Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 307 of 378
Found at i:93131646 original size:24 final size:24
Alignment explanation
Indices: 93131593--93131640 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93131583 TTTGTTTTAT
93131593 TATAATATAATATAATATAATATA
1 TATAATATAATATAATATAATATA
93131617 TATAATATAATATAATATAATATA
1 TATAATATAATATAATATAATATA
93131641 CTTAATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TATAATATAATATAATATAATATA
Found at i:93135476 original size:12 final size:12
Alignment explanation
Indices: 93135459--93135491 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
93135449 CGGCCCGCCC
93135459 ATATTAATTTTT
1 ATATTAATTTTT
93135471 ATATT-ATTTTT
1 ATATTAATTTTT
93135482 ATA-TAATTTT
1 ATATTAATTTT
93135492 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:93135649 original size:30 final size:30
Alignment explanation
Indices: 93135613--93135672 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
93135603 CAATTTAACA
*
93135613 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
93135643 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
93135673 TTGACAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.27
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:93135734 original size:22 final size:22
Alignment explanation
Indices: 93135709--93135751 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93135699 TATCCAAACA
93135709 ATAACAAC-AAAATAGTAGCAAC
1 ATAA-AACTAAAATAGTAGCAAC
*
93135731 ATAATACTAAAATAGTAGCAA
1 ATAAAACTAAAATAGTAGCAA
93135752 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAAAACTAAAATAGTAGCAAC
Found at i:93136869 original size:21 final size:21
Alignment explanation
Indices: 93136845--93136907 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
93136835 AAGAAACCCG
93136845 TAAGGGTTGAACGAAAGCTCA
1 TAAGGGTTGAACGAAAGCTCA
* * *
93136866 TAAGAGCTGAACGGAAA-CCCA
1 TAAGGGTTGAAC-GAAAGCTCA
* *
93136887 TAAGGGTTAAACAAAAGCTCA
1 TAAGGGTTGAACGAAAGCTCA
93136908 ATAGAGCTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 3 0.09
21 25 0.78
22 4 0.12
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (21 bp):
TAAGGGTTGAACGAAAGCTCA
Found at i:93136904 original size:42 final size:42
Alignment explanation
Indices: 93136836--93136936 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
93136826 AATGTTAAAA
* * *
93136836 AGAAACCCGTAAGGGTTGAACGAAAGCTC-ATAAGAGCTGAAC
1 AGAAACCCATAAGGGTTAAACAAAAGCTCAAT-AGAGCTGAAC
*
93136878 GGAAACCCATAAGGGTTAAACAAAAGCTCAATAGAGCTGAAC
1 AGAAACCCATAAGGGTTAAACAAAAGCTCAATAGAGCTGAAC
* *
93136920 AGAAACCTATTAGGGTT
1 AGAAACCCATAAGGGTT
93136937 GAACTGAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.17
Consensus pattern (42 bp):
AGAAACCCATAAGGGTTAAACAAAAGCTCAATAGAGCTGAAC
Found at i:93144063 original size:42 final size:42
Alignment explanation
Indices: 93143997--93144114 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
93143987 GACTGCACAG
* * * * * *
93143997 AAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTAAATAA
1 AAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACAA
* *
93144039 AAGCTCATAAGAGCTGAACGGAAACCTATAAGGGTTAAACAG
1 AAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACAA
*
93144081 AAGCTCA-ATAGAGCTGAACGAAAACCCATTAAGG
1 AAGCTCATA-AGAGCTGAACGGAAACCCA-TAAGG
93144115 TTGAACTGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 58 0.91
43 5 0.08
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACAA
Found at i:93145824 original size:17 final size:17
Alignment explanation
Indices: 93145802--93145838 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
93145792 TTCTTAAAGG
93145802 TTATGCGAACCGCTTAT
1 TTATGCGAACCGCTTAT
*
93145819 TTATGCGAACTGCTTAT
1 TTATGCGAACCGCTTAT
93145836 TTA
1 TTA
93145839 CATGTTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (17 bp):
TTATGCGAACCGCTTAT
Found at i:93146696 original size:27 final size:29
Alignment explanation
Indices: 93146666--93146727 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 29
93146656 AAGAATGTTA
93146666 AAATTATTTTAAAAGAAAAA-TC-AAGAG
1 AAATTATTTTAAAAGAAAAACTCAAAGAG
* *
93146693 AAA-T-TCTTGAAAGAAAAACTCAAAGAG
1 AAATTATTTTAAAAGAAAAACTCAAAGAG
*
93146720 AATTTATT
1 AAATTATT
93146728 AACTCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
25 12 0.44
26 3 0.11
27 10 0.37
28 1 0.04
29 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.27
Consensus pattern (29 bp):
AAATTATTTTAAAAGAAAAACTCAAAGAG
Found at i:93152632 original size:357 final size:356
Alignment explanation
Indices: 93151977--93153044 Score: 2091
Period size: 357 Copynumber: 3.0 Consensus size: 356
93151967 TTAAACTATT
93151977 ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
1 ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
93152042 TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
66 TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
*
93152107 TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGCTTTTTGGGCTATGCTGTTATTTTATTTGC
131 TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTGC
93152172 TTCTTGATGCTGTTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
196 TTCTTGATGCT-TTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
93152237 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
260 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
93152302 TGATTTTATGCATGCAGGATAAGGTTGAGTAA
325 TGATTTTATGCATGCAGGATAAGGTTGAGTAA
93152334 ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
1 ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
93152399 TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
66 TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
93152464 TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTGC
131 TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTGC
93152529 TTCTTGATGCTCTTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
196 TTCTTGATGCT-TTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAG
93152594 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
260 AATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATT
*
93152659 TGATTTTATGCATGCAGGATAAGGTTTAGTAA
325 TGATTTTATGCATGCAGGATAAGGTTGAGTAA
93152691 ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
1 ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
93152756 TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
66 TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
93152821 TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTGC
131 TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTGC
*
93152886 TTCTTGATGCTGTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAGA
196 TTCTTGATGCTTTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAGA
93152951 ATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATTT
261 ATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATTT
93153016 GATTTTATGCATGCAGGATAAGGTTGAGT
326 GATTTTATGCATGCAGGATAAGGTTGAGT
93153045 TTTGAAACAT
Statistics
Matches: 706, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
356 146 0.21
357 560 0.79
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (356 bp):
ATTTCATTGCTCAAGAACCAATAGATGTAAATTTGTAGAAATAATAGAAAGTCCTTGTCCATTCC
TTTTGTGGAGTAAAATTGGTTGCATAAGGTGAAAGGTTTTTTACTTTGTTACAAGTATCATGATA
TGTTGTACCCTAGAAGATGTATTGAAGCATATTAGTTTTTTGGGCTATGCTGTTATTTTATTTGC
TTCTTGATGCTTTTTTTTTTTTTTTTTTTACTTGTTACCACACCTTCCCTATAGACGAAGAAAGA
ATGGTGGGACAATTCTCATTATGGGATAGATGATTTAATTTCTGTTTCCATGAGATCATATATTT
GATTTTATGCATGCAGGATAAGGTTGAGTAA
Found at i:93162521 original size:5 final size:5
Alignment explanation
Indices: 93162511--93162539 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
93162501 TTGAGAAGAA
93162511 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
93162540 AACAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:93181565 original size:67 final size:67
Alignment explanation
Indices: 93181456--93181592 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
93181446 TTTCTCTTAA
93181456 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
1 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
93181521 TG
66 TG
* *
93181523 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATTGGTGTATTCGAAATTGACTAATTTCAAGCT
1 CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
93181588 TG
66 TG
93181590 CTT
1 CTT
93181593 TGGCTTTATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (67 bp):
CTTCCATTGCGCTGCCTGTTTCTTGACTTAAAATAGGCGTATTCGAAATTGACTAATTTCAAGCT
TG
Found at i:93181802 original size:12 final size:12
Alignment explanation
Indices: 93181767--93181802 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
93181757 AATTTATAAT
93181767 CATATTTTTAAA
1 CATATTTTTAAA
*
93181779 CAATAATTTTAAA
1 C-ATATTTTTAAA
93181792 CATATTTTTAA
1 CATATTTTTAA
93181803 TTTTATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (12 bp):
CATATTTTTAAA
Found at i:93181805 original size:18 final size:18
Alignment explanation
Indices: 93181782--93181817 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
93181772 TTTTAAACAA
93181782 TAATTTTA-AACATATTTT
1 TAATTTTATAA-ATATTTT
93181800 TAATTTTATAAATATTTT
1 TAATTTTATAAATATTTT
93181818 GCCAGTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTTTATAAATATTTT
Found at i:93186112 original size:29 final size:30
Alignment explanation
Indices: 93186080--93186143 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
93186070 TTAATTAATT
93186080 TTTTTAAAATT-TTAAAAATAA-TACAGATA
1 TTTTTAAAATTATTAAAAATAACT-CAGATA
* * *
93186109 TTTTTATAATTATTAAAAGTAACTCATATA
1 TTTTTAAAATTATTAAAAATAACTCAGATA
93186139 TTTTT
1 TTTTT
93186144 GAATATTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 10 0.33
30 19 0.63
31 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTTTAAAATTATTAAAAATAACTCAGATA
Found at i:93192721 original size:22 final size:22
Alignment explanation
Indices: 93192680--93192723 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93192670 TTAATGTGTA
* **
93192680 ATTTTAAGATTTATCCCATAAT
1 ATTTTAAAATTTATAACATAAT
93192702 ATTTTAAAATTTATAACATAAT
1 ATTTTAAAATTTATAACATAAT
93192724 TTACATTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTTAAAATTTATAACATAAT
Found at i:93193161 original size:15 final size:15
Alignment explanation
Indices: 93193141--93193169 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93193131 TCAATTTGAT
93193141 TTGAATTCGATTTTG
1 TTGAATTCGATTTTG
93193156 TTGAATTCGATTTT
1 TTGAATTCGATTTT
93193170 TAAACTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
TTGAATTCGATTTTG
Found at i:93194320 original size:12 final size:12
Alignment explanation
Indices: 93194298--93194329 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
93194288 TATAAAGGTT
93194298 ATATATATTATAA
1 ATAT-TATTATAA
93194311 ATATTATTATAA
1 ATATTATTATAA
93194323 ATATTAT
1 ATATTAT
93194330 ATTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTATTATAA
Found at i:93196178 original size:4 final size:4
Alignment explanation
Indices: 93196169--93196205 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
93196159 TCACATACTC
93196169 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
93196206 AAAGGTAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:93196438 original size:3 final size:3
Alignment explanation
Indices: 93196430--93196457 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
93196420 TATATTTATG
93196430 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
93196458 TTATCACTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:93198108 original size:12 final size:12
Alignment explanation
Indices: 93198086--93198120 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
93198076 TTCCTTTAAC
93198086 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
93198099 TTTTTATTTTTA
1 TTTTTATTTTTA
93198111 -TTTTATTTTT
1 TTTTTATTTTT
93198121 TGAATCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 10 0.45
12 6 0.27
13 6 0.27
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:93198121 original size:7 final size:6
Alignment explanation
Indices: 93198086--93198120 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
93198076 TTCCTTTAAC
93198086 TTTTTA TTTTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
93198121 TGAATCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:93200491 original size:2 final size:2
Alignment explanation
Indices: 93200484--93200510 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93200474 CTATTACTTT
93200484 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
93200511 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93202135 original size:3 final size:3
Alignment explanation
Indices: 93202109--93202160 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
93202099 ACAAACAATG
* * *
93202109 ATA AAA ATA AAA ATA ATA ACA ATA ATA ATA ATA ATA ATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
93202155 ATA ATA
1 ATA ATA
93202161 CAACGTAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:93202385 original size:23 final size:23
Alignment explanation
Indices: 93202366--93202411 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
93202356 GTGATATTAA
93202366 AAATATATACATAAAAATATAAT
1 AAATATATACATAAAAATATAAT
* *
93202389 AACTATATATATAATATAATATA
1 AAATATATACATAA-A-AATATA
93202412 TACATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 1 0.05
25 6 0.32
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATATATACATAAAAATATAAT
Found at i:93202521 original size:10 final size:10
Alignment explanation
Indices: 93202504--93202549 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
93202494 TACTTCATAA
93202504 ATATATACAT
1 ATATATACAT
*
93202514 ATACATACAT
1 ATATATACAT
*
93202524 ATATATATAT
1 ATATATACAT
93202534 ATATATACAT
1 ATATATACAT
93202544 ATATAT
1 ATATAT
93202550 GTTAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATACAT
Found at i:93202523 original size:4 final size:4
Alignment explanation
Indices: 93202504--93202549 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
93202494 TACTTCATAA
* * * *
93202504 ATAT ATAC ATAT ACAT ACAT ATAT ATAT ATAT ATAT ACAT ATAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
93202550 GTTAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (4 bp):
ATAT
Found at i:93202725 original size:24 final size:24
Alignment explanation
Indices: 93202658--93202714 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
93202648 TAGTAATTAT
* * * *
93202658 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
93202682 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
93202706 AATAATAAT
1 AATAATAAT
93202715 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:93204319 original size:44 final size:44
Alignment explanation
Indices: 93204256--93204739 Score: 686
Period size: 44 Copynumber: 11.2 Consensus size: 44
93204246 AAGAACACCG
* *
93204256 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
93204300 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACGGAGACTCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
93204344 ATCTGTTATCTTCGATTTGCTCTCCGCCGCTACAGAAATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
93204388 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
93204432 ATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
93204476 ATC----ATCTTCGATCTGCTCTCCGCCGATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
93204516 ATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
93204561 ATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * *
93204605 ATCTGTTATCTTCGATCTGCTCTCTACCGCTATAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
93204649 ATC----ATCTTCGATCTGCTCTCCGCCGTTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
93204689 ATC----ATCTTCGATCTGCTCTCCGCAGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
93204729 ATCTGTTATCT
1 ATCTGTTATCT
93204740 GTTTCAAGGA
Statistics
Matches: 394, Mismatches: 37, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
40 110 0.28
44 246 0.62
45 38 0.10
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:93204566 original size:173 final size:172
Alignment explanation
Indices: 93204256--93204739 Score: 760
Period size: 173 Copynumber: 2.8 Consensus size: 172
93204246 AAGAACACCG
*
93204256 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC----ATCTTCGATCTGCT
* * * * * *
93204321 CTCCACCGCTACGGAGACTCCAAATCTGTTATCTTCGATTTGCTCTCCGCCGCTACAGAAATGCC
62 CTCCGCCGATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCC
93204386 AAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
127 AAATCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
*
93204432 ATCTGTTATTTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCC
1 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCC
93204497 GCCGATACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA
66 GCCGATACAGAGACGCCAAATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAA
93204562 TCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
130 TCTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
* * *
93204605 ATCTGTTATCTTCGATCTGCTCTCTACCGCTATAGAGATGCCAAATCATCTTCGATCTGCTCTCC
1 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCC
* * * *
93204670 GCCGTTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCAGCTACAGAGACGCCAAAT
66 GCCGATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAAT
93204731 CTGTTATCT
131 CTGTTATCT
93204740 GTTTCAAGGA
Statistics
Matches: 291, Mismatches: 16, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
168 46 0.16
172 36 0.12
173 164 0.56
176 45 0.15
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (172 bp):
ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATCATCTTCGATCTGCTCTCC
GCCGATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAAT
CTGTTATCTTCGATCTGTTCTCCGCCGCTACAGAGACGCCAA
Found at i:93222206 original size:20 final size:20
Alignment explanation
Indices: 93222140--93222206 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
93222130 GTATATATAT
*
93222140 ATAATAATAATGGT-ATAGTA
1 ATAATAAT-ATGATAATAGTA
* *
93222160 AAAATGATA--ATAATA-TA
1 ATAATAATATGATAATAGTA
*
93222177 TTAATGAATATGATAATAGTA
1 ATAAT-AATATGATAATAGTA
93222198 ATAATAATA
1 ATAATAATA
93222207 ACAGTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
17 6 0.17
18 6 0.17
19 1 0.03
20 16 0.46
21 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
ATAATAATATGATAATAGTA
Found at i:93223483 original size:18 final size:20
Alignment explanation
Indices: 93223453--93223504 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
93223443 AAAATTATTA
*
93223453 AAATATTATAAAATTTTA-G
1 AAATATGATAAAATTTTATG
*
93223472 AAA-ATGATAAAAATTTATG
1 AAATATGATAAAATTTTATG
*
93223491 AAATATTATAAAAT
1 AAATATGATAAAAT
93223505 AATAAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 12 0.44
19 7 0.26
20 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (20 bp):
AAATATGATAAAATTTTATG
Found at i:93223494 original size:9 final size:10
Alignment explanation
Indices: 93223441--93223549 Score: 68
Period size: 10 Copynumber: 11.1 Consensus size: 10
93223431 TGTTTAAGCT
93223441 TAAAA-ATTA
1 TAAAATATTA
93223450 TTAAAATATTA
1 -TAAAATATTA
*
93223461 TAAAATTTTA
1 TAAAATATTA
*
93223471 GAAAATGA-TA
1 TAAAAT-ATTA
93223481 -AAAAT-TTA
1 TAAAATATTA
*
93223489 TGAAATATTA
1 TAAAATATTA
*
93223499 TAAAATAATA
1 TAAAATATTA
93223509 -AAAATTATTA
1 TAAAA-TATTA
*
93223519 GAAAA-ATTAA
1 TAAAATATT-A
* * *
93223529 TTACATGTTA
1 TAAAATATTA
93223539 TAAAATATTA
1 TAAAATATTA
93223549 T
1 T
93223550 TAATACATTA
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
8 2 0.03
9 16 0.21
10 48 0.63
11 10 0.13
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.38
Consensus pattern (10 bp):
TAAAATATTA
Found at i:93224067 original size:17 final size:16
Alignment explanation
Indices: 93224028--93224073 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
93224018 TACTTTGATA
93224028 AATTTTATAATTTTAAT
1 AATTTT-TAATTTTAAT
93224045 --TTTTTAATTATTAAT
1 AATTTTTAATT-TTAAT
93224060 AATTTTTATATTTT
1 AATTTTTA-ATTTT
93224074 TCATGTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 5 0.20
15 9 0.36
17 8 0.32
18 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTTTAATTTTAAT
Found at i:93226864 original size:14 final size:14
Alignment explanation
Indices: 93226833--93226866 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
93226823 ACTATTATAT
* *
93226833 TATTATTATTTTGT
1 TATTATTATTTAGA
93226847 TATTATTATTTAGA
1 TATTATTATTTAGA
93226861 TATTAT
1 TATTAT
93226867 ATAATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
TATTATTATTTAGA
Found at i:93227494 original size:14 final size:14
Alignment explanation
Indices: 93227475--93227517 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
93227465 CAAAACATTG
93227475 TTAAAATAATTTTT
1 TTAAAATAATTTTT
*
93227489 TTAAAATAATATTT
1 TTAAAATAATTTTT
* *
93227503 TGATAATTAATTTTT
1 TTA-AAATAATTTTT
93227518 ATTTATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TTAAAATAATTTTT
Found at i:93228153 original size:23 final size:22
Alignment explanation
Indices: 93228096--93228165 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
93228086 AAAAGTAAAA
*
93228096 TAAATTCAAATCATATATAT-T
1 TAAATTCAAATAATATATATCT
*
93228117 TCAATT--AATAATATATATCT
1 TAAATTCAAATAATATATATCT
* *
93228137 TAATATTCAAATTATATTTATCT
1 TAA-ATTCAAATAATATATATCT
93228160 TAAATT
1 TAAATT
93228166 TAATATTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.28
20 3 0.08
21 8 0.20
22 3 0.08
23 15 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATTCAAATAATATATATCT
Found at i:93228208 original size:20 final size:20
Alignment explanation
Indices: 93228172--93228250 Score: 94
Period size: 20 Copynumber: 4.1 Consensus size: 20
93228162 AATTTAATAT
93228172 TTATCATAAAGATAAATGTTA
1 TTATCATAAA-ATAAATGTTA
93228193 TTATCATAAAATAAATGTTA
1 TTATCATAAAATAAATGTTA
**
93228213 -T-T--TAATTTAAATGTTA
1 TTATCATAAAATAAATGTTA
*
93228229 TTATCATAAAAGAAATGTTA
1 TTATCATAAAATAAATGTTA
93228249 TT
1 TT
93228251 TAATTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 12 0.24
17 1 0.02
18 2 0.04
19 1 0.02
20 23 0.47
21 10 0.20
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (20 bp):
TTATCATAAAATAAATGTTA
Found at i:93228224 original size:36 final size:36
Alignment explanation
Indices: 93228184--93228256 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
93228174 ATCATAAAGA
*
93228184 TAAATGTTATTATCATAAAATAAATGTTATTTAATT
1 TAAATGTTATTATCATAAAAGAAATGTTATTTAATT
93228220 TAAATGTTATTATCATAAAAGAAATGTTATTTAATT
1 TAAATGTTATTATCATAAAAGAAATGTTATTTAATT
93228256 T
1 T
93228257 TTTTATTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
TAAATGTTATTATCATAAAAGAAATGTTATTTAATT
Found at i:93229644 original size:22 final size:23
Alignment explanation
Indices: 93229616--93229665 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
93229606 ACAGAAAGTG
*
93229616 TAAAATAT-TTTTATAAAATAAT
1 TAAAATATGTTTTAGAAAATAAT
* *
93229638 TAAAATATGTTTTAGACAATATT
1 TAAAATATGTTTTAGAAAATAAT
93229661 TAAAA
1 TAAAA
93229666 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
TAAAATATGTTTTAGAAAATAAT
Found at i:93230977 original size:51 final size:51
Alignment explanation
Indices: 93230896--93231012 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
93230886 CGGATCACAT
* *
93230896 TTATCACTTGTCACTTGTCACTGGTCAGATAAGTGTAGCTAAAACTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACAAC
* * **
93230947 TTATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTGAGGCTACAAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACAAC
93230998 TTATCACTTGTCACT
1 TTATCACTTGTCACT
93231013 GATCAGAAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACAAC
Found at i:93240888 original size:7 final size:7
Alignment explanation
Indices: 93240876--93240914 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
93240866 TTATCTGATC
93240876 AGTGACA
1 AGTGACA
93240883 AGTGACA
1 AGTGACA
93240890 AGTGACA
1 AGTGACA
93240897 AGTGACA
1 AGTGACA
*
93240904 AGTGATA
1 AGTGACA
93240911 AGTG
1 AGTG
93240915 GTAGCTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.31, T:0.18
Consensus pattern (7 bp):
AGTGACA
Found at i:93244210 original size:27 final size:27
Alignment explanation
Indices: 93244180--93244233 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
93244170 TTTTTCATCC
93244180 ATATTTATAATATTA-AC-CATAAATAAA
1 ATATTT-TAAT-TTATACACATAAATAAA
*
93244207 ATATTTTAATTTATACATATAAATAAA
1 ATATTTTAATTTATACACATAAATAAA
93244234 TTCGCGCATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 6 0.25
27 15 0.62
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATTTTAATTTATACACATAAATAAA
Found at i:93245872 original size:46 final size:46
Alignment explanation
Indices: 93245819--93245994 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
93245809 TATTTGGGCA
93245819 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
93245865 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
93245912 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
93245958 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93245995 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:93245974 original size:93 final size:93
Alignment explanation
Indices: 93245815--93245986 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93245805 GGGATATTTG
* *
93245815 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93245880 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
93245908 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93245973 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
93245987 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:93248932 original size:15 final size:15
Alignment explanation
Indices: 93248912--93248980 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
93248902 GTATCTTGGG
93248912 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
93248927 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
93248942 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
93248957 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
93248972 TTTCTTTAT
1 TTTCTTTAT
93248981 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:93248981 original size:30 final size:30
Alignment explanation
Indices: 93248903--93248990 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
93248893 CATAGTATCG
* * * *
93248903 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
93248933 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
93248963 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
93248991 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:93251423 original size:46 final size:46
Alignment explanation
Indices: 93251370--93251545 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
93251360 TATTTGGGCA
93251370 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
93251416 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
93251463 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
93251509 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93251546 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:93251525 original size:93 final size:93
Alignment explanation
Indices: 93251366--93251537 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
93251356 GGGATATTTG
* *
93251366 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93251431 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
93251459 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93251524 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
93251538 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:93257396 original size:21 final size:21
Alignment explanation
Indices: 93257357--93257396 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
93257347 ATTTTTGGTC
**
93257357 TTGTTTTAGTAATTTTTTTTT
1 TTGTTTTAGTAATCATTTTTT
*
93257378 TTGTTTTTGTAATCATTTT
1 TTGTTTTAGTAATCATTTT
93257397 AGGTTAATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (21 bp):
TTGTTTTAGTAATCATTTTTT
Found at i:93261084 original size:46 final size:47
Alignment explanation
Indices: 93261024--93261251 Score: 331
Period size: 46 Copynumber: 5.0 Consensus size: 47
93261014 TTTGACATGA
* * * * * *
93261024 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
93261070 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
93261116 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
93261162 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
93261208 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
93261252 AGAGCACACT
Statistics
Matches: 168, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 7 0.04
46 158 0.94
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:93263401 original size:11 final size:11
Alignment explanation
Indices: 93263385--93263436 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
93263375 TATACTAAAT
93263385 AAATAATAATA
1 AAATAATAATA
*
93263396 AAATAAT-ATT
1 AAATAATAATA
* *
93263406 AAATATCTCATA
1 AAATA-ATAATA
*
93263418 AAATATTAATA
1 AAATAATAATA
93263429 AAATAATA
1 AAATAATA
93263437 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:93271572 original size:81 final size:82
Alignment explanation
Indices: 93271487--93271695 Score: 198
Period size: 81 Copynumber: 2.5 Consensus size: 82
93271477 ATATTTTAAA
93271487 TTTATATTTTAAATGTTTTATAATATATGTTTATTCAAACGTCTTGTTT-TTGAAAT-TTTTTTA
1 TTTATATTTTAAATGTTTTATAATATATGTTTATTCAAACGT-TTGTTTATTGAAATATTTTTTA
93271550 AAATGATTTATTATTTATT
65 AAATG-TTTATTATTTATT
* ** * *
93271569 TTATAATATTTTAAAT-TTATATTTTAAATGTTT-TAT-AATA--TTTGTTTATTTAAATATTTT
1 TT-T-ATATTTTAAATGTTTTATAATATATGTTTAT-TCAA-ACGTTTGTTTATTGAAATATTTT
** *
93271629 TTAATTTGTTTATTATTTGTT
62 TTAAAATGTTTATTATTTATT
* * *
93271650 TTATAATATTATAAATGTTTTATAATATTTATTTATTCAAACGTTT
1 TT-T-ATATTTTAAATGTTTTATAATATATGTTTATTCAAACGTTT
93271696 TTAAATAAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
80 6 0.06
81 34 0.34
82 28 0.28
83 19 0.19
84 14 0.14
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (82 bp):
TTTATATTTTAAATGTTTTATAATATATGTTTATTCAAACGTTTGTTTATTGAAATATTTTTTAA
AATGTTTATTATTTATT
Found at i:93271635 original size:16 final size:17
Alignment explanation
Indices: 93271600--93271631 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
93271590 TTTTAAATGT
93271600 TTTATAATATTTGTTTA
1 TTTATAATATTTGTTTA
93271617 TTTA-AATATTT-TTTA
1 TTTATAATATTTGTTTA
93271632 ATTTGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTATAATATTTGTTTA
Found at i:93271867 original size:78 final size:82
Alignment explanation
Indices: 93271775--93271969 Score: 265
Period size: 78 Copynumber: 2.4 Consensus size: 82
93271765 ATTAAAAAAA
*
93271775 TTAAATAAACAAATATTATAAAACATTTAAAATATTAT-AAA-AAATAAGAAAACAA-ATAATAA
1 TTAAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAA-AAAACAATATAAAAA
*
93271837 ACAAATT-AAAAAA-TGT
65 ACAAATTAAAAAAACCGT
* * *
93271853 TTAAATAAAGAAATATTATAAAACATTTAAAATATTATAAAACAAATAATAAACAATTTAAAAAA
1 TTAAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAAAAAACAATATAAAAAA
*
93271918 CAATTTAAAAAAACCGT
66 CAAATTAAAAAAACCGT
* * *
93271935 TTGAATAAATAGATATTATAAAACATTTAAAATAT
1 TTAAATAAACAAATATTATAAAACATTTAAAATAT
93271970 AAATTTTAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 37 0.36
79 9 0.09
80 17 0.17
81 6 0.06
82 34 0.33
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (82 bp):
TTAAATAAACAAATATTATAAAACATTTAAAATATTATAAAACAAATAAAAAACAATATAAAAAA
CAAATTAAAAAAACCGT
Found at i:93271931 original size:13 final size:12
Alignment explanation
Indices: 93271903--93271929 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93271893 AACAAATAAT
93271903 AAACAATTTAAA
1 AAACAATTTAAA
93271915 AAACAATTTAAA
1 AAACAATTTAAA
93271927 AAA
1 AAA
93271930 ACCGTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAACAATTTAAA
Found at i:93272005 original size:15 final size:15
Alignment explanation
Indices: 93271976--93272005 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93271966 ATATAAATTT
*
93271976 TAAATATTATAAAAA
1 TAAATATTAAAAAAA
93271991 TAAATATTAAAAAAA
1 TAAATATTAAAAAAA
93272006 AGGAAAATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATATTAAAAAAA
Found at i:93281052 original size:10 final size:10
Alignment explanation
Indices: 93281037--93281065 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
93281027 ATTGCGTGTT
93281037 TGAATAGAAA
1 TGAATAGAAA
93281047 TGAATAG-AA
1 TGAATAGAAA
93281056 TGAATAGAAA
1 TGAATAGAAA
93281066 AAGAGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:93281893 original size:53 final size:54
Alignment explanation
Indices: 93281835--93281945 Score: 188
Period size: 53 Copynumber: 2.1 Consensus size: 54
93281825 AAGAAAAGAA
*
93281835 AATTTCCATTTTCACCCTAAAAGGAAAACTTTTTCTAGTTCTATGTTTTGATT-
1 AATTTCCATTTTCACCCTAAAAGGAAAACTTGTTCTAGTTCTATGTTTTGATTC
* *
93281888 AATTTCTATTTTCACCCTGAAAGGAAAACTTGTTCTAGTTCTATGTTTTGATTC
1 AATTTCCATTTTCACCCTAAAAGGAAAACTTGTTCTAGTTCTATGTTTTGATTC
93281942 AATT
1 AATT
93281946 GGTTCAAGCC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 50 0.93
54 4 0.07
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (54 bp):
AATTTCCATTTTCACCCTAAAAGGAAAACTTGTTCTAGTTCTATGTTTTGATTC
Found at i:93284058 original size:19 final size:19
Alignment explanation
Indices: 93284034--93284071 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
93284024 GACACACGCC
93284034 TGTGTTCTAGGTCGTGTAG
1 TGTGTTCTAGGTCGTGTAG
*
93284053 TGTGTTCTAGGTTGTGTAG
1 TGTGTTCTAGGTCGTGTAG
93284072 CACACATGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.08, G:0.37, T:0.45
Consensus pattern (19 bp):
TGTGTTCTAGGTCGTGTAG
Found at i:93285713 original size:27 final size:29
Alignment explanation
Indices: 93285683--93285741 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
93285673 ATACAAGAGC
*
93285683 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
93285710 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
93285739 ATA
1 ATA
93285742 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:93285791 original size:30 final size:29
Alignment explanation
Indices: 93285694--93285795 Score: 100
Period size: 28 Copynumber: 3.5 Consensus size: 29
93285684 TATAGTGAAT
* * *
93285694 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
93285723 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* * *
93285751 TCGTACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
93285781 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
93285796 CAATCTTGTC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 22 0.37
29 18 0.31
30 19 0.32
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:93293425 original size:27 final size:29
Alignment explanation
Indices: 93293395--93293453 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
93293385 ATATAAGAGC
*
93293395 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
93293422 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
93293451 ATA
1 ATA
93293454 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:93293503 original size:30 final size:29
Alignment explanation
Indices: 93293406--93293507 Score: 100
Period size: 28 Copynumber: 3.5 Consensus size: 29
93293396 TATAGTGAAT
* * *
93293406 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
93293435 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* * *
93293463 TCGTACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
93293493 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
93293508 CAATCTTGTC
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 22 0.37
29 18 0.31
30 19 0.32
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:93296444 original size:20 final size:21
Alignment explanation
Indices: 93296406--93296444 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
93296396 TTTACAGCAC
*
93296406 ATTTATTCATGAAAATTCATA
1 ATTTATTCATCAAAATTCATA
*
93296427 ATTT-TTCATCAAATTTCA
1 ATTTATTCATCAAAATTCA
93296445 CAACTTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTTATTCATCAAAATTCATA
Found at i:93307144 original size:40 final size:40
Alignment explanation
Indices: 93307089--93307292 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
93307079 TGAATGATAC
* * * *
93307089 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
93307129 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
93307169 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
93307209 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
93307249 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
93307289 CCGG
1 CCGG
93307293 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 145 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:93307222 original size:80 final size:80
Alignment explanation
Indices: 93307085--93307296 Score: 320
Period size: 80 Copynumber: 2.7 Consensus size: 80
93307075 CAATTGAATG
* * * *
93307085 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
93307149 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
93307165 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
93307230 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
93307245 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
93307297 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.05
80 112 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:93315230 original size:40 final size:40
Alignment explanation
Indices: 93315176--93315378 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
93315166 TGAATGATAC
* *
93315176 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
93315215 CCGGGTTAAGACCCGAAGGCATTTGTG-TGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCT-AGTTGTTATAT
*
93315255 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
93315295 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
93315335 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
93315375 CCGG
1 CCGG
93315379 CTAAATTCGA
Statistics
Matches: 145, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 10 0.07
40 133 0.92
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:93315319 original size:80 final size:80
Alignment explanation
Indices: 93315172--93315382 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
93315162 CAATTGAATG
* * *
93315172 ATACCCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
*
93315235 ATTTGTGTGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
93315251 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
93315316 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
93315331 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
93315383 ATTCGAAGAA
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 18 0.15
80 99 0.83
81 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:93317121 original size:19 final size:19
Alignment explanation
Indices: 93317089--93317137 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
93317079 TAATTCAATG
* *
93317089 GACATGTAACTCTTGACAT
1 GACATGAAAATCTTGACAT
* *
93317108 GGCATGAAAATCTTGAGAT
1 GACATGAAAATCTTGACAT
*
93317127 GATATGAAAAT
1 GACATGAAAAT
93317138 GACTGGAGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (19 bp):
GACATGAAAATCTTGACAT
Found at i:93323955 original size:81 final size:81
Alignment explanation
Indices: 93323820--93323981 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
93323810 CTGTTCATAT
*
93323820 GAACATTTCGTTACTTTCTTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTA
1 GAACATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTA
93323885 TTTAATTCCATTCCTA
66 TTTAATTCCATTCCTA
93323901 GAACATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTA
1 GAACATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTA
93323966 TTTAATTCCATTCCTA
66 TTTAATTCCATTCCTA
93323982 CTATTTTTAG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (81 bp):
GAACATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGATTACATAATTTATTCACTA
TTTAATTCCATTCCTA
Found at i:93324872 original size:79 final size:81
Alignment explanation
Indices: 93324763--93324945 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
93324753 TACTCGTTCA
* *
93324763 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
93324826 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
93324843 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
*
93324906 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
93324922 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
93324946 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:93324945 original size:40 final size:40
Alignment explanation
Indices: 93324761--93324945 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
93324751 GCTACTCGTT
* *
93324761 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * *
93324801 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
93324841 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* *
93324880 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
93324921 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93324946 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:93326238 original size:51 final size:51
Alignment explanation
Indices: 93326135--93326246 Score: 120
Period size: 51 Copynumber: 2.2 Consensus size: 51
93326125 CTCTTTTTCC
* ** *
93326135 TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTCT
1 TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCATGATCTCT
* * *
93326186 TTCTTTTTCTTTCTTCTATTCGGCTAGGAAGAAGCATGA-ATG-ATGATCTCT
1 TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAA-CATGAGA-GCATGATCTCT
*
93326237 TTTTTTTTCT
1 TTCTTTTTCT
93326247 CTTTCACCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
51 45 0.88
52 6 0.12
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (51 bp):
TTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCATGATCTCT
Found at i:93332839 original size:79 final size:81
Alignment explanation
Indices: 93332730--93332912 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
93332720 TACTCGTTCA
* *
93332730 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
93332793 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
93332810 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
93332873 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
93332889 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
93332913 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:93332912 original size:40 final size:40
Alignment explanation
Indices: 93332709--93332912 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
93332699 CGGAATTTAA
** *
93332709 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93332749 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93332789 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
93332828 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
93332868 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
93332908 CCGGA
1 CCGGA
93332913 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:93334170 original size:10 final size:10
Alignment explanation
Indices: 93334155--93334180 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
93334145 TTTTTTTCTT
93334155 TTTCTTTTTC
1 TTTCTTTTTC
93334165 TTTCTTTTTC
1 TTTCTTTTTC
93334175 TTTCTT
1 TTTCTT
93334181 CTATTCGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:93334170 original size:16 final size:16
Alignment explanation
Indices: 93334145--93334182 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
93334135 ACATGAGAGC
93334145 TTTT-TTTCTTTTTCT
1 TTTTCTTTCTTTTTCT
93334160 TTTTCTTTCTTTTTCT
1 TTTTCTTTCTTTTTCT
93334176 TTCTTCT
1 TT-TTCT
93334183 ATTCGGCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 4 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTCTTTTTCT
Found at i:93334218 original size:63 final size:63
Alignment explanation
Indices: 93334094--93334228 Score: 157
Period size: 63 Copynumber: 2.1 Consensus size: 63
93334084 TCCTCAAAGC
* * ** *
93334094 TCTTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTTTTTCTTTT
1 TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCATGATCTCTTTT
* * *
93334157 TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCTAGGAAGAAGCATGA-ATG-ATGATCTCTTTT
1 TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAA-CATGAGA-GCATGATCTCTTTT
*
93334220 TTTTTTTCT
1 TCTTTTTCT
93334229 CTTTCACCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 55 0.90
64 6 0.10
ACGTcount: A:0.16, C:0.19, G:0.11, T:0.54
Consensus pattern (63 bp):
TCTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCATGATCTCTTTT
Found at i:93338254 original size:19 final size:18
Alignment explanation
Indices: 93338211--93338261 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
93338201 TACTTCCCTC
93338211 AAACTTTTA--TTCCCCA
1 AAACTTTTATTTTCCCCA
*
93338227 AAACTTTTTATTTTCCTCCT
1 AAAC-TTTTATTTTCC-CCA
93338247 AAACTTTTACTTTTC
1 AAACTTTTA-TTTTC
93338262 ACCCTTTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 4 0.14
17 5 0.17
19 9 0.31
20 11 0.38
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (18 bp):
AAACTTTTATTTTCCCCA
Found at i:93347032 original size:39 final size:39
Alignment explanation
Indices: 93346978--93347140 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
93346968 TGTGAATGAA
93346978 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
93347017 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
93347056 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
93347095 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
93347135 TGTGCG
1 TGTGCG
93347141 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:93347156 original size:40 final size:39
Alignment explanation
Indices: 93346978--93347170 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
93346968 TGTGAATGAA
* *
93346978 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
93347017 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
93347056 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
93347095 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
93347135 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
93347171 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:93355032 original size:39 final size:39
Alignment explanation
Indices: 93354961--93355122 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
93354951 TGTGAATGAA
93354961 TGTGCGAATTGTGATAT-CGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
93354999 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
93355038 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
93355077 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
93355117 TGTGCG
1 TGTGCG
93355123 GGTTACCATA
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 17 0.15
39 81 0.71
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:93359189 original size:17 final size:17
Alignment explanation
Indices: 93359165--93359209 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
93359155 AATAATAACA
*
93359165 ATAA-AATAAATCTGAT
1 ATAATAATAAATCTAAT
*
93359181 ATAATAATAAAACTAAT
1 ATAATAATAAATCTAAT
93359198 ATAATAATAAAT
1 ATAATAATAAAT
93359210 AAAATAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAATAATAAATCTAAT
Found at i:93360466 original size:22 final size:22
Alignment explanation
Indices: 93360441--93360483 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
93360431 GAGAAAATAT
*
93360441 ATTTATCTACTTTAATAAGTAA
1 ATTTATCTACTTTAACAAGTAA
93360463 ATTTATCTACTTTAACAAGTA
1 ATTTATCTACTTTAACAAGTA
93360484 CATCCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTTATCTACTTTAACAAGTAA
Found at i:93364064 original size:55 final size:54
Alignment explanation
Indices: 93363944--93364132 Score: 229
Period size: 55 Copynumber: 3.5 Consensus size: 54
93363934 ATAAGGATAT
* * * * *
93363944 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTTTAAGGCAAGGAACT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCC
**
93363998 CATGTAAGACCATTTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATCC
* * *
93364053 CATGTATGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCC
* * *
93364106 CACGTAAAACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
93364133 ATGGTAAGTT
Statistics
Matches: 116, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.28
54 34 0.29
55 42 0.36
56 4 0.03
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATCC
Found at i:93364144 original size:53 final size:54
Alignment explanation
Indices: 93363936--93364143 Score: 233
Period size: 53 Copynumber: 3.9 Consensus size: 54
93363926 TTGGCAAGAT
* * *
93363936 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
** *
93363990 AAGGA-ACTCATGTAAGACCATTTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATAC-CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
93364045 AAAGG-TCCCATGTATGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
93364098 AAGGATACCACGTAAAACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
93364144 AAAAAGGAAA
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 42 0.32
54 39 0.30
55 41 0.31
56 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:93369682 original size:18 final size:17
Alignment explanation
Indices: 93369659--93369692 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
93369649 TAGCTGTGCC
93369659 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
*
93369677 GTTTTCTTTTCTTATT
1 GTTTTCTCTTCTTATT
93369693 TTCTTCCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.15, G:0.09, T:0.68
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:93371742 original size:40 final size:40
Alignment explanation
Indices: 93371676--93371826 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
93371666 AAATTGAATG
* * *
93371676 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
93371715 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
93371755 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
93371795 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
93371827 ACATGTTATA
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93379830 original size:40 final size:39
Alignment explanation
Indices: 93379703--93379832 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
93379693 ATGCTGGAAA
* * *
93379703 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
93379744 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
93379782 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
93379823 TTATATCCGG
1 TTATATCCGG
93379833 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:93382099 original size:20 final size:20
Alignment explanation
Indices: 93382076--93382114 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
93382066 TAAACATGGT
93382076 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
93382096 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
93382115 TGTGTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:93382196 original size:23 final size:24
Alignment explanation
Indices: 93382166--93382281 Score: 177
Period size: 23 Copynumber: 4.9 Consensus size: 24
93382156 AGGAAGTGCA
93382166 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
93382189 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
93382212 AAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTG
93382236 AAAGGGCTT-TGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTG
*
93382259 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
93382282 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
23 65 0.74
24 15 0.17
25 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTG
Found at i:93382513 original size:31 final size:31
Alignment explanation
Indices: 93382478--93382541 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
93382468 CGTTTACAGT
93382478 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
93382509 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
93382540 AA
1 AA
93382542 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:93395224 original size:133 final size:133
Alignment explanation
Indices: 93394973--93395225 Score: 348
Period size: 133 Copynumber: 1.9 Consensus size: 133
93394963 TCTCGCTTTG
* * * * * *
93394973 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * * *
93395038 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCAAGCATTTCCTTCGTTTTTAAAAAGTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAGCATGTCCTCCGTTTTTAAAAAGTTT
93395103 TTA
131 TTA
* **
93395106 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
*
93395171 GCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAA-CATCGT-CTCCGTTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATC-AAGCAT-GTCCTCCGTTTT
93395226 AAAGAAATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
133 101 0.97
134 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (133 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAGCATGTCCTCCGTTTTTAAAAAGTTT
TTA
Found at i:93395529 original size:3 final size:3
Alignment explanation
Indices: 93395516--93395567 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
93395506 ACAAACAATG
* *
93395516 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
93395562 ATA ATA
1 ATA ATA
93395568 CAACGTAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:93395809 original size:14 final size:13
Alignment explanation
Indices: 93395787--93395850 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 13
93395777 ATACACAAAA
93395787 ATATA-ATAACTAT
1 ATATATATAA-TAT
93395800 ATATATATAATAT
1 ATATATATAATAT
93395813 A-ATATATAGATA-
1 ATATATATA-ATAT
*
93395825 ATATAGTATTAA-AA
1 ATATA-TA-TAATAT
93395839 ATATATATAATA
1 ATATATATAATA
93395851 CATACACATT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.25
13 19 0.43
14 12 0.27
15 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (13 bp):
ATATATATAATAT
Found at i:93395819 original size:16 final size:16
Alignment explanation
Indices: 93395798--93395829 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93395788 TATAATAACT
*
93395798 ATATATATATAATATA
1 ATATATAGATAATATA
93395814 ATATATAGATAATATA
1 ATATATAGATAATATA
93395830 GTATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATATAGATAATATA
Found at i:93395928 original size:12 final size:12
Alignment explanation
Indices: 93395911--93395948 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
93395901 TACTTGATAA
*
93395911 ATATATACATAC
1 ATATATACATAT
93395923 ATATAT--ATAT
1 ATATATACATAT
93395933 ATATATACATAT
1 ATATATACATAT
93395945 ATAT
1 ATAT
93395949 GTTAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATATACATAT
Found at i:93396124 original size:24 final size:24
Alignment explanation
Indices: 93396057--93396113 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
93396047 TAGTAATTAT
* * * *
93396057 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
93396081 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
93396105 AATAATAAT
1 AATAATAAT
93396114 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:93398432 original size:77 final size:78
Alignment explanation
Indices: 93398340--93398500 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 78
93398330 ACAACTGTCT
* *
93398340 TTCTCTCCCCAACTTTATAGTATCTCAA-T-CGACTCTTCCTCTCTTCATGACTCTTTGCCCACT
1 TTCTCTCCCCAACTTTACAG-ATCTCAATTCCGACTCTTCCTCTCTTCATGACTCTTCGCCCACT
*
93398403 TATGGTGAATTGCC
65 TAGGGTGAATTGCC
* ** *
93398417 TTCTCTCCCCAACTTTACAGATCTTAATTGCCTCCTCTTCTTCTCTTCATGACTCTTCGCCCACT
1 TTCTCTCCCCAACTTTACAGATCTCAATT-CCGACTCTTCCTCTCTTCATGACTCTTCGCCCACT
*
93398482 TAGGGTGAATTGCT
65 TAGGGTGAATTGCC
93398496 TTCTC
1 TTCTC
93398501 CTCTTCATCC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 6 0.08
77 20 0.27
79 47 0.64
ACGTcount: A:0.17, C:0.33, G:0.11, T:0.40
Consensus pattern (78 bp):
TTCTCTCCCCAACTTTACAGATCTCAATTCCGACTCTTCCTCTCTTCATGACTCTTCGCCCACTT
AGGGTGAATTGCC
Found at i:93398815 original size:29 final size:29
Alignment explanation
Indices: 93398782--93398840 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
93398772 ATCATATGAA
93398782 TGCTTCATTTTTAATAATTTTAGAATTTG
1 TGCTTCATTTTTAATAATTTTAGAATTTG
93398811 TGCTTCATTTTTAATAATTTTAGAATTTG
1 TGCTTCATTTTTAATAATTTTAGAATTTG
93398840 T
1 T
93398841 AAATATAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (29 bp):
TGCTTCATTTTTAATAATTTTAGAATTTG
Found at i:93399181 original size:69 final size:69
Alignment explanation
Indices: 93399094--93399230 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 69
93399084 CGAGGGATGA
* * * * *
93399094 GATCCCACATAGTTCGGTTTGCATAGAATAAAGCTTCCCTAACTTAAATATGCACTCAAAACATG
1 GATCCCACACAGTACGGTTTGCATAGAATAAAGCCTCCCTAACTTAAATATACACTAAAAACATG
93399159 ATTT
66 ATTT
* *
93399163 GATCCCACACAGTACGGTTTGCATAGAATAAAGCCTCCTTTACTTAAATATACACTAAAAACATG
1 GATCCCACACAGTACGGTTTGCATAGAATAAAGCCTCCCTAACTTAAATATACACTAAAAACATG
93399228 ATT
66 ATT
93399231 CGTGAACATA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (69 bp):
GATCCCACACAGTACGGTTTGCATAGAATAAAGCCTCCCTAACTTAAATATACACTAAAAACATG
ATTT
Found at i:93406285 original size:12 final size:14
Alignment explanation
Indices: 93406250--93406296 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
93406240 TTTTTTTTTT
93406250 TAAATTAAAAAGAA
1 TAAATTAAAAAGAA
93406264 TAAATTAAAAA-AA
1 TAAATTAAAAAGAA
* *
93406277 -AACTTAAAATGAA
1 TAAATTAAAAAGAA
*
93406290 CAAATTA
1 TAAATTA
93406297 CTTAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 8 0.29
13 4 0.14
14 16 0.57
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (14 bp):
TAAATTAAAAAGAA
Found at i:93407209 original size:14 final size:13
Alignment explanation
Indices: 93407190--93407227 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
93407180 ATTTAATATT
93407190 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
93407204 TAATTATTAAGGA
1 TAATTATTTAGGA
93407217 TAATTATTTAG
1 TAATTATTTAG
93407228 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:93407256 original size:10 final size:10
Alignment explanation
Indices: 93407241--93407300 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
93407231 TAAATTTAGG
*
93407241 ATTTATTTTT
1 ATTTATCTTT
93407251 ATTTATCTTT
1 ATTTATCTTT
*
93407261 AGTTATCTTT
1 ATTTATCTTT
* *
93407271 AATAATCTTT
1 ATTTATCTTT
*
93407281 AATTAT-TTGT
1 ATTTATCTT-T
93407291 ATTTATCTTT
1 ATTTATCTTT
93407301 TAAAATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 38 0.90
11 2 0.05
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:93430249 original size:20 final size:20
Alignment explanation
Indices: 93430224--93430267 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
93430214 GCAATAGCCT
93430224 GAACACAAATCAGATACGTA
1 GAACACAAATCAGATACGTA
93430244 GAACACAAATCAGATACGTA
1 GAACACAAATCAGATACGTA
93430264 -AACA
1 GAACA
93430268 AAACTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.52, C:0.20, G:0.14, T:0.14
Consensus pattern (20 bp):
GAACACAAATCAGATACGTA
Found at i:93432773 original size:21 final size:20
Alignment explanation
Indices: 93432735--93432772 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93432725 TCTTAAATTT
93432735 TTTTAAAAAGTATAAAAATC
1 TTTTAAAAAGTATAAAAATC
* *
93432755 TTTTCAAAATTATAAAAA
1 TTTTAAAAAGTATAAAAA
93432773 AAATTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TTTTAAAAAGTATAAAAATC
Found at i:93434925 original size:29 final size:29
Alignment explanation
Indices: 93434893--93435028 Score: 116
Period size: 29 Copynumber: 4.7 Consensus size: 29
93434883 AGTTCATCGA
* * *
93434893 GACAGTAAACACGGGATAAAGTTTG-ATGG
1 GACAGTAAACACGAGATAAAGTCTGTA-AG
* *
93434922 GACAGTAAACATGAGATAAAGTTTGTCAA-
1 GACAGTAAACACGAGATAAAGTCTGT-AAG
* * * *
93434951 GATAGTAAACATGGGATAAAGTCAGTAAG
1 GACAGTAAACACGAGATAAAGTCTGTAAG
* * *
93434980 GATAGTAAACAAGAGATAAAGTCTGCT-GG
1 GACAGTAAACACGAGATAAAGTCTG-TAAG
93435009 GACAGTAAACACGAGATAAA
1 GACAGTAAACACGAGATAAA
93435029 ATCCACTGGG
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.02
29 86 0.96
30 1 0.01
31 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (29 bp):
GACAGTAAACACGAGATAAAGTCTGTAAG
Found at i:93435016 original size:58 final size:58
Alignment explanation
Indices: 93434892--93435028 Score: 143
Period size: 58 Copynumber: 2.4 Consensus size: 58
93434882 TAGTTCATCG
** * * *
93434892 AGACAGTAAACACGGGATAAAGTTTGATGGGACAGTAAACATGAGATAAAGTTTGTCA
1 AGACAGTAAACACGGGATAAAGTCAGATAGGACAGTAAACAAGAGATAAAGTCTGTCA
* * * *
93434950 AGATAGTAAACATGGGATAAAGTCAG-TAAGGATAGTAAACAAGAGATAAAGTCTG-CTG
1 AGACAGTAAACACGGGATAAAGTCAGAT-AGGACAGTAAACAAGAGATAAAGTCTGTC-A
* *
93435008 GGACAGTAAACACGAGATAAA
1 AGACAGTAAACACGGGATAAA
93435029 ATCCACTGGG
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
57 2 0.03
58 62 0.97
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.20
Consensus pattern (58 bp):
AGACAGTAAACACGGGATAAAGTCAGATAGGACAGTAAACAAGAGATAAAGTCTGTCA
Found at i:93435046 original size:29 final size:29
Alignment explanation
Indices: 93434979--93435046 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
93434969 AAGTCAGTAA
* **
93434979 GGATAGTAAACAAGAGATAAAGTCTGCTG
1 GGATAGTAAACAAGAGATAAAATCCACTG
* *
93435008 GGACAGTAAACACGAGATAAAATCCACTG
1 GGATAGTAAACAAGAGATAAAATCCACTG
*
93435037 GGATAATAAA
1 GGATAGTAAA
93435047 TAGAAGATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.18
Consensus pattern (29 bp):
GGATAGTAAACAAGAGATAAAATCCACTG
Found at i:93437184 original size:45 final size:45
Alignment explanation
Indices: 93437120--93437329 Score: 201
Period size: 46 Copynumber: 4.6 Consensus size: 45
93437110 GATCGGAGTG
* * *
93437120 TGCCATGGTATCTTTCAACCATGGTCTTAGTT-ATTCTCATTGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA-TTCATTTTCATTGTGA
* * *
93437165 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCATTGTGA
* * * *
93437211 TGCCATAGTGTTTTTCAACCACGGTCTTATTCATTTTCCGTTGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CATTGTGA
* * * *
93437257 TGCCATAGTTTCTTTCAACTATGGTCTTATT--TCTTTGATTCATGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCAT-TTTCATT-GTGA
* * *
93437302 TGCCATAGCGTCTTTCAGCTATGGTCTT
1 TGCCATAGTGTCTTTCAACCATGGTCTT
93437330 GATAGAATCA
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
44 5 0.04
45 62 0.44
46 73 0.52
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCATTGTGA
Found at i:93439468 original size:25 final size:25
Alignment explanation
Indices: 93439434--93439504 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
93439424 TCTCATCCCT
* *
93439434 ATTTTACCCTAACAAAATTTTAACG
1 ATTTTACCCTAATAAAATTTTAACA
* *
93439459 ATTTTACCCTTTATAAAATTTTGACA
1 ATTTTACCC-TAATAAAATTTTAACA
* *
93439485 ATTTTGCCCTAGTAAAATTT
1 ATTTTACCCTAATAAAATTT
93439505 CAAGAAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (25 bp):
ATTTTACCCTAATAAAATTTTAACA
Found at i:93439657 original size:6 final size:6
Alignment explanation
Indices: 93439646--93439684 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
93439636 TGATTACAAG
93439646 TTTCCA TTTCCA TTT-CA TTTCCA TTTCCA TTTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA -TTTCCA TTT
93439685 TTGGAAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTCCA
Found at i:93439666 original size:11 final size:12
Alignment explanation
Indices: 93439646--93439684 Score: 62
Period size: 11 Copynumber: 3.2 Consensus size: 12
93439636 TGATTACAAG
93439646 TTTCCATTTCCA
1 TTTCCATTTCCA
93439658 TTT-CATTTCCA
1 TTTCCATTTCCA
93439669 TTTCCATTTTCCA
1 TTTCCA-TTTCCA
93439682 TTT
1 TTT
93439685 TTGGAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTCCATTTCCA
Found at i:93443804 original size:16 final size:16
Alignment explanation
Indices: 93443778--93443814 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
93443768 GTAGCTCAAT
93443778 GAAGG-AATATCCCTA
1 GAAGGTAATATCCCTA
*
93443793 GAAGGTAATATCCCTG
1 GAAGGTAATATCCCTA
93443809 GAAGGT
1 GAAGGT
93443815 TTTGCATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (16 bp):
GAAGGTAATATCCCTA
Found at i:93448235 original size:26 final size:26
Alignment explanation
Indices: 93448199--93448250 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
93448189 TAACAGTGTA
93448199 GCACCCCCAAACCCGGCCCAGACGTT
1 GCACCCCCAAACCCGGCCCAGACGTT
93448225 GCACCCCCAAACCCGGCCCAGACGTT
1 GCACCCCCAAACCCGGCCCAGACGTT
93448251 AAGGCCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.50, G:0.19, T:0.08
Consensus pattern (26 bp):
GCACCCCCAAACCCGGCCCAGACGTT
Found at i:93449327 original size:25 final size:27
Alignment explanation
Indices: 93449290--93449342 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
93449280 TCCAACATGC
93449290 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
93449316 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
93449342 A
1 A
93449343 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:93452126 original size:18 final size:19
Alignment explanation
Indices: 93452089--93452126 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
93452079 TTAATTTGGT
*
93452089 TTTACTTAATTTATCATTA
1 TTTACTTAATTTACCATTA
*
93452108 TTTAC-TAATTTACCTTTA
1 TTTACTTAATTTACCATTA
93452126 T
1 T
93452127 ACCCTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTACTTAATTTACCATTA
Found at i:93455638 original size:46 final size:45
Alignment explanation
Indices: 93455571--93455737 Score: 196
Period size: 47 Copynumber: 3.6 Consensus size: 45
93455561 CCGCCCTAAG
*
93455571 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
93455617 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
93455664 CGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
93455709 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
93455738 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 5 0.05
43 1 0.01
44 2 0.02
45 28 0.27
46 28 0.27
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:93455686 original size:47 final size:48
Alignment explanation
Indices: 93455567--93455741 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 48
93455557 TAACCCGCCC
* * * *
93455567 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-ACATCCA
**
93455613 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTACATCCA
* *
93455661 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
*
93455705 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
93455742 TCAACCATCC
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
43 2 0.02
44 3 0.03
45 29 0.27
46 31 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (48 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTACATCCA
Done.