
1 -TT-TTTT-GTAT
*
24987038 TTTTTTTTAT
1 TTTTTTGTAT
24987048 TTTTTTGTAT
1 TTTTTTGTAT
24987058 TATTTT
1 T-TTTT
24987064 AGTAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 13 0.39
11 10 0.30
12 6 0.18
13 4 0.12
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (10 bp):
TTTTTTGTAT
Found at i:24987370 original size:10 final size:10
Alignment explanation
Indices: 24987341--24987449 Score: 71
Period size: 10 Copynumber: 11.1 Consensus size: 10
24987331 TTCATTCTAG
24987341 AATTATTAAA
1 AATTATTAAA
* *
24987351 AA-AATAAAA
1 AATTATTAAA
24987360 AATTATTAAA
1 AATTATTAAA
*
24987370 AATCATTAAA
1 AATTATTAAA
** *
24987380 TTTTACTAAA
1 AATTATTAAA
*
24987390 ATTTA-TAAA
1 AATTATTAAA
* *
24987399 ATTTATTAGA
1 AATTATTAAA
24987409 AATTATTCAAA
1 AATTATT-AAA
*
24987420 AATCA-TAAA
1 AATTATTAAA
* *
24987429 ATTTATAAAA
1 AATTATTAAA
*
24987439 AAATATTAAA
1 AATTATTAAA
24987449 A
1 A
24987450 CCATAAAAAT
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
9 22 0.29
10 47 0.63
11 6 0.08
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.36
Consensus pattern (10 bp):
AATTATTAAA
Found at i:24987405 original size:39 final size:39
Alignment explanation
Indices: 24987357--24987449 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
24987347 TAAAAAAATA
** *
24987357 AAAAATTATTAAAAATCATT-AAATTTTACTAAAATTTAT
1 AAAAATTATTAAAAATCATTCAAAAATCA-TAAAATTTAT
* * *
24987396 AAAATTTATTAGAAATTATTCAAAAATCATAAAATTTAT
1 AAAAATTATTAAAAATCATTCAAAAATCATAAAATTTAT
*
24987435 AAAAAAATATTAAAA
1 -AAAAATTATTAAAA
24987450 CCATAAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
39 27 0.63
40 16 0.37
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (39 bp):
AAAAATTATTAAAAATCATTCAAAAATCATAAAATTTAT
Found at i:24988484 original size:87 final size:88
Alignment explanation
Indices: 24988334--24988529 Score: 256
Period size: 87 Copynumber: 2.2 Consensus size: 88
24988324 ACTTTAAGAA
* * *
24988334 AAAAAAACAATTAAGCACTTCCT--TTTTCTTTGCACTTAATTGAGCATTTGAACTTTTAAAATG
1 AAAAAAACAATTAAGC-C--CCTAATTTTCTTTGCACTCAATTGAGCACTTGAACTTTCAAAATG
* * * *
24988397 CATTAAAAGGGCCCTCAAACTTTTTC
63 CATCAAAAAGACCCTCAAAATTTTTC
*
24988423 AAAAAAAGCAATTAAGCCCCTAATTTT-TTT-CACTCAATTGGGCACTTGAACTTTCAAAATGCA
1 AAAAAAA-CAATTAAGCCCCTAATTTTCTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCA
24988486 TCAAAAAGACCCTCAAAATTTTTC
65 TCAAAAAGACCCTCAAAATTTTTC
24988510 AAAAAAACAATTAAGCCCCT
1 AAAAAAACAATTAAGCCCCT
24988530 GTTCTTATTA
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
86 13 0.14
87 59 0.61
88 3 0.03
89 12 0.12
90 9 0.09
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (88 bp):
AAAAAAACAATTAAGCCCCTAATTTTCTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGCAT
CAAAAAGACCCTCAAAATTTTTC
Found at i:24988671 original size:16 final size:17
Alignment explanation
Indices: 24988650--24988682 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24988640 ACATGTGGCG
24988650 AAAAATGATA-AAAAAT
1 AAAAATGATAGAAAAAT
*
24988666 AAAAATTATAGAAAAAT
1 AAAAATGATAGAAAAAT
24988683 TATAAAATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAAATGATAGAAAAAT
Found at i:24992442 original size:10 final size:10
Alignment explanation
Indices: 24992427--24992454 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24992417 TTTTTTTTTA
24992427 AATTAGTATT
1 AATTAGTATT
24992437 AATTAGTATT
1 AATTAGTATT
24992447 AATTAGTA
1 AATTAGTA
24992455 GGGTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (10 bp):
AATTAGTATT
Found at i:24994441 original size:20 final size:20
Alignment explanation
Indices: 24994416--24994465 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
24994406 CATTCTCCTT
*
24994416 ATTTTTTGTACATATACATA-
1 ATTTTTTG-AAATATACATAC
24994436 ATTTTTATGAAATATACATAC
1 ATTTTT-TGAAATATACATAC
24994457 ATATTTTTG
1 AT-TTTTTG
24994466 GAGATTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (20 bp):
ATTTTTTGAAATATACATAC
Found at i:24997115 original size:30 final size:31
Alignment explanation
Indices: 24997059--24997181 Score: 89
Period size: 30 Copynumber: 4.1 Consensus size: 31
24997049 TAAAAAATAT
* * * *
24997059 ATTTTAACCCCTATACTTTT-TGAAATTTAT
1 ATTTCAACCCCTAAACTTTTCTAAAATTTAC
*
24997089 ATTTCGA-CCCTAAACTTTTCTAAAA-TTAC
1 ATTTCAACCCCTAAACTTTTCTAAAATTTAC
* *
24997118 ATTTCAACCCCTAAGC-TTTCTCAAAA-TTGC
1 ATTTCAACCCCTAAACTTTTCT-AAAATTTAC
* * *
24997148 ACTTT-GACCCTTAAAC-TTTCTAAAAATTAC
1 A-TTTCAACCCCTAAACTTTTCTAAAATTTAC
24997178 ATTT
1 ATTT
24997182 TGGCCAATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
29 32 0.42
30 41 0.54
31 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.41
Consensus pattern (31 bp):
ATTTCAACCCCTAAACTTTTCTAAAATTTAC
Found at i:24997121 original size:29 final size:29
Alignment explanation
Indices: 24997089--24997181 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 29
24997079 TGAAATTTAT
24997089 ATTTCGACCCTAAACTTTTCT-AAAATTAC
1 ATTTCGACCCTAAAC-TTTCTAAAAATTAC
* * * *
24997118 ATTTCAACCCCTAAGCTTTCTCAAAATTGC
1 ATTTCGA-CCCTAAACTTTCTAAAAATTAC
24997148 ACTTT-GACCCTTAAACTTTCTAAAAATTAC
1 A-TTTCGACCC-TAAACTTTCTAAAAATTAC
24997178 ATTT
1 ATTT
24997182 TGGCCAATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
29 17 0.32
30 33 0.62
31 3 0.06
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (29 bp):
ATTTCGACCCTAAACTTTCTAAAAATTAC
Found at i:24997738 original size:23 final size:23
Alignment explanation
Indices: 24997705--24997749 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
24997695 GCAATCAAGC
*
24997705 AAAAAAACAAGCAAAACGAAAAT
1 AAAAAAACAAGCAAAAAGAAAAT
* *
24997728 AAAAAAGCAAGTAAAAAGAAAA
1 AAAAAAACAAGCAAAAAGAAAA
24997750 AACAGCAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.76, C:0.09, G:0.11, T:0.04
Consensus pattern (23 bp):
AAAAAAACAAGCAAAAAGAAAAT
Found at i:24997908 original size:13 final size:13
Alignment explanation
Indices: 24997892--24997949 Score: 80
Period size: 13 Copynumber: 4.4 Consensus size: 13
24997882 GAAGAAAAAT
24997892 AAAAAAGAGAAAG
1 AAAAAAGAGAAAG
24997905 AAAAAAGAAGAAAG
1 AAAAAAG-AGAAAG
* * *
24997919 AAAGAAGAAAAAT
1 AAAAAAGAGAAAG
24997932 AAAAAAGAGAAAG
1 AAAAAAGAGAAAG
24997945 AAAAA
1 AAAAA
24997950 GAGCAGACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 26 0.68
14 12 0.32
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAAGAGAAAG
Found at i:24997911 original size:7 final size:7
Alignment explanation
Indices: 24997886--24997949 Score: 53
Period size: 7 Copynumber: 9.6 Consensus size: 7
24997876 CGGCCTGAAG
*
24997886 AAAAATA
1 AAAAAGA
24997893 AAAAAG-
1 AAAAAGA
*
24997899 AGAAAGA
1 AAAAAGA
24997906 AAAAAGA
1 AAAAAGA
*
24997913 AGAAAGA
1 AAAAAGA
*
24997920 AAGAAG-
1 AAAAAGA
*
24997926 AAAAATA
1 AAAAAGA
24997933 AAAAAG-
1 AAAAAGA
*
24997939 AGAAAGA
1 AAAAAGA
24997946 AAAA
1 AAAA
24997950 GAGCAGACTA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
6 14 0.33
7 29 0.67
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:24997916 original size:14 final size:14
Alignment explanation
Indices: 24997883--24997949 Score: 79
Period size: 13 Copynumber: 5.1 Consensus size: 14
24997873 GTTCGGCCTG
*
24997883 AAGAA-AAATAAAA
1 AAGAAGAAAGAAAA
24997896 AAG-AGAAAGAAAA
1 AAGAAGAAAGAAAA
*
24997909 AAGAAGAAAGAAAG
1 AAGAAGAAAGAAAA
*
24997923 AAGAA-AAATAAAA
1 AAGAAGAAAGAAAA
24997936 AAG-AGAAAGAAAA
1 AAGAAGAAAGAAAA
24997949 A
1 A
24997950 GAGCAGACTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
12 2 0.04
13 30 0.65
14 14 0.30
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AAGAAGAAAGAAAA
Found at i:24998693 original size:18 final size:17
Alignment explanation
Indices: 24998668--24998712 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
24998658 TAAAAGATCG
24998668 TGTTTCAAAAGTTT-TCA
1 TGTTTCAAAA-TTTCTCA
*
24998685 TGTTTTCAAAATTTCTCG
1 TG-TTTCAAAATTTCTCA
24998703 TGTTTCAAAA
1 TGTTTCAAAA
24998713 AATAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:24998725 original size:27 final size:27
Alignment explanation
Indices: 24998692--24998743 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
24998682 TCATGTTTTC
*
24998692 AAAATTTCTCGTGTTTCAAAAAATAAT
1 AAAATTTCCCGTGTTTCAAAAAATAAT
24998719 AAAATTTCCCGTGTTTCAAAAAATA
1 AAAATTTCCCGTGTTTCAAAAAATA
24998744 TATTCGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTTCCCGTGTTTCAAAAAATAAT
Found at i:24998805 original size:17 final size:17
Alignment explanation
Indices: 24998765--24998810 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
24998755 TTTAAAATAA
24998765 TTTC-AAATTTTCGTGT
1 TTTCAAAATTTTCGTGT
24998781 TTTCCAAAATTTCTCGTG-
1 TTT-CAAAATTT-TCGTGT
24998799 TTTCAAAATTTT
1 TTTCAAAATTTT
24998811 TTTCGACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 9 0.33
19 5 0.19
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (17 bp):
TTTCAAAATTTTCGTGT
Found at i:24998858 original size:19 final size:18
Alignment explanation
Indices: 24998819--24998874 Score: 76
Period size: 19 Copynumber: 3.0 Consensus size: 18
24998809 TTTTTCGACT
* *
24998819 TTTCGCGTTTTCAAAAAA
1 TTTCGTGTTTTAAAAAAA
24998837 TTTCGTGTTTTAAAACAAA
1 TTTCGTGTTTTAAAA-AAA
24998856 TTTCGTGTTTTCAAAAAAA
1 TTTCGTGTTTT-AAAAAAA
24998875 AGTTATTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 13 0.38
19 17 0.50
20 4 0.12
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (18 bp):
TTTCGTGTTTTAAAAAAA
Found at i:25002298 original size:140 final size:140
Alignment explanation
Indices: 25002046--25002325 Score: 526
Period size: 140 Copynumber: 2.0 Consensus size: 140
25002036 AGGAAAAATT
*
25002046 CGAAGTCTAGAAAGTACACTGTAAGCTCATCAGCAACATTTGGATGACCTTCTGAGAGCTTTAGA
1 CGAAGTCTAGAAAGTACACTGCAAGCTCATCAGCAACATTTGGATGACCTTCTGAGAGCTTTAGA
25002111 AGAGAAGAATGGTCAGCATGACAGAGACATTCGCGCCTACGAAAGAGCCCTCCAAGAAAAGGATA
66 AGAGAAGAATGGTCAGCATGACAGAGACATTCGCGCCTACGAAAGAGCCCTCCAAGAAAAGGATA
25002176 TGCATCTCGG
131 TGCATCTCGG
*
25002186 CGAAGTCTAGAGAGTACACTGCAAGCTCATCAGCAACATTTGGATGACCTTCTGAGAGCTTTAGA
1 CGAAGTCTAGAAAGTACACTGCAAGCTCATCAGCAACATTTGGATGACCTTCTGAGAGCTTTAG-
25002251 AAGAGAAGAAT-GTCAGCATGACAGAGACATTCGCGCCTACGAAAGAGCCCTCCAAGAAAAGGAT
65 AAGAGAAGAATGGTCAGCATGACAGAGACATTCGCGCCTACGAAAGAGCCCTCCAAGAAAAGGAT
25002315 ATGCATCTCGG
130 ATGCATCTCGG
25002326 TAGTTTGATC
Statistics
Matches: 137, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
140 126 0.92
141 11 0.08
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (140 bp):
CGAAGTCTAGAAAGTACACTGCAAGCTCATCAGCAACATTTGGATGACCTTCTGAGAGCTTTAGA
AGAGAAGAATGGTCAGCATGACAGAGACATTCGCGCCTACGAAAGAGCCCTCCAAGAAAAGGATA
TGCATCTCGG
Found at i:25002747 original size:9 final size:9
Alignment explanation
Indices: 25002733--25002757 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25002723 CAAACTCAAT
25002733 GAAAGGATG
1 GAAAGGATG
25002742 GAAAGGATG
1 GAAAGGATG
25002751 GAAAGGA
1 GAAAGGA
25002758 CCCAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (9 bp):
GAAAGGATG
Found at i:25010032 original size:1 final size:1
Alignment explanation
Indices: 25010026--25010127 Score: 60
Period size: 1 Copynumber: 102.0 Consensus size: 1
25010016 TATTATGCCT
* * * * * * * * * *
25010026 AAAAAAAACAAAAAAACAAAAAAAAACAAAAACAAAAAACAAAAAACAAAAAACAGAGAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * *
25010091 AAAGAAAACAAAAAAAGAAAGAAAATAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25010128 TCAAGATGAA
Statistics
Matches: 69, Mismatches: 32, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (1 bp):
A
Found at i:25010040 original size:8 final size:8
Alignment explanation
Indices: 25010027--25010121 Score: 81
Period size: 8 Copynumber: 11.6 Consensus size: 8
25010017 ATTATGCCTA
25010027 AAAAAAAC
1 AAAAAAAC
25010035 AAAAAAAC
1 AAAAAAAC
25010043 AAAAAAA-
1 AAAAAAAC
25010050 AACAAAAAC
1 AA-AAAAAC
25010059 -AAAAAAC
1 AAAAAAAC
25010066 -AAAAAAC
1 AAAAAAAC
25010073 -AAAAAAC
1 AAAAAAAC
*
25010080 AGAGAAACAAA
1 A-A-AAA-AAC
25010091 AAAGAAAAC
1 AAA-AAAAC
*
25010100 AAAAAAAG
1 AAAAAAAC
*
25010108 AAAGAAAAT
1 AAA-AAAAC
25010117 AAAAA
1 AAAAA
25010122 GAAAAATCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
7 22 0.29
8 30 0.40
9 14 0.19
10 6 0.08
11 3 0.04
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.01
Consensus pattern (8 bp):
AAAAAAAC
Found at i:25010105 original size:7 final size:7
Alignment explanation
Indices: 25010028--25010098 Score: 79
Period size: 7 Copynumber: 9.6 Consensus size: 7
25010018 TTATGCCTAA
25010028 AAAAAAC
1 AAAAAAC
25010035 AAAAAAAC
1 -AAAAAAC
*
25010043 AAAAAAAA
1 -AAAAAAC
25010051 ACAAAAAC
1 A-AAAAAC
25010059 AAAAAAC
1 AAAAAAC
25010066 AAAAAAC
1 AAAAAAC
25010073 AAAAAAC
1 AAAAAAC
*
25010080 AGAGAAAC
1 A-AAAAAC
*
25010088 AAAAAAG
1 AAAAAAC
25010095 AAAA
1 AAAA
25010099 CAAAAAAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
7 30 0.54
8 26 0.46
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:25010127 original size:29 final size:28
Alignment explanation
Indices: 25010026--25010127 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 28
25010016 TATTATGCCT
* *
25010026 AAAAAAAACAAAAAAACAAAAAAA-AACAA
1 AAAAAAAA-AGAAAAACAAAAAAAGAA-AG
*
25010055 AAACAAAAAACAAAAAACAAAAAACAG--AG
1 AAA-AAAAAA-GAAAAACAAAAAA-AGAAAG
25010084 AAACAAAAAAG-AAAACAAAAAAAGAAAG
1 AAA-AAAAAAGAAAAACAAAAAAAGAAAG
25010112 AAAATAAAAAGAAAAA
1 AAAA-AAAAAGAAAAA
25010128 TCAAGATGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
26 2 0.03
27 12 0.19
28 11 0.17
29 19 0.30
30 18 0.29
31 1 0.02
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (28 bp):
AAAAAAAAAGAAAAACAAAAAAAGAAAG
Found at i:25011371 original size:76 final size:76
Alignment explanation
Indices: 25010980--25011620 Score: 782
Period size: 75 Copynumber: 8.4 Consensus size: 76
25010970 TCAAGAATTA
* *
25010980 TATTTTTCAATTTCT-ATTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGG
1 TATTTTT-AATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
** *
25011042 GCCGCACGCCGAGG
65 G--TTACGCTGAGG
* * * * *
25011056 TATTTTCAATTTCTATTTTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAGTTAAGCCTCGG
1 TATTTTTAATTTCT-GTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
25011121 GTTACGCTGAGC
65 GTTACGCTGAGG
* *
25011133 TATTTTTAATTTCTGTTTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTTGG
1 TATTTTTAATTTCTG-TTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
* *
25011196 GTCATGCTGAGG
65 GTTACGCTGAGG
* * * *
25011208 TATTTTCAATTTCTATTTAAAAAAATAAT-AAAAAAATCAACTCATAATGCGAGAAGTGAGTTGA
1 TATTTTTAATTTCTGTTT-------T-TTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
25011272 GCCTCGGGTTACG-TAGAGG
58 GCCTCGGGTTACGCT-GAGG
*
25011291 TATTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
25011356 TTACGCTGAGA
66 TTACGCTGAGG
25011367 TATTTTTAATTTCTG-TTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
25011430 TTACGCTGAGG
66 TTACGCTGAGG
* * * * *
25011441 TATTTCTAATTTCTGTTTTTTCAAAAAAAATCAACTCATAATACGAGAAGTGAGTTGAACCTCAG
1 TATTTTTAATTTCTGTTTTTTC-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
*
25011506 GTTACACTGAGG
65 GTTACGCTGAGG
* * *
25011518 TATTTTTAATTTCTGTTTTTTC-AAAAAATCAACTCATAATGCGAGAGATGGGTTGAGCTTCGGG
1 TATTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
*
25011582 TCACGCTGAGG
66 TTACGCTGAGG
*
25011593 TATTTTCAATTTCTG-TTTTTCAAAAAAA
1 TATTTTTAATTTCTGTTTTTTCAAAAAAA
25011621 AAAAAGAAAA
Statistics
Matches: 490, Mismatches: 53, Indels: 45
0.83 0.09 0.08
Matches are distributed among these distances:
74 74 0.15
75 142 0.29
76 71 0.14
77 101 0.21
79 38 0.08
81 1 0.00
82 2 0.00
83 61 0.12
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (76 bp):
TATTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
TTACGCTGAGG
Found at i:25011604 original size:152 final size:151
Alignment explanation
Indices: 25010983--25011620 Score: 774
Period size: 152 Copynumber: 4.2 Consensus size: 151
25010973 AGAATTATAT
* *
25010983 TTTTCAATTTCT-ATTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGCC
1 TTTTCAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG--
* * *
25011045 GCACGCCGAGGTATTTTCAATTTCTATTTTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAG
64 TCACGCTGAGGTATTTTCAATTTC--TGTTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAG
* *
25011110 TTAAGCCTCGGGTTACGCTGAGCTA
127 TTGAGCCTCGGGTTACGCTGAGGTA
* * *
25011135 TTTTTAATTTCTGTTTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTTGGGT
1 TTTTCAATTTCTG-TTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
* * *
25011198 CATGCTGAGGTATTTTCAATTTCTATTTAAAAAAATAATAAAAAAATCAACTCATAATGCGAGAA
65 CACGCTGAGGTATTTTCAATTTCTGTTT-------T-TTAAAAAAATCAACTCATAATGCGAGAA
25011263 GTGAGTTGAGCCTCGGGTTACG-TAGAGGTA
122 GTGAGTTGAGCCTCGGGTTACGCT-GAGGTA
* * *
25011293 TTTTTAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTT
1 TTTTCAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
* * * *
25011358 ACGCTGAGATATTTTTAATTTCTG-TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGA
66 ACGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGA
25011422 GCCTCGGGTTACGCTGAGGTA
131 GCCTCGGGTTACGCTGAGGTA
* * * *
25011443 -TTTCTAATTTCTGTTTTTTCAAAAAAAATCAACTCATAATACGAGAAGTGAGTTGAACCTCAGG
1 TTTTC-AATTTCTGTTTTTTC-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
* * * * *
25011507 TTACACTGAGGTATTTTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATGCGAG-AGATGGGT
64 TCACGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATAATGCGAGAAG-TGAGT
* *
25011571 TGAGCTTCGGGTCACGCTGAGGTA
128 TGAGCCTCGGGTTACGCTGAGGTA
25011595 TTTTCAATTTCTG-TTTTTCAAAAAAA
1 TTTTCAATTTCTGTTTTTTCAAAAAAA
25011621 AAAAAGAAAA
Statistics
Matches: 436, Mismatches: 31, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
149 3 0.01
150 79 0.18
151 71 0.16
152 95 0.22
153 4 0.01
154 46 0.11
157 9 0.02
158 68 0.16
159 61 0.14
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (151 bp):
TTTTCAATTTCTGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
ACGCTGAGGTATTTTCAATTTCTGTTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGA
GCCTCGGGTTACGCTGAGGTA
Found at i:25011699 original size:385 final size:374
Alignment explanation
Indices: 25010979--25011684 Score: 884
Period size: 385 Copynumber: 1.8 Consensus size: 374
25010969 TTCAAGAATT
*
25010979 ATATTTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGC
1 ATATTTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-
** *
25011044 CGCACGCCGAGGTATTTTCAATTTCTATTTTTTTTAAAAAAATCAACTCATAATGCGAGAAGTGA
65 CGCACGCCGAGGTATTTTCAATTTCTATTTTTTCAAAAAAAATCAACTCATAATACGAGAAGTGA
* *
25011109 GTTAAGCCTCGGGTTACGCTGAGCTATTTTTAATTTCTGTTTTTTTCAAAAATCAACTCATAATG
130 GTTAAGCCTCAGGTTACACTGAGCTATTTTTAATTTCTGTTTTTTTCAAAAATCAACTCATAATG
* * * *
25011174 CGAGAGGTGGGTTGAGCCTTGGGTCATGCTGAGGTATTTTCAATTTCTATTTAAAAAAATAATAA
195 CGAGAGATGGGTTGAGCCTTGGGTCACGCTGAGGTATTTTCAATTTCTATTTAAAAAAAAAAAAA
* *
25011239 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGGTTACGTAGAGGTATTTTTAATTTC
260 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGTCACGTAGAGG----------TTC
*
25011304 TGTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTTACGCTGAG
315 --TATTTTCAAAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTTACGCTGAG
*
25011366 ATATTTTT-AATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 ATATTTTTCAATTTCTATTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG
** * *
25011430 -TTACGCTGAGGTA-TTTCTAATTTCTGTTTTTTCAAAAAAAATCAACTCATAATACGAGAAGTG
65 CGCACGCCGAGGTATTTTC-AATTTCTATTTTTTCAAAAAAAATCAACTCATAATACGAGAAGTG
*
25011493 AGTTGAA-CCTCAGGTTACACTGAGGTATTTTTAATTTCTG-TTTTTTCAAAAAATCAACTCATA
129 AGTT-AAGCCTCAGGTTACACTGAGCTATTTTTAATTTCTGTTTTTTTC-AAAAATCAACTCATA
*
25011556 ATGCGAGAGATGGGTTGAG-CTTCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAA
192 ATGCGAGAGATGGGTTGAGCCTT-GGGTCACGCTGAGGTATTTTCAATTTC--TATTT-------
*
25011620 AAAAAAGAAAAGAAAGAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACG
247 ---AAA-AAAA-AAA-AAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGTCACG
25011685 CTGAGTCATT
Statistics
Matches: 279, Mismatches: 20, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
384 14 0.05
385 144 0.52
386 15 0.05
387 52 0.19
397 3 0.01
398 4 0.01
399 2 0.01
400 45 0.16
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (374 bp):
ATATTTTTCAATTTCTATTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
GCACGCCGAGGTATTTTCAATTTCTATTTTTTCAAAAAAAATCAACTCATAATACGAGAAGTGAG
TTAAGCCTCAGGTTACACTGAGCTATTTTTAATTTCTGTTTTTTTCAAAAATCAACTCATAATGC
GAGAGATGGGTTGAGCCTTGGGTCACGCTGAGGTATTTTCAATTTCTATTTAAAAAAAAAAAAAA
AAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGAGTCACGTAGAGGTTCTATTTTCAAAA
AAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTTACGCTGAG
Found at i:25012091 original size:29 final size:30
Alignment explanation
Indices: 25012057--25012188 Score: 151
Period size: 30 Copynumber: 4.4 Consensus size: 30
25012047 ACAAAACATA
**
25012057 AAAATTACATTTTAACCCCTGTA-TTTTTT
1 AAAATTACATTTTAACCCCTAAACTTTTTT
* * *
25012086 GAAATTTACATTTTGA-CCCTAAACTTTTCT
1 -AAAATTACATTTTAACCCCTAAACTTTTTT
* *
25012116 AAAATTACATTTCAACCCCTAAACTTTCTT
1 AAAATTACATTTTAACCCCTAAACTTTTTT
* * *
25012146 AAAATTACACTTTAACCCCTAAACTTTCTA
1 AAAATTACATTTTAACCCCTAAACTTTTTT
25012176 AAAATTACATTTT
1 AAAATTACATTTT
25012189 GGCCCTATAT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
29 17 0.20
30 69 0.80
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTTTT
Found at i:25012122 original size:59 final size:60
Alignment explanation
Indices: 25012055--25012188 Score: 166
Period size: 59 Copynumber: 2.2 Consensus size: 60
25012045 ATACAAAACA
** * * * *
25012055 TAAAAATTACATTTTAACCCCTGTA-TTTTTTGAAATTTACATTTTGA-CCCTAAACTTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTCTT-AAAATTACACTTTAACCCCTAAAC-TTTC
*
25012115 T-AAAATTACATTTCAACCCCTAAACTTTCTTAAAATTACACTTTAACCCCTAAACTTTC
1 TAAAAATTACATTTTAACCCCTAAACTTTCTTAAAATTACACTTTAACCCCTAAACTTTC
25012174 TAAAAATTACATTTT
1 TAAAAATTACATTTT
25012189 GGCCCTATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 37 0.59
60 26 0.41
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAAAATTACATTTTAACCCCTAAACTTTCTTAAAATTACACTTTAACCCCTAAACTTTC
Found at i:25012194 original size:29 final size:29
Alignment explanation
Indices: 25012055--25012227 Score: 150
Period size: 30 Copynumber: 5.8 Consensus size: 29
25012045 ATACAAAACA
** * *
25012055 TAAAAATTACATTTTAACCCCTGTATTTTT
1 TAAAAATTACATTTTAA-CCCTAAACTTTC
* * *
25012085 TGAAATTTACATTTTGACCCTAAACTTTTC
1 TAAAAATTACATTTTAACCCTAAAC-TTTC
*
25012115 T-AAAATTACATTTCAACCCCTAAACTTTC
1 TAAAAATTACATTTTAA-CCCTAAACTTTC
* *
25012144 TTAAAATTACACTTTAACCCCTAAACTTTC
1 TAAAAATTACATTTTAA-CCCTAAACTTTC
** * *
25012174 TAAAAATTACATTTTGGCCCTATATTTTCC
1 TAAAAATTACATTTTAACCCTAAACTTT-C
* *
25012204 AAAAAATTACATTTTTACCCTAAA
1 TAAAAATTACATTTTAACCCTAAA
25012228 TATTTTACGT
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
29 31 0.26
30 86 0.74
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAAATTACATTTTAACCCTAAACTTTC
Found at i:25012916 original size:20 final size:21
Alignment explanation
Indices: 25012891--25012964 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 21
25012881 TGGCCTGAAG
25012891 AAAAATAAAA-A-ATAGAAAGA
1 AAAAATAAAAGAGA-AGAAAGA
25012911 AAAAATAAAAGAGAAGAAAGA
1 AAAAATAAAAGAGAAGAAAGA
* * *
25012932 AAGAAGAAAA-AGAAAAAAGA
1 AAAAATAAAAGAGAAGAAAGA
*
25012952 GAAAGA-AAAAGAG
1 -AAAAATAAAAGAG
25012965 CAAACCATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 23 0.51
21 21 0.47
22 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAATAAAAGAGAAGAAAGA
Found at i:25012920 original size:18 final size:18
Alignment explanation
Indices: 25012887--25012929 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25012877 GGTTTGGCCT
*
25012887 GAAGAAAAATAAAAAATA
1 GAAGAAAAATAAAAAAGA
*
25012905 GAAAGAAAAA-ATAAAAGA
1 G-AAGAAAAATAAAAAAGA
25012923 GAAGAAA
1 GAAGAAA
25012930 GAAAGAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (18 bp):
GAAGAAAAATAAAAAAGA
Found at i:25012960 original size:13 final size:13
Alignment explanation
Indices: 25012925--25012961 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
25012915 ATAAAAGAGA
*
25012925 AGAAAGAAAGAAG
1 AGAAAGAAAAAAG
*
25012938 AAAAAGAAAAAAG
1 AGAAAGAAAAAAG
25012951 AGAAAGAAAAA
1 AGAAAGAAAAA
25012962 GAGCAAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:25013691 original size:18 final size:18
Alignment explanation
Indices: 25013668--25013711 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
25013658 AAAGATCGTG
25013668 TTTCAAAAGTTT-TCATGT
1 TTTCAAAA-TTTCTCATGT
*
25013686 TTTCAAAATTTCTCGTGT
1 TTTCAAAATTTCTCATGT
*
25013704 TTCCAAAA
1 TTTCAAAA
25013712 ATAATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (18 bp):
TTTCAAAATTTCTCATGT
Found at i:25013799 original size:18 final size:18
Alignment explanation
Indices: 25013778--25013819 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25013768 TCCGTTTATC
*
25013778 AAATTTTCTTGT-TTTCA
1 AAATTTTCTCGTGTTTCA
*
25013795 AAAATTTCTCGTGTTTCA
1 AAATTTTCTCGTGTTTCA
25013813 AAATTTT
1 AAATTTT
25013820 TTTTTGACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (18 bp):
AAATTTTCTCGTGTTTCA
Found at i:25013816 original size:17 final size:16
Alignment explanation
Indices: 25013764--25013818 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
25013754 TTTTTAAAAT
25013764 AATTTC-CGTTTATCAA
1 AATTTCTCGTTT-TCAA
* *
25013780 ATTTTCTTGTTTTCAAA
1 AATTTCTCGTTTTC-AA
25013797 AATTTCTCGTGTTTCAA
1 AATTTCTCGT-TTTCAA
25013814 AATTT
1 AATTT
25013819 TTTTTTGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 7 0.22
17 21 0.66
18 4 0.12
ACGTcount: A:0.27, C:0.15, G:0.07, T:0.51
Consensus pattern (16 bp):
AATTTCTCGTTTTCAA
Found at i:25013866 original size:20 final size:20
Alignment explanation
Indices: 25013841--25013901 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
25013831 TCGCATTTTC
25013841 AAAAATTTTCGTGTTTT-AAA
1 AAAAATTTT-GTGTTTTCAAA
25013861 AAAAATTTTGTGTTTTCAAA
1 AAAAATTTTGTGTTTTCAAA
*
25013881 AAAAGTTATTGTG-TTTCAAA
1 AAAAATT-TTGTGTTTTCAAA
25013901 A
1 A
25013902 TTCTTGTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
19 7 0.18
20 26 0.68
21 5 0.13
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (20 bp):
AAAAATTTTGTGTTTTCAAA
Found at i:25014408 original size:13 final size:13
Alignment explanation
Indices: 25014386--25014450 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
25014376 TTCTTCATTG
25014386 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
* *
25014399 CTTTTTAAAAGTG
1 CTTTTGAAAAGTT
** * *
25014412 CAGTGGAAAAGTG
1 CTTTTGAAAAGTT
*
25014425 CTTTTGAGAAGTT
1 CTTTTGAAAAGTT
25014438 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
25014451 TGGTTTAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (13 bp):
CTTTTGAAAAGTT
Found at i:25019432 original size:16 final size:17
Alignment explanation
Indices: 25019411--25019447 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
25019401 ACTAAATAAT
*
25019411 TAAAATAAATAAACAA-
1 TAAAATAAACAAACAAC
25019427 TAAAATAAACAAACAAC
1 TAAAATAAACAAACAAC
25019444 TAAA
1 TAAA
25019448 CTGATTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (17 bp):
TAAAATAAACAAACAAC
Found at i:25033485 original size:20 final size:21
Alignment explanation
Indices: 25033433--25033485 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
25033423 ATTCACAGCG
25033433 AAATATGTAATACTTTATAAAA
1 AAATATGTAA-ACTTTATAAAA
* * *
25033455 AAACATTTAAA-TTTATATAA
1 AAATATGTAAACTTTATAAAA
*
25033475 GAATATGTAAA
1 AAATATGTAAA
25033486 ACAAATTAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 16 0.64
21 1 0.04
22 8 0.32
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (21 bp):
AAATATGTAAACTTTATAAAA
Found at i:25035168 original size:37 final size:35
Alignment explanation
Indices: 25035096--25035168 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 35
25035086 GAATAATATT
* * *
25035096 TTTTTGAAATAGAAAAAAGAAAAGATAATAGGTTA
1 TTTTCGAAATAGAAAAAAGAAAAGAAAAAAGGTTA
25035131 TTTTCGAAAT-GAAGAAAAGAAAAGAGAAAAAGAGTTA
1 TTTTCGAAATAGAA-AAAAGAAAAGA-AAAAAG-GTTA
25035168 T
1 T
25035169 GGACGAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 3 0.09
35 20 0.62
36 4 0.12
37 5 0.16
ACGTcount: A:0.55, C:0.01, G:0.19, T:0.25
Consensus pattern (35 bp):
TTTTCGAAATAGAAAAAAGAAAAGAAAAAAGGTTA
Found at i:25036998 original size:29 final size:28
Alignment explanation
Indices: 25036955--25037251 Score: 292
Period size: 28 Copynumber: 10.5 Consensus size: 28
25036945 ACGCGCCGGA
* * *
25036955 GAAAAGAAAGCCTTTGTGGCAAACCTAT
1 GAAAGGAAAGCCTTTGTGGAAAACCTCT
* **
25036983 GCAAAGAAAAGCCTTTGTGGTGAACCTCT
1 G-AAAGGAAAGCCTTTGTGGAAAACCTCT
* * ** *
25037012 GAAAGGAAATCCTTTATGGTGAACCTTT
1 GAAAGGAAAGCCTTTGTGGAAAACCTCT
* * **
25037040 AAAATGAAAGCCTTTGTGGTGAACCTCT
1 GAAAGGAAAGCCTTTGTGGAAAACCTCT
*
25037068 GCAAAGGAAAGCCTTTATGGAAAACCTCT
1 G-AAAGGAAAGCCTTTGTGGAAAACCTCT
25037097 GCAAAGGAAAGCCTTTGTGGAAAACCT-T
1 G-AAAGGAAAGCCTTTGTGGAAAACCTCT
** *
25037125 CGTAAAGGAGGGCCTTTGTGGCAAACCTCT
1 -G-AAAGGAAAGCCTTTGTGGAAAACCTCT
* * *
25037155 TAATGGAAAGCCTTTGTGAAAAACCTCT
1 GAAAGGAAAGCCTTTGTGGAAAACCTCT
* * **
25037183 GAAAGGAAAGTCTTTTTGGTGAACCTCT
1 GAAAGGAAAGCCTTTGTGGAAAACCTCT
25037211 GAAAGGAAAGCCTTTGTGGAAAACCTCT
1 GAAAGGAAAGCCTTTGTGGAAAACCTCT
25037239 GTAAAGG-AAGCCT
1 G-AAAGGAAAGCCT
25037252 CGTGGCAATC
Statistics
Matches: 223, Mismatches: 41, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
28 122 0.55
29 100 0.45
30 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (28 bp):
GAAAGGAAAGCCTTTGTGGAAAACCTCT
Found at i:25044940 original size:29 final size:29
Alignment explanation
Indices: 25044900--25044984 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
25044890 ACACCTTTTT
25044900 AAGGAAAGTCTTTATGACAAACCTCTGTA
1 AAGGAAAGTCTTTATGACAAACCTCTGTA
* *
25044929 AAGGAGAA-TCTTTGTGGCAAACCTCTGTA
1 AAGGA-AAGTCTTTATGACAAACCTCTGTA
* * * *
25044958 AAGGATAGCCTTTGTGGCAAACCTCTG
1 AAGGAAAGTCTTTATGACAAACCTCTG
25044985 CAAATGATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.02
29 47 0.94
30 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (29 bp):
AAGGAAAGTCTTTATGACAAACCTCTGTA
Found at i:25044993 original size:29 final size:28
Alignment explanation
Indices: 25044917--25045010 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 28
25044907 GTCTTTATGA
* *
25044917 CAAACCTCTGTAAAGGAGAATCTTTGTGG
1 CAAACCTCTGCAAAGGATAA-CTTTGTGG
* *
25044946 CAAACCTCTGTAAAGGATAGCCTTTGTGG
1 CAAACCTCTGCAAAGGATA-ACTTTGTGG
*
25044975 CAAACCTCTGCAAATGATAACTTTCGTGG
1 CAAACCTCTGCAAAGGATAACTTT-GTGG
25045004 CAAACCT
1 CAAACCT
25045011 ATAAAAAGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
28 4 0.07
29 54 0.93
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (28 bp):
CAAACCTCTGCAAAGGATAACTTTGTGG
Found at i:25045103 original size:29 final size:28
Alignment explanation
Indices: 25045054--25045108 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
25045044 GCGAAAAGCA
*
25045054 TTTGTCGCGAACCTCTGAAAGGAAAAAT
1 TTTGTCGCAAACCTCTGAAAGGAAAAAT
* *
25045082 TTTGTGGCAAACCTTTGCAAAGGAAAA
1 TTTGTCGCAAACCTCTG-AAAGGAAAA
25045109 CCGTTATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (28 bp):
TTTGTCGCAAACCTCTGAAAGGAAAAAT
Found at i:25045152 original size:28 final size:27
Alignment explanation
Indices: 25045120--25045255 Score: 101
Period size: 28 Copynumber: 4.8 Consensus size: 27
25045110 CGTTATGGTG
*
25045120 AACCTCTAAAAGTAAGGCCTTTGTAGCA
1 AACCTCTAAAAGTAA-GCCTTTGTAGAA
* * *
25045148 TACCTCTAAACAGAAAGCCTTTGTGGAA
1 AACCTCTAAA-AGTAAGCCTTTGTAGAA
* * *
25045176 AACCTCTACAAAGGTAAGCCTTTATGGTA
1 AACCTCTA-AAA-GTAAGCCTTTGTAGAA
* * *
25045205 AACCTCTGAAATGAAAGCCTTTGTGGAA
1 AACCTCT-AAAAGTAAGCCTTTGTAGAA
* *
25045233 AACCTTCAAAAAGGAAAGCCTTT
1 AACC-TCTAAAA-GTAAGCCTTT
25045256 ATGGCAACCT
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
28 47 0.53
29 40 0.45
30 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (27 bp):
AACCTCTAAAAGTAAGCCTTTGTAGAA
Found at i:25045197 original size:57 final size:55
Alignment explanation
Indices: 25045120--25045279 Score: 187
Period size: 57 Copynumber: 2.8 Consensus size: 55
25045110 CGTTATGGTG
* * *
25045120 AACCTCTAAAA-GTAAGGCCTTTGTAGCATACCTCTAAACAGAAAGCCTTTGTGGAA
1 AACCTCTAAAAGGTAA-GCCTTTATGGCA-ACCTCTAAAAAGAAAGCCTTTGTGGAA
* * *
25045176 AACCTCTACAAAGGTAAGCCTTTATGGTAAACCTCTGAAATGAAAGCCTTTGTGGAA
1 AACCTCTA-AAAGGTAAGCCTTTATGG-CAACCTCTAAAAAGAAAGCCTTTGTGGAA
* *
25045233 AACCTTCAAAAAGGAAAGCCTTTATGGCAACCTCTAAAAAAGAAAGC
1 AACC-TCTAAAAGGTAAGCCTTTATGGCAACCTCT-AAAAAGAAAGC
25045280 ATCGTGGCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
56 15 0.17
57 65 0.74
58 8 0.09
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (55 bp):
AACCTCTAAAAGGTAAGCCTTTATGGCAACCTCTAAAAAGAAAGCCTTTGTGGAA
Found at i:25045264 original size:28 final size:28
Alignment explanation
Indices: 25045160--25045279 Score: 116
Period size: 29 Copynumber: 4.2 Consensus size: 28
25045150 CCTCTAAACA
* *
25045160 GAAAGCCTTTGTGGAAAACCTCTACAAAG
1 GAAAGCCTTTATGGAAAACCTC-AAAAAG
* * ** *
25045189 GTAAGCCTTTATGGTAAACCTCTGAAAT
1 GAAAGCCTTTATGGAAAACCTCAAAAAG
*
25045217 GAAAGCCTTTGTGGAAAACCTTCAAAAAG
1 GAAAGCCTTTATGGAAAACC-TCAAAAAG
* *
25045246 GAAAGCCTTTATGG-CAACCTCTAAAAAA
1 GAAAGCCTTTATGGAAAACCTC-AAAAAG
25045274 GAAAGC
1 GAAAGC
25045280 ATCGTGGCAA
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
27 2 0.03
28 35 0.47
29 37 0.50
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (28 bp):
GAAAGCCTTTATGGAAAACCTCAAAAAG
Found at i:25047998 original size:3 final size:3
Alignment explanation
Indices: 25047990--25048029 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
25047980 TCAATTGGCA
25047990 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
25048030 AAGAACTAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:25048354 original size:3 final size:3
Alignment explanation
Indices: 25048346--25048391 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
25048336 TGAATTGGCA
25048346 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
25048392 AAGAACTAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:25048620 original size:362 final size:355
Alignment explanation
Indices: 25047961--25048662 Score: 1269
Period size: 362 Copynumber: 2.0 Consensus size: 355
25047951 GGAAAATCAG
25047961 TTGCACATTGAGCCTTAGCTCAATTGGCATTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTG
1 TTGCACATTGAGCCTTAGCTCAATTGGCATTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTG
* *
25048026 TTGTAAGAACTAGGAAGACGTGGGTTCATGCACACTTAAGCGCACATTTTCCTAAGATTTAATGA
66 TTGTAAGAACTAGGAAGACATGGGTTCATGCACACTTAAGCGCACATTTTCCTAAAATTTAATGA
*
25048091 TGGGGAGAGGTTATGAGCATAGATAGACTTTGCATAAACAATGGGGTAAACTACATCTAAGACCA
131 TGGGGAGAGGTTATGAGCATAGATAGACTTTGCATAAACAATGGAGTAAACTACATCTAAGACCA
25048156 CTAAATTATTAGTAAGTTGACATTTTGGTCACTCAACTTTAAAAAGTTACAAAATAACCCCTGAA
196 CTAAATTATTAGTAAGTTGACATTTTGGTCACTCAACTTTAAAAAGTTACAAAATAACCCCTGAA
25048221 CTATTTAAAAGTTTTCATTTAAATCACTAAGTTGTTAAGTCTTTTTTTTTAAGTCCAACTGACAA
261 CTATTTAAAAGTTTTCATTTAAATCACTAAGTTGTTAAGTC-TTTTTTTTAAGTCCAACTGACAA
*
25048286 ACTCCAAGTGATGATTAGTTGTAAGAACTAA
325 ACTCCAAGCGATGATTAGTTGTAAGAACTAA
*
25048317 TTGCACATTGAGCCTTAGCTGAATTGGCATTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTG
1 TTGCACATTGAGCCTTAGCTCAATTGGCA------TTGTTGTTGTTGTTGTTGTTGTTGTTGTTG
25048382 TTGTTGTTGTAAGAACTAGGAAGACATGGGTTCATGCACACTTAAGCGCACATTTTCCTAAAATT
60 TTGTTGTTGTAAGAACTAGGAAGACATGGGTTCATGCACACTTAAGCGCACATTTTCCTAAAATT
*
25048447 TAATGATGGGGAGAGGTTATGAGCATAGATAGACTTTGCATAAACAATGGAGTAAACTACATTTA
125 TAATGATGGGGAGAGGTTATGAGCATAGATAGACTTTGCATAAACAATGGAGTAAACTACATCTA
* *
25048512 AGACCACTAAATTATTAGTAAGTTTACATTTTGGTCACTCAACTTTAAAAAGTTAGAAAATAACC
190 AGACCACTAAATTATTAGTAAGTTGACATTTTGGTCACTCAACTTTAAAAAGTTACAAAATAACC
25048577 CCTGAACTATTTAAAAGTTTTCATTTAAATCACTAAGTTGTTAAGTCTTTTTTTTAAGTCCAACT
255 CCTGAACTATTTAAAAGTTTTCATTTAAATCACTAAGTTGTTAAGTCTTTTTTTTAAGTCCAACT
25048642 GACAAACTCCAAGCGATGATT
320 GACAAACTCCAAGCGATGATT
25048663 CGACAAACGA
Statistics
Matches: 332, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
356 28 0.08
361 38 0.11
362 266 0.80
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (355 bp):
TTGCACATTGAGCCTTAGCTCAATTGGCATTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTG
TTGTAAGAACTAGGAAGACATGGGTTCATGCACACTTAAGCGCACATTTTCCTAAAATTTAATGA
TGGGGAGAGGTTATGAGCATAGATAGACTTTGCATAAACAATGGAGTAAACTACATCTAAGACCA
CTAAATTATTAGTAAGTTGACATTTTGGTCACTCAACTTTAAAAAGTTACAAAATAACCCCTGAA
CTATTTAAAAGTTTTCATTTAAATCACTAAGTTGTTAAGTCTTTTTTTTAAGTCCAACTGACAAA
CTCCAAGCGATGATTAGTTGTAAGAACTAA
Found at i:25056575 original size:26 final size:26
Alignment explanation
Indices: 25056546--25056602 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
25056536 AACAGGTATC
*
25056546 AGGATAATGATGATGATGGAAAACAT
1 AGGACAATGATGATGATGGAAAACAT
25056572 AGGACAATGATGATGATGGAAAACAT
1 AGGACAATGATGATGATGGAAAACAT
25056598 AGGAC
1 AGGAC
25056603 TACTTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.28, T:0.19
Consensus pattern (26 bp):
AGGACAATGATGATGATGGAAAACAT
Found at i:25064044 original size:25 final size:24
Alignment explanation
Indices: 25064007--25064099 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 24
25063997 AATTTATATT
25064007 CGGGAATGCTCATACGAGCACTTAAA
1 CGGGAA-GCTCATACGAGCACTT-AA
**
25064033 CGGGAAGCTCATGTGAGGCA-TGTAA
1 CGGGAAGCTCATACGA-GCACT-TAA
**
25064058 CGGGAAGCTCCGGA-GAGC-CATTAA
1 CGGGAAGCT-CATACGAGCAC-TTAA
25064082 CGGGAAGCTCATACGAGC
1 CGGGAAGCTCATACGAGC
25064100 CAATATCGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 18 0.33
25 23 0.43
26 11 0.20
ACGTcount: A:0.30, C:0.23, G:0.31, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCATACGAGCACTTAA
Found at i:25064087 original size:24 final size:24
Alignment explanation
Indices: 25064031--25064166 Score: 87
Period size: 25 Copynumber: 5.5 Consensus size: 24
25064021 CGAGCACTTA
* *
25064031 AACGGGAAGCT-CATGTGAGGCATGT
1 AACGGGAAGCTCCA-GAGAGCCAT-T
*
25064056 AACGGGAAGCTCCGGAGAGCCATT
1 AACGGGAAGCTCCAGAGAGCCATT
* *
25064080 AACGGGAAGCT-CATACGAGCCAAT
1 AACGGGAAGCTCCAGA-GAGCCATT
* * * * * *
25064104 ATCGGTAAGGTTCAAGTGAGCCAAT
1 AACGGGAA-GCTCCAGAGAGCCATT
* *
25064129 ATCGGGAAGCTCCGGAGAGCCAATT
1 AACGGGAAGCTCCAGAGAGCC-ATT
25064154 AATCGGGAAGCTC
1 AA-CGGGAAGCTC
25064167 ATGAAAGAGC
Statistics
Matches: 86, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
23 2 0.02
24 34 0.40
25 38 0.44
26 12 0.14
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (24 bp):
AACGGGAAGCTCCAGAGAGCCATT
Found at i:25064304 original size:24 final size:25
Alignment explanation
Indices: 25064277--25064324 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
25064267 GGATGCTCCG
*
25064277 AAGAGCTAT-TAACGGGAAGCTCGC
1 AAGAACTATATAACGGGAAGCTCGC
*
25064301 AAGAACTATATAATGGGAAGCTCG
1 AAGAACTATATAACGGGAAGCTCG
25064325 AGAGGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (25 bp):
AAGAACTATATAACGGGAAGCTCGC
Found at i:25066129 original size:77 final size:78
Alignment explanation
Indices: 25066032--25066187 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 78
25066022 TTATTAAAAA
25066032 ATAAATATTAAATAAAACTATAATTTGATTGTATTTGAATACTTATAATATTTTAATTTATGAAG
1 ATAAATATTAAATAAAACTATAATTTGATTGTATTTGAATACTTATAATATTTTAATTTATGAAG
25066097 TGAAAAGTGTACT
66 TGAAAAGTGTACT
25066110 ATAAATATT-AATAAAACTATAATTTGATTGTATTTGAATACTTATAATATTTTAATTTATGAAG
1 ATAAATATTAAATAAAACTATAATTTGATTGTATTTGAATACTTATAATATTTTAATTTATGAAG
25066174 TGAAAAGTGTACT
66 TGAAAAGTGTACT
25066187 A
1 A
25066188 AACTAAATGT
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 69 0.88
78 9 0.12
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (78 bp):
ATAAATATTAAATAAAACTATAATTTGATTGTATTTGAATACTTATAATATTTTAATTTATGAAG
TGAAAAGTGTACT
Found at i:25085112 original size:39 final size:37
Alignment explanation
Indices: 25085063--25085162 Score: 110
Period size: 39 Copynumber: 2.6 Consensus size: 37
25085053 CTAATATAAT
*
25085063 AATTATAATTACTATAATTATAATAATGTTTGACCAAAA
1 AATTATAATTAC-ATAATTATAATAATATTTGACC-AAA
* * * **
25085102 AATTACAATTACAGTATTTATAATAATATTTGATCTTA
1 AATTATAATTACA-TAATTATAATAATATTTGACCAAA
25085140 AATTATAATTACAATAATTATAA
1 AATTATAATTAC-ATAATTATAA
25085163 CAAGGATTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 21 0.41
39 30 0.59
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (37 bp):
AATTATAATTACATAATTATAATAATATTTGACCAAA
Found at i:25091028 original size:19 final size:19
Alignment explanation
Indices: 25090992--25091027 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
25090982 ACCAAAAATT
25090992 TATTTTAAAAATAAAAAAG
1 TATTTTAAAAATAAAAAAG
25091011 TATTTT-AAAATAAAAAA
1 TATTTTAAAAATAAAAAA
25091028 ATAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAG
Found at i:25103911 original size:38 final size:38
Alignment explanation
Indices: 25103869--25103995 Score: 134
Period size: 38 Copynumber: 3.4 Consensus size: 38
25103859 AGTAAAATTT
*
25103869 TAATAAAATTAAATATTTGATATTTTAATATTCAAATC
1 TAATAAAAATAAATATTTGATATTTTAATATTCAAATC
* * * ** * *
25103907 TAATAAAAATAAAT-TATCA-CTTAAAATTAGT-AAATTT
1 TAATAAAAATAAATATTTGATATTTTAA-TATTCAAA-TC
*
25103944 TAATAAAATTAAATATTTGATATTTTAATATTCAAATC
1 TAATAAAAATAAATATTTGATATTTTAATATTCAAATC
25103982 TAATAAAAATAAAT
1 TAATAAAAATAAAT
25103996 TATCACTTAA
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
36 7 0.10
37 20 0.30
38 33 0.49
39 7 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (38 bp):
TAATAAAAATAAATATTTGATATTTTAATATTCAAATC
Found at i:25103958 original size:75 final size:76
Alignment explanation
Indices: 25103855--25104005 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
25103845 TTAATAACAT
25103855 AATTAGTAAAATTTTAATAAAATTAAATATTTGATATTTTAATATTCAAATCTAATAAAAATAAA
1 AATTAGTAAAATTTTAATAAAATTAAATATTTGATATTTTAATATTCAAATCTAATAAAAATAAA
25103920 TTATCACTTAA
66 TTATCACTTAA
25103931 AATTAGT-AAATTTTAATAAAATTAAATATTTGATATTTTAATATTCAAATCTAATAAAAATAAA
1 AATTAGTAAAATTTTAATAAAATTAAATATTTGATATTTTAATATTCAAATCTAATAAAAATAAA
25103995 TTATCACTTAA
66 TTATCACTTAA
25104006 CCATGTTATC
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 68 0.91
76 7 0.09
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (76 bp):
AATTAGTAAAATTTTAATAAAATTAAATATTTGATATTTTAATATTCAAATCTAATAAAAATAAA
TTATCACTTAA
Found at i:25108901 original size:30 final size:30
Alignment explanation
Indices: 25108835--25108907 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
25108825 GACGACGACG
25108835 CAGGCCCATCAACGAGGCCCAGAAATTCAT
1 CAGGCCCATCAACGAGGCCCAGAAATTCAT
* * * * *
25108865 CCGGCCCATCATC-AGCGCCCATAACTTTAT
1 CAGGCCCATCAACGAG-GCCCAGAAATTCAT
*
25108895 CAGGCCCAGCAAC
1 CAGGCCCATCAAC
25108908 AGCACCGACA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.29, C:0.38, G:0.18, T:0.15
Consensus pattern (30 bp):
CAGGCCCATCAACGAGGCCCAGAAATTCAT
Found at i:25109016 original size:18 final size:18
Alignment explanation
Indices: 25108989--25109023 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25108979 CATGTGCGTA
* *
25108989 TCCTAGCCCTTTTATGTG
1 TCCTAACCCTTATATGTG
25109007 TCCTAACCCTTATATGT
1 TCCTAACCCTTATATGT
25109024 TTCTTTTTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (18 bp):
TCCTAACCCTTATATGTG
Found at i:25112938 original size:124 final size:124
Alignment explanation
Indices: 25112697--25113106 Score: 691
Period size: 124 Copynumber: 3.3 Consensus size: 124
25112687 CCCAAACATG
* *
25112697 CTACTGTAGCAAAAACGCGTCCATGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
25112762 TTGAATCG-TTTTTATACTATTTACTTAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTT-AGGAC
*
25112821 CTACTGTAGCAAAAGCGCGTCCACATGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
25112886 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACT-AGAAATTATTTTTTAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCA-AAATTATTTTTTAGGAC
*
25112945 CTACTGTAGCAAAAGCGCTTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* *
25113010 TTGAAGTGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAA-AATTTTTTAGGAC
66 TTGAAGCG-TTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTAGGAC
25113069 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
25113107 CTTAATAAAT
Statistics
Matches: 271, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
124 194 0.72
125 76 0.28
126 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTAGGAC
Found at i:25120961 original size:2 final size:2
Alignment explanation
Indices: 25120954--25120981 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25120944 TTCAAATGCA
25120954 AT 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 AT
25120982 TTGAAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25130299 original size:112 final size:113
Alignment explanation
Indices: 25130162--25130366 Score: 403
Period size: 112 Copynumber: 1.8 Consensus size: 113
25130152 TTTCTATGTC
25130162 ATGTTAATATCTAATATGGATTATATATTCAAATTACATTTTAAAATAAAATAATAAAAATGTGT
1 ATGTTAATATCTAATATGGATTATATATTCAAATTACATTTTAAAATAAAATAATAAAAATGTGT
25130227 TAAAATTATTAATTAAAAATGAAAAGGTATTTTTAAAATAATACAACT
66 TAAAATTATTAATTAAAAATGAAAAGGTATTTTTAAAATAATACAACT
25130275 ATGTTAATATCT-ATATGGATTATATATTCAAATTACATTTTAAAATAAAATAATAAAAATGTGT
1 ATGTTAATATCTAATATGGATTATATATTCAAATTACATTTTAAAATAAAATAATAAAAATGTGT
25130339 TAAAATTATTAATTAAAAATGAAAAGGT
66 TAAAATTATTAATTAAAAATGAAAAGGT
25130367 TATAATTTTT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 80 0.87
113 12 0.13
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (113 bp):
ATGTTAATATCTAATATGGATTATATATTCAAATTACATTTTAAAATAAAATAATAAAAATGTGT
TAAAATTATTAATTAAAAATGAAAAGGTATTTTTAAAATAATACAACT
Found at i:25130424 original size:21 final size:21
Alignment explanation
Indices: 25130400--25130439 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25130390 CGTGTCAATA
25130400 TTTA-ATTACAAATATTTAATT
1 TTTATATT-CAAATATTTAATT
*
25130421 TTTATATTTAAATATTTAA
1 TTTATATTCAAATATTTAA
25130440 ATATAGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATATTCAAATATTTAATT
Found at i:25130717 original size:12 final size:13
Alignment explanation
Indices: 25130691--25130718 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25130681 ACTTTTCCAC
25130691 AATACTTTTTAAA
1 AATACTTTTTAAA
25130704 AATACTTTTTAAA
1 AATACTTTTTAAA
25130717 AA
1 AA
25130719 CAATGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AATACTTTTTAAA
Found at i:25132688 original size:10 final size:11
Alignment explanation
Indices: 25132644--25132687 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
25132634 GGTTGAATTG
25132644 ATATTTTAAAA
1 ATATTTTAAAA
* *
25132655 A-ATAATAAAAA
1 ATAT-TTTAAAA
25132666 ATATTTTAAAA
1 ATATTTTAAAA
25132677 ATATTTTAAAA
1 ATATTTTAAAA
25132688 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 2 0.07
11 23 0.85
12 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATATTTTAAAA
Found at i:25136118 original size:15 final size:15
Alignment explanation
Indices: 25136098--25136128 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25136088 CATTGCATAT
25136098 AAATGTTAAGTTATG
1 AAATGTTAAGTTATG
25136113 AAATGTTAAGTTATG
1 AAATGTTAAGTTATG
25136128 A
1 A
25136129 GATTGCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (15 bp):
AAATGTTAAGTTATG
Found at i:25138042 original size:6 final size:6
Alignment explanation
Indices: 25138031--25138079 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
25138021 ATTAGTAGCA
*
25138031 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAGAAGG GGGAGG GA-AGG
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGAGG GAG-AGG GAGAGG GAGAGG
25138079 G
1 G
25138080 GGATGGGGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
5 4 0.10
6 31 0.77
7 5 0.12
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:25150433 original size:9 final size:9
Alignment explanation
Indices: 25150415--25150452 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
25150405 TATAGTTTGA
25150415 TATTCGAAT
1 TATTCGAAT
*
25150424 TATTCTAAT
1 TATTCGAAT
*
25150433 TATTCGAGT
1 TATTCGAAT
25150442 TATTCGAAT
1 TATTCGAAT
25150451 TA
1 TA
25150453 GAAAACTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TATTCGAAT
Found at i:25154068 original size:18 final size:18
Alignment explanation
Indices: 25154017--25154068 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
25154007 GGTTTTTTTA
25154017 ATTTTGTT-AGGTTTAAGG
1 ATTTTGTTAAGGTTT-AGG
*
25154035 TTTTTGTTAAGG-TTAGG
1 ATTTTGTTAAGGTTTAGG
25154052 ATTTT-TTAAGGGTTTAG
1 ATTTTGTTAA-GGTTTAG
25154069 TGTTTGGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 13 0.45
19 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (18 bp):
ATTTTGTTAAGGTTTAGG
Found at i:25159555 original size:18 final size:18
Alignment explanation
Indices: 25159534--25159583 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
25159524 CTAAGGTTGT
25159534 TTTATATTCTATTATTTA
1 TTTATATTCTATTATTTA
* *
25159552 TTTATCTAT-TATTATTTG
1 TTTATAT-TCTATTATTTA
*
25159570 TTTATATACTATTA
1 TTTATATTCTATTA
25159584 ATAAATAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTATATTCTATTATTTA
Found at i:25162456 original size:44 final size:45
Alignment explanation
Indices: 25162364--25162480 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 45
25162354 CCACTAAATA
25162364 TTTAATTAAATTACATAGTATCTATTATAAATTATTAAAACGAAT
1 TTTAATTAAATTACATAGTATCTATTATAAATTATTAAAACGAAT
* * * * * *
25162409 TTTAACTAAATTACATAGTATTTGTTAT-AATTATTCATACTAAT
1 TTTAATTAAATTACATAGTATCTATTATAAATTATTAAAACGAAT
*
25162453 TTTAATTAAATTATATAGTA-CTCATTAT
1 TTTAATTAAATTACATAGTATCT-ATTAT
25162481 TTATTAAGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.02
44 35 0.57
45 25 0.41
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (45 bp):
TTTAATTAAATTACATAGTATCTATTATAAATTATTAAAACGAAT
Found at i:25166319 original size:40 final size:40
Alignment explanation
Indices: 25166271--25166364 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
25166261 GTTTGGATAA
*
25166271 AAAACGCCGCTAAAGATCGAGAATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGAATTAGCGGCGCTTTATGG
* *
25166311 AAAACGCCGCTAAAGATCGAGATTTAGCGGCGGTTTATGG
1 AAAACGCCGCTAAAGATCGAGAATTAGCGGCGCTTTATGG
25166351 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
25166365 AATAAGCATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGAATTAGCGGCGCTTTATGG
Found at i:25166505 original size:41 final size:41
Alignment explanation
Indices: 25166443--25166638 Score: 331
Period size: 41 Copynumber: 4.8 Consensus size: 41
25166433 CTTTCGGGGA
* *
25166443 TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGTCTAGGCC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCTAGGCC
*
25166484 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCCAGGCC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCTAGGCC
25166525 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATG-CTCAGGCC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCT-AGGCC
* *
25166566 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCAAGGGC
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCTAGGCC
25166607 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAAT
25166639 AATGCTCAGG
Statistics
Matches: 147, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
40 1 0.01
41 145 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGTGAAAGCGCCGCTAATGCCTAGGCC
Found at i:25166829 original size:66 final size:66
Alignment explanation
Indices: 25166758--25166891 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
25166748 ATTTATATAT
*
25166758 TAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
25166823 C
66 C
25166824 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
25166889 C
66 C
25166890 TA
1 TA
25166892 TAGTTTAGGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (66 bp):
TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
C
Found at i:25166974 original size:37 final size:35
Alignment explanation
Indices: 25166931--25167043 Score: 94
Period size: 33 Copynumber: 3.2 Consensus size: 35
25166921 GGTTTAAATA
25166931 GGTTTAGGTGTTACCATTTTAAGGTTTATGGATTTTG
1 GGTTTAGGTGTT-CCATTTTAAGGTTTATGGA-TTTG
* * * *
25166968 GGTTTA-G-G-TCCTTGGTTTAGGGTATATGCA--T-
1 GGTTTAGGTGTTCCAT--TTTAAGGTTTATGGATTTG
25166999 GGTTTAGGTGTTGCCATTTTAAGGTTTATGGATTATG
1 GGTTTAGGTGTT-CCATTTTAAGGTTTATGGATT-TG
25167036 GGTTTAGG
1 GGTTTAGG
25167044 GATTATGGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
31 6 0.10
32 2 0.03
33 16 0.28
34 2 0.03
35 16 0.28
36 2 0.03
37 14 0.24
ACGTcount: A:0.18, C:0.06, G:0.31, T:0.45
Consensus pattern (35 bp):
GGTTTAGGTGTTCCATTTTAAGGTTTATGGATTTG
Done.