Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 89 of 228
Found at i:26223903 original size:18 final size:17
Alignment explanation
Indices: 26223866--26223937 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
26223856 AGCTTTATAT
* *
26223866 TTTTTAAGGTTTAGTG-
1 TTTTTACGGTTTAGGGA
26223882 TTTTTACGAGTTTAGGGA
1 TTTTTACG-GTTTAGGGA
* *
26223900 TTTTTATGGTTCAGGG-
1 TTTTTACGGTTTAGGGA
26223916 TTTTTACTGGGTTTAGGGA
1 TTTTTAC--GGTTTAGGGA
26223935 TTT
1 TTT
26223938 GATGTAGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.29
17 14 0.31
18 15 0.33
19 3 0.07
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (17 bp):
TTTTTACGGTTTAGGGA
Found at i:26223905 original size:34 final size:35
Alignment explanation
Indices: 26223866--26223937 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
26223856 AGCTTTATAT
* *
26223866 TTTTTAAGGTTTAGTGTTTTTAC-GAGTTTAGGGA
1 TTTTTAAGGTTCAGGGTTTTTACTGAGTTTAGGGA
* *
26223900 TTTTTATGGTTCAGGGTTTTTACTGGGTTTAGGGA
1 TTTTTAAGGTTCAGGGTTTTTACTGAGTTTAGGGA
26223935 TTT
1 TTT
26223938 GATGTAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 20 0.61
35 13 0.39
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (35 bp):
TTTTTAAGGTTCAGGGTTTTTACTGAGTTTAGGGA
Found at i:26227451 original size:14 final size:15
Alignment explanation
Indices: 26227432--26227469 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
26227422 TAAATAATAC
26227432 TAATAATATAG-TAT
1 TAATAATATAGATAT
*
26227446 TAATAAAAT-GATAT
1 TAATAATATAGATAT
26227460 TAATAATATA
1 TAATAATATA
26227470 ACTACTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
TAATAATATAGATAT
Found at i:26227742 original size:12 final size:12
Alignment explanation
Indices: 26227725--26227749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26227715 CAACACAGGC
26227725 TTTTAGCGGCGT
1 TTTTAGCGGCGT
26227737 TTTTAGCGGCGT
1 TTTTAGCGGCGT
26227749 T
1 T
26227750 CTATCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:26227947 original size:114 final size:111
Alignment explanation
Indices: 26227778--26228068 Score: 284
Period size: 114 Copynumber: 2.6 Consensus size: 111
26227768 AAAATAAACA
** * *
26227778 TTAGCGGCGATTTCCAGAAAGCGCCGCTAAAAATCTAAGCCCAACGACG-TCGTTTTCGGAG-TT
1 TTAGCGGCG-TTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCT-GTTTTCGGAGCTT
*
26227841 TCGGGGATTTTAGCGGCATTTTCAAG-AAAGCGCCCCAAAAGATC-AGGGCT
64 TCGGGGA-TTTAGAGGCATTTT-AAGTAAAGCGCCCCAAAAG--CGAGGGCT
* *
26227891 TTAGCGGGGTTTCTAAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTT-TAAGAAAGCGCCGCAAA-AAACCTAAGCCCAACGACGCTGTTTTCGGAGCTT
* ** * * * *
26227956 TTGGGGATTTAGAGGTGTTTTTAGTAAAGCGCCGCTAATGCGAGGGCT
64 TCGGGGATTTAGAGGCATTTTAAGTAAAGCGCCCCAAAAGCGAGGGCT
** * * * **
26228004 TTAGCGGCGTTTTGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TTAGCGGCGTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCTGTTTTCGGAGCTTT
26228069 TGTGGATATA
Statistics
Matches: 150, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
112 47 0.31
113 44 0.29
114 50 0.33
115 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (111 bp):
TTAGCGGCGTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCTGTTTTCGGAGCTTTC
GGGGATTTAGAGGCATTTTAAGTAAAGCGCCCCAAAAGCGAGGGCT
Found at i:26228059 original size:112 final size:113
Alignment explanation
Indices: 26227778--26228102 Score: 320
Period size: 112 Copynumber: 2.9 Consensus size: 113
26227768 AAAATAAACA
* * * * *
26227778 TTAGCGGCGATTTC-CAGAAAGCGCCGC-TAAAAATCTAAGCCCAACGACGTCGTTTTCGGAG-T
1 TTAGCGGCG-TTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * * * * * *
26227840 TTCGGGGATTTTAGCGGCATTTTCAAGAAAGCGCCCCAAAAGATC-AGGGCT
65 TTTGGGGA-TATAGAGACGTTTTTAAGAAAGCGCCGCTAATG--CGAGGGCT
* * *
26227891 TTAGCGGGGTTTCTAAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* **
26227956 TTGGGGATTTAGAGGTGTTTTT-AGTAAAGCGCCGCTAATGCGAGGGCT
66 TTGGGGATATAGAGACGTTTTTAAG-AAAGCGCCGCTAATGCGAGGGCT
** * * *
26228004 TTAGCGGCGTTT-TGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
26228068 TTGTGGATATAGTGACGTTTTTAAGAAAGCGCCGC
66 TTGGGGATATAGAGACGTTTTTAAGAAAGCGCCGC
26228103 AAAAAAACCT
Statistics
Matches: 177, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
112 77 0.44
113 41 0.23
114 51 0.29
115 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TTGGGGATATAGAGACGTTTTTAAGAAAGCGCCGCTAATGCGAGGGCT
Found at i:26228202 original size:71 final size:73
Alignment explanation
Indices: 26228005--26228246 Score: 292
Period size: 73 Copynumber: 3.4 Consensus size: 73
26227995 GCGAGGGCTT
* * * *
26228005 TAGCGGCG-TTTTGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
26228069 TGTGGATA
66 TGTGGATA
* * * * * *
26228077 TAGTGACGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGATCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* *
26228142 TGGGGATT
66 TGTGGATA
* * * **
26228150 TAGCGGCGTTTTT-GGGAAGCGTCGC-TAAAAACCTAAACGAAACGATGTCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
*
26228213 CGTGGATA
66 TGTGGATA
*
26228221 TAGCGGTGTTTTTAGGAAAGCGCCGC
1 TAGCGGCGTTTTTAGGAAAGCGCCGC
26228247 TAATGCTCAG
Statistics
Matches: 139, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
71 49 0.35
72 25 0.18
73 65 0.47
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (73 bp):
TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
TGTGGATA
Found at i:26228384 original size:10 final size:10
Alignment explanation
Indices: 26228369--26228393 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26228359 GCTAATGCTC
26228369 AAATAGTTTA
1 AAATAGTTTA
26228379 AAATAGTTTA
1 AAATAGTTTA
26228389 AAATA
1 AAATA
26228394 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:26228647 original size:22 final size:22
Alignment explanation
Indices: 26228583--26228643 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
26228573 AGGGTTAGGA
*
26228583 GCTTATGATTTAGGGGTT-ATGG
1 GCTTATGGTTTA-GGGTTAATGG
* *
26228605 GCTTAAGGTCTATGGGTTAAT-G
1 GCTTATGGTTTA-GGGTTAATGG
26228627 GCTTATGGTTTAGGGTT
1 GCTTATGGTTTAGGGTT
26228644 TAATTAAGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 5 0.16
22 25 0.78
23 2 0.06
ACGTcount: A:0.18, C:0.07, G:0.34, T:0.41
Consensus pattern (22 bp):
GCTTATGGTTTAGGGTTAATGG
Found at i:26228671 original size:7 final size:7
Alignment explanation
Indices: 26228647--26228716 Score: 68
Period size: 7 Copynumber: 9.4 Consensus size: 7
26228637 TAGGGTTTAA
26228647 TTAAGAGT
1 TTAAG-GT
* *
26228655 TTATGAT
1 TTAAGGT
26228662 TTAAGGT
1 TTAAGGT
26228669 TTAAGGGT
1 TTAA-GGT
* *
26228677 TTATGCT
1 TTAAGGT
26228684 TTAGAGGT
1 TTA-AGGT
26228692 TTAAGGT
1 TTAAGGT
26228699 TTAAAGGT
1 TT-AAGGT
26228707 TTAAGGT
1 TTAAGGT
26228714 TTA
1 TTA
26228717 GGGGTTTAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
7 29 0.57
8 22 0.43
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (7 bp):
TTAAGGT
Found at i:26228679 original size:15 final size:15
Alignment explanation
Indices: 26228661--26228728 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
26228651 GAGTTTATGA
26228661 TTTAAGGTTTAAGGG
1 TTTAAGGTTTAAGGG
* *
26228676 TTTATGCTTT-AGAGG
1 TTTAAGGTTTAAG-GG
*
26228691 TTTAAGGTTTAAAGG
1 TTTAAGGTTTAAGGG
*
26228706 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAAGGG
26228721 TTT-AGGTT
1 TTTAAGGTT
26228729 ATCGTCTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 7 0.16
15 36 0.82
16 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (15 bp):
TTTAAGGTTTAAGGG
Found at i:26228696 original size:30 final size:30
Alignment explanation
Indices: 26228661--26228728 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
26228651 GAGTTTATGA
* *
26228661 TTTAAGGTTTAAGGGTTTATGCTTTAGAGG
1 TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
* *
26228691 TTTAAGGTTTAAAGGTTTAAGGTTTAGGGG
1 TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
26228721 TTT-AGGTT
1 TTTAAGGTT
26228729 ATCGTCTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (30 bp):
TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
Found at i:26228841 original size:28 final size:26
Alignment explanation
Indices: 26228810--26228894 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 26
26228800 TAAGTATGCA
*
26228810 GTTTATGATTTAGTGTTAAGAGTTTAGT
1 GTTTATG-TTTAGTGTT-AGAGTTTAGG
* *
26228838 GTTTATGGTTTAGGGTGTAGGGTTTAGG
1 GTTTAT-GTTTAGTGT-TAGAGTTTAGG
*
26228866 GTTTATTGTTTATTGTTTAGAGTTTAGG
1 GTTTA-TGTTTAGTG-TTAGAGTTTAGG
26228894 G
1 G
26228895 ATTAATACGG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 43 0.91
29 4 0.09
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (26 bp):
GTTTATGTTTAGTGTTAGAGTTTAGG
Found at i:26228848 original size:7 final size:7
Alignment explanation
Indices: 26228831--26228894 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
26228821 AGTGTTAAGA
*
26228831 GTTTAGT
1 GTTTAGG
*
26228838 GTTTATG
1 GTTTAGG
26228845 GTTTAGG
1 GTTTAGG
*
26228852 GTGTAGG
1 GTTTAGG
26228859 GTTTAGG
1 GTTTAGG
**
26228866 GTTTATT
1 GTTTAGG
**
26228873 GTTTATT
1 GTTTAGG
*
26228880 GTTTAGA
1 GTTTAGG
26228887 GTTTAGG
1 GTTTAGG
26228894 G
1 G
26228895 ATTAATACGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:26228848 original size:14 final size:14
Alignment explanation
Indices: 26228810--26228884 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 14
26228800 TAAGTATGCA
*
26228810 GTTTATGATTTAGT
1 GTTTATGGTTTAGT
*
26228824 G-TTAAGAGTTTAGT
1 GTTTATG-GTTTAGT
*
26228838 GTTTATGGTTTAGG
1 GTTTATGGTTTAGT
* * *
26228852 GTGTAGGGTTTAGG
1 GTTTATGGTTTAGT
* *
26228866 GTTTATTGTTTATT
1 GTTTATGGTTTAGT
26228880 GTTTA
1 GTTTA
26228885 GAGTTTAGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
13 4 0.08
14 40 0.83
15 4 0.08
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
GTTTATGGTTTAGT
Found at i:26229012 original size:103 final size:103
Alignment explanation
Indices: 26228882--26229073 Score: 339
Period size: 103 Copynumber: 1.9 Consensus size: 103
26228872 TGTTTATTGT
* * *
26228882 TTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTT
1 TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAAGGCATATCGTTTAGGGTTT
26228947 AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
66 AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
*
26228985 TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAGGGCATATCGTTTAGGGTTT
1 TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAAGGCATATCGTTTAGGGTTT
*
26229050 AAATTTTATATTTTAGGGTTTAGG
66 AAATTTTATATTTTAAGGTTTAGG
26229074 ATTATGGTAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (103 bp):
TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAAGGCATATCGTTTAGGGTTT
AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
Found at i:26229607 original size:116 final size:114
Alignment explanation
Indices: 26229315--26229613 Score: 327
Period size: 116 Copynumber: 2.6 Consensus size: 114
26229305 TTAGTTTTCA
* *
26229315 TTTTAGTGGCGTTTCTTC-ATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACTGTCG-T
1 TTTTAGTGGCGTTT-TTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
* * ** ** *
26229378 TTTAAATTGCGTTTTAGTGGCGTTTTCTCTTATGCGCCGCAAAATTTCGG
65 TTTATATTGCATTTTAGTGGCGTTTTCTCTTAAACGCCGCAAAAGGTAGG
* * *
26229428 TTTTTGTGGCGTTTTT-ATGATAAACGCCGCAGTTATGTTTTAAGTATTTGCTAAACGCAGTCGT
1 TTTTAGTGGCGTTTTTCA--ATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGT
* * * *
26229492 TTTTATTTTGCATTATTAGTGGTGTTTT-TCGTTAAACGCCGCAATAGGTATG
64 TTTTATATTGCATT-TTAGTGGCGTTTTCTC-TTAAACGCCGCAAAAGGTAGG
* * * * *
26229544 TTTTAGTGGCATTTTGTCAATAAACGCCGCAAATATGTTTTAAGTGTTTGCTAAACGGTGTCGTA
1 TTTTAGTGGCGTTTT-TCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
26229609 TTTAT
65 TTTAT
26229614 CTGCCATTTT
Statistics
Matches: 154, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
112 2 0.01
113 13 0.08
114 40 0.26
115 13 0.08
116 84 0.55
117 1 0.01
118 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (114 bp):
TTTTAGTGGCGTTTTTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
TTATATTGCATTTTAGTGGCGTTTTCTCTTAAACGCCGCAAAAGGTAGG
Found at i:26229749 original size:14 final size:14
Alignment explanation
Indices: 26229732--26229759 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
26229722 CCCCACTCAG
26229732 ATTTCCCCAATTTC
1 ATTTCCCCAATTTC
26229746 ATTTCCCCAATTTC
1 ATTTCCCCAATTTC
26229760 CCAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTCCCCAATTTC
Found at i:26232013 original size:9 final size:9
Alignment explanation
Indices: 26231968--26232306 Score: 286
Period size: 9 Copynumber: 36.2 Consensus size: 9
26231958 CTTATATATA
*
26231968 AACTTGCAT
1 AACTTACAT
26231977 AACTTACTTAGT
1 AACTTAC--A-T
*
26231989 AACATA-AT
1 AACTTACAT
*
26231997 ATCTTACAT
1 AACTTACAT
26232006 AACTTACAT
1 AACTTACAT
*
26232015 AAATTACAT
1 AACTTACAT
* *
26232024 AAATTAAAT
1 AACTTACAT
26232033 AACTTACAT
1 AACTTACAT
26232042 AACTTACAT
1 AACTTACAT
* *
26232051 AAATTAAAT
1 AACTTACAT
26232060 AACTTACAT
1 AACTTACAT
*
26232069 AAATTACAT
1 AACTTACAT
* *
26232078 AAATTAAAT
1 AACTTACAT
26232087 AACTTACAT
1 AACTTACAT
26232096 AACTTACAT
1 AACTTACAT
* *
26232105 AAATTAAAT
1 AACTTACAT
26232114 AACTTACAT
1 AACTTACAT
*
26232123 AAATTACAT
1 AACTTACAT
* *
26232132 AAATTAAAT
1 AACTTACAT
26232141 AACTTACAT
1 AACTTACAT
26232150 AACTTACAT
1 AACTTACAT
* *
26232159 AAATTAAAT
1 AACTTACAT
26232168 AACTTACAT
1 AACTTACAT
26232177 AACTTACAT
1 AACTTACAT
26232186 AACTTACAT
1 AACTTACAT
* * *
26232195 AAATTAAAA
1 AACTTACAT
26232204 AACTTACTTATT
1 AACTTAC--A-T
26232216 AACTTACAT
1 AACTTACAT
* *
26232225 AAGTTATCTAC
1 AACTTA-C-AT
*
26232236 AAGCTTATATAT
1 AA-C-T-TACAT
*
26232248 AAACTTGCAT
1 -AACTTACAT
26232258 AACTTACAT
1 AACTTACAT
*
26232267 AA-TAACAT
1 AACTTACAT
26232275 AATATCTTACAT
1 -A-A-CTTACAT
26232287 AACTTACAT
1 AACTTACAT
*
26232296 AAATTACAT
1 AACTTACAT
26232305 AA
1 AA
26232307 ATTAAATATC
Statistics
Matches: 267, Mismatches: 46, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
8 10 0.04
9 218 0.82
10 7 0.03
11 7 0.03
12 20 0.07
13 3 0.01
14 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:26232040 original size:27 final size:27
Alignment explanation
Indices: 26232004--26232314 Score: 345
Period size: 27 Copynumber: 11.1 Consensus size: 27
26231994 AATATCTTAC
*
26232004 ATAACTTACATAAATTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
26232031 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
*
26232058 ATAACTTACATAAATTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
26232085 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
*
26232112 ATAACTTACATAAATTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
26232139 ATAACTTACATAACTTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
* *
26232166 ATAACTTACATAACTTACATAACTTAC
1 ATAACTTACATAACTTACATAAATTAA
* * * * *
26232193 ATAAATTAAAAAACTTACTTATTAACTTAC
1 ATAACTTACATAACTTAC--A-TAAATTAA
* * * **
26232223 ATAAGTTATCTACAAGCTTATATATAAACTTGC
1 ATAACTTA-C-ATAA-C-T-TACATAAA-TTAA
* *
26232256 ATAACTTACATAA-TAACATAATATCTTAC
1 ATAACTTACATAACTTACATAA-A--TTAA
*
26232285 ATAACTTACATAAATTACATAAATTAA
1 ATAACTTACATAACTTACATAAATTAA
26232312 ATA
1 ATA
26232315 TCTGGCGTTT
Statistics
Matches: 249, Mismatches: 23, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
27 181 0.73
28 2 0.01
29 19 0.08
30 22 0.09
31 3 0.01
32 7 0.03
33 12 0.05
34 1 0.00
35 2 0.01
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (27 bp):
ATAACTTACATAACTTACATAAATTAA
Found at i:26232307 original size:9 final size:9
Alignment explanation
Indices: 26232281--26232310 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
26232271 ACATAATATC
*
26232281 TTACATAAC
1 TTACATAAA
26232290 TTACATAAA
1 TTACATAAA
26232299 TTACATAAA
1 TTACATAAA
26232308 TTA
1 TTA
26232311 AATATCTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAA
Found at i:26237821 original size:21 final size:21
Alignment explanation
Indices: 26237766--26237836 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
26237756 CTACAACTTA
*
26237766 AAGCAGAGGTGGCAGCGAGGG
1 AAGCAGAGGTTGCAGCGAGGG
* * ** *
26237787 AAGTAGTGACTGCAGTGAGGG
1 AAGCAGAGGTTGCAGCGAGGG
*
26237808 AAGCAGAGGTTGCAGCGAGAG
1 AAGCAGAGGTTGCAGCGAGGG
26237829 AAGCAGAG
1 AAGCAGAG
26237837 TAGAGAAAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.45, T:0.10
Consensus pattern (21 bp):
AAGCAGAGGTTGCAGCGAGGG
Found at i:26239186 original size:21 final size:22
Alignment explanation
Indices: 26239162--26239206 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
26239152 AGAAAAAGAG
26239162 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
26239183 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
26239205 AA
1 AA
26239207 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:26242087 original size:67 final size:67
Alignment explanation
Indices: 26242005--26242211 Score: 249
Period size: 67 Copynumber: 3.0 Consensus size: 67
26241995 GTCCAAAAAG
* * *
26242005 AAATAATACATGAACAGGAGAGATTCCCTGCAA-GAAATGAT-GTGAACAGGAGAGATTCCCTGC
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACAAAATAATCGTGAACAGGAGAGATTCCCTGC
26242068 AACA
65 AA-A
26242072 AAATAATCCGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACAAAATAAT-CGTGAACAGGAGAGATTCCCTG
*
26242137 CAAG
64 CAAA
* * * * * *
26242141 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTAAACAGGAAATATTCCCTGC
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACAAAATAAT-CGTGAACAGGAGAGATTCCCTGC
26242205 AAGA
65 AA-A
26242209 AAA
1 AAA
26242212 GACAAGTGAA
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
67 85 0.69
68 9 0.07
69 6 0.05
70 24 0.19
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACAAAATAATCGTGAACAGGAGAGATTCCCTGCA
AA
Found at i:26242092 original size:35 final size:34
Alignment explanation
Indices: 26242005--26242211 Score: 251
Period size: 35 Copynumber: 6.1 Consensus size: 34
26241995 GTCCAAAAAG
* *
26242005 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
26242039 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
26242072 AAATAATCCGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
26242107 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
26242141 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* * * * *
26242174 GAATAATGCGTAAACAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
26242209 AAA
1 AAA
26242212 GACAAGTGAA
Statistics
Matches: 152, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
32 46 0.30
33 11 0.07
34 12 0.08
35 83 0.55
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:26242190 original size:102 final size:102
Alignment explanation
Indices: 26242005--26242211 Score: 333
Period size: 102 Copynumber: 2.0 Consensus size: 102
26241995 GTCCAAAAAG
*
26242005 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
* *
26242070 CAAAATAATCCGTGAACAGGAGAGATTCCCTGCAACA
66 CAAAATAATCCGTAAACAGGAAAGATTCCCTGCAACA
* *
26242107 AAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
* * * *
26242172 CAGAATAATGCGTAAACAGGAAATATTCCCTGCAAGA
66 CAAAATAATCCGTAAACAGGAAAGATTCCCTGCAACA
26242209 AAA
1 AAA
26242212 GACAAGTGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (102 bp):
AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
CAAAATAATCCGTAAACAGGAAAGATTCCCTGCAACA
Found at i:26244085 original size:21 final size:21
Alignment explanation
Indices: 26244048--26244087 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26244038 AAGAAAAGAG
26244048 AAATACAAAAAAGAATAGATC
1 AAATACAAAAAAGAATAGATC
*
26244069 AAAT-CAAAAAGGAAATAGA
1 AAATACAAAAAAG-AATAGA
26244088 ATTAACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.68, C:0.07, G:0.12, T:0.12
Consensus pattern (21 bp):
AAATACAAAAAAGAATAGATC
Found at i:26248406 original size:35 final size:33
Alignment explanation
Indices: 26248351--26248643 Score: 301
Period size: 32 Copynumber: 8.8 Consensus size: 33
26248341 TCACTTATCT
* * * *
26248351 TTTCTTGCAGGGAATATTTCCTGTTTACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTT-CACATCA
* *
26248385 TTCTGTTGCAGGGAATCTTTCCTG-TTCACATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTTCACATCA
* * *
26248418 TTTCTTGCAGGGAATCTCTCCCGTTCACACATTA
1 TTTCTTGCAGGGAATCTCTCCTGTT-TCACATCA
* * * *
26248452 TTTTGTTTCAGGGAATCTTTCATG-TTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTTCACATCA
*
26248485 TTTCTTGCAGGGAATCTCTCCTG-TTCACGGATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTTCAC--ATCA
*
26248519 TTTTGTTGCAGGGAATCTCTCCTG-TTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTTCACATCA
*
26248552 TTTCTTGCAGGGAATCTCTCCTG-TTCACGGATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTTCAC--ATCA
*
26248586 TTTTGTTGCAGGGAATCTCTCCTG-TTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTTCACATCA
26248619 TTTCTTGCAGGGAATCTCTCCTGTT
1 TTTCTTGCAGGGAATCTCTCCTGTT
26248644 CATGTATTAT
Statistics
Matches: 220, Mismatches: 28, Indels: 23
0.81 0.10 0.08
Matches are distributed among these distances:
32 91 0.41
33 21 0.10
34 17 0.08
35 91 0.41
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTTCACATCA
Found at i:26248464 original size:67 final size:67
Alignment explanation
Indices: 26248351--26248655 Score: 484
Period size: 67 Copynumber: 4.6 Consensus size: 67
26248341 TCACTTATCT
* * * * *
26248351 TTTCTTGCAGGGAATATTTCCTGTTTACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
26248416 CA
66 CA
* * * * *
26248418 TTTCTTGCAGGGAATCTCTCCCGTTCACACATTATTTTGTTTCAGGGAATCTTTCATGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
26248483 CA
66 CA
*
26248485 TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
26248550 CA
66 CA
*
26248552 TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
26248617 CA
66 CA
* *
26248619 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
26248656 CTTTTTGGAC
Statistics
Matches: 222, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 222 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:26249812 original size:42 final size:42
Alignment explanation
Indices: 26249766--26250021 Score: 385
Period size: 42 Copynumber: 6.2 Consensus size: 42
26249756 ATAAAAGCGC
**
26249766 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATAATGTTCTT
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
*
26249808 TAGCGGTGCTT--AAAAAAACGCCGCTAAAGACCATGTTCTT
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
*
26249848 TAGCGGCGCTTAGAAAGAAACGCCGCTAAAGACCATGTTCTT
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
* *
26249890 TAGCGGCGCTTAG-AAAAAACGCCGCTAAAAACCGTGTTCTT
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
* *
26249931 TTGAGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
* *
26249973 TAGCGGCGCTTA-AGAAAAAACGCCGCTAAAGAGCATGATCTT
1 TAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGACCATGTTCTT
26250015 TAGCGGC
1 TAGCGGC
26250022 TTTTTTCTCT
Statistics
Matches: 194, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 37 0.19
41 37 0.19
42 120 0.62
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (42 bp):
TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTT
Found at i:26249952 original size:83 final size:83
Alignment explanation
Indices: 26249770--26250017 Score: 381
Period size: 83 Copynumber: 3.0 Consensus size: 83
26249760 AAGCGCTAGC
** *
26249770 GGCGCTTAGAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGTGCTTA-AAAAAACGCCGCTA
1 GGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTA
* *
26249834 AAGACCATGTTCTTTAGC
66 AAAACCATGTTCTTTAGA
*
26249852 GGCGCTTAGAAAGAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTA
1 GGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTA
* *
26249917 AAAACCGTGTTCTTTTGA
66 AAAACCATGTTCTTTAGA
26249935 GGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAGAAAAAACGCCGCT
1 GGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT-AGAAAAAACGCCGCT
* * *
26250000 AAAGAGCATGATCTTTAG
65 AAAAACCATGTTCTTTAG
26250018 CGGCTTTTTT
Statistics
Matches: 150, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
82 46 0.31
83 76 0.51
84 28 0.19
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (83 bp):
GGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTA
AAAACCATGTTCTTTAGA
Found at i:26249994 original size:125 final size:124
Alignment explanation
Indices: 26249766--26250021 Score: 390
Period size: 125 Copynumber: 2.1 Consensus size: 124
26249756 ATAAAAGCGC
* * * *
26249766 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGTGCTTAAAAAAACGCCG
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAAACAATGTTCTTTAGAGGCGCTTAAAAAAACGCCG
*
26249831 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAGAAACGCCGCTAAAGACCATGTTCTT
66 CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAGAAACGCCGCTAAAGACCATGATCTT
** *
26249890 TAGCGGCGCTTAG-AAAAAACGCCGCTAAAAACCGTGTTCTTTTGAGGCGCTTAGAAAAAAACGC
1 TAGCGGCGCTTAGAAAAAAACGCCGCTAAAAACAATGTTCTTTAGAGGCGCTT--AAAAAAACGC
*
26249954 CGCTAAAGACCATGTTCTTTAGCGGCGCTTAAGAAA-AAACGCCGCTAAAGAGCATGATCTT
64 CGCTAAAGACCATGTTCTTTAGCGGCGCTT-AGAAAGAAACGCCGCTAAAGACCATGATCTT
26250015 TAGCGGC
1 TAGCGGC
26250022 TTTTTTCTCT
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
123 32 0.27
124 13 0.11
125 70 0.58
126 5 0.04
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (124 bp):
TAGCGGCGCTTAGAAAAAAACGCCGCTAAAAACAATGTTCTTTAGAGGCGCTTAAAAAAACGCCG
CTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAGAAACGCCGCTAAAGACCATGATCTT
Found at i:26250045 original size:42 final size:42
Alignment explanation
Indices: 26249993--26250111 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 42
26249983 TAAGAAAAAA
* *
26249993 CGCCGCTAAAGAGCATGATCTTTAGCGGCTTTTTTCTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTTCTCTAAG
* *
26250035 CGCCTG-TAAAGAACATGGTTTTTAGCGG-TGTTTTTTTCTAAG
1 CGCC-GCTAAAGAACATGGTCTTTAGCGGCT-TTTTTCTCTAAG
* *
26250077 CGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTT
26250112 GTTTGTAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.03
42 63 0.95
43 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCTTTTTTCTCTAAG
Found at i:26250627 original size:6 final size:6
Alignment explanation
Indices: 26250616--26250642 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
26250606 TTTATCCCTA
26250616 TTTTAC TTTTAC TTTTAC TTTTAC TTT
1 TTTTAC TTTTAC TTTTAC TTTTAC TTT
26250643 CTTCTCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAC
Found at i:26251678 original size:23 final size:23
Alignment explanation
Indices: 26251648--26251694 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
26251638 AATAAGTAAT
26251648 TCGAGTTTCTAATTCAAATCGAG
1 TCGAGTTTCTAATTCAAATCGAG
26251671 TCGAGTTTCTAATTCAAATCGAG
1 TCGAGTTTCTAATTCAAATCGAG
26251694 T
1 T
26251695 TGAATTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (23 bp):
TCGAGTTTCTAATTCAAATCGAG
Found at i:26251938 original size:9 final size:10
Alignment explanation
Indices: 26251896--26251935 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
26251886 AAAATATAGT
*
26251896 ATTTTAAAAA
1 ATTTAAAAAA
*
26251906 ATCTAAAAAA
1 ATTTAAAAAA
26251916 ATTTAAAAAA
1 ATTTAAAAAA
26251926 ATTTTAAAAA
1 A-TTTAAAAA
26251936 TTTCTAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
ATTTAAAAAA
Found at i:26260281 original size:29 final size:29
Alignment explanation
Indices: 26260248--26260412 Score: 181
Period size: 29 Copynumber: 5.7 Consensus size: 29
26260238 CAAAAAAACA
*
26260248 TAAATTACATTTTGGCCCCTAAACTTTTC
1 TAAATTACATTTTAGCCCCTAAACTTTTC
* *
26260277 TAAATTACATTTCA-ACCCTAAACTTTTC
1 TAAATTACATTTTAGCCCCTAAACTTTTC
* * *
26260305 AAAATTACATTTCACCCCCTAAACTTTCTC
1 TAAATTACATTTTAGCCCCTAAACTTT-TC
*
26260335 AAAATTACATTTCT-GCCCCTAAACTTTTC
1 TAAATTACATTT-TAGCCCCTAAACTTTTC
* ** * *
26260364 TAAATTGCATTTGGGCCCCTAAAATTTCTA
1 TAAATTACATTTTAGCCCCTAAACTTT-TC
26260394 TAAATTACATTTTAGCCCC
1 TAAATTACATTTTAGCCCC
26260413 ATATTTTCCT
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
28 26 0.22
29 47 0.41
30 43 0.37
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (29 bp):
TAAATTACATTTTAGCCCCTAAACTTTTC
Found at i:26260412 original size:59 final size:59
Alignment explanation
Indices: 26260248--26260412 Score: 194
Period size: 59 Copynumber: 2.8 Consensus size: 59
26260238 CAAAAAAACA
* * * *
26260248 TAAATTACATTTTGGCCCCTAAACTTT-TCTAAATTACATTTCA-ACCCTAAACTTTTC
1 TAAATTACATTTCGGCCCCTAAACTTTCTATAAATTACATTTTAGCCCCTAAACTTTTC
* **
26260305 AAAATTACATTTCACCCCCTAAACTTTCTCA-AAATTACATTTCT-GCCCCTAAACTTTTC
1 TAAATTACATTTCGGCCCCTAAACTTTCT-ATAAATTACATTT-TAGCCCCTAAACTTTTC
* * *
26260364 TAAATTGCATTTGGGCCCCTAAAATTTCTATAAATTACATTTTAGCCCC
1 TAAATTACATTTCGGCCCCTAAACTTTCTATAAATTACATTTTAGCCCC
26260413 ATATTTTCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
57 23 0.26
58 14 0.16
59 52 0.58
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.38
Consensus pattern (59 bp):
TAAATTACATTTCGGCCCCTAAACTTTCTATAAATTACATTTTAGCCCCTAAACTTTTC
Found at i:26260871 original size:14 final size:15
Alignment explanation
Indices: 26260843--26260871 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26260833 CAATCAAATA
26260843 AAGAAAAGAGAAGAG
1 AAGAAAAGAGAAGAG
26260858 AAGAAAAG-GAAGAG
1 AAGAAAAGAGAAGAG
26260872 GGGAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAGAAGAG
Found at i:26260985 original size:11 final size:12
Alignment explanation
Indices: 26260969--26261024 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
26260959 AGAAGAGGAA
26260969 GAAAAAGA-AAG
1 GAAAAAGAGAAG
26260980 GAAAAAAGAGAAG
1 G-AAAAAGAGAAG
*
26260993 AAAAAAAGAGAA-
1 -GAAAAAGAGAAG
*
26261005 GAAAAAGAGAAA
1 GAAAAAGAGAAG
26261017 GAAAAAGA
1 GAAAAAGA
26261025 AAAAAGGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 11 0.28
12 15 0.38
13 13 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
GAAAAAGAGAAG
Found at i:26260997 original size:13 final size:12
Alignment explanation
Indices: 26260970--26261038 Score: 75
Period size: 13 Copynumber: 5.4 Consensus size: 12
26260960 GAAGAGGAAG
*
26260970 AAAAAGAAAGGA
1 AAAAAGAAAGAA
26260982 AAAAAGAGAAGAA
1 AAAAAGA-AAGAA
26260995 AAAAAGAGAAGAA
1 AAAAAGA-AAGAA
*
26261008 AAAGAGAAAGAA
1 AAAAAGAAAGAA
*
26261020 AAAGAAAAAAGGAA
1 AAA-AAGAAA-GAA
26261034 AAAAA
1 AAAAA
26261039 ATATAAGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
12 15 0.30
13 29 0.58
14 6 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:26261008 original size:25 final size:25
Alignment explanation
Indices: 26260970--26261036 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
26260960 GAAGAGGAAG
26260970 AAAAAGAAAGGAAAAA-AGAGAAGAA
1 AAAAAGAAAGGAAAAAGAGA-AAGAA
26260995 AAAAAGAGAA-GAAAAAGAGAAAGAA
1 AAAAAGA-AAGGAAAAAGAGAAAGAA
*
26261020 AAAGAAAAAAGGAAAAA
1 AAA-AAGAAAGGAAAAA
26261037 AAATATAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 23 0.62
26 14 0.38
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (25 bp):
AAAAAGAAAGGAAAAAGAGAAAGAA
Found at i:26261794 original size:17 final size:17
Alignment explanation
Indices: 26261767--26261812 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 17
26261757 AAAAAAATCG
26261767 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
26261784 TGTCTTCAAAATTTCTCA
1 TGT-TTCAAAATTTCTCA
26261802 TGTTTCAAAAT
1 TGTTTCAAAAT
26261813 AATAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:26262079 original size:18 final size:17
Alignment explanation
Indices: 26262045--26262280 Score: 75
Period size: 18 Copynumber: 13.0 Consensus size: 17
26262035 CGTATTTTTA
*
26262045 AAAAATTTTCGTGTTTC
1 AAAAATCTTCGTGTTTC
26262062 AAAAATCTTCGTGCTTTC
1 AAAAATCTTCGTG-TTTC
*
26262080 -AAAAT-TCCAGTGTTTTTTC
1 AAAAATCTTC-GTG---TTTC
*
26262099 AAAAAAAT-TTCCTTGTTTTC
1 --AAAAATCTT-CGTG-TTTC
* * *
26262119 AAAAGTC-CCGTATTTC
1 AAAAATCTTCGTGTTTC
* *
26262135 AAAAATTTTCTTGTTTTC
1 AAAAATCTTCGTG-TTTC
**
26262153 AAAAAAATTCCGTGTTTC
1 AAAAATCTT-CGTGTTTC
*
26262171 AAAAATTTTCGTGTTTTC
1 AAAAATCTTCGTG-TTTC
** *
26262189 AAAAAAATTCCCGTCTTTC
1 AAAAATCTT--CGTGTTTC
* *
26262208 AAAAATTTTTGTGTTTTC
1 AAAAATCTTCGTG-TTTC
** *
26262226 AAAAAAGTTGACCATGTTTC
1 AAAAATCTT---CGTGTTTC
* *
26262246 ATAAATTTTCGTGTTTC
1 AAAAATCTTCGTGTTTC
*
26262263 AAAAAATCCTCGTGTTTC
1 -AAAAATCTTCGTGTTTC
26262281 GTATTTTATC
Statistics
Matches: 162, Mismatches: 37, Indels: 39
0.68 0.16 0.16
Matches are distributed among these distances:
16 11 0.07
17 37 0.23
18 67 0.41
19 18 0.11
20 18 0.11
21 2 0.01
22 8 0.05
23 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAAATCTTCGTGTTTC
Found at i:26262208 original size:37 final size:37
Alignment explanation
Indices: 26262044--26262280 Score: 197
Period size: 37 Copynumber: 6.5 Consensus size: 37
26262034 CCGTATTTTT
** * *
26262044 AAAAAATTTTCGTGTTTCAAAAATCTTCGTGCTTTC-
1 AAAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCA
* * *
26262080 --AAAATTCCAGTGTTTTTTCAAAAAAATTTCCTTGTTTTC-
1 AAAAAATTCCCGTG---TTTC--AAAAATTTTCGTGTTTTCA
* * *
26262119 --AAAAGTCCCGTATTTCAAAAATTTTCTTGTTTTCA
1 AAAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCA
26262154 AAAAAATT-CCGTGTTTCAAAAATTTTCGTGTTTTCA
1 AAAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCA
* *
26262190 AAAAAATTCCCGTCTTTCAAAAATTTTTGTGTTTTCA
1 AAAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCA
* * * *
26262227 AAAAAGTTGACCATGTTTCATAAATTTTCGTG-TTTC-
1 AAAAAATT-CCCGTGTTTCAAAAATTTTCGTGTTTTCA
26262263 AAAAAA-TCCTCGTGTTTC
1 AAAAAATTCC-CGTGTTTC
26262281 GTATTTTATC
Statistics
Matches: 165, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
34 27 0.16
35 8 0.05
36 43 0.26
37 46 0.28
38 18 0.11
39 23 0.14
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (37 bp):
AAAAAATTCCCGTGTTTCAAAAATTTTCGTGTTTTCA
Found at i:26262311 original size:17 final size:16
Alignment explanation
Indices: 26262289--26262346 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 16
26262279 TCGTATTTTA
26262289 TCAAAAATTTTATGTTT
1 TCAAAAATTTT-TGTTT
*
26262306 TCAAAAAAATTTGTGTTT
1 TC--AAAAATTTTTGTTT
26262324 T-AAAAATTTTTGTGTT
1 TCAAAAATTTTTGT-TT
26262340 TCAAAAA
1 TCAAAAA
26262347 GAAAATTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
15 11 0.31
16 3 0.09
17 7 0.20
18 6 0.17
19 8 0.23
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (16 bp):
TCAAAAATTTTTGTTT
Found at i:26262330 original size:15 final size:16
Alignment explanation
Indices: 26262289--26262346 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
26262279 TCGTATTTTA
*
26262289 TCAAAAATTTTATGTTT
1 TCAAAAATTTTGTG-TT
*
26262306 TCAAAAAAATTTGTGTT
1 TC-AAAAATTTTGTGTT
*
26262323 TTAAAAATTTTTGTGTT
1 TCAAAAA-TTTTGTGTT
26262340 TCAAAAA
1 TCAAAAA
26262347 GAAAATTCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 5 0.15
17 19 0.56
18 10 0.29
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (16 bp):
TCAAAAATTTTGTGTT
Found at i:26268258 original size:1 final size:1
Alignment explanation
Indices: 26268252--26268350 Score: 54
Period size: 1 Copynumber: 99.0 Consensus size: 1
26268242 TTATGCCTGG
* * * * * * * * * * *
26268252 AAAAAAAAGACAAAAACAAAAACAAAAACAAAAACAAAAAAAACAAAAACAAAACAGAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
26268317 AAAAACAAAAAACAAAAAAGAAAGAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
26268351 GAGAATTAAG
Statistics
Matches: 66, Mismatches: 32, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:26268272 original size:6 final size:6
Alignment explanation
Indices: 26268252--26268334 Score: 84
Period size: 6 Copynumber: 13.8 Consensus size: 6
26268242 TTATGCCTGG
*
26268252 AAAAA- AAAGAC AAAAAC AAAAAC AAAAAC AAAAAC --AAA- AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
*
26268296 AAAAAC AAAACAGA AAAAAC AAAAAAC AAAAAAC AAAAA
1 AAAAAC AAAA-A-C AAAAAC -AAAAAC -AAAAAC AAAAA
26268335 AGAAAGAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.04
5 7 0.10
6 38 0.57
7 15 0.22
8 4 0.06
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:26268273 original size:7 final size:7
Alignment explanation
Indices: 26268263--26268335 Score: 89
Period size: 7 Copynumber: 10.7 Consensus size: 7
26268253 AAAAAAAGAC
26268263 AAAAAC-
1 AAAAACA
26268269 AAAAAC-
1 AAAAACA
26268275 AAAAAC-
1 AAAAACA
26268281 AAAAACA
1 AAAAACA
*
26268288 AAAAAAA
1 AAAAACA
26268295 CAAAAACA
1 -AAAAACA
* *
26268303 AAACAGA
1 AAAAACA
26268310 AAAAACA
1 AAAAACA
26268317 AAAAACA
1 AAAAACA
26268324 AAAAACA
1 AAAAACA
26268331 AAAAA
1 AAAAA
26268336 GAAAGAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
6 18 0.31
7 35 0.59
8 6 0.10
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:26268278 original size:21 final size:20
Alignment explanation
Indices: 26268252--26268335 Score: 95
Period size: 21 Copynumber: 4.2 Consensus size: 20
26268242 TTATGCCTGG
*
26268252 AAAAA-AAAGACAAAAAC--
1 AAAAACAAAAACAAAAACAA
26268269 AAAAACAAAAACAAAAACAAA
1 AAAAACAAAAACAAAAAC-AA
26268290 AAAAACAAAAAC-AAAACAGA
1 AAAAACAAAAACAAAAACA-A
26268310 AAAAACAAAAAACAAAAAACAA
1 AAAAAC-AAAAAC-AAAAACAA
26268332 AAAA
1 AAAA
26268336 GAAAGAAAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 11
0.83 0.01 0.16
Matches are distributed among these distances:
17 5 0.09
18 11 0.19
19 1 0.02
20 12 0.21
21 18 0.31
22 5 0.09
23 6 0.10
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAACAAAAACAA
Found at i:26268293 original size:27 final size:28
Alignment explanation
Indices: 26268254--26268339 Score: 108
Period size: 27 Copynumber: 3.1 Consensus size: 28
26268244 ATGCCTGGAA
*
26268254 AAAAAAGACAAAAACAAAAACAAAAACA-
1 AAAAAACA-AAAAACAAAAACAAAAACAG
26268282 AAAACAA-AAAAAACAAAAAC-AAAACAG
1 AAAA-AACAAAAAACAAAAACAAAAACAG
26268309 AAAAAACAAAAAACAAAAAACAAAAA-AG
1 AAAAAACAAAAAAC-AAAAACAAAAACAG
26268337 AAA
1 AAA
26268340 GAAAAGAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.15
27 23 0.43
28 16 0.30
29 6 0.11
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (28 bp):
AAAAAACAAAAAACAAAAACAAAAACAG
Found at i:26269376 original size:81 final size:81
Alignment explanation
Indices: 26269164--26270493 Score: 1388
Period size: 81 Copynumber: 16.8 Consensus size: 81
26269154 CTTTCAAGAA
* *
26269164 ATTT-TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
26269227 AGT--CACG-TCGAGGT
66 GGTCGCACGCT-GAGGT
* *
26269241 A--T-TTTTAAATTTCT-ATTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
26269301 GGTCGCACGCTGAGGT
66 GGTCGCACGCTGAGGT
* * *
26269317 ATTTCTTTTAAATCTCCGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
26269382 GGT--CATGCTGAGGT
66 GGTCGCACGCTGAGGT
* ** * *
26269396 ATCTTCAATTTATGTTTCTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGGGC
1 AT-TTC-TTTTA-AATT-TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
26269461 CTCGGGTCGCACGCTGAGGT
62 CTCGGGTCGCACGCTGAGGT
* *
26269481 ATTTCTTTTTAATTTCTGTTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 ATTTCTTTTAAATTTCTG-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
26269545 GGGT--CACGTTGAGGT
65 GGGTCGCACGCTGAGGT
** * *
26269560 A----TTTTCGATTTCTGTTTTTC--AAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
26269619 GGTCGCACGCTGAGGT
66 GGTCGCACGCTGAGGT
* *
26269635 ATTTCTTTTAAATCTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
26269700 GGTCGCACGCTGAGGT
66 GGTCGCACGCTGAGGT
* * *
26269716 ATTTCTTTTAAATCTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTCAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
26269781 GGTCGC-CGCTGAGGT
66 GGTCGCACGCTGAGGT
*
26269796 ATTTCTTTTAAA--T-T-TTTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* ** *
26269857 GGTCACATACCGAGGT
66 GGTCGCACGCTGAGGT
* *
26269873 A----TTTTAAATTTCTGTTTTTC--AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGTCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
26269932 AGT--CACG-TCGAGGT
66 GGTCGCACGCT-GAGGT
* * * * * * *
26269946 A--T-TTTTCAATTTTTGCTTTTC--AAAAAGCAACTCATATTGCTAGAGATGAGTTGAGCCCCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
26270006 GGTC-C-CGCTGAGGT
66 GGTCGCACGCTGAGGT
* ** * *
26270020 ATTTTCAATTTATGTTTCTCTATTTTGCAAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAG
1 A-TTTC-TTTTAAATTTCTGT-TTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
26270085 CCTCGGGTCGCACGCTGAGGT
61 CCTCGGGTCGCACGCTGAGGT
* * *
26270106 ATTTCTTTTAAATTTCT-TTTTTCAAAAAAATCAACTCATAATGCGAAAGGTAAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
26270170 GGT--CACGCTGAGGT
66 GGTCGCACGCTGAGGT
* ** * * * *
26270184 ATTTTCAATTTATGTTTTTCTATTTTCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCC
1 A-TTTC-TTTTAAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
26270249 TCGGGTCGCACGTTGAGGT
63 TCGGGTCGCACGCTGAGGT
* *
26270268 ATTTCTTTTAAAATTTTTGTTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 ATTTCTTTT-AAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
26270332 GGGT--CATC-CTGAGGT
65 GGGTCGCA-CGCTGAGGT
*
26270347 A--T-TTTTCAATTTCTGTTTTTCAAAAGAAAAAGTAAAAAATCAACTCATATTGCGAGAGGTGA
1 ATTTCTTTTAAATTTCTGTTTTTC---------A--AAAAAATCAACTCATATTGCGAGAGGTGA
* * *
26270409 GTTGAGCCTCGAGTCACA-TC-GAGGT
55 GTTGAGCCTCGGGTCGCACGCTGAGGT
* * * * * *
26270434 A--T-TTTTCAATTTTTGATTTTCACAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCT
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
26270494 TAGGTCATAT
Statistics
Matches: 1078, Mismatches: 108, Indels: 135
0.82 0.08 0.10
Matches are distributed among these distances:
73 54 0.05
74 111 0.10
75 88 0.08
76 99 0.09
77 18 0.02
78 15 0.01
79 69 0.06
80 82 0.08
81 256 0.24
82 65 0.06
83 65 0.06
84 61 0.06
85 17 0.02
86 10 0.01
87 65 0.06
88 1 0.00
89 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (81 bp):
ATTTCTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
GGTCGCACGCTGAGGT
Found at i:26269471 original size:164 final size:161
Alignment explanation
Indices: 26269164--26270493 Score: 1467
Period size: 164 Copynumber: 8.4 Consensus size: 161
26269154 CTTTCAAGAA
* * *
26269164 ATTT-TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
** *
26269228 GTCACG-TCGAGGTA-TT---TTTA-AATTTCT-ATTTTC-AAAAAATCAACTCATATTGCGAGA
66 GTCACGCT-GAGGTATTTCAATTTATGTTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGA
26269285 AGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
130 AGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* * *
26269317 ATTTCTTTTAAATCTCCGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
26269382 GGTCATGCTGAGGTATCTTCAATTTATGTTTCTCTGTTTTTCAAAAAAATCAACTCATATTGCGA
65 GGTCACGCTGAGGTAT-TTCAATTTATGTTT-TCTGTTTTTCAAAAAAATCAACTCATATTGCGA
*
26269447 GAAGTGAGTTGGGCCTCGGGTCGCACGCTGAGGT
128 GAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* *
26269481 ATTTCTTTTTAATTTCTGTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTG-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * * *
26269546 GGTCACGTTGAGGTA--T---TTT-CGATTTCTGTTTTTC--AAAAGTCAACTCATATTGCGAGA
65 GGTCACGCTGAGGTATTTCAATTTATGTTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGA
26269603 AGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
130 AGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* *
26269635 ATTTCTTTTAAATCTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* ** *
26269700 GGTCGCACGCTGAGGTATTTC-TTTTA-AATCTCTGTTTTTCAAAAAAATCAACTCATATTGCGA
65 GGT--CACGCTGAGGTATTTCAATTTATGTTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGA
*
26269763 GAAGTGAGTTCAGCCTCGGGTCGC-CGCTGAGGT
128 GAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
*
26269796 ATTTCTTTTAAA--T-T-TTTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * * *
26269857 GGTCACATACCGAGGTATTTTAA---A---TTTCTGTTTTTC--AAAAATCAACTCATACTGCGA
65 GGTCAC--GCTGAGGTATTTCAATTTATGTTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGA
* * *
26269914 GAGGTGAGTTGAGTCTCGAGT--CACG-TCGAGGT
128 GAAGTGAGTTGAGCCTCGGGTCGCACGCT-GAGGT
* * * * * * *
26269946 A--T-TTTTCAATTTTTGCTTTTC-AAAAAGCAACTCATATTGCTAGAGATGAGTTGAGCCCCGG
1 ATTTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* * *
26270007 GTCCCGCTGAGGTATTTTCAATTTATGTTTCTCTATTTTGCAAAAAAAATCAACTCATATTGCGA
66 GTCACGCTGAGGTA-TTTCAATTTATGTTT-TCTGTTTTTC-AAAAAAATCAACTCATATTGCGA
*
26270072 GATGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
128 GAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* * *
26270106 ATTTCTTTTAAATTTCT-TTTTTCAAAAAAATCAACTCATAATGCGAAAGGTAAGTTGAGCCTCG
1 ATTTCTTTTAAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
26270170 GGTCACGCTGAGGTATTTTCAATTTATGTTTTTCT-ATTTTCAAAAAAATCAACTCATATCGCGA
65 GGTCACGCTGAGGTA-TTTCAATTTATG-TTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGA
*
26270234 GAAGTGAGTTGAGCCTCGGGTCGCACGTTGAGGT
128 GAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* *
26270268 ATTTCTTTTAAAATTTTTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
1 ATTTCTTTT-AAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * *******
26270333 GGTCATC-CTGAGGTATTTTTCAATTTCTGTTTTTCAAAAGAAAAAGTAAAAAATCAACTCATAT
65 GGTCA-CGCTGAGGTA--TTTCAATTTATG-TTTTC---TGTTTTTCAAAAAAATCAACTCATAT
* * * *
26270397 TGCGAGAGGTGAGTTGAGCCTCGAGTCACA-TC-GAGGT
123 TGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
* * * * *
26270434 A--T-TTTTCAATTTTTGATTTTCACAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCT
1 ATTTCTTTTAAATTTCTGTTTTTCA-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
26270494 TAGGTCATAT
Statistics
Matches: 1018, Mismatches: 98, Indels: 112
0.83 0.08 0.09
Matches are distributed among these distances:
147 13 0.01
148 6 0.01
149 42 0.04
150 9 0.01
151 43 0.04
153 21 0.02
154 127 0.12
155 62 0.06
156 22 0.02
157 63 0.06
158 43 0.04
159 1 0.00
160 29 0.03
161 25 0.02
162 129 0.13
163 115 0.11
164 209 0.21
165 9 0.01
166 6 0.01
168 44 0.04
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (161 bp):
ATTTCTTTTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
GTCACGCTGAGGTATTTCAATTTATGTTTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGGGTCGCACGCTGAGGT
Found at i:26270414 original size:87 final size:87
Alignment explanation
Indices: 26270293--26270455 Score: 265
Period size: 87 Copynumber: 1.9 Consensus size: 87
26270283 TTTGTTTTTC
* *
26270293 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATCCT-GAGGTATTTTTCAAT
1 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCA-CATCGAGGTATTTTTCAAT
*
26270357 TTCTGTTTTTCAAAAGAAAAAGT
65 TTCTGATTTTCAAAAGAAAAAGT
*
26270380 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGTATTTTTCAATT
1 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGTATTTTTCAATT
*
26270445 TTTGATTTTCA
66 TCTGATTTTCA
26270456 CAAAAATCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
86 2 0.03
87 68 0.97
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (87 bp):
AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGTATTTTTCAATT
TCTGATTTTCAAAAGAAAAAGT
Found at i:26270542 original size:76 final size:76
Alignment explanation
Indices: 26270381--26270530 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 76
26270371 AGAAAAAGTA
* * * *
26270381 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGTATTTTTCAATTT
1 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTAGAGTCACATCGAGGTATTCTTCAATTT
*
26270446 TTGATTTTCAC
66 CTGATTTTCAC
*
26270457 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTTAG-GTCATATGCCGAGGTATTCTTCAA
1 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCC-TAGAGTCACAT--CGAGGTATTCTTCAA
26270521 TTTCT-ATTTT
63 TTTCTGATTTT
26270531 TCAAAGCTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
76 40 0.62
77 7 0.11
78 18 0.28
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTAGAGTCACATCGAGGTATTCTTCAATTT
CTGATTTTCAC
Found at i:26270915 original size:29 final size:29
Alignment explanation
Indices: 26270882--26271068 Score: 170
Period size: 29 Copynumber: 6.4 Consensus size: 29
26270872 CAAAAAAACA
*
26270882 TAAATTACATTTTGGCCCCTAAACTTTTC
1 TAAATTACATTTTAGCCCCTAAACTTTTC
* *
26270911 TAAATTACATTTCA-ACCCTAAACTTTTC
1 TAAATTACATTTTAGCCCCTAAACTTTTC
* * * *
26270939 AAAATTATATTTCACCCCCTAAAC-TTTC
1 TAAATTACATTTTAGCCCCTAAACTTTTC
26270967 TTAAAATTACATTTCTA-CCCCTAAACTTTTC
1 -T-AAATTACATTT-TAGCCCCTAAACTTTTC
* * * *
26270998 TAAATTTCA-TTTGGGCCCTAAACTTTCTA
1 TAAATTACATTTTAGCCCCTAAACTTT-TC
*
26271027 TAAATTACATTTTAGCCCC-ATA-TTTTCC
1 TAAATTACATTTTAGCCCCTAAACTTTT-C
26271055 TAAAATTACATTTT
1 T-AAATTACATTTT
26271069 TGCCTCAAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.02
28 46 0.35
29 50 0.38
30 27 0.21
31 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TAAATTACATTTTAGCCCCTAAACTTTTC
Found at i:26270937 original size:28 final size:28
Alignment explanation
Indices: 26270882--26271038 Score: 163
Period size: 28 Copynumber: 5.4 Consensus size: 28
26270872 CAAAAAAACA
**
26270882 TAAATTACATTTTGGCCCCTAAACTTTTC
1 TAAATTACA-TTTCACCCCTAAACTTTTC
*
26270911 TAAATTACATTTCAACCCTAAACTTTTC
1 TAAATTACATTTCACCCCTAAACTTTTC
* *
26270939 AAAATTATATTTCACCCCCTAAAC-TTTC
1 TAAATTACATTTCA-CCCCTAAACTTTTC
26270967 TTAAAATTACATTTCTACCCCTAAACTTTTC
1 -T-AAATTACATTTC-ACCCCTAAACTTTTC
* *** *
26270998 TAAATTTCATTTGGGCCCTAAACTTTCTA
1 TAAATTACATTTCACCCCTAAACTTT-TC
26271027 TAAATTACATTT
1 TAAATTACATTT
26271039 TAGCCCCATA
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
28 43 0.40
29 39 0.36
30 21 0.19
31 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (28 bp):
TAAATTACATTTCACCCCTAAACTTTTC
Found at i:26271059 original size:87 final size:87
Alignment explanation
Indices: 26270883--26271068 Score: 225
Period size: 87 Copynumber: 2.1 Consensus size: 87
26270873 AAAAAAACAT
* *
26270883 AAATTACATTTTGGCCCCTAAACTTTTCTAAATTACATTTCAACCCTAAACTTTTCAAAATTATA
1 AAATTACATTTTGACCCCTAAACTTTTCTAAATTACATTTCAACCCTAAACTTTTCAAAATTACA
*
26270948 TTTCACCCCCTAAACTTTCTTA
66 TTTCACCCCCTAAACTTTCCTA
* ***
26270970 AAATTACATTTCT-ACCCCTAAACTTTTCTAAATTTCATTTGGGCCCTAAAC-TTTCTATAAATT
1 AAATTACATTT-TGACCCCTAAACTTTTCTAAATTACATTTCAACCCTAAACTTTTC-A-AAATT
* * * *
26271033 ACATTTTAGCCCC-ATATTTTCCTA
63 ACATTTCACCCCCTAAACTTTCCTA
26271057 AAATTACATTTT
1 AAATTACATTTT
26271069 TGCCTCAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
86 5 0.06
87 64 0.75
88 16 0.19
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (87 bp):
AAATTACATTTTGACCCCTAAACTTTTCTAAATTACATTTCAACCCTAAACTTTTCAAAATTACA
TTTCACCCCCTAAACTTTCCTA
Found at i:26271505 original size:14 final size:15
Alignment explanation
Indices: 26271477--26271505 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26271467 CAATCAAATA
26271477 AAGAAAAGAGAAGAG
1 AAGAAAAGAGAAGAG
26271492 AAGAAAAG-GAAGAG
1 AAGAAAAGAGAAGAG
26271506 GGGAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAGAAGAG
Found at i:26271610 original size:6 final size:6
Alignment explanation
Indices: 26271601--26271650 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
26271591 GAAGAAGAGG
* * *
26271601 AAGAAA AAG-AA AGGAAA AAGAGAG AAGAAA AAGAGA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA
26271649 AA
1 AA
26271651 ATGAAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.75
7 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:26271619 original size:11 final size:12
Alignment explanation
Indices: 26271595--26271646 Score: 70
Period size: 12 Copynumber: 4.3 Consensus size: 12
26271585 CGGCCCGAAG
*
26271595 AAGAGGAAGAAA
1 AAGAGAAAGAAA
*
26271607 AAGA-AAGGAAA
1 AAGAGAAAGAAA
26271618 AAGAGAGAAGAAA
1 AAGAGA-AAGAAA
26271631 AAGAGAAAGAAA
1 AAGAGAAAGAAA
26271643 AAGA
1 AAGA
26271647 AAAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.26
12 15 0.43
13 11 0.31
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAGAAAGAAA
Found at i:26272404 original size:17 final size:17
Alignment explanation
Indices: 26272377--26272422 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 17
26272367 AAAAAAATCG
26272377 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
26272394 TGTCTTCAAAATTTCTCA
1 TGT-TTCAAAATTTCTCA
26272412 TGTTTCAAAAT
1 TGTTTCAAAAT
26272423 AATAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:26272680 original size:17 final size:18
Alignment explanation
Indices: 26272653--26272959 Score: 118
Period size: 17 Copynumber: 16.6 Consensus size: 18
26272643 GTTTCTGTGT
*
26272653 TTTTAAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
26272671 -TTTCAAAAATCTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
26272688 CTTTC-AAAA-TTCCAGTG
1 TTTTCAAAAATTTTC-GTG
* *
26272705 TTTTTTCAAAAAAATTTCCTTG
1 --TTTTC--AAAAATTTTCGTG
* **
26272727 TTTTC-AAAAGTCCCGT-
1 TTTTCAAAAATTTTCGTG
* * *
26272743 ATTTCGAAAATTTTCTTG
1 TTTTCAAAAATTTTCGTG
*
26272761 TTTTCAAAAAAATTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
26272780 -TTTCAAAAAATTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
26272797 TTTTCAAAAAAAATCTCGT-
1 TTTTC--AAAAATTTTCGTG
*
26272816 CTTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
**
26272834 TTTTCAAAAAAATTGACCGTG
1 TTTTC--AAAAATT-TTCGTG
*
26272855 -TTTCATAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
26272872 -TTTCAAAAAATCCTCGTGTTTCGTAT
1 TTTTC-AAAAA------T-TTTCGT-G
*
26272898 TTTATCAAAAATTTT-ATG
1 TTT-TCAAAAATTTTCGTG
*
26272916 TTTTCAAAAAAATTT-GTG
1 TTTTC-AAAAATTTTCGTG
26272934 TTTT-AAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
26272951 -TTTCAAAAA
1 TTTTCAAAAA
26272960 GAAAATTCGT
Statistics
Matches: 222, Mismatches: 35, Indels: 65
0.69 0.11 0.20
Matches are distributed among these distances:
16 17 0.08
17 78 0.35
18 47 0.21
19 19 0.09
20 30 0.14
21 5 0.02
22 6 0.03
23 4 0.02
24 1 0.00
25 6 0.03
27 7 0.03
28 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:26272807 original size:37 final size:37
Alignment explanation
Indices: 26272744--26272997 Score: 191
Period size: 37 Copynumber: 6.7 Consensus size: 37
26272734 AAGTCCCGTA
* *
26272744 TTTCGAAAATTTTCTTGTTTTC-AAAAAAATTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGTG
* * *
26272780 TTTCAAAAAATTTCGTGTTTTCAAAAAAAATCTCGTC
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGTG
*
26272817 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATTGACCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATT--TCGTG
* ** *
26272855 TTTCATAAATTTTCGTG-TTTCAAAAAATCCTCGTGTTTCGTATT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAA------AATTTCG--TG
*
26272899 TTATCAAAAATTTT-ATGTTTTC-AAAAAAATTT-GTG
1 TT-TCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGTG
* *
26272934 TTTTAAAAATTTTCGTG-TTTCAAAAAGAAAATTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAA-AAATTTCGTG
* *
26272971 TTTCCTAAAAAATATCGTG-TTTCAAAA
1 TTT-C-AAAAATTTTCGTGTTTTCAAAA
26272998 TTTTCGTTTA
Statistics
Matches: 173, Mismatches: 25, Indels: 37
0.74 0.11 0.16
Matches are distributed among these distances:
34 14 0.08
35 9 0.05
36 32 0.18
37 44 0.25
38 27 0.16
39 19 0.11
42 2 0.01
44 12 0.07
45 14 0.08
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTTCGTG
Found at i:26272888 original size:73 final size:72
Alignment explanation
Indices: 26272644--26272893 Score: 217
Period size: 73 Copynumber: 3.4 Consensus size: 72
26272634 AATTTTCATG
* ** * * *
26272644 TTTCTGTGTTTTTAAAAAATTTTCGTGTTTCAAAAATCTTCGTGCTTTC---AAAATTCCAGTGT
1 TTTC-GTGTTTTCAAAAAATCCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTCC-GTG-
26272706 TTTTTCAAAAAAA
63 --TTTC-AAAAAA
* * * * *
26272719 TTTCCTTGTTTTC-AAAAGTCC-CGTATTTCGAAAATTTTCTTGTTTTCAAAAAAATTTCGTGTT
1 TTT-CGTGTTTTCAAAAAATCCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTCCGTGTT
26272782 TCAAAAAA
65 TCAAAAAA
*
26272790 TTTCGTGTTTTCAAAAAAAAT-CTCGTCTTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCGT
1 TTTCGTGTTTTC--AAAAAATCCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATT--CCGT
* *
26272854 GTTTCATAAAT
62 GTTTCAAAAAA
*
26272865 TTTCGTG-TTTCAAAAAATCCTCGTGTTTC
1 TTTCGTGTTTTCAAAAAATCCTCGTATTTC
26272894 GTATTTTATC
Statistics
Matches: 144, Mismatches: 20, Indels: 24
0.77 0.11 0.13
Matches are distributed among these distances:
70 8 0.06
71 9 0.06
72 12 0.08
73 67 0.47
74 9 0.06
75 31 0.22
76 8 0.06
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (72 bp):
TTTCGTGTTTTCAAAAAATCCTCGTATTTCAAAAATTTTCGTGTTTTCAAAAAAATTCCGTGTTT
CAAAAAA
Found at i:26272926 original size:19 final size:17
Alignment explanation
Indices: 26272904--26272942 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
26272894 GTATTTTATC
*
26272904 AAAAATTTTATGTTTTCA
1 AAAAAATTTATGTTTT-A
*
26272922 AAAAAATTTGTGTTTTA
1 AAAAAATTTATGTTTTA
26272939 AAAA
1 AAAA
26272943 TTTTCGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (17 bp):
AAAAAATTTATGTTTTA
Found at i:26272941 original size:16 final size:17
Alignment explanation
Indices: 26272917--26272997 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 17
26272907 AATTTTATGT
26272917 TTTCAAAAAAATTT-GTG
1 TTTC-AAAAAATTTCGTG
* *
26272934 TTTTAAAAATTTTCGTG
1 TTTCAAAAAATTTCGTG
*
26272951 TTTCAAAAAGAAAATTCGTG
1 TTTC--AAA-AAATTTCGTG
*
26272971 TTTCCTAAAAAATATCGTG
1 TTT-C-AAAAAATTTCGTG
26272990 TTTCAAAA
1 TTTCAAAA
26272998 TTTTCGTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.16
17 13 0.25
18 1 0.02
19 14 0.27
20 14 0.27
21 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (17 bp):
TTTCAAAAAATTTCGTG
Found at i:26272943 original size:15 final size:17
Alignment explanation
Indices: 26272902--26273004 Score: 59
Period size: 16 Copynumber: 5.8 Consensus size: 17
26272892 TCGTATTTTA
*
26272902 TCAAAAATTTT-ATGTTT
1 TCAAAAATTTTCGTG-TT
*
26272919 TCAAAAAAATTT-GTGTT
1 TC-AAAAATTTTCGTGTT
*
26272936 TTAAAAATTTTCGTGTT
1 TCAAAAATTTTCGTGTT
**
26272953 TCAAAAAGAAAATTCGTGTT
1 TC--AAA-AATTTTCGTGTT
* *
26272973 TCCTAAAAAATATCGTGTT
1 T-C-AAAAATTTTCGTGTT
26272992 TC-AAAATTTTCGT
1 TCAAAAATTTTCGT
26273005 TTAAAAAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
16 17 0.25
17 11 0.16
18 11 0.16
19 14 0.21
20 14 0.21
21 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (17 bp):
TCAAAAATTTTCGTGTT
Found at i:26272990 original size:39 final size:37
Alignment explanation
Indices: 26272924--26272997 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
26272914 TGTTTTCAAA
* * *
26272924 AAAATTTGTGTTTTAAAAATTTTCGTGTTTCAAAAAG
1 AAAATTCGTGTTTTAAAAAATATCGTGTTTCAAAAAG
26272961 AAAATTCGTGTTTCCTAAAAAATATCGTGTTTCAAAA
1 AAAATTCGTGTTT--TAAAAAATATCGTGTTTCAAAA
26272998 TTTTCGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 12 0.38
39 20 0.62
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (37 bp):
AAAATTCGTGTTTTAAAAAATATCGTGTTTCAAAAAG
Found at i:26272997 original size:17 final size:18
Alignment explanation
Indices: 26272917--26272997 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 18
26272907 AATTTTATGT
*
26272917 TTTCAAAAAA-ATTTGTG
1 TTTCAAAAAATATTCGTG
* *
26272934 TTT-TAAAAATTTTCGTG
1 TTTCAAAAAATATTCGTG
*
26272951 TTTCAAAAAGAAAATTCGTG
1 TTTC-AAAA-AATATTCGTG
26272971 TTTCCTAAAAAATA-TCGTG
1 TTT-C-AAAAAATATTCGTG
26272990 TTTCAAAA
1 TTTCAAAA
26272998 TTTTCGTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
16 5 0.10
17 15 0.29
18 1 0.02
19 11 0.22
20 14 0.27
21 5 0.10
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.40
Consensus pattern (18 bp):
TTTCAAAAAATATTCGTG
Found at i:26275037 original size:16 final size:16
Alignment explanation
Indices: 26275016--26275048 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26275006 TTCGCTGTAT
26275016 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
26275032 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
26275048 T
1 T
26275049 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:26275132 original size:39 final size:43
Alignment explanation
Indices: 26275028--26275136 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 43
26275018 GAATAGAGGC
26275028 GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTGGAT
1 GTAATGGAATAGAGGTGTAATAGCAAATC-ATTG-TTGGTTGGAT
* * * * *
26275073 GTAATGGAATAGAGGCGTAATAG-TATTC-TTG-TGTTTGGTT
1 GTAATGGAATAGAGGTGTAATAGCAAATCATTGTTGGTTGGAT
26275113 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
26275137 TAATAGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.36
40 8 0.14
42 3 0.05
44 3 0.05
45 22 0.39
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCATTGTTGGTTGGAT
Found at i:26275405 original size:124 final size:120
Alignment explanation
Indices: 26275265--26275681 Score: 642
Period size: 120 Copynumber: 3.4 Consensus size: 120
26275255 ATCATAGTTA
26275265 AACATAATTATTATTAAATAT-TTTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTT-TAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
26275329 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAAAAATATAATTT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT----AAAATATAATTT
* *
26275389 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAATT-TTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAT-AAAATTCTTAATAATCA
* *
26275453 ATATTCTTATATGAATTTACTCAAATCGTAATATATGATACTATAAAAGATAATTT
65 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
* *
26275509 AACAAAACTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
26275574 AATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
* * * *
26275629 GAA-ATAATTAATATTAAATATACTTCAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
26275682 TAAAATAATT
Statistics
Matches: 271, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
119 6 0.02
120 160 0.59
121 2 0.01
124 95 0.35
125 8 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
Found at i:26275425 original size:16 final size:16
Alignment explanation
Indices: 26275381--26275427 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
26275371 ATAAAAAAAA
*
26275381 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
26275397 TATTATT-AAATATAT
1 TATAATTAAAATATAT
26275412 TATAATTAAAATATAT
1 TATAATTAAAATATAT
26275428 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:26275547 original size:18 final size:17
Alignment explanation
Indices: 26275526--26275560 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26275516 CTATTATTAA
*
26275526 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26275544 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26275561 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26275577 original size:16 final size:15
Alignment explanation
Indices: 26275552--26275581 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26275542 ATATATAATT
26275552 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
26275567 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
26275582 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:26275709 original size:26 final size:26
Alignment explanation
Indices: 26275618--26275710 Score: 91
Period size: 26 Copynumber: 3.5 Consensus size: 26
26275608 TGATACTATA
*
26275618 AAATATAATTTGAAATAATTAATATT
1 AAATATAATTTAAAATAATTAATATT
* *
26275644 AAATATACTTCAATTAA-AA-TATATGATT
1 AAATATAATTTAA--AATAATTA-AT-ATT
* *
26275672 TAATAAAATTTAAAATAATTAATATT
1 AAATATAATTTAAAATAATTAATATT
26275698 AAATATAATTTAA
1 AAATATAATTTAA
26275711 TAATGATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
26 28 0.54
27 8 0.15
28 16 0.31
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTAATATT
Found at i:26275717 original size:47 final size:46
Alignment explanation
Indices: 26275661--26275805 Score: 129
Period size: 47 Copynumber: 3.1 Consensus size: 46
26275651 CTTCAATTAA
26275661 AATATATGATTTAATAAAATTTAAAATAATTAATATTAAATATAATTT
1 AATA-ATGATTT-ATAAAATTTAAAATAATTAATATTAAATATAATTT
* * ** * *
26275709 AATAATGATATAT-AATTTCATAAAATTCTTGATAATAAAT-T--TTCT
1 AATAATGATTTATAAAATT--TAAAATAATTAATATTAAATATAATT-T
* *
26275754 TAT-ATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTT
1 AATAATG-ATTTATAAAATTTAAAATAATTAATATTAAATATAATTT
26275800 AATAAT
1 AATAAT
26275806 AAAATGTTCT
Statistics
Matches: 73, Mismatches: 15, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
44 21 0.29
45 13 0.18
46 9 0.12
47 26 0.36
48 4 0.05
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (46 bp):
AATAATGATTTATAAAATTTAAAATAATTAATATTAAATATAATTT
Found at i:26275744 original size:54 final size:54
Alignment explanation
Indices: 26275619--26275735 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
26275609 GATACTATAA
* * * *
26275619 AATATAATTTGAAATAATTAATATTAAATATACTTCAATTAAAATATATGATTT
1 AATAAAATTTAAAATAATTAATATTAAATATAATTCAATTAAAATATATAATTT
* *
26275673 AATAAAATTTAAAATAATTAATATTAAATATAATTTAA-TAATGATATATAATTT
1 AATAAAATTTAAAATAATTAATATTAAATATAATTCAATTAA-AATATATAATTT
*
26275727 CATAAAATT
1 AATAAAATT
26275736 CTTGATAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.05
54 52 0.95
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATAATTCAATTAAAATATATAATTT
Found at i:26275784 original size:244 final size:240
Alignment explanation
Indices: 26275273--26275724 Score: 647
Period size: 244 Copynumber: 1.9 Consensus size: 240
26275263 TAAACATAAT
* *
26275273 TATTATTAAAT-ATTTTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTT
1 TATTATTAAATAAATTTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTT
* *
26275337 ATATGAATTTACTCAAATCATAATATATGATACTATAAAAAAAATATAATTTAACATAATTATTA
66 ATATGAATTTACTAAAATCATAATATATGATACTAT---AAAAATATAATTTAACATAATTAATA
* * **
26275402 TTAAATATATTATAATTAAAATATATAATTTAATAAAAATTTTAATAATTAATATTCTTATATGA
128 TTAAATATATTACAATTAAAATATATAATTTAATAAAAATTTAAATAATTAATATTCAAATATGA
* *
26275467 ATTTACTCAAATCGTAATATATGATACTATAAAAGATAATTTAACAAAAC
193 ATTTAAT-AAATCG-AATATATAATACTATAAAAGATAATTTAACAAAAC
*
26275517 TATTATTAAATATATTT-TAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTT
1 TATTATTAAATAAATTTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTT
26275581 ATATGAATTTACTAAAATCATAATATATGATACTAT-AAAATATAATTTGAA-ATAATTAATATT
66 ATATGAATTTACTAAAATCATAATATATGATACTATAAAAATATAATTT-AACATAATTAATATT
*
26275644 AAATATACTT-CAATTAAAATATATGATTTAAT-AAAATTTAAAATAATTAATATT-AAATAT-A
130 AAATATA-TTACAATTAAAATATATAATTTAATAAAAATTT-AAATAATTAATATTCAAATATGA
26275705 ATTTAAT-AAT-G-ATATATAAT
193 ATTTAATAAATCGAATATATAAT
26275725 TTCATAAAAT
Statistics
Matches: 192, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
233 8 0.04
235 1 0.01
236 3 0.02
238 7 0.04
239 11 0.06
240 63 0.33
241 4 0.02
244 92 0.48
245 3 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (240 bp):
TATTATTAAATAAATTTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATTCTT
ATATGAATTTACTAAAATCATAATATATGATACTATAAAAATATAATTTAACATAATTAATATTA
AATATATTACAATTAAAATATATAATTTAATAAAAATTTAAATAATTAATATTCAAATATGAATT
TAATAAATCGAATATATAATACTATAAAAGATAATTTAACAAAAC
Found at i:26275803 original size:17 final size:15
Alignment explanation
Indices: 26275772--26275810 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
26275762 TTTATACAAT
26275772 TTAAAATAATTAATA
1 TTAAAATAATTAATA
26275787 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
26275804 ATAAAAT
1 TTAAAAT
26275811 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:26277250 original size:11 final size:11
Alignment explanation
Indices: 26277236--26277262 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
26277226 AAAAATCAAT
26277236 ACAAAAGTTTC
1 ACAAAAGTTTC
26277247 ACAAAAGTTTC
1 ACAAAAGTTTC
26277258 ACAAA
1 ACAAA
26277263 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:26288235 original size:25 final size:24
Alignment explanation
Indices: 26288207--26288264 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
26288197 TATTATCAAG
* *
26288207 AATTTTATGAAATTATATATTATTA
1 AATTATATGAAATAATA-ATTATTA
*
26288232 AATTATATGTAATAATAATTATTTTA
1 AATTATATGAAATAATAATTA--TTA
26288258 AATTATA
1 AATTATA
26288265 CAAATTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 14 0.50
26 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
AATTATATGAAATAATAATTATTA
Found at i:26288331 original size:47 final size:49
Alignment explanation
Indices: 26288207--26288332 Score: 114
Period size: 47 Copynumber: 2.6 Consensus size: 49
26288197 TATTATCAAG
* *
26288207 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* * *** * *
26288258 AATTATA-CAAATTCATGTAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
26288305 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
26288333 AAATATATTT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
47 32 0.56
48 6 0.11
49 4 0.07
50 4 0.07
51 11 0.19
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:26288460 original size:16 final size:16
Alignment explanation
Indices: 26288439--26288480 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26288429 TTATTAAATT
*
26288439 ATATATTTTAATTATA
1 ATATATTTTAATAATA
26288455 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
26288470 AT-TATGTTTAA
1 ATATAT-TTTAA
26288481 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:26288465 original size:15 final size:15
Alignment explanation
Indices: 26288430--26288471 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26288420 TTAAGAATTT
*
26288430 TATTAAATTAT-ATA
1 TATTTAATTATAATA
26288444 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
26288458 TATTTAATAATAAT
1 TATTTAATTATAAT
26288472 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:26288717 original size:16 final size:16
Alignment explanation
Indices: 26288696--26288763 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
26288686 GATTTGCTAT
26288696 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26288712 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
26288728 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
26288744 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
26288760 TACA
1 TACA
26288764 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:26290234 original size:9 final size:9
Alignment explanation
Indices: 26290217--26290253 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
26290207 TGAGTTTTCG
26290217 AATTCGAAT
1 AATTCGAAT
*
26290226 AACTCGAAT
1 AATTCGAAT
26290235 AATTCGAAT
1 AATTCGAAT
26290244 AATTCGAAT
1 AATTCGAAT
26290253 A
1 A
26290254 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:26290506 original size:30 final size:30
Alignment explanation
Indices: 26290453--26290511 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26290443 AACCTTTTAT
*
26290453 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
26290482 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
26290512 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:26291898 original size:24 final size:24
Alignment explanation
Indices: 26291845--26291899 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
26291835 CTACATATTG
*
26291845 TTTTAAAATCATTCTATACTATTTA
1 TTTT-AAATCATTCTATACTAGTTA
* *
26291870 CTTTAAATCAATT-TATATTAGTTA
1 TTTTAAATC-ATTCTATACTAGTTA
26291894 TTTTAA
1 TTTTAA
26291900 GCTCACTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAATCATTCTATACTAGTTA
Found at i:26299375 original size:22 final size:23
Alignment explanation
Indices: 26299339--26299418 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
26299329 TTTAAGTGGA
*
26299339 TGTGTTTGTAGGGTATATTTGGT
1 TGTGTTTGAAGGGTATATTTGGT
*
26299362 TGTG-TTGAAGGGTATATTTCGT
1 TGTGTTTGAAGGGTATATTTGGT
* * *
26299384 TGTGCTTGGAGGGTATACTTGGT
1 TGTGTTTGAAGGGTATATTTGGT
*
26299407 TTTGTTTGAAGG
1 TGTGTTTGAAGG
26299419 CTACGATGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 20 0.42
23 28 0.58
ACGTcount: A:0.15, C:0.04, G:0.35, T:0.46
Consensus pattern (23 bp):
TGTGTTTGAAGGGTATATTTGGT
Found at i:26301366 original size:24 final size:24
Alignment explanation
Indices: 26301334--26301396 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
26301324 AAAAAGAGGG
*
26301334 AACACCCAAATAGAGTGTTTTTGA
1 AACACCCAAATAGAGTGTTTCTGA
26301358 AACACCCAAATAGAGTGTTTCTGA
1 AACACCCAAATAGAGTGTTTCTGA
26301382 AACACCCAAATAGAG
1 AACACCCAAATAGAG
26301397 AGAGGAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (24 bp):
AACACCCAAATAGAGTGTTTCTGA
Found at i:26301997 original size:16 final size:18
Alignment explanation
Indices: 26301976--26302020 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
26301966 TTATTTTGAC
26301976 TTGTTCCAAATGT-GA-G
1 TTGTTCCAAATGTAGAGG
26301992 TTGTTCTC-AATGTAGAGG
1 TTGTTC-CAAATGTAGAGG
*
26302010 TTGTTCTAAAT
1 TTGTTCCAAAT
26302021 AATAGTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 11 0.46
17 3 0.12
18 10 0.42
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.42
Consensus pattern (18 bp):
TTGTTCCAAATGTAGAGG
Found at i:26302120 original size:16 final size:15
Alignment explanation
Indices: 26302095--26302124 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26302085 TTGGAAAAAC
26302095 ACAATTGTTCTAAAT
1 ACAATTGTTCTAAAT
26302110 ACAAGTTGTTCTAAA
1 ACAA-TTGTTCTAAA
26302125 CAATGGTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (15 bp):
ACAATTGTTCTAAAT
Found at i:26303049 original size:18 final size:18
Alignment explanation
Indices: 26303026--26303080 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
26303016 GGATGAGTTG
26303026 GTAAAATTTTAATGATCT
1 GTAAAATTTTAATGATCT
* *
26303044 GTAAAA-ATT-AT--T-G
1 GTAAAATTTTAATGATCT
26303057 GTAAAATTTTAATGATCT
1 GTAAAATTTTAATGATCT
26303075 GTAAAA
1 GTAAAA
26303081 ATTATCCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
13 6 0.21
14 3 0.11
15 2 0.07
16 2 0.07
17 3 0.11
18 12 0.43
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (18 bp):
GTAAAATTTTAATGATCT
Found at i:26303061 original size:31 final size:31
Alignment explanation
Indices: 26303023--26303085 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
26303013 AATGGATGAG
26303023 TTGGTAAAATTTTAATGATCTGTAAAAATTA
1 TTGGTAAAATTTTAATGATCTGTAAAAATTA
26303054 TTGGTAAAATTTTAATGATCTGTAAAAATTA
1 TTGGTAAAATTTTAATGATCTGTAAAAATTA
26303085 T
1 T
26303086 CCACATGACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (31 bp):
TTGGTAAAATTTTAATGATCTGTAAAAATTA
Found at i:26303126 original size:29 final size:29
Alignment explanation
Indices: 26303084--26303144 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
26303074 TGTAAAAATT
26303084 ATCCACATGACATTAAATTATTAGATGAG
1 ATCCACATGACATTAAATTATTAGATGAG
26303113 ATCCACATGACATTAAATTATTAGATGAG
1 ATCCACATGACATTAAATTATTAGATGAG
26303142 ATC
1 ATC
26303145 ATAATTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (29 bp):
ATCCACATGACATTAAATTATTAGATGAG
Found at i:26305805 original size:16 final size:18
Alignment explanation
Indices: 26305776--26305827 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
26305766 AATATTTTAA
26305776 ATAT-GTTTATTTTA-TT
1 ATATCGTTTATTTTATTT
26305792 ATATCGTTTA-TTTATTT
1 ATATCGTTTATTTTATTT
* *
26305809 ATATCCTTTTATATTATTT
1 ATAT-CGTTTATTTTATTT
26305828 GAAGCCTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 11 0.37
18 5 0.17
19 6 0.20
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
ATATCGTTTATTTTATTT
Found at i:26316011 original size:31 final size:30
Alignment explanation
Indices: 26315976--26316051 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 30
26315966 TAATAAATGG
*
26315976 ACTTAATTGATTTTTTAGATTAA-CAACAAT
1 ACTTAATTGATTTTTTAAATTAAGCAA-AAT
26316006 AACTTAATTGA--TTTTAAATTAAGTCAAAAT
1 -ACTTAATTGATTTTTTAAATTAAG-CAAAAT
26316036 ACTTAATTGATTTTTT
1 ACTTAATTGATTTTTT
26316052 TTCCCTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 20 0.50
30 3 0.08
31 17 0.43
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (30 bp):
ACTTAATTGATTTTTTAAATTAAGCAAAAT
Found at i:26319023 original size:30 final size:29
Alignment explanation
Indices: 26318986--26319058 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
26318976 TGCAAAAAAA
26318986 ATAAAAATTACATTTCAACCCCTAAAATTT
1 ATAAAAATTACATTT-AACCCCTAAAATTT
* * *
26319016 ATCAAAATTACACTTTGACCCCTAAACTTT
1 ATAAAAATTACA-TTTAACCCCTAAAATTT
*
26319046 CTAAAAATTACAT
1 ATAAAAATTACAT
26319059 CTTGGCCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.03
30 33 0.89
31 3 0.08
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (29 bp):
ATAAAAATTACATTTAACCCCTAAAATTT
Found at i:26324771 original size:6 final size:6
Alignment explanation
Indices: 26324746--26324822 Score: 72
Period size: 6 Copynumber: 13.2 Consensus size: 6
26324736 AACGGGGAAG
* *
26324746 AAAGAA AAA-AA GAGGAA AAAGAA AAAGAA AAAG-- -AAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
**
26324790 AAAGAA GGAGAA AAAGAA AAGAGAA AGAAGAA A
1 AAAGAA AAAGAA AAAGAA AA-AGAA A-AAGAA A
26324823 GGGAAAGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
3 3 0.05
5 3 0.05
6 40 0.70
7 10 0.18
8 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:26324774 original size:27 final size:25
Alignment explanation
Indices: 26324743--26324836 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 25
26324733 CTGAACGGGG
26324743 AAGAAAGAAAAAAAGAGGAAAAAGAAA
1 AAGAAA-AAAAAAAGA-GAAAAAGAAA
* *
26324770 AAGAAAAAGAAGAAAAAGAAAAAGAAG
1 AAGAAAAA-AA-AAAGAGAAAAAGAAA
* *
26324797 GAGAAAAAGAAAAGAGAAAGAAGAAA
1 AAGAAAAAAAAAAGAGAAA-AAGAAA
**
26324823 GGGAAAGAAAAAAA
1 AAGAAA-AAAAAAA
26324837 TAATAAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
25 8 0.15
26 13 0.24
27 30 0.55
28 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAAAAAGAGAAAAAGAAA
Found at i:26324791 original size:38 final size:38
Alignment explanation
Indices: 26324746--26324822 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 38
26324736 AACGGGGAAG
26324746 AAAGAAAAA-AA-GAGGAAAAAGAAAAAGAAAAAGAAGAA
1 AAAGAAAAAGAAGGA-GAAAAAG-AAAAGAAAAAGAAGAA
*
26324784 AAAGAAAAAGAAGGAGAAAAAGAAAAGAGAAAGAAGAA
1 AAAGAAAAAGAAGGAGAAAAAGAAAAGAAAAAGAAGAA
26324822 A
1 A
26324823 GGGAAAGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
38 25 0.69
39 9 0.25
40 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (38 bp):
AAAGAAAAAGAAGGAGAAAAAGAAAAGAAAAAGAAGAA
Found at i:26325042 original size:22 final size:21
Alignment explanation
Indices: 26325017--26325058 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
26325007 GGCCCACCCT
26325017 TCCAGCAGCCCAGCGCTCAGCA
1 TCCAGCAGCCCAG-GCTCAGCA
*
26325039 TCCAGCAGGCCAGGCTCAGC
1 TCCAGCAGCCCAGGCTCAGC
26325059 CAGCAGGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.21, C:0.43, G:0.26, T:0.10
Consensus pattern (21 bp):
TCCAGCAGCCCAGGCTCAGCA
Found at i:26325192 original size:22 final size:22
Alignment explanation
Indices: 26325167--26325217 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
26325157 AATCTGCCAA
*
26325167 AAAAAGGACAAAAAGAAAAAAG
1 AAAAAGGAAAAAAAGAAAAAAG
* **
26325189 AAAAAGAAAAAAAAGAAGGAAG
1 AAAAAGGAAAAAAAGAAAAAAG
26325211 AAAAAGG
1 AAAAAGG
26325218 GGCCCAAGTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (22 bp):
AAAAAGGAAAAAAAGAAAAAAG
Found at i:26325194 original size:13 final size:13
Alignment explanation
Indices: 26325176--26325200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26325166 AAAAAAGGAC
26325176 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
26325189 AAAAAGAAAAAA
1 AAAAAGAAAAAA
26325201 AAGAAGGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:26325201 original size:16 final size:16
Alignment explanation
Indices: 26325182--26325215 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
26325172 GGACAAAAAG
26325182 AAAAAAGAA-AAAGAA
1 AAAAAAGAAGAAAGAA
*
26325197 AAAAAAGAAGGAAGAA
1 AAAAAAGAAGAAAGAA
26325213 AAA
1 AAA
26325216 GGGGCCCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAGAAAGAA
Found at i:26325801 original size:44 final size:43
Alignment explanation
Indices: 26325719--26325853 Score: 123
Period size: 44 Copynumber: 3.0 Consensus size: 43
26325709 AAATTTCGTG
* * *
26325719 TTTCAAATTTTCGTATTTTC-AAAAATTACTCGTATTTCAAAAAT
1 TTTCAACTTTTCGCATTTTCAAAAAATT--TCGTGTTTCAAAAAT
26325763 TTTCAACTTTTCGCATTTTCAAAAAAATTTCGTGTTTCAAAAAAAAAT
1 TTTCAACTTTTCGCATTTTC-AAAAAATTTCGTGTTTC----AAAAAT
* * *
26325811 TTT-GACTTTTCGCGTTTT-AAAAAATTCCGTGTTTTCAAAAAT
1 TTTCAACTTTTCGCATTTTCAAAAAATTTCGTG-TTTCAAAAAT
26325853 T
1 T
26325854 CTCATGCTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
42 7 0.09
44 26 0.33
45 12 0.15
46 11 0.14
47 13 0.17
48 9 0.12
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (43 bp):
TTTCAACTTTTCGCATTTTCAAAAAATTTCGTGTTTCAAAAAT
Found at i:26325835 original size:45 final size:48
Alignment explanation
Indices: 26325757--26325851 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 48
26325747 CTCGTATTTC
*
26325757 AAAAATTTTCAACTTTTCGCATTTTCAAAAAAATTTCGTG-TTTCAAAA
1 AAAAATTTTCAACTTTTCGCATTTT-AAAAAAATTCCGTGTTTTCAAAA
* *
26325805 AAAAATTTT-GACTTTTCGCGTTTT-AAAAAATTCCGTGTTTTCAAAA
1 AAAAATTTTCAACTTTTCGCATTTTAAAAAAATTCCGTGTTTTCAAAA
26325851 A
1 A
26325852 TTCTCATGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 12 0.28
46 9 0.21
47 13 0.30
48 9 0.21
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (48 bp):
AAAAATTTTCAACTTTTCGCATTTTAAAAAAATTCCGTGTTTTCAAAA
Found at i:26325877 original size:35 final size:34
Alignment explanation
Indices: 26325830--26325922 Score: 102
Period size: 34 Copynumber: 2.7 Consensus size: 34
26325820 TCGCGTTTTA
*
26325830 AAAAATTCCGTGTTTTCAAAAATTCTCA-TGCTTC
1 AAAAATTTCGTGTTTTCAAAAATTC-CAGTGCTTC
*
26325864 AAAAATCTTCGTGTTTTC-AAAATTCCAGTGTTTC
1 AAAAAT-TTCGTGTTTTCAAAAATTCCAGTGCTTC
*
26325898 AAAAAGTTTTCGT-CTTTCAAAAATT
1 AAAAA--TTTCGTGTTTTCAAAAATT
26325923 TTCGTCTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
33 2 0.04
34 27 0.53
35 21 0.41
36 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (34 bp):
AAAAATTTCGTGTTTTCAAAAATTCCAGTGCTTC
Found at i:26325882 original size:18 final size:17
Alignment explanation
Indices: 26325818--26325940 Score: 92
Period size: 17 Copynumber: 7.1 Consensus size: 17
26325808 AATTTTGACT
* *
26325818 TTTCGCGTTTTAAAAAA
1 TTTCGTGTTTTCAAAAA
*
26325835 TTCCGTGTTTTCAAAAA
1 TTTCGTGTTTTCAAAAA
* *
26325852 TTCTCATG-CTTCAAAAA
1 TT-TCGTGTTTTCAAAAA
26325869 TCTTCGTGTTTTC-AAAA
1 T-TTCGTGTTTTCAAAAA
*
26325886 TTCCAGTG-TTTCAAAAA
1 TTTC-GTGTTTTCAAAAA
*
26325903 GTTTTCGT-CTTTCAAAAA
1 --TTTCGTGTTTTCAAAAA
*
26325921 TTTTCGTCTTTTCAAAAA
1 -TTTCGTGTTTTCAAAAA
26325939 TT
1 TT
26325941 GACCGTATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
16 6 0.07
17 50 0.58
18 27 0.31
19 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (17 bp):
TTTCGTGTTTTCAAAAA
Found at i:26325987 original size:35 final size:35
Alignment explanation
Indices: 26325817--26325988 Score: 115
Period size: 35 Copynumber: 4.9 Consensus size: 35
26325807 AAATTTTGAC
* *
26325817 TTTTCGCGTTTTAAAAAATTC-CGTGTTTTCAAAAA
1 TTTTCGTGTTTCAAAAAATTCTCGTG-TTTCAAAAA
* * *
26325852 TTCTCATGCTTC-AAAAA-TCTTCGTGTTTTC-AAAA
1 TTTTCGTGTTTCAAAAAATTC-TCGTG-TTTCAAAAA
* * * *
26325886 -TTCCAGTGTTTCAAAAAGTTTTCGTCTTTCAAAAA
1 TTTTC-GTGTTTCAAAAAATTCTCGTGTTTCAAAAA
* * *
26325921 TTTTCGTCTTTTC-AAAAATTGAC-CGTATTTCATAAA
1 TTTTCGT-GTTTCAAAAAATT--CTCGTGTTTCAAAAA
*
26325957 TTTTCGTGTTTCAAAAAAATCTCGTGTTTCAA
1 TTTTCGTGTTTCAAAAAATTCTCGTGTTTCAA
26325989 TCGGATCACG
Statistics
Matches: 103, Mismatches: 22, Indels: 24
0.69 0.15 0.16
Matches are distributed among these distances:
33 4 0.04
34 19 0.18
35 48 0.47
36 32 0.31
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (35 bp):
TTTTCGTGTTTCAAAAAATTCTCGTGTTTCAAAAA
Found at i:26327585 original size:16 final size:16
Alignment explanation
Indices: 26327566--26327603 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
26327556 GCTGTATTGA
*
26327566 AATAGAGATGTAATGG
1 AATAGAGACGTAATGG
*
26327582 AATAGAGGCGTAATGG
1 AATAGAGACGTAATGG
26327598 AATAGA
1 AATAGA
26327604 TGCGTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.32, T:0.21
Consensus pattern (16 bp):
AATAGAGACGTAATGG
Found at i:26327608 original size:16 final size:16
Alignment explanation
Indices: 26327575--26327611 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
26327565 AAATAGAGAT
26327575 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
26327591 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
26327607 GTAAT
1 GTAAT
26327612 AGCAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:26327863 original size:18 final size:17
Alignment explanation
Indices: 26327842--26327876 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26327832 TTATTATTAA
*
26327842 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26327860 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26327877 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26327919 original size:79 final size:79
Alignment explanation
Indices: 26327835--26328067 Score: 243
Period size: 71 Copynumber: 3.1 Consensus size: 79
26327825 AACATAATTA
26327835 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTGTTATA
1 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTGTTATA
26327900 TGAATTTATTATTG
66 TGAATTTATTATTG
* **
26327914 TTATT--A-A-ATTTTAA-TAAGAT-TATTAATATCAGTAAT-AAATAATT--TAATC-ATATT-
1 TTATTAAATATATTTTAATTAAAATATA-TAAT-T---TAATAAAATTCTTAATAATCAATATTG
*
26327968 TTAACAT-AA-TTA------
61 TT-ATATGAATTTATTATTG
26327980 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTGTTATA
1 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTGTTATA
26328045 TGAATTTATTATTG
66 TGAATTTATTATTG
26328059 TTATTAAAT
1 TTATTAAAT
26328068 TTTAATAAGA
Statistics
Matches: 121, Mismatches: 8, Indels: 50
0.68 0.04 0.28
Matches are distributed among these distances:
66 5 0.04
67 4 0.03
68 7 0.06
69 1 0.01
70 13 0.11
71 17 0.14
72 9 0.07
73 9 0.07
74 17 0.14
75 13 0.11
76 1 0.01
77 7 0.06
78 4 0.03
79 14 0.12
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (79 bp):
TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTGTTATA
TGAATTTATTATTG
Found at i:26327985 original size:66 final size:64
Alignment explanation
Indices: 26327914--26328133 Score: 176
Period size: 70 Copynumber: 3.1 Consensus size: 64
26327904 TTTATTATTG
26327914 TTATTAAATTTTAATAAGATTATTAATATCAGTAATAAATAATTTAATCATATTTTAACATAATT
1 TTATTAAATTTTAATAAGATTATTAATAT-A-TAATAAATAATTTAATCATATTTTAACATAATT
26327979 A
64 A
* **
26327980 TTATTAAATATATTTTAATTAA-AATATATAAT-T-TAATAAAATTCTTAATAATCAATATTGTT
1 TTATT--A-A-ATTTTAA-TAAGATTAT-TAATATATAAT-AAATAATT--TAATC-ATATT-TT
* *
26328042 ATATGAATTTATTATTG
55 A-A--CA-T-A--ATTA
26328059 TTATTAAATTTTAATAAGATTATTAATATAAATAATAAATAATTTAATCATATTTTAACATAATT
1 TTATTAAATTTTAATAAGATTATTAATAT--ATAATAAATAATTTAATCATATTTTAACATAATT
26328124 A
64 A
26328125 TTATTAAAT
1 TTATTAAAT
26328134 ATAATTTAAT
Statistics
Matches: 121, Mismatches: 10, Indels: 46
0.68 0.06 0.26
Matches are distributed among these distances:
66 17 0.14
67 4 0.03
68 8 0.07
69 2 0.02
70 18 0.15
71 12 0.10
72 4 0.03
73 4 0.03
74 12 0.10
75 18 0.15
76 2 0.02
77 8 0.07
78 4 0.03
79 8 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (64 bp):
TTATTAAATTTTAATAAGATTATTAATATATAATAAATAATTTAATCATATTTTAACATAATTA
Found at i:26328008 original size:18 final size:17
Alignment explanation
Indices: 26327987--26328021 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26327977 TTATTATTAA
*
26327987 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26328005 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26328022 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26328155 original size:18 final size:18
Alignment explanation
Indices: 26328132--26328183 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
26328122 TTATTATTAA
26328132 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
26328150 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
26328167 ATATAAATTTACTAAAA
1 ATAT-AATTTAATAAAA
26328184 TCATAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 9 0.29
18 19 0.61
19 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Done.