Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 168 of 226
Found at i:51714823 original size:18 final size:18
Alignment explanation
Indices: 51714800--51714836 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51714790 TCGGGGTTCT
51714800 CAATAGA-GGAAAGCAAGA
1 CAATAGATGGAAAG-AAGA
51714818 CAATAGATGGAAAGAAGA
1 CAATAGATGGAAAGAAGA
51714836 C
1 C
51714837 CATTGGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.54, C:0.11, G:0.27, T:0.08
Consensus pattern (18 bp):
CAATAGATGGAAAGAAGA
Found at i:51718834 original size:76 final size:75
Alignment explanation
Indices: 51718700--51719118 Score: 401
Period size: 76 Copynumber: 5.5 Consensus size: 75
51718690 AAGTTTTACA
* * * * *
51718700 CCCAGCGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCATCACTAGACAGATTAATCGAC
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCA-AACTAGTCGGATTAACCGAC
51718765 AAAGATTTGTG
65 AAAGATTTGTG
* * *
51718776 CCCAACGCTAGTTGGATAAACTGATGATATTAAGTGTGTGCCCAGAACTAGTCGGATTAA-CGAC
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCA-AACTAGTCGGATTAACCGAC
**
51718840 AAAGATTTACG
65 AAAGATTTGTG
* * * * *
51718851 -CCAAGTGCTAGTTGGATAAACCGACAATATTAAATGTTTGCCCAGCACTAGTCCGATTAACCGA
1 CCCAA-CGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCA-AACTAGTCGGATTAACCGA
51718915 CAAAGATTTGTG
64 CAAAGATTTGTG
** * * * * * *
51718927 CCCAGTGCTAGTCGGATAAACCGACGATACTAAATATGTGTCCAACACTCGTCGGATTAACCGAA
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCAA-ACTAGTCGGATTAACCGAC
* **
51718992 AAATATTTGCA
65 AAAGATTTGTG
* ** * ** * *
51719003 CCCAGCATTGGTCAGATAAACCAACGATATTAAATGTGTTCCCAACACTAGTCGGATTAACCGAC
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCAA-ACTAGTCGGATTAACCGAC
*
51719068 AAAGATTTATG
65 AAAGATTTGTG
*** * * *
51719079 CCCAACGCTAGTCAAATAAACTGACAATATTAAATATGTG
1 CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTG
51719119 TTATGTCCTA
Statistics
Matches: 279, Mismatches: 60, Indels: 8
0.80 0.17 0.02
Matches are distributed among these distances:
74 4 0.01
75 60 0.22
76 212 0.76
77 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (75 bp):
CCCAACGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCAAACTAGTCGGATTAACCGACA
AAGATTTGTG
Found at i:51718938 original size:36 final size:36
Alignment explanation
Indices: 51718812--51718951 Score: 113
Period size: 36 Copynumber: 3.8 Consensus size: 36
51718802 ATATTAAGTG
* *
51718812 TGTGCCCAGAACTAGTCGGATTAA-CGACAAAGATT
1 TGTGCCCAGTACTAGTCGGATAAACCGACAAAGATT
** * * * *
51718847 TACGCCAAGTGCTAGTTGGATAAACCGAC-AATATT
1 TGTGCCCAGTACTAGTCGGATAAACCGACAAAGATT
* * *
51718882 AAATGTTTGCCCAGCACTAGTCCGATTAACCGACAAAGATT
1 ---TG--TGCCCAGTACTAGTCGGATAAACCGACAAAGATT
*
51718923 TGTGCCCAGTGCTAGTCGGATAAACCGAC
1 TGTGCCCAGTACTAGTCGGATAAACCGAC
51718952 GATACTAAAT
Statistics
Matches: 77, Mismatches: 21, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
35 22 0.29
36 27 0.35
38 3 0.04
40 20 0.26
41 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (36 bp):
TGTGCCCAGTACTAGTCGGATAAACCGACAAAGATT
Found at i:51718981 original size:151 final size:152
Alignment explanation
Indices: 51718694--51719119 Score: 498
Period size: 151 Copynumber: 2.8 Consensus size: 152
51718684 GTAACCAAGT
* * * *
51718694 TTTACACCCAGCGCTAGTTGGATAAACCGACGATATTAAATGTGTGCCCATCACTAGACAGATTA
1 TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGTTTGCCCAACACTAGTCAGATTA
* * * * * *
51718759 ATCGACAAAGATTTGTGCCCAACGCTAGTTGGATAAACTGATGATATTAAGTGTGTGCCCAGAAC
66 ACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGTCCAGAAC
*
51718824 TAGTCGGATTAA-CGACAAAGA
131 TAGTCGGATTAACCGAAAAAGA
* * * * *
51718845 TTTACGCCAAGTGCTAGTTGGATAAACCGACAATATTAAATGTTTGCCCAGCACTAGTCCGATTA
1 TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGTTTGCCCAACACTAGTCAGATTA
** * *
51718910 ACCGACAAAGATTTGTGCCCAGTGCTAGTCGGATAAACCGACGATACTAAATATGTGTCCA-ACA
66 ACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGTCCAGA-A
* *
51718974 CTCGTCGGATTAACCGAAAAATA
130 CTAGTCGGATTAACCGAAAAAGA
* * ** * ** * *
51718997 TTTGCACCCAGCATTGGTCAGATAAACCAACGATATTAAATGTGTT-CCCAACACTAGTCGGATT
1 TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGT-TTGCCCAACACTAGTCAGATT
* ** *
51719061 AACCGACAAAGATTTATGCCCAACGCTAGTCAAATAAACTGACAATATTAAATATGTGT
65 AACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGT
51719120 TATGTCCTAC
Statistics
Matches: 230, Mismatches: 42, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
150 1 0.00
151 121 0.53
152 106 0.46
153 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (152 bp):
TTTACACCAAGCGCTAGTTGGATAAACCGACGATATTAAATGTTTGCCCAACACTAGTCAGATTA
ACCGACAAAGATTTGTGCCCAACGCTAGTCGGATAAACTGACGATATTAAATATGTGTCCAGAAC
TAGTCGGATTAACCGAAAAAGA
Found at i:51722388 original size:28 final size:28
Alignment explanation
Indices: 51722356--51722417 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
51722346 ATAAGAAGGA
* *
51722356 GACGATGGCTTCTGGTGGGGGAGGTGAT
1 GACGATGGCTTCTGGTGAGGGAAGTGAT
51722384 GACGATGGCTTCTGGTGAGGGAAGTGAT
1 GACGATGGCTTCTGGTGAGGGAAGTGAT
51722412 GACGAT
1 GACGAT
51722418 CTTGAGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.11, G:0.45, T:0.24
Consensus pattern (28 bp):
GACGATGGCTTCTGGTGAGGGAAGTGAT
Found at i:51733482 original size:19 final size:18
Alignment explanation
Indices: 51733458--51733500 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
51733448 TGGGCCTCAT
51733458 TGGGCCAAAATGGGCTGTG
1 TGGGCCAAAATGGGCT-TG
* *
51733477 TGGGCC-CAGTGGGCTTG
1 TGGGCCAAAATGGGCTTG
51733494 TGGGCCA
1 TGGGCCA
51733501 CACAGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.14, C:0.21, G:0.44, T:0.21
Consensus pattern (18 bp):
TGGGCCAAAATGGGCTTG
Found at i:51733881 original size:27 final size:27
Alignment explanation
Indices: 51733850--51734182 Score: 216
Period size: 27 Copynumber: 12.4 Consensus size: 27
51733840 CCCAATATTT
51733850 GTAAAATGACCATAATACCCCTATAGG
1 GTAAAATGACCATAATACCCCTATAGG
* * *
51733877 GT-AAATGACCAAAAAACTCGC-ATAGG
1 GTAAAATGACCATAATAC-CCCTATAGG
* * * * *
51733903 GTAAAATGACCGTAATGCCCATGTAAG
1 GTAAAATGACCATAATACCCCTATAGG
*
51733930 GTAAAAATGA-CAGTAATGCCCCTATAGG
1 GT-AAAATGACCA-TAATACCCCTATAGG
* * *
51733958 GTAAAATGACCA-AAAAGCCCCCATAAG
1 GTAAAATGACCATAATA-CCCCTATAGG
* *
51733985 GTAAAATGACCGTAATA-CCCTCGTAGG
1 GTAAAATGACCATAATACCCCT-ATAGG
* * * *
51734012 GTAAAATGACCGTAATGCCCCTGTAAG
1 GTAAAATGACCATAATACCCCTATAGG
* * *
51734039 GTAAAATAACCGTAATACCCCTGTAGG
1 GTAAAATGACCATAATACCCCTATAGG
*
51734066 GTAAAATGACCGA-AA-AACCCTCATAGG
1 GTAAAATGACC-ATAATACCCCT-ATAGG
* * * * *
51734093 GTAAAATGATCGTAATGCCCTTGTAGG
1 GTAAAATGACCATAATACCCCTATAGG
** * * **
51734120 GTAAAATGATTA-AAGTACCACTGTAAA
1 GTAAAATGACCATAA-TACCCCTATAGG
* *
51734147 GTAAAATGACCATAATGCCCCTAGAGG
1 GTAAAATGACCATAATACCCCTATAGG
51734174 GT-AAATGAC
1 GTAAAATGAC
51734183 TATTTTGCCC
Statistics
Matches: 236, Mismatches: 54, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
26 40 0.17
27 161 0.68
28 35 0.15
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCATAATACCCCTATAGG
Found at i:51734015 original size:54 final size:54
Alignment explanation
Indices: 51733899--51734128 Score: 239
Period size: 54 Copynumber: 4.2 Consensus size: 54
51733889 AAAACTCGCA
** * *** * * *
51733899 TAGGGTAAAATGACCGTAATGCCCATGTAAGGTAAAAATGACAGTAATGCCCCTA
1 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGT-AAAATGACCGTAATACCCCTG
51733954 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATA-CCCTCG
1 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCT-G
** * ** *
51734008 TAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATAACCGTAATACCCCTG
1 TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCTG
* * * * *
51734062 TAGGGTAAAATGACCGAAAAA-CCCTCATAGGGTAAAATGATCGTAATGCCCTTG
1 TAGGGTAAAATGACC-AAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCTG
51734116 TAGGGTAAAATGA
1 TAGGGTAAAATGA
51734129 TTAAAGTACC
Statistics
Matches: 146, Mismatches: 26, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
53 4 0.03
54 109 0.75
55 33 0.23
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (54 bp):
TAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGACCGTAATACCCCTG
Found at i:51734018 original size:81 final size:81
Alignment explanation
Indices: 51733850--51734128 Score: 300
Period size: 81 Copynumber: 3.5 Consensus size: 81
51733840 CCCAATATTT
* * *
51733850 GTAAAATGACCA-TAATACCCCTATAGGGT-AAATGACCAAAAAACTCGCATAGGGTAAAATGAC
1 GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGACC-AAAAACCCCCATAGGGTAAAATGAC
* *
51733913 CGTAATGCCCAT-GTAAG
65 CGTAATACCC-TCGTAGG
*
51733930 GTAAAAATGA-CAGTAATGCCCCTATAGGGTAAAATGACCAAAAAGCCCCCATAAGGTAAAATGA
1 GT-AAAATGACCAGTAATGCCCCTATAGGGTAAAATGACCAAAAA-CCCCCATAGGGTAAAATGA
51733994 CCGTAATACCCTCGTAGG
64 CCGTAATACCCTCGTAGG
* * * * * **
51734012 GTAAAATGACC-GTAATGCCCCTGTAAGGTAAAATAACCGTAATACCCCTGTAGGGTAAAATGAC
1 GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGACC-AAAAACCCCCATAGGGTAAAATGAC
* * *
51734076 CGAAAAACCCTCATAGG
65 CGTAATACCCTCGTAGG
* * *
51734093 GTAAAATGATC-GTAATGCCCTTGTAGGGTAAAATGA
1 GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGA
51734129 TTAAAGTACC
Statistics
Matches: 171, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
80 4 0.02
81 123 0.72
82 44 0.26
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (81 bp):
GTAAAATGACCAGTAATGCCCCTATAGGGTAAAATGACCAAAAACCCCCATAGGGTAAAATGACC
GTAATACCCTCGTAGG
Found at i:51734238 original size:24 final size:23
Alignment explanation
Indices: 51734211--51734296 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 23
51734201 TAAATAATTT
*
51734211 ATTTTTCCGTGATGTAAATGACTG
1 ATTTTTCTGTGAT-TAAATGACTG
51734235 ATTTCTT-TGTGATTTAAATGACTG
1 ATTT-TTCTGTGA-TTAAATGACTG
* *
51734259 ATTTGTCTGTGATTAGTATGACTG
1 ATTTTTCTGTGATTA-AATGACTG
* *
51734283 ATTTGTCTATGATT
1 ATTTTTCTGTGATT
51734297 TGTATGACTG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.07
24 47 0.87
25 3 0.06
ACGTcount: A:0.23, C:0.09, G:0.20, T:0.48
Consensus pattern (23 bp):
ATTTTTCTGTGATTAAATGACTG
Found at i:51734301 original size:24 final size:24
Alignment explanation
Indices: 51734228--51734309 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
51734218 CGTGATGTAA
* * **
51734228 ATGACTGATTTCTTTGTGATTTAA
1 ATGACTGATTTGTCTGTGATTTGT
*
51734252 ATGACTGATTTGTCTGTGATTAGT
1 ATGACTGATTTGTCTGTGATTTGT
*
51734276 ATGACTGATTTGTCTATGATTTGT
1 ATGACTGATTTGTCTGTGATTTGT
51734300 ATGACTGATT
1 ATGACTGATT
51734310 CTGAGTATGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.48
Consensus pattern (24 bp):
ATGACTGATTTGTCTGTGATTTGT
Found at i:51734491 original size:32 final size:32
Alignment explanation
Indices: 51734450--51734542 Score: 132
Period size: 32 Copynumber: 2.9 Consensus size: 32
51734440 GTTACAATGC
51734450 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
* * *
51734482 TACTGATGGCTGTGTGCCGATCATATCACTAT
1 TACTGATGGCTTTGTGCCGATCATATTACCAT
** *
51734514 TGTTGATGGCTTTGTGCCAATCATATTAC
1 TACTGATGGCTTTGTGCCGATCATATTAC
51734543 TGTACTTATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCAT
Found at i:51734573 original size:22 final size:21
Alignment explanation
Indices: 51734548--51734621 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
51734538 ATTACTGTAC
51734548 TTATGGCTTGTAGTCATTCTGT
1 TTATGGCTT-TAGTCATTCTGT
* * *
51734570 TTATAGCTTATAGTTATCCTGT
1 TTATGGCTT-TAGTCATTCTGT
* * *
51734592 TTACGGCTCTTAGCCATTCTGG
1 TTATGGCT-TTAGTCATTCTGT
51734614 TTACTGGC
1 TTA-TGGC
51734622 AGCTTTGCTG
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.16, C:0.19, G:0.20, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGTCATTCTGT
Found at i:51737992 original size:19 final size:17
Alignment explanation
Indices: 51737970--51738012 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
51737960 AATTTATTTT
51737970 AAAAATAAAAAAATTTTAA
1 AAAAATAAAAAAA--TTAA
*
51737989 AAAAATTAAAAAATTAA
1 AAAAATAAAAAAATTAA
51738006 AAAAATA
1 AAAAATA
51738013 TATATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATAAAAAAATTAA
Found at i:51737999 original size:17 final size:17
Alignment explanation
Indices: 51737965--51738012 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
51737955 CTAAAAATTT
51737965 ATTTTAAAAATAA-AAAA
1 ATTTTAAAAA-AATAAAA
51737982 ATTTTAAAAAAATTAAAA
1 ATTTTAAAAAAA-TAAAA
*
51738000 A-ATTAAAAAAATA
1 ATTTTAAAAAAATA
51738013 TATATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.14
17 19 0.68
18 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTTTAAAAAAATAAAA
Found at i:51738358 original size:28 final size:30
Alignment explanation
Indices: 51738301--51738367 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
51738291 TTTTTTATTG
51738301 AAATAATAT-GAAAAACAATTAATTACCT-
1 AAATAATATAGAAAAACAATTAATTACCTA
* *
51738329 AAATAATATAGAATGAA-AATTATTTA-CTA
1 AAATAATATAGAA-AAACAATTAATTACCTA
51738358 AAATAATATA
1 AAATAATATA
51738368 TTTACATAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 11 0.32
29 21 0.62
30 2 0.06
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.31
Consensus pattern (30 bp):
AAATAATATAGAAAAACAATTAATTACCTA
Found at i:51738570 original size:21 final size:22
Alignment explanation
Indices: 51738541--51738588 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
51738531 TCAAGCCTAG
*
51738541 AAAGTATTTGAAGAACTAAGGC
1 AAAGTATTTGAAGAACAAAGGC
51738563 AAAG-ATTTGAAGAACAAAGGC
1 AAAGTATTTGAAGAACAAAGGC
*
51738584 TAAGT
1 AAAGT
51738589 TTTTATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (22 bp):
AAAGTATTTGAAGAACAAAGGC
Found at i:51741217 original size:20 final size:21
Alignment explanation
Indices: 51741187--51741236 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
51741177 TAAAAATTAA
* *
51741187 AAAAAATATGTATATAGATAT
1 AAAATATATGTATACAGATAT
*
51741208 -AAATATATGTATACAGTTAT
1 AAAATATATGTATACAGATAT
51741228 AAAATATAT
1 AAAATATAT
51741237 AAAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATATATGTATACAGATAT
Found at i:51741587 original size:3 final size:3
Alignment explanation
Indices: 51741579--51741604 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51741569 AAACAAAAAT
51741579 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
51741605 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:51741609 original size:3 final size:3
Alignment explanation
Indices: 51741603--51741651 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
51741593 GATGATGATG
51741603 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51741650 AT
1 AT
51741652 CATCATCATC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:51743266 original size:85 final size:85
Alignment explanation
Indices: 51743169--51743325 Score: 196
Period size: 85 Copynumber: 1.8 Consensus size: 85
51743159 GTGGTTTTAG
51743169 TCTGCTCCACTGCAAC-GTCA-AGGAGATAAGA-CTTATATTTTTAA-CCTGCTCCACTGCAACT
1 TCTGCTCCACTGCAACTG-CAGA-GAGATAAGATC-TATATTTTTAATCC-GCTCCACTGCAACT
*
51743230 TCAGGGAGATAAGGTTGGATGCGA
62 TCAGAGAGATAAGGTTGGATGCGA
* * * * *
51743254 TCTGCTCTACTGCCACTGCAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCATTGCAACTTCAG
1 TCTGCTCCACTGCAACTGCAGAGAGATAAGATCTATATTTTTAATCCGCTCCACTGCAACTTCAG
51743319 AGAGATA
66 AGAGATA
51743326 GGATTAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
85 57 0.92
86 5 0.08
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTGCAGAGAGATAAGATCTATATTTTTAATCCGCTCCACTGCAACTTCAG
AGAGATAAGGTTGGATGCGA
Found at i:51743393 original size:43 final size:43
Alignment explanation
Indices: 51743346--51743587 Score: 238
Period size: 43 Copynumber: 5.6 Consensus size: 43
51743336 CTTCTGTCTG
*
51743346 CTCCACTACTACTTAGGGAGATAAGGCTGGTGCTTTCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGTGCTTTCGATCTA
* * ** *
51743389 CTCCACTACTGCTTAGGGAGATAAGATCT-ATAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGAGATAAG-GCTGGTGCT-TTCGATCTA
* * * * * *
51743433 CTCCGCTGCTGCTCAGGGAGATAAGGTTGGTGCTTTCAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGTGCTTTCGATCTA
* * * *
51743476 CTCCACTACTGCTTAGGGAGATAA-GAT-CTACAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGTGC--T-TTCGATCTA
* * * *
51743520 CTCCGCTGCTGCTCAGGGAGATAAGGCTGGTGCTTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGGCTGGTGCTTTCGATCTA
51743563 CTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAG
51743588 ATCTGCAATC
Statistics
Matches: 154, Mismatches: 37, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 84 0.55
44 62 0.40
45 2 0.01
46 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGGAGATAAGGCTGGTGCTTTCGATCTA
Found at i:51743426 original size:87 final size:87
Alignment explanation
Indices: 51743360--51743812 Score: 481
Period size: 87 Copynumber: 5.2 Consensus size: 87
51743350 ACTACTACTT
* *
51743360 AGGGAGATAAGGCTGGTGCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATCT
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
51743425 TCGACCTACTCCGCTGCTGCTC
66 TCGACCTACTCCGCTGCTGCTC
* *
51743447 AGGGAGATAAGGTTGGTGCTTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
51743512 TCGACCTACTCCGCTGCTGCTC
66 TCGACCTACTCCGCTGCTGCTC
*
51743534 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT
1 AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* *
51743599 TCAACCTATTCCGCTGCTGCTC
66 TCGACCTACTCCGCTGCTGCTC
* ** * ** *
51743621 A-GGAG-TATGGACTGGTGGC-TTAAATTTGCTTCCTACTACT--TTAGAAAGATAAGAT-TCGC
1 AGGGAGATAAGG-CTGGT-GCTTTCGATCTGC-TCC-ACTACTGCTTAGGGAGATAAGATCT-AC
** ** * * * *
51743680 CGTCTTCGGTCTGCTCCACTACTGCTT
61 AATCTTCGACCTACTCCGCTGCTGCTC
* * ** * *
51743707 AGAGAGATAAGATCT--ACCATCTTCGATCCGCTCCGCTACTGCTTAGGGAGATAAGATCTACAA
1 AGGGAGATAAG-GCTGGTGC-T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * *
51743770 TCTTCAACCTACTCCACTACTGCTT
63 TCTTCGACCTACTCCGCTGCTGCTC
*
51743795 AGGGAGATAAGGTTGGTG
1 AGGGAGATAAGGCTGGTG
51743813 GCTTAGATTT
Statistics
Matches: 301, Mismatches: 49, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
85 6 0.02
86 54 0.18
87 178 0.59
88 62 0.21
89 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
AGGGAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
TCGACCTACTCCGCTGCTGCTC
Found at i:51743445 original size:44 final size:44
Alignment explanation
Indices: 51743346--51743805 Score: 237
Period size: 44 Copynumber: 10.6 Consensus size: 44
51743336 CTTCTGTCTG
* * ** *
51743346 CTCCACTACTACTTAGGGAGATAAG-GCTGGTGCT-TTCGATCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCGACCTA
*
51743389 CTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTA
* * * * ** * * *
51743433 CTCCGCTGCTGCTCAGGGAGATAAGGT-TGGTGCT-TTCAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCGACCTA
**
51743476 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTA
* * * * ** * *
51743520 CTCCGCTGCTGCTCAGGGAGATAAG-GCTGGTGCT-TTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCGACCTA
* *
51743563 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTA
* * * * * ** ** ** *
51743607 TTCCGCTGCTGCTCA-GGAG-TATGGA-CTGGT-GGCTTAAATTTG
1 CTCCACTACTGCTTAGGGAGATA-AGATCT-GTAATCTTCGACCTA
** *** ** *
51743649 CTTCCTACTACT--TTAGAAAGATAAGAT-TCGCCGTCTTCGGTCTG
1 C-TCC-ACTACTGCTTAGGGAGATAAGATCT-GTAATCTTCGACCTA
* *** *
51743693 CTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTCGATCC-G
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGA-CCTA
* ** *
51743737 CTCCGCTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTA
51743781 CTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAG
51743806 GTTGGTGGCT
Statistics
Matches: 312, Mismatches: 84, Indels: 41
0.71 0.19 0.09
Matches are distributed among these distances:
42 18 0.06
43 111 0.36
44 181 0.58
45 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCGACCTA
Found at i:51743555 original size:174 final size:175
Alignment explanation
Indices: 51743363--51743993 Score: 589
Period size: 174 Copynumber: 3.5 Consensus size: 175
51743353 ACTACTTAGG
* * *
51743363 GAGATAAGGCTGGTGCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCG
1 GAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* *
51743428 ACCTACTCCGCTGCTGCTCAGGGAGATAAGG-TTGGTGCTTTCAATCTGCTCCACTACTGCTTAG
66 ACCTACTCCGCTACTGCTCAGGGAGATAAGGATTGGTGCTTTCAATTTGCTCCACTACTGCTTAG
* * *
51743492 GGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTGCTCAGG
131 GGAGATAAGATCTGCAATCTTCGACCTACTCCACTGCTGCTCAGA
*
51743537 GAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
1 GAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * *
51743602 ACCTATTCCGCTGCTGCTCA-GGAG-TATGGACTGGTGGC-TTAAATTTGCTTCCTACTACT--T
66 ACCTACTCCGCTACTGCTCAGGGAGATAAGGATTGGT-GCTTTCAATTTGC-TCC-ACTACTGCT
** ** ** * * *
51743662 TAGAAAGATAAGAT-TCGCCGTCTTCGGTCTGCTCCACTACTGCTTAGA
128 TAGGGAGATAAGATCT-GCAATCTTCGACCTACTCCACTGCTGCTCAGA
* ** * *
51743710 GAGATAAGATCT--ACCATCTTCGATCCGCTCCGCTACTGCTTAGGGAGATAAGATCTACAATCT
1 GAGATAAG-GCTGGTGC-T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* * * *
51743773 TCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTGGTGGCTTAGATTTGCTGTCTTCGATTTG
63 TCAACCTACTCCGCTACTGCTCAGGGAGATAAGGAT--T-G----G---TGC--T-TTCAATTTG
*
51743838 CTCCGCTACTGCTTAGGGAGATAAGATCTGCAATCTTCGACCTACTCCACTGCTGCTCAGA
115 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCGACCTACTCCACTGCTGCTCAGA
* ** * * * ** *
51743899 GAGAT-AGGATTCATGGTTTTGATATGCTCTGCTACTGCTTAGGGAGATAAGATCTACCATCTTC
1 GAGATAAGG-CTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * * *
51743963 GATCTGCTCCGCTACTGCTTAGGGAGATAAG
65 AACCTACTCCGCTACTGCTCAGGGAGATAAG
51743994 ATCTACAATC
Statistics
Matches: 367, Mismatches: 60, Indels: 46
0.78 0.13 0.10
Matches are distributed among these distances:
172 6 0.02
173 60 0.16
174 148 0.40
175 10 0.03
176 4 0.01
178 1 0.00
179 1 0.00
183 1 0.00
185 2 0.01
186 1 0.00
187 5 0.01
188 75 0.20
189 52 0.14
190 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (175 bp):
GAGATAAGGCTGGTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
ACCTACTCCGCTACTGCTCAGGGAGATAAGGATTGGTGCTTTCAATTTGCTCCACTACTGCTTAG
GGAGATAAGATCTGCAATCTTCGACCTACTCCACTGCTGCTCAGA
Found at i:51743894 original size:44 final size:44
Alignment explanation
Indices: 51743838--51744037 Score: 190
Period size: 44 Copynumber: 4.6 Consensus size: 44
51743828 CTTCGATTTG
* *
51743838 CTCCGCTACTGCTTAGGGAGATAAGATCTGCAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTA
* * * * * * ** *
51743882 CTCCACTGCTGCTCAGAGAGATAGGAT-T-C-ATGGTTTTGATATG
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAAT--CTTCGACCTA
** * * *
51743925 CTCTGCTACTGCTTAGGGAGATAAGATCTACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTA
* *
51743969 CTCCGCTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTA
*
51744013 CTCTACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAG
51744038 GCTGGTGGCT
Statistics
Matches: 125, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 27 0.22
44 92 0.74
45 1 0.01
46 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTA
Found at i:51744104 original size:232 final size:233
Alignment explanation
Indices: 51743698--51744139 Score: 753
Period size: 232 Copynumber: 1.9 Consensus size: 233
51743688 GTCTGCTCCA
51743698 CTACTGCTTAGAGAGATAAGATCTACCATCTTCGATCCGCTCCGCTACTGCTTAGGGAGATAAGA
1 CTACTGCTTAGAGAGATAAGATCTACCATCTTCGATCCGCTCCGCTACTGCTTAGGGAGATAAGA
*
51743763 TCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGTTGGTGGCTTAGATTTGCTGT
66 TCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTGGTGGCTTAGATTTGCTGT
* * * *
51743828 CTTCGATTTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCAATCTTCGACCTACTCCACTGCTG
131 CTTCGATCTGCTCCGCTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACATACTCCACTGCTG
51743893 C-TCAGAGAG-ATAGGATTCATGGTTTTGATATGCTCTG
196 CTTCAG-GAGTATAGGATTCATGGTTTTGATATGCTCTG
* *
51743930 CTACTGCTTAGGGAGATAAGATCTACCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGA
1 CTACTGCTTAGAGAGATAAGATCTACCATCTTCGATCCGCTCCGCTACTGCTTAGGGAGATAAGA
* *
51743995 TCTACAATCTTCAACCTACTCTACTACTGCTTAGGGAGATAAGGCTGGTGGCTTCGATTTGCTGT
66 TCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTGGTGGCTTAGATTTGCTGT
* * *
51744060 CTTCGATCTGTTCCGCTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACATATTCCACTTCTG
131 CTTCGATCTGCTCCGCTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACATACTCCACTGCTG
51744125 CTTCAGGAGTATAGG
196 CTTCAGGAGTATAGG
51744140 TAACTTCATT
Statistics
Matches: 196, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
232 187 0.95
233 9 0.05
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (233 bp):
CTACTGCTTAGAGAGATAAGATCTACCATCTTCGATCCGCTCCGCTACTGCTTAGGGAGATAAGA
TCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGGCTGGTGGCTTAGATTTGCTGT
CTTCGATCTGCTCCGCTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACATACTCCACTGCTG
CTTCAGGAGTATAGGATTCATGGTTTTGATATGCTCTG
Found at i:51744457 original size:24 final size:24
Alignment explanation
Indices: 51744421--51744500 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
51744411 AGATTGCCCC
*
51744421 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTACTCTTCAAAGTTCAAT
** *
51744445 CTGCTGTACTCTTCAAGGTTCAAT
1 CCACTGTACTCTTCAAAGTTCAAT
* * *
51744469 CCACTGTACTCTTCAAGGTTTAGT
1 CCACTGTACTCTTCAAAGTTCAAT
51744493 CCACTGTA
1 CCACTGTA
51744501 ATAAAATTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (24 bp):
CCACTGTACTCTTCAAAGTTCAAT
Found at i:51745360 original size:13 final size:13
Alignment explanation
Indices: 51745342--51745393 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 13
51745332 TCCTTTTTAT
51745342 TTTTCTTCTTTTC
1 TTTTCTTCTTTTC
51745355 TTTTCTTCTTTTC
1 TTTTCTTCTTTTC
51745368 TTCTT-TTCTTTTTTC
1 TT-TTCTTC--TTTTC
51745383 TTTTCTTCTTT
1 TTTTCTTCTTT
51745394 ATTGTTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 21 0.60
14 4 0.11
15 10 0.29
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTCTTTTC
Found at i:51745393 original size:8 final size:8
Alignment explanation
Indices: 51745352--51745384 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
51745342 TTTTCTTCTT
51745352 TTCTTTTC
1 TTCTTTTC
51745360 TTCTTTTC
1 TTCTTTTC
51745368 TTCTTTTC
1 TTCTTTTC
51745376 TT-TTTTC
1 TTCTTTTC
51745383 TT
1 TT
51745385 TTCTTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTCTTTTC
Found at i:51750313 original size:20 final size:21
Alignment explanation
Indices: 51750283--51750332 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
51750273 AAAATTAAAA
* *
51750283 AAAAAATATGTATATAGATAT
1 AAAATATATGTATACAGATAT
*
51750304 -AAATATATGTATACAGTTAT
1 AAAATATATGTATACAGATAT
51750324 AAAATATAT
1 AAAATATAT
51750333 AAAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAATATATGTATACAGATAT
Found at i:51750737 original size:3 final size:3
Alignment explanation
Indices: 51750731--51750774 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
51750721 AAATATGATG
* *
51750731 ATA ATA ACA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
51750775 CATCAATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:51760550 original size:21 final size:21
Alignment explanation
Indices: 51760524--51760565 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
51760514 ATCCAACATG
51760524 GCTAGTTAATTGGCCACGTCA
1 GCTAGTTAATTGGCCACGTCA
51760545 GCTAGTTAATTGGCCACGTCA
1 GCTAGTTAATTGGCCACGTCA
51760566 CCTGTCCCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
GCTAGTTAATTGGCCACGTCA
Found at i:51761730 original size:30 final size:31
Alignment explanation
Indices: 51761691--51761750 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
51761681 GGAGGTGGGA
*
51761691 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
51761722 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
51761751 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:51761978 original size:9 final size:9
Alignment explanation
Indices: 51761964--51762000 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
51761954 TATAGTTTGA
51761964 TATTCGAAT
1 TATTCGAAT
51761973 TATTCGAAT
1 TATTCGAAT
*
51761982 TATTCGAGT
1 TATTCGAAT
51761991 TATTCGAAT
1 TATTCGAAT
51762000 T
1 T
51762001 CAAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:51762341 original size:3 final size:3
Alignment explanation
Indices: 51762333--51762361 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
51762323 TCACAAAAAT
51762333 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
51762362 TATTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:51764282 original size:19 final size:20
Alignment explanation
Indices: 51764248--51764288 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
51764238 GATTAAAATT
*
51764248 AAAAAATAAATATTTTTTTA
1 AAAAAATAAATATTTTATTA
*
51764268 AAAAAATTAAT-TTTTATTA
1 AAAAAATAAATATTTTATTA
51764287 AA
1 AA
51764289 TGGAAGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAAATAAATATTTTATTA
Found at i:51782870 original size:6 final size:6
Alignment explanation
Indices: 51782859--51782887 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51782849 GACAAAATAA
51782859 ATATTT ATATTT ATATTT ATATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATT
51782888 AGATTATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:51791397 original size:50 final size:50
Alignment explanation
Indices: 51791322--51791452 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 50
51791312 GAGTAAACTT
* * *
51791322 AGTTCGGCAGCCTTTCAGATCTATTTTGACTGATGTGTTCAAATCTGTTC
1 AGTTCAGCAGCCTTTCAGATCTATTTTGACTGATGTGCTCAAATCTGCTC
** *
51791372 AGTTCAGCAGCCTTTTGGATCTATTTTGACTGATGTGCTCAACTCTGCTC
1 AGTTCAGCAGCCTTTCAGATCTATTTTGACTGATGTGCTCAAATCTGCTC
* *
51791422 AGTTCAGCAGTCTTTCAGATCTATTCTGACT
1 AGTTCAGCAGCCTTTCAGATCTATTTTGACT
51791453 AGAGCGCTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (50 bp):
AGTTCAGCAGCCTTTCAGATCTATTTTGACTGATGTGCTCAAATCTGCTC
Found at i:51791657 original size:21 final size:23
Alignment explanation
Indices: 51791610--51791658 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
51791600 GAGAAAACTA
*
51791610 AAGTGAGTGAGAGAGGAATGTTG
1 AAGTGAGTGAGAGAGGAATGTAG
*
51791633 -AGTGA-TGAGAGATGAATG-AG
1 AAGTGAGTGAGAGAGGAATGTAG
51791653 AAGTGA
1 AAGTGA
51791659 AAGATGGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (23 bp):
AAGTGAGTGAGAGAGGAATGTAG
Found at i:51792211 original size:21 final size:20
Alignment explanation
Indices: 51792156--51792211 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
51792146 ATATATACAT
*
51792156 TAATA-AATTAA-CATGAAT
1 TAATATAATTAAGCATGAAA
* *
51792174 TAATATAAAATATGCATGAAAA
1 TAATAT-AATTAAGCATG-AAA
51792196 TAATATAATTAAGCAT
1 TAATATAATTAAGCAT
51792212 AATTTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.17
20 4 0.14
21 12 0.41
22 8 0.28
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
TAATATAATTAAGCATGAAA
Found at i:51794831 original size:22 final size:22
Alignment explanation
Indices: 51794801--51794842 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
51794791 ACACCAAAAC
* *
51794801 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGACGCTTTTTT
51794823 AGGCCTTTAGCGACGCTTTT
1 AGGCCTTTAGCGACGCTTTT
51794843 CAAAGCGCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCGACGCTTTTTT
Found at i:51795145 original size:86 final size:87
Alignment explanation
Indices: 51795055--51795256 Score: 280
Period size: 86 Copynumber: 2.3 Consensus size: 87
51795045 TAGATCAGGG
*** * * * *
51795055 TCTTTAGCGGCGTTTTTTTCTCAAATGCCACAATAGACCCTGATCTATAGCGGCGCTTTGACCAC
1 TCTTTAGCGGCGTTTTCCCCTAAAACGCCACAATAGACCCTGATCTATAACGGCGCTTCGACCAC
*
51795120 -AAACACCACTAAAGAACTTAA
66 AAAACACCACTAAAGAACCTAA
* *
51795141 TCTTTAGCAGCGTTTTCCCCTAAAACGCCGCAATAGACCCTGATCTATAACGGCGCTTCGACCAC
1 TCTTTAGCGGCGTTTTCCCCTAAAACGCCACAATAGACCCTGATCTATAACGGCGCTTCGACCAC
*
51795206 AAAACGCCACTAAAGAACCTAA
66 AAAACACCACTAAAGAACCTAA
* *
51795228 TCTTTAGCGGCGCTTTCCCCAAAAACGCC
1 TCTTTAGCGGCGTTTTCCCCTAAAACGCC
51795257 GCTAAAGACC
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 56 0.55
87 45 0.45
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (87 bp):
TCTTTAGCGGCGTTTTCCCCTAAAACGCCACAATAGACCCTGATCTATAACGGCGCTTCGACCAC
AAAACACCACTAAAGAACCTAA
Found at i:51795262 original size:43 final size:43
Alignment explanation
Indices: 51795097--51795349 Score: 226
Period size: 43 Copynumber: 5.9 Consensus size: 43
51795087 ATAGACCCTG
* * * * *
51795097 ATCTATAGCGGCGCTTTGACCACAAACACCACTAAAGAACTTA
1 ATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGAACCTA
* * * * * * *
51795140 ATCTTTAGCAGCGTTTTCCCCTAAAACGCCGC-AATAGACCCTG
1 ATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAA-AGAACCTA
* *
51795183 ATCTATAACGGCGC-TTCGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTC-ACCA-AAAACGCCACTAAAGAACCTA
* *
51795227 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAG-ACCATA
1 ATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGAACC-TA
* ** * * *
51795270 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAA-AACCCTT
1 ATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGAA-CCTA
*
51795313 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
1 ATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAG
51795350 GCCAACACCT
Statistics
Matches: 166, Mismatches: 35, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
42 8 0.05
43 121 0.73
44 32 0.19
45 5 0.03
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (43 bp):
ATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGAACCTA
Found at i:51795272 original size:130 final size:129
Alignment explanation
Indices: 51795097--51795349 Score: 305
Period size: 130 Copynumber: 2.0 Consensus size: 129
51795087 ATAGACCCTG
* * *
51795097 ATCTATAGCGGCGCTTTGACCACAAACACCACTAAAGAACTTAATCTTTAGCAGCG-TTTTCCC-
1 ATCTATAGCGGCGCTTTCACCAAAAACACCACTAAAGAACATAATCTTTAGCAGCGCTTTTCCCA
*
51795160 CTAAAACGCCGC-AATAGACCCTGATCTATAACGGCGCTTCGACCACAAAACGCCACTAAAGAAC
66 C--AAACGCCGCTAA-AAACCCTGATCTATAACGGCGCTTCGACCA-AAAACGCCACTAAAGAAC
51795224 CTA
127 CTA
* * * * * ** *
51795227 ATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATAATCTTTAGTGGCGCTTTTTCCA
1 ATCTATAGCGGCGCTTTCACCAAAAACACCACTAAAGAACATAATCTTTAGCAGCGCTTTTCCCA
* * * *
51795292 CAAACGCCGCTAAAAACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
66 CAAACGCCGCTAAAAACCCTGATCTATAACGGCGCTTCGACCAAAAACGCCACTAAAG
51795350 GCCAACACCT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
129 15 0.14
130 80 0.77
131 8 0.08
132 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (129 bp):
ATCTATAGCGGCGCTTTCACCAAAAACACCACTAAAGAACATAATCTTTAGCAGCGCTTTTCCCA
CAAACGCCGCTAAAAACCCTGATCTATAACGGCGCTTCGACCAAAAACGCCACTAAAGAACCTA
Found at i:51795336 original size:86 final size:87
Alignment explanation
Indices: 51795202--51795393 Score: 237
Period size: 86 Copynumber: 2.2 Consensus size: 87
51795192 GGCGCTTCGA
* *
51795202 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGACC
*
51795267 ATA-ATCTTTAGTGGCGCTTTTT
66 A-ACACCTTTAGTGGCGCTTTTT
* * * *
51795289 CCAC-AAACGCCGCTAAA-AACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGC
1 CCACAAAACGCCACTAAAGAA-CCTAATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGAC
*
51795352 CAACACCTTTAGTGGCGTTTTTT
65 CAACACCTTTAGTGGCGCTTTTT
** *
51795375 AAAAAAAAACGCCACTAAA
1 -CCACAAAACGCCACTAAA
51795394 TTTGGCAGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
85 3 0.03
86 69 0.78
87 5 0.06
88 12 0.13
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (87 bp):
CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGCCACTAAAGACC
AACACCTTTAGTGGCGCTTTTT
Found at i:51795721 original size:21 final size:21
Alignment explanation
Indices: 51795695--51795828 Score: 128
Period size: 21 Copynumber: 6.4 Consensus size: 21
51795685 TTTGACGCTG
*
51795695 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
**
51795716 CTCTGCTT-TCCTCGCTTTAGC
1 CTCTGCTTCT-CTCGCTGCAGC
51795737 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCAGC
* * * * *
51795758 TTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCTCTCGCTGCAGC
*
51795779 CTCTGCTTCTCTTGCTGCCA-C
1 CTCTGCTTCTCTCGCTG-CAGC
* *
51795800 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCTCTCGCTGCAGC
*
51795821 ATCTGCTT
1 CTCTGCTT
51795829 TAAGCTGCTG
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
20 1 0.01
21 89 0.97
22 2 0.02
ACGTcount: A:0.05, C:0.40, G:0.17, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCAGC
Found at i:51795874 original size:66 final size:66
Alignment explanation
Indices: 51795798--51795945 Score: 201
Period size: 66 Copynumber: 2.2 Consensus size: 66
51795788 TCTTGCTGCC
* *
51795798 ACCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCAT
1 ACCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-AT
51795861 TGA
64 TGA
* * * *
51795864 ACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTG
1 ACCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTG
51795929 A
66 A
*
51795930 ACATCAGCTTCTCTCG
1 ACCTCAGCTTCTCTCG
51795946 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
ACCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTG
A
Found at i:51795961 original size:66 final size:66
Alignment explanation
Indices: 51795804--51795968 Score: 190
Period size: 66 Copynumber: 2.5 Consensus size: 66
51795794 TGCCACCTCT
* * * * * *
51795804 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCATTGAACCT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCATTGAACAT
51795868 CA
65 CA
* * * *
51795870 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACAT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCATTGAACAT
51795934 CA
65 CA
* *
51795936 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
51795969 GTAATTTGCT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCATTGAACATC
A
Found at i:51801398 original size:16 final size:16
Alignment explanation
Indices: 51801377--51801412 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
51801367 ATAATTAAGC
51801377 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
51801393 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
51801409 TATG
1 TATG
51801413 AAATATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:51801639 original size:23 final size:23
Alignment explanation
Indices: 51801613--51801665 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
51801603 TAATTAAGTT
51801613 ATGTAATTTATGTAATAATATTA
1 ATGTAATTTATGTAATAATATTA
* *
51801636 ATGTAAGTTATGTTATAATATTA
1 ATGTAATTTATGTAATAATATTA
51801659 AT-TAATT
1 ATGTAATT
51801666 AAGTTATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATGTAATTTATGTAATAATATTA
Found at i:51801654 original size:58 final size:58
Alignment explanation
Indices: 51801570--51801685 Score: 184
Period size: 58 Copynumber: 2.0 Consensus size: 58
51801560 TAATATATTT
51801570 ATAACTATTAAGATAAGTTAGTATAATATTAATTAATTAAGTTATGTAATTT-ATGTA
1 ATAACTATTAAGATAAGTTAGTATAATATTAATTAATTAAGTTATGTAATTTAATGTA
51801627 ATAA-TATTAATG-TAAGTTATGTTATAATATTAATTAATTAAGTTATGTAATTTAATGTA
1 ATAACTATTAA-GATAAGTTA-G-TATAATATTAATTAATTAAGTTATGTAATTTAATGTA
51801686 TATATCACAT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
56 13 0.24
57 6 0.11
58 31 0.56
59 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (58 bp):
ATAACTATTAAGATAAGTTAGTATAATATTAATTAATTAAGTTATGTAATTTAATGTA
Found at i:51801677 original size:23 final size:24
Alignment explanation
Indices: 51801605--51801682 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 24
51801595 ATATTAATTA
*
51801605 ATTAAGTT-ATGTAATTTATGTAAT
1 ATTAA-TTAATGTAAGTTATGTAAT
*
51801629 AAT-ATTAATGTAAGTTATGTTATAAT
1 ATTAATTAATGTAAGTTATG---TAAT
51801655 ATTAATTAAT-TAAGTTATGTAAT
1 ATTAATTAATGTAAGTTATGTAAT
51801678 -TTAAT
1 ATTAAT
51801683 GTATATATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
22 7 0.15
23 16 0.35
24 2 0.04
26 15 0.33
27 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (24 bp):
ATTAATTAATGTAAGTTATGTAAT
Found at i:51801773 original size:13 final size:13
Alignment explanation
Indices: 51801755--51801791 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
51801745 ATATAAGTTT
51801755 ATGTAAGTTATGA
1 ATGTAAGTTATGA
*
51801768 ATGTAAGTTATGT
1 ATGTAAGTTATGA
51801781 ATGTAAGTTAT
1 ATGTAAGTTAT
51801792 TTAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (13 bp):
ATGTAAGTTATGA
Found at i:51804474 original size:39 final size:38
Alignment explanation
Indices: 51804351--51804478 Score: 168
Period size: 38 Copynumber: 3.3 Consensus size: 38
51804341 GAACTAAGAT
51804351 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-T-TTAATTCCGGGTTAAGTC
* *
51804391 CCGAAGGCCTTTGTGCGAGATCTAATTCC-GGTTAAGTC
1 CCGAAGGCATTTGTGCGAG-TTTAATTCCGGGTTAAGTC
* * *
51804429 CCGAAGGCATTCGTGCGAGTTTAAAATCCGGGTTAAGTT
1 CCGAAGGCATTTGTGCGAGTTT-AATTCCGGGTTAAGTC
51804468 CCGAAGGCATT
1 CCGAAGGCATT
51804479 GTATGAGTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
37 2 0.03
38 31 0.40
39 26 0.33
40 19 0.24
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGTTTAATTCCGGGTTAAGTC
Found at i:51812342 original size:39 final size:42
Alignment explanation
Indices: 51812261--51812343 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
51812251 GGACTATAGA
51812261 TCCGAAGGCATTTTGTGCGAGATTACTTAATTCCGGGTTAAG
1 TCCGAAGGCATTTTGTGCGAGATTACTTAATTCCGGGTTAAG
*
51812303 TCCGAAGGCCTTTTGTGCGAGA-T-C-TAATTCCGGGTTAAG
1 TCCGAAGGCATTTTGTGCGAGATTACTTAATTCCGGGTTAAG
51812342 TC
1 TC
51812344 ACCGGGAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 17 0.43
40 1 0.03
41 1 0.03
42 21 0.52
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (42 bp):
TCCGAAGGCATTTTGTGCGAGATTACTTAATTCCGGGTTAAG
Found at i:51816730 original size:16 final size:16
Alignment explanation
Indices: 51816705--51816735 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51816695 AATATAAACT
51816705 ATATACTAAATTTCAA
1 ATATACTAAATTTCAA
*
51816721 ATATATTAAATTTCA
1 ATATACTAAATTTCA
51816736 TCTAACAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATACTAAATTTCAA
Found at i:51820015 original size:16 final size:17
Alignment explanation
Indices: 51819994--51820027 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51819984 TAATTAAAAA
51819994 TTTTAAAAAAAT-CAAT
1 TTTTAAAAAAATACAAT
*
51820010 TTTTAAAATAATACAAT
1 TTTTAAAAAAATACAAT
51820027 T
1 T
51820028 GTGTTACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTTAAAAAAATACAAT
Found at i:51820520 original size:3 final size:3
Alignment explanation
Indices: 51820514--51820571 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
51820504 CTACTACTAC
51820514 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51820562 TAT TAT TAT T
1 TAT TAT TAT T
51820572 GACCCACATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:51838912 original size:23 final size:23
Alignment explanation
Indices: 51838847--51838959 Score: 97
Period size: 23 Copynumber: 5.0 Consensus size: 23
51838837 ATACCAGATA
51838847 CGCCACAAAGGTTA-ACAGAATG
1 CGCCACAAAGGTTATACAGAATG
* * * * * *
51838869 -TCAAGAAA-GCTACACAAAATG
1 CGCCACAAAGGTTATACAGAATG
* *
51838890 TGCCACAAAGGCTATACAGAATG
1 CGCCACAAAGGTTATACAGAATG
* *
51838913 CGCCATAAAGGTTATACAGAGTG
1 CGCCACAAAGGTTATACAGAATG
* *
51838936 CACCACAAAAGTTATACAGAATG
1 CGCCACAAAGGTTATACAGAATG
51838959 C
1 C
51838960 TACAAAAGCA
Statistics
Matches: 70, Mismatches: 18, Indels: 5
0.75 0.19 0.05
Matches are distributed among these distances:
20 3 0.04
21 12 0.17
22 5 0.07
23 50 0.71
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (23 bp):
CGCCACAAAGGTTATACAGAATG
Found at i:51838966 original size:21 final size:21
Alignment explanation
Indices: 51838890--51838967 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 21
51838880 ACACAAAATG
* *
51838890 TGCCACAAAGGCTATACAGAA
1 TGCCACAAAAGTTATACAGAA
*
51838911 TGCGC-CATAAAGGTTATACAGAG
1 TGC-CACA-AAA-GTTATACAGAA
51838934 TGCACCACAAAAGTTATACAGAA
1 TG--CCACAAAAGTTATACAGAA
*
51838957 TGCTACAAAAG
1 TGCCACAAAAG
51838968 CACCCCAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 13 0.28
22 3 0.07
23 23 0.50
24 4 0.09
25 3 0.07
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (21 bp):
TGCCACAAAAGTTATACAGAA
Found at i:51840260 original size:21 final size:19
Alignment explanation
Indices: 51840232--51840274 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
51840222 GAATAGGAGG
*
51840232 TCTTCTAACCTTATCTTCAC
1 TCTTCTAAACTTATCTTC-C
*
51840252 TCTTACTAAAGTTATCTTCC
1 TCTT-CTAAACTTATCTTCC
51840272 TCT
1 TCT
51840275 CCTCCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (19 bp):
TCTTCTAAACTTATCTTCC
Found at i:51849725 original size:25 final size:25
Alignment explanation
Indices: 51849697--51849754 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
51849687 CACATAAATG
*
51849697 GGAAGCTCTTCTGAGCCATATAACA
1 GGAAGCTCTTCCGAGCCATATAACA
*
51849722 GGAAGCTCTTCCGAGCCATATAACG
1 GGAAGCTCTTCCGAGCCATATAACA
51849747 GGAAGCTC
1 GGAAGCTC
51849755 ATGAGAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (25 bp):
GGAAGCTCTTCCGAGCCATATAACA
Found at i:51849762 original size:25 final size:25
Alignment explanation
Indices: 51849709--51849839 Score: 110
Period size: 25 Copynumber: 5.3 Consensus size: 25
51849699 AAGCTCTTCT
* **
51849709 GAGCCATATAACAGGAAGCTCTTCC
1 GAGCCATATAACAGGAAGCTCATGA
*
51849734 GAGCCATATAACGGGAAGCTCATGA
1 GAGCCATATAACAGGAAGCTCATGA
* *
51849759 GAG-C-TATAATCTGGAAGCTCATGC
1 GAGCCATATAA-CAGGAAGCTCATGA
**
51849783 GAGCCA-ATATTAGGAAGCTC-TGGA
1 GAGCCATATAACAGGAAGCTCAT-GA
* *
51849807 GAGCCATA-AATTAGGAAGCTCATAA
1 GAGCCATATAA-CAGGAAGCTCATGA
51849832 GAGCCATA
1 GAGCCATA
51849840 AACGAGACTT
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
23 6 0.07
24 32 0.37
25 48 0.55
26 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGA
Found at i:51849786 original size:49 final size:50
Alignment explanation
Indices: 51849676--51849843 Score: 127
Period size: 49 Copynumber: 3.4 Consensus size: 50
51849666 ATTTGGGTAT
* * *** *
51849676 GCTCATACAAGCACATA-AATGGGAAGCTCTTCTGAGCCATATAA-CAGGAA
1 GCTCATACGAGC-CATATAACGGGAAGCTCTGGAGAGCCATA-AATTAGGAA
* * *
51849726 GCTCTTCCGAGCCATATAACGGGAAGCTCAT-GAGAGCTAT-AATCT-GGAA
1 GCTCATACGAGCCATATAACGGGAAGCTC-TGGAGAGCCATAAAT-TAGGAA
* *
51849775 GCTCATGCGAGCCAATATTA--GGAAGCTCTGGAGAGCCATAAATTAGGAA
1 GCTCATACGAGCC-ATATAACGGGAAGCTCTGGAGAGCCATAAATTAGGAA
*
51849824 GCTCATAAGAGCCATA-AACG
1 GCTCATACGAGCCATATAACG
51849844 AGACTTAATA
Statistics
Matches: 93, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
47 2 0.02
48 22 0.24
49 37 0.40
50 31 0.33
51 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (50 bp):
GCTCATACGAGCCATATAACGGGAAGCTCTGGAGAGCCATAAATTAGGAA
Found at i:51849840 original size:25 final size:25
Alignment explanation
Indices: 51849747--51849841 Score: 108
Period size: 24 Copynumber: 3.9 Consensus size: 25
51849737 CCATATAACG
*
51849747 GGAAGCTCATGAGAGCTAT-AATCT-
1 GGAAGCTCATGAGAGCCATAAAT-TA
* *
51849771 GGAAGCTCATGCGAGCCA-ATATTA
1 GGAAGCTCATGAGAGCCATAAATTA
51849795 GGAAGCTC-TGGAGAGCCATAAATTA
1 GGAAGCTCAT-GAGAGCCATAAATTA
*
51849820 GGAAGCTCATAAGAGCCATAAA
1 GGAAGCTCATGAGAGCCATAAA
51849842 CGAGACTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
23 2 0.03
24 33 0.55
25 24 0.40
26 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCCATAAATTA
Found at i:51851174 original size:20 final size:20
Alignment explanation
Indices: 51851149--51851192 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
51851139 ATCTTGTTTT
*
51851149 ATTTGATTCCAATCAATTTG
1 ATTTGATTCCAATCAAATTG
**
51851169 ATTTGATTTTAATCAAATTG
1 ATTTGATTCCAATCAAATTG
51851189 ATTT
1 ATTT
51851193 AATGGATCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (20 bp):
ATTTGATTCCAATCAAATTG
Found at i:51855620 original size:20 final size:20
Alignment explanation
Indices: 51855595--51855638 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
51855585 ATCTTGTTTT
*
51855595 ATTTGATTCTAATCCAATTG
1 ATTTGATTCTAATCAAATTG
*
51855615 ATTTGATTTTAATCAAATTG
1 ATTTGATTCTAATCAAATTG
51855635 ATTT
1 ATTT
51855639 AATGGCAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (20 bp):
ATTTGATTCTAATCAAATTG
Found at i:51856091 original size:19 final size:18
Alignment explanation
Indices: 51856047--51856096 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
51856037 AATTTATTCA
*
51856047 ATTTATATTTTATTTTAT
1 ATTTATATTTTTTTTTAT
**
51856065 ATAAATATTTTTTATTTAT
1 ATTTATATTTTTT-TTTAT
51856084 ATTTATATATTTT
1 ATTTATAT-TTTT
51856097 GTCCGCTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTATATTTTTTTTTAT
Found at i:51856095 original size:21 final size:20
Alignment explanation
Indices: 51856054--51856096 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
51856044 TCAATTTATA
51856054 TTTTATTTTATATAAATATT
1 TTTTATTTTATATAAATATT
* *
51856074 TTTTATTTATATTTATATATT
1 TTTTATTT-TATATAAATATT
51856095 TT
1 TT
51856097 GTCCGCTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATATAAATATT
Found at i:51864473 original size:25 final size:25
Alignment explanation
Indices: 51864445--51864492 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
51864435 GCAATTAAGG
* *
51864445 TGTCTGAACTAAGTCCAATTTAATT
1 TGTCTAAACTAAGACCAATTTAATT
51864470 TGTCTAAACTAAGACCAATTTAA
1 TGTCTAAACTAAGACCAATTTAA
51864493 ATCACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (25 bp):
TGTCTAAACTAAGACCAATTTAATT
Found at i:51865709 original size:20 final size:21
Alignment explanation
Indices: 51865676--51865725 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
51865666 CCACTTTTAT
51865676 TTTCTTTTTCTTTTTCAATCC
1 TTTCTTTTTCTTTTTCAATCC
51865697 TTTCTTTTT-TTTTTCAATCC
1 TTTCTTTTTCTTTTTCAATCC
*
51865717 TTTCCTTTT
1 TTTCTTTTT
51865726 GATTTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTCTTTTTCTTTTTCAATCC
Found at i:51865731 original size:21 final size:20
Alignment explanation
Indices: 51865687--51865732 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
51865677 TTCTTTTTCT
**
51865687 TTTTCAATCCTTTCTTTTTT
1 TTTTCAATCCTTTCTTTTGA
51865707 TTTTCAATCCTTTCCTTTTGA
1 TTTTCAATCCTTT-CTTTTGA
51865728 TTTTC
1 TTTTC
51865733 TCTCAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTCAATCCTTTCTTTTGA
Found at i:51867504 original size:17 final size:17
Alignment explanation
Indices: 51867482--51867515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51867472 ATCCACTAAT
*
51867482 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51867499 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51867516 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51872142 original size:17 final size:17
Alignment explanation
Indices: 51872120--51872153 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51872110 ATCCACTAAT
*
51872120 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
51872137 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
51872154 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:51872938 original size:14 final size:14
Alignment explanation
Indices: 51872919--51872945 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51872909 TTAGACTTTA
51872919 CAATTTTTTTAATT
1 CAATTTTTTTAATT
51872933 CAATTTTTTTAAT
1 CAATTTTTTTAAT
51872946 CTATCCTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
CAATTTTTTTAATT
Found at i:51874157 original size:25 final size:25
Alignment explanation
Indices: 51874121--51874182 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
51874111 TCTAGACGAT
51874121 AGACACAA-TTAAGGTGTCTGAACTA
1 AGAC-CAATTTAAGGTGTCTGAACTA
** *
51874146 AGACCAATTTAATTTGTCTTAACTA
1 AGACCAATTTAAGGTGTCTGAACTA
51874171 AGACCAATTTAA
1 AGACCAATTTAA
51874183 ATCACATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 3 0.09
25 30 0.91
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (25 bp):
AGACCAATTTAAGGTGTCTGAACTA
Found at i:51879251 original size:24 final size:24
Alignment explanation
Indices: 51879201--51879252 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
51879191 TTTCTAGAAA
* * *
51879201 ATTTAGCATTTATTAGTATCATAT
1 ATTTAGCACTTATTAGCATAATAT
*
51879225 ATTTAGCACTTATTAGCATAATTT
1 ATTTAGCACTTATTAGCATAATAT
51879249 ATTT
1 ATTT
51879253 GACTTACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCACTTATTAGCATAATAT
Found at i:51880381 original size:21 final size:21
Alignment explanation
Indices: 51880348--51880400 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
51880338 AGACTACTAC
* *
51880348 TTTTCCTTGTTGTT-TTTTACT
1 TTTTACTTTTTGTTATTTT-CT
51880369 TTTTACTTTTTGTTATTTTCT
1 TTTTACTTTTTGTTATTTTCT
*
51880390 TTCTACTTTTT
1 TTTTACTTTTT
51880401 CACTATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.08, C:0.13, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTTACTTTTTGTTATTTTCT
Found at i:51885609 original size:3 final size:3
Alignment explanation
Indices: 51885601--51885637 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
51885591 AATCTAATAC
* *
51885601 TAT TAT TAT TAT TAT TAT TGT TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
51885638 CACTCATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:51896229 original size:24 final size:25
Alignment explanation
Indices: 51896166--51896217 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
51896156 GCTATTAATG
* *
51896166 GGAAGCTCATGAGAGCTATATATCA
1 GGAAACTCATGAGAGCCATATATCA
*
51896191 GGAAACTCAAGAGAGCCA-ATATCA
1 GGAAACTCATGAGAGCCATATATCA
51896215 GGA
1 GGA
51896218 TGCTTATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.17
Consensus pattern (25 bp):
GGAAACTCATGAGAGCCATATATCA
Found at i:51896581 original size:5 final size:5
Alignment explanation
Indices: 51896571--51896595 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51896561 ATCATTTTAT
51896571 ATTCA ATTCA ATTCA ATTCA ATTCA
1 ATTCA ATTCA ATTCA ATTCA ATTCA
51896596 CATCTTTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:51902365 original size:12 final size:12
Alignment explanation
Indices: 51902348--51902381 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51902338 TTCATCACAC
51902348 GGCCGTGTGGTA
1 GGCCGTGTGGTA
*
51902360 GGCCGTATGGTA
1 GGCCGTGTGGTA
*
51902372 GACCGTGTGG
1 GGCCGTGTGG
51902382 CTGGTCGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.18, G:0.47, T:0.24
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:51902466 original size:50 final size:50
Alignment explanation
Indices: 51902389--51902483 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
51902379 TGGCTGGTCG
51902389 TGTGGGGCCACATGGGTATGTGAGATTACACGGGTAAATCAGGTAAACCA
1 TGTGGGGCCACATGGGTATGTGAGATTACACGGGTAAATCAGGTAAACCA
** * *
51902439 TGTGGGGGGACAT-GGTCATGTGCGATTACACGGGTAATTCAGGTA
1 TGTGGGGCCACATGGGT-ATGTGAGATTACACGGGTAAATCAGGTA
51902484 GGCCATATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (50 bp):
TGTGGGGCCACATGGGTATGTGAGATTACACGGGTAAATCAGGTAAACCA
Found at i:51917186 original size:25 final size:25
Alignment explanation
Indices: 51917124--51917186 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
51917114 ATTTTAATAA
**
51917124 CTTGTGTGAGCATTCTGATTCACAG
1 CTTGTGTGAGCATTCCAATTCACAG
* *
51917149 CTCGCGTGAGCATTCCAATTCACAG
1 CTTGTGTGAGCATTCCAATTCACAG
*
51917174 CTTGTGTGGGCAT
1 CTTGTGTGAGCAT
51917187 ACATGTACAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (25 bp):
CTTGTGTGAGCATTCCAATTCACAG
Found at i:51918343 original size:15 final size:16
Alignment explanation
Indices: 51918323--51918352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51918313 TGGTGCCTTA
51918323 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
51918338 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
51918353 AGTATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:51919284 original size:67 final size:67
Alignment explanation
Indices: 51919200--51919335 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 67
51919190 CACGGCCATG
** *
51919200 TGTCCCTTGTAAATTTTTATAGGTTACATTTCGAGTGTTACACGGCCTGGCACACGGGCATGTGG
1 TGTCCCTTGTAAATTTTTATAGGTTACATTTCGAAAGTTACACAGCCTGGCACACGGGCATGTGG
51919265 CT
66 CT
* * *
51919267 TGTCCCTTGTAAGTTTTTATAGGTTACATTTTGAAAGTTACACAGCCTGGCACACGGGCGTGTGG
1 TGTCCCTTGTAAATTTTTATAGGTTACATTTCGAAAGTTACACAGCCTGGCACACGGGCATGTGG
51919332 CT
66 CT
51919334 TG
1 TG
51919336 CTGTGTGAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (67 bp):
TGTCCCTTGTAAATTTTTATAGGTTACATTTCGAAAGTTACACAGCCTGGCACACGGGCATGTGG
CT
Found at i:51924162 original size:23 final size:23
Alignment explanation
Indices: 51924108--51924177 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
51924098 ACTAATCTTC
* *
51924108 ATTTAATTAGTACAAATATATATT
1 ATTTAATTA-TAAAAAAATATATT
*
51924132 -TTGAAATTATAAAAAAATATATT
1 ATT-TAATTATAAAAAAATATATT
* *
51924155 ATTTAATTAATTAAAAATTATAT
1 ATTTAATT-ATAAAAAAATATAT
51924178 AAAATCGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 18 0.49
24 19 0.51
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (23 bp):
ATTTAATTATAAAAAAATATATT
Found at i:51926973 original size:19 final size:19
Alignment explanation
Indices: 51926920--51926991 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
51926910 TTTTTTTCAT
* *
51926920 TTTATTTAATATTTTTATAAT
1 TTTA-TTAAT-TTTTTAAAAA
* *
51926941 TTTAATAATGTTTTAAAAA
1 TTTATTAATTTTTTAAAAA
51926960 TTTATTAATTTTTTTCAAAAA
1 TTTATTAA-TTTTTT-AAAAA
*
51926981 ATTA-TAATTTT
1 TTTATTAATTTT
51926992 AAATAAATCT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 18 0.43
20 12 0.29
21 12 0.29
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
TTTATTAATTTTTTAAAAA
Found at i:51926974 original size:20 final size:20
Alignment explanation
Indices: 51926920--51926991 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
51926910 TTTTTTTCAT
* * *
51926920 TTTATTTAATATTTTTATAAT
1 TTTA-TTAATTTTTTTAAAAA
* *
51926941 TTTAATAA-TGTTTTAAAAA
1 TTTATTAATTTTTTTAAAAA
51926960 TTTATTAATTTTTTTCAAAAA
1 TTTATTAATTTTTTT-AAAAA
*
51926981 ATTA-TAATTTT
1 TTTATTAATTTT
51926992 AAATAAATCT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
19 14 0.34
20 15 0.37
21 12 0.29
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTATTAATTTTTTTAAAAA
Found at i:51930251 original size:20 final size:19
Alignment explanation
Indices: 51930214--51930264 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
51930204 AAGAAAAAAA
*
51930214 ATAAAAATTTATAGAAAATC
1 ATAAAAA-TTATAAAAAATC
*
51930234 ATAAAAATTATACAAAAATT
1 ATAAAAATTATA-AAAAATC
51930254 ATTAAAAATTA
1 A-TAAAAATTA
51930265 CAATATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 13 0.48
21 9 0.33
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAAATC
Found at i:51930900 original size:25 final size:24
Alignment explanation
Indices: 51930853--51930900 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
51930843 TAAAAAGATA
51930853 GAAAATTACAAAAATCATATAAAT
1 GAAAATTACAAAAATCATATAAAT
* *
51930877 GAAAATTTATAAAAATCATTTAAA
1 GAAAA-TTACAAAAATCATATAAA
51930901 AAGTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (24 bp):
GAAAATTACAAAAATCATATAAAT
Found at i:51930944 original size:22 final size:22
Alignment explanation
Indices: 51930917--51930964 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
51930907 AAATAAAAAT
*
51930917 AAAAATAAT-ATAATTATGAAGA
1 AAAAATAATAAAAATTATGAA-A
*
51930939 AAAAATTATAAAAATTATGAAA
1 AAAAATAATAAAAATTATGAAA
51930961 AAAA
1 AAAA
51930965 TTAAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAAATAATAAAAATTATGAAA
Found at i:51930969 original size:19 final size:20
Alignment explanation
Indices: 51930937--51930974 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
51930927 TAATTATGAA
*
51930937 GAAAAAATTATAAAAATTAT
1 GAAAAAAATATAAAAATTAT
*
51930957 GAAAAAAAT-TAAATATTA
1 GAAAAAAATATAAAAATTA
51930975 AAAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
GAAAAAAATATAAAAATTAT
Found at i:51931659 original size:18 final size:19
Alignment explanation
Indices: 51931638--51931678 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
51931628 ATTTTTTCAT
*
51931638 TTTTCTATATTT-TTATTA
1 TTTTCTATATTTCTAATTA
51931656 TTTTCTATATTTCTAATTA
1 TTTTCTATATTTCTAATTA
51931675 TTTT
1 TTTT
51931679 AAATGTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCTATATTTCTAATTA
Found at i:51933537 original size:23 final size:23
Alignment explanation
Indices: 51933501--51933562 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
51933491 TGTTGGGTCG
*
51933501 TGTAGA-CCTATTTTGGTCTAAT
1 TGTAGAGCCCATTTTGGTCTAAT
* *
51933523 TGTAGTGCCCATTTTGGTCTGAT
1 TGTAGAGCCCATTTTGGTCTAAT
51933546 TGTAGAGCCCATTTTGG
1 TGTAGAGCCCATTTTGG
51933563 GCTGGGAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (23 bp):
TGTAGAGCCCATTTTGGTCTAAT
Found at i:51936092 original size:243 final size:243
Alignment explanation
Indices: 51935629--51936099 Score: 782
Period size: 242 Copynumber: 1.9 Consensus size: 243
51935619 TACACGATGT
* * * *
51935629 TGGTCACACGAGCTATGGAGAATCCTCAACAAATGTAGGACTTCAGCCATCGGTAGGAAATTCAA
1 TGGTCACACGAGCTATGGAGAATCCTCAAAAAATGTAGGACCTCAGCCATCGATAGCAAATTCAA
* *
51935694 GACCAGCACCTGAAACATGAAATCCCTAATGACATGTCATTTGTATCTTAAGAATTCTTAAGGTT
66 GACCAGCACCCGAAACATGAAATCCCTAATGACATGTCATTTGTATCCTAAGAATTCTTAAGGTT
* *
51935759 CAACCGGGACTTGATATCTGTCAATTCATCACAATGTGGATACATTTTCATATATATGATTCATT
131 CAACCGGGACTTGATATCCGTCAATTCATCACAATGTGGATACATTCTCATATATATGATTCATT
51935824 TACATTAAAAACAACATAGTAAACATTTAATTTGGTAAGTTCGTATGC
196 TACATTAAAAACAACATAGTAAACATTTAATTTGGTAAGTTCGTATGC
* * *
51935872 TGGTCATACGAGCTGTGGAGAATCCTCAAAAAATGTAGGACCTCAGCCATC-ATAGCACATTCAA
1 TGGTCACACGAGCTATGGAGAATCCTCAAAAAATGTAGGACCTCAGCCATCGATAGCAAATTCAA
*
51935936 GACCAGCACCCGAAACATGAAATCCTTAATGACATGTCATTTGTATCCTAAGAATTCTTAAGGTT
66 GACCAGCACCCGAAACATGAAATCCCTAATGACATGTCATTTGTATCCTAAGAATTCTTAAGGTT
* *
51936001 CAACCGGGACTTGATATCCGTCGATTCGTCACAATGTGGATACATTCTCATATATATTGATTCAT
131 CAACCGGGACTTGATATCCGTCAATTCATCACAATGTGGATACATTCTCATATATA-TGATTCAT
**
51936066 TTACATTAAAAACAATGTAGTAAACATTTAATTT
195 TTACATTAAAAACAACATAGTAAACATTTAATTT
51936100 AAATAATATT
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
242 124 0.59
243 87 0.41
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (243 bp):
TGGTCACACGAGCTATGGAGAATCCTCAAAAAATGTAGGACCTCAGCCATCGATAGCAAATTCAA
GACCAGCACCCGAAACATGAAATCCCTAATGACATGTCATTTGTATCCTAAGAATTCTTAAGGTT
CAACCGGGACTTGATATCCGTCAATTCATCACAATGTGGATACATTCTCATATATATGATTCATT
TACATTAAAAACAACATAGTAAACATTTAATTTGGTAAGTTCGTATGC
Found at i:51938239 original size:45 final size:44
Alignment explanation
Indices: 51938186--51938284 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
51938176 TTTGGTTCGC
51938186 TGTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAA
* *
51938231 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
*
51938275 TGGAATGGAA
1 TGTAATGGAA
51938285 GTGTAATAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
43 1 0.02
44 25 0.50
45 24 0.48
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAA
Found at i:51938559 original size:120 final size:120
Alignment explanation
Indices: 51938422--51938859 Score: 759
Period size: 120 Copynumber: 3.6 Consensus size: 120
51938412 ATATTTTAAC
*
51938422 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTCTTAGTATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
* *
51938487 TCTTATATGAATTTACTAAAATCATAATATATGACACTATAAAATGTAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
51938542 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
51938607 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* * *
51938662 ATAATAATTATTAAATATATTTTAATTAAAATTTATAATTTAATAAAACTCTTAGTATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
* *
51938727 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* * **
51938782 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAACATTAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
*
51938847 TCTTATATAAATT
66 TCTTATATGAATT
51938860 CTTAACATTA
Statistics
Matches: 302, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 302 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:51938577 original size:18 final size:17
Alignment explanation
Indices: 51938556--51938590 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51938546 TTATTATTAA
*
51938556 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
51938574 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
51938591 TCTTAGTATT
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:51938578 original size:61 final size:59
Alignment explanation
Indices: 51938422--51938818 Score: 144
Period size: 59 Copynumber: 6.6 Consensus size: 59
51938412 ATATTTTAAC
** * * *
51938422 ATAATTATTATTAAATATATTTTAATTAAAATATATA--ATTTGATAAAATT-CTTAGTA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATATGAACT-ATAAAATTAATTTGAA
* * * * * *
51938479 TTAAATATTCTT--ATATGAATTTACTAAAATCATAATATATGACACTATAAAATGTAATTTGAA
1 ATAATTATTATTAAATAT-ATTTTAATTAAA--AT-ATATATGA-ACTATAAAAT-TAATTTGAA
** * * *
51938542 ATAATTATTATTAAATATATTTTAATTAAAATATATA--ATTTAATAAAATT-CTTAGTA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATATGAACT-ATAAAATTAATTTGAA
* * * * * *
51938599 TTAAATATTCTT--ATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
1 ATAATTATTATTAAATAT-ATTTTAATTAAA--AT-ATATATGA-ACTATAAAAT-TAATTTGAA
* * *
51938662 ATAATAATTATTAAATATATTTTAATTAAAAT-T-TAT-AATTTAATAAAACTCTTAGTATT-AA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATATGAA-CT-ATAAAA---TTAAT-TTGAA
* * * * ** * * *
51938723 AT-ATTCTTATATGAATTTACTAAAATCATAATATATA--ATACTATAAAATATAATTTAAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATATGA-ACTATAAAAT-TAATTTGAA
* *
51938782 ATAATTATTATTAAATATAATTTAATAAAAATATATA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATA
51938819 ATTTAATAAA
Statistics
Matches: 243, Mismatches: 61, Indels: 70
0.65 0.16 0.19
Matches are distributed among these distances:
55 8 0.03
56 18 0.07
57 23 0.09
58 11 0.05
59 53 0.22
60 14 0.06
61 48 0.20
62 14 0.06
63 28 0.12
64 18 0.07
65 8 0.03
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (59 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATATGAACTATAAAATTAATTTGAA
Found at i:51938850 original size:16 final size:15
Alignment explanation
Indices: 51938825--51938871 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
51938815 TATAATTTAA
51938825 TAAAATTCTTAACAT
1 TAAAATTCTTAACAT
*
51938840 TAAATATTCTT-ATA-
1 TAAA-ATTCTTAACAT
51938854 T-AAATTCTTAACAT
1 TAAAATTCTTAACAT
51938868 TAAA
1 TAAA
51938872 TATAATTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 2 0.08
15 8 0.31
16 6 0.23
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAAATTCTTAACAT
Found at i:51938871 original size:14 final size:14
Alignment explanation
Indices: 51938827--51938872 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 14
51938817 TAATTTAATA
51938827 AAATTCTTAACATT
1 AAATTCTTAACATT
*
51938841 AAATATTCTT-ATA-T
1 -AA-ATTCTTAACATT
51938855 AAATTCTTAACATT
1 AAATTCTTAACATT
51938869 AAAT
1 AAAT
51938873 ATAATTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.23
13 4 0.15
14 6 0.23
15 4 0.15
16 6 0.23
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTCTTAACATT
Found at i:51950489 original size:26 final size:25
Alignment explanation
Indices: 51950460--51950827 Score: 205
Period size: 26 Copynumber: 14.2 Consensus size: 25
51950450 AAACGAAACA
* *
51950460 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATA-AACAATTTAAAAT
* *
51950486 AAATAGTATA-AAACAATTTAAAGT
1 AAATAATATATAAACAATTTAAAAT
* * *
51950510 AAATAATGTGTAAAACAAATTAAAAT
1 AAATAATATAT-AAACAATTTAAAAT
* *
51950536 AAATAATATACAAAGAAATTTAAAAT
1 AAATAATATATAAA-CAATTTAAAAT
*
51950562 AAATAACATATAAGACAATTTAAAAT
1 AAATAATATATAA-ACAATTTAAAAT
*
51950588 -AAT-ATATA-AAA-AGTTTAAAAT
1 AAATAATATATAAACAATTTAAAAT
* *
51950609 AAATAATATACAAAACAATTAAAAAAAT
1 AAATAATATA-TAAACAATT--TAAAAT
*
51950637 AAATGATATATATAAAAAACAATTCAAAAT
1 AAAT-A-ATATAT--A-AACAATTTAAAAT
* ** *
51950667 AAAGAATATATGTGACAGTTTAAAAAT
1 AAATAATATAT-AAACAATTT-AAAAT
*
51950694 AAATAATATATAAAAAATTTAAAAT
1 AAATAATATATAAACAATTTAAAAT
** * * *
51950719 GGATAATAGTTTGAAATAGTTTAAAAT
1 AAATAATA-TAT-AAACAATTTAAAAT
* ** * * *
51950746 ACATTGTATGTGGAA-AACTTAAAAT
1 AAATAATATAT-AAACAATTTAAAAT
51950771 AAAT-A-ATA-AAACAATTTAAAAT
1 AAATAATATATAAACAATTTAAAAT
*
51950793 AAATAATATATGAGAAAAATGTTTAAAAT
1 AAATAATATAT-A-AACAA--TTTAAAAT
51950822 AAATAA
1 AAATAA
51950828 ATAAATAACA
Statistics
Matches: 264, Mismatches: 51, Indels: 51
0.72 0.14 0.14
Matches are distributed among these distances:
21 11 0.04
22 17 0.06
23 10 0.04
24 26 0.10
25 32 0.12
26 80 0.30
27 36 0.14
28 15 0.06
29 16 0.06
30 13 0.05
31 1 0.00
32 7 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAAT
Found at i:51950587 original size:22 final size:21
Alignment explanation
Indices: 51950562--51950610 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
51950552 AATTTAAAAT
51950562 AAATAACATATAAGACAA-TTTA
1 AAATAACATATAA-A-AAGTTTA
*
51950584 AAATAATATATAAAAAGTTTA
1 AAATAACATATAAAAAGTTTA
51950605 AAATAA
1 AAATAA
51950611 ATAATATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 2 0.08
21 11 0.44
22 12 0.48
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (21 bp):
AAATAACATATAAAAAGTTTA
Found at i:51950611 original size:47 final size:47
Alignment explanation
Indices: 51950536--51950637 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 47
51950526 AAATTAAAAT
* *
51950536 AAATAATATACAAAGAAATTTAAAATAAATAACATATAAGACAATTTA
1 AAATAATATACAAAGAAATTTAAAATAAATAACATACAAAACAA-TTA
* * *
51950584 AAATAATATATAAA-AAGTTTAAAATAAATAATATACAAAACAATTA
1 AAATAATATACAAAGAAATTTAAAATAAATAACATACAAAACAATTA
*
51950630 AAAAAATA
1 AAATAATA
51950638 AATGATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 10 0.21
47 25 0.52
48 13 0.27
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (47 bp):
AAATAATATACAAAGAAATTTAAAATAAATAACATACAAAACAATTA
Found at i:51950666 original size:30 final size:29
Alignment explanation
Indices: 51950614--51950677 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 29
51950604 AAAATAAATA
*
51950614 ATATACAAAACAATTAAAAAAATAAATGATAT
1 ATATAAAAAACAATT-AAAAAATAAA-GA-AT
*
51950646 ATATAAAAAACAATT-CAAAATAAAGAAT
1 ATATAAAAAACAATTAAAAAATAAAGAAT
51950674 ATAT
1 ATAT
51950678 GTGACAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.20
29 2 0.07
30 8 0.27
32 14 0.47
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (29 bp):
ATATAAAAAACAATTAAAAAATAAAGAAT
Found at i:51950800 original size:29 final size:30
Alignment explanation
Indices: 51950767--51950835 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
51950757 GGAAAACTTA
*
51950767 AAATAAATAATAAAACA-ATTTAAAATAAAT
1 AAATAAATAAGAAAA-ATATTTAAAATAAAT
* * *
51950797 -AATATATGAGAAAAATGTTTAAAATAAAT
1 AAATAAATAAGAAAAATATTTAAAATAAAT
51950826 AAATAAATAA
1 AAATAAATAA
51950836 CAAATTTGCG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
28 1 0.03
29 23 0.74
30 7 0.23
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (30 bp):
AAATAAATAAGAAAAATATTTAAAATAAAT
Found at i:51952360 original size:50 final size:50
Alignment explanation
Indices: 51952239--51952333 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
51952229 ATTAAATACA
* * * *
51952239 AAATTTAAACAAATAAT-ATAAACAAATATTTATATTTATGTAAAAACACC
1 AAATCTAAACAAAAAATAAT-AATAAATACTTATATTTATGTAAAAACACC
*
51952289 AAATCTAAACAAAAAATAATAATAAATACTTATATTTATTTAAAA
1 AAATCTAAACAAAAAATAATAATAAATACTTATATTTATGTAAAA
51952334 CATCAGATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 37 0.95
51 2 0.05
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (50 bp):
AAATCTAAACAAAAAATAATAATAAATACTTATATTTATGTAAAAACACC
Found at i:51953774 original size:24 final size:24
Alignment explanation
Indices: 51953747--51953823 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
51953737 AACTATTTTG
*
51953747 AAATAAAGTTTTGATTTTTAAGAA
1 AAATAAAGTTTTGATTTTTAAAAA
** *
51953771 AAATAGTGATTTT-TTTTTTAAAAA
1 AAATAAAG-TTTTGATTTTTAAAAA
* *
51953795 AAGAGAAAGTTTAGATTTTTAAAATA
1 AA-ATAAAGTTTTGATTTTTAAAA-A
51953821 AAA
1 AAA
51953824 ATTTGTTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
24 20 0.50
25 17 0.43
26 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (24 bp):
AAATAAAGTTTTGATTTTTAAAAA
Found at i:51953893 original size:152 final size:149
Alignment explanation
Indices: 51953635--51953924 Score: 422
Period size: 152 Copynumber: 1.9 Consensus size: 149
51953625 AAGTTTTGAA
*
51953635 TTTTTTAAAAAAAAATAAAGTTTAGATTTTTAAAATAAATTTTTTTCGTAGTCATATTAAAAGAA
1 TTTTTTAAAAAAAAAGAAAGTTTAGATTTTTAAAATAAATTTTTTTCGTAGTCATATTAAAAGAA
*
51953700 AAGTTTAAATTCTTAAAATAAAATTTTGATCTTTTTTAACTATTTTGAAATAAAGTTTTGATTTT
66 AAGTTTAAATTCTTAAAATAAAATTTTGATCTTTTTTAACTATTTTGAAATAAAGTTTTAATTTT
51953765 TAAGAAAAATAGTGATTTT
131 TAAGAAAAATAGTGATTTT
* ** * *
51953784 TTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATTTGTTTTTTTAGTCATTTTAAAG
1 TTTTTTAAAAAAAAAGAAAGTTTAGATTTTTAAAAT--AAATTT-TTTTCGTAGTCATATTAAAA
* ** *
51953849 GAAAAGTTTAAATTTTTTTCAA-AAAGTTTTGAT-TTTTTTCAACTATTTTGAAATAAAGTTTTA
63 GAAAAGTTTAAA-TTCTTAAAATAAAATTTTGATCTTTTTT-AACTATTTTGAAATAAAGTTTTA
51953912 ATTTTTAAGAAAA
126 ATTTTTAAGAAAA
51953925 GTAATGACTT
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
149 34 0.27
151 12 0.10
152 73 0.58
153 6 0.05
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.46
Consensus pattern (149 bp):
TTTTTTAAAAAAAAAGAAAGTTTAGATTTTTAAAATAAATTTTTTTCGTAGTCATATTAAAAGAA
AAGTTTAAATTCTTAAAATAAAATTTTGATCTTTTTTAACTATTTTGAAATAAAGTTTTAATTTT
TAAGAAAAATAGTGATTTT
Found at i:51953899 original size:19 final size:20
Alignment explanation
Indices: 51953850--51953890 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
51953840 ATTTTAAAGG
**
51953850 AAAAGTTTAAATTTTTTTCA
1 AAAAGTTTTGATTTTTTTCA
51953870 AAAAGTTTTGATTTTTTTCA
1 AAAAGTTTTGATTTTTTTCA
51953890 A
1 A
51953891 CTATTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (20 bp):
AAAAGTTTTGATTTTTTTCA
Found at i:51965075 original size:143 final size:143
Alignment explanation
Indices: 51964806--51965075 Score: 326
Period size: 143 Copynumber: 1.9 Consensus size: 143
51964796 ATTTTAAGAA
* * * **
51964806 TCTTTACAGTTTGCTGATTTACAATCGCAACTGATATTATTAAAGCTTCTTGATTTACGATCATG
1 TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTTCTTGATTTACAATCACA
** ** * * **
51964871 TTTTAACTTCATTGATATATGATCATGAACAATTCATCTAAAGTTCATTGGTTTATGATCACGAC
66 ACTTAACTTCATTGATATACAATCATGAACAATTCATCTAAAGCTCATTGATTTACAATCACGAC
51964936 TCCTCTTGACTCC
131 TCCTCTTGACTCC
** * *
51964949 TCTTAACAGTTTGCTGATTTATGATCGCAACTGGTATCATTAAAGC-TCGTTGATTTACAATCGC
1 TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTTC-TTGATTTACAATCAC
* * * * *
51965013 AACTTAAGTTCATTGATTTACAATCATGAATAATTCATCTAGAGCTCGTTGATTTACAATCAC
65 AACTTAACTTCATTGATATACAATCATGAACAATTCATCTAAAGCTCATTGATTTACAATCAC
51965076 AACTTGTAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
142 2 0.02
143 102 0.98
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (143 bp):
TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTTCTTGATTTACAATCACA
ACTTAACTTCATTGATATACAATCATGAACAATTCATCTAAAGCTCATTGATTTACAATCACGAC
TCCTCTTGACTCC
Found at i:51969275 original size:42 final size:43
Alignment explanation
Indices: 51969121--51969286 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 43
51969111 GTACAGTAAT
* * *
51969121 AATGCC-ATATCCCAGATATGGTCTTACATGTAATCTCGTATC
1 AATGCCAATATCCCAGACATGGTCTTACACGTAATCTCATATC
* * * ** *
51969163 AATGCCAATAGCTCAGCCATGGTCTTACACAAAATCACATATC
1 AATGCCAATATCCCAGACATGGTCTTACACGTAATCTCATATC
* *
51969206 GATGCCAATGTCCCAGACATGGTCTTACACG-AACTCTCATATC
1 AATGCCAATATCCCAGACATGGTCTTACACGTAA-TCTCATATC
*
51969249 AATG-CAATATCCCAGATATGGTCTTACACGTAATCTCA
1 AATGCCAATATCCCAGACATGGTCTTACACGTAATCTCA
51969287 GTAACCCTAA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 37 0.36
43 65 0.64
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
AATGCCAATATCCCAGACATGGTCTTACACGTAATCTCATATC
Found at i:51974308 original size:17 final size:18
Alignment explanation
Indices: 51974281--51974316 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
51974271 ATGCAGCAAT
51974281 AGAAGAAAAACATGGAGA
1 AGAAGAAAAACATGGAGA
*
51974299 AGAA-AAAAACATTGAGA
1 AGAAGAAAAACATGGAGA
51974316 A
1 A
51974317 AATGAGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.06, G:0.22, T:0.08
Consensus pattern (18 bp):
AGAAGAAAAACATGGAGA
Found at i:51976004 original size:205 final size:200
Alignment explanation
Indices: 51975647--51976252 Score: 708
Period size: 205 Copynumber: 3.0 Consensus size: 200
51975637 AATTAGAAAA
* * * *
51975647 TTGAATGCCTTAATAAGGATGCATGGTATGGTG-TTTCTATCTTGTAATGCTTGAAAAATGTGTA
1 TTGAATGCCTTAATATGGATGCATGATATAGTGTTTTC-ATCTTGTAATGCTTG-AAAA-CTGTA
* * *
51975711 TAAACCAAAATGGATGAAAGTATAATTGCATCTTGTG--TTT-T-AAAATTAGTAATATTTCTGT
63 TAAACCAGAGTGGATGAAAGTATAATTGCATCTTGTGTTTTTGTCAAAATTAGCAATATTTCTGT
* * * *
51975772 CATTAACTGTTGATTTGCATGTTCTGCTGCTCTGCCTTGTTTTCATTTAGATGATTTTACCATAT
128 CATTAACTGCTGATTT-CATGTTCTGCTGCTCTGCCTTGTTTTCATTTGGATAATTATACCATAT
51975837 ATAATGTAAG
192 A-AATGTAAG
* *
51975847 TTGACTGCCTTAATATGGATTCATGATATAGTGTTTTCATCTTGTAATGCTTGAAAACTGTATAA
1 TTGAATGCCTTAATATGGATGCATGATATAGTGTTTTCATCTTGTAATGCTTGAAAACTGTATAA
* * * *
51975912 ACCAGAGTGGATTG-AAGTATTATTGGATCTTGTGTTTTGTGTACCAAAATTAGCAATATATCTA
66 ACCAGAGTGGA-TGAAAGTATAATTGCATCTTGTGTTTT-TGT--CAAAATTAGCAATATTTCTG
** *
51975976 TCATTAACTGCAAAGTTTCATGTTCTGCTGCTCTCCCTTGTTTTCATTTGGATAATTATACCATA
127 TCATTAACTGCTGA-TTTCATGTTCTGCTGCTCTGCCTTGTTTTCATTTGGATAATTATACCATA
51976041 TAAGATGTAAG
191 TAA-ATGTAAG
*
51976052 TTGAATTG-CTTAATATGGATGCATGATATAGTGTTTTCATCTTATAATGCTTGAAAACTGTATA
1 TTGAA-TGCCTTAATATGGATGCATGATATAGTGTTTTCATCTTGTAATGCTTGAAAACTG--TA
*
51976116 TAAACCTGAGTGGATGAAAGTATAATTGCAT-TTGTGTTTTATGTTTCAAAACTTA-CTAATATT
63 TAAACCAGAGTGGATGAAAGTATAATTGCATCTTGTGTTTT-TG--TCAAAA-TTAGC-AATATT
* ** * * *
51976179 TCTGTCATTGAACTGCTGATTTTATTGTTCCACTGCTCTGCCTTGATTTCTTTTGGATAATTGTA
123 TCTGTCATT-AACTGCTGATTTCA-TGTTCTGCTGCTCTGCCTTGTTTTCATTTGGATAATTATA
51976244 CCATATAAA
186 CCATATAAA
51976253 ATGCAAGAGA
Statistics
Matches: 347, Mismatches: 38, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
198 34 0.10
199 6 0.02
200 45 0.13
201 5 0.01
202 1 0.00
204 1 0.00
205 133 0.38
206 24 0.07
207 48 0.14
208 50 0.14
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (200 bp):
TTGAATGCCTTAATATGGATGCATGATATAGTGTTTTCATCTTGTAATGCTTGAAAACTGTATAA
ACCAGAGTGGATGAAAGTATAATTGCATCTTGTGTTTTTGTCAAAATTAGCAATATTTCTGTCAT
TAACTGCTGATTTCATGTTCTGCTGCTCTGCCTTGTTTTCATTTGGATAATTATACCATATAAAT
GTAAG
Found at i:51976377 original size:39 final size:40
Alignment explanation
Indices: 51976334--51976415 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 40
51976324 GAGGAAACAA
51976334 AAGAAATATATAGAGAACATC-AAAAGGAATCAACAGAGT
1 AAGAAATATATAGAGAACATCGAAAAGGAATCAACAGAGT
* *
51976373 AAGAAATATATAGAGAATATCGAAAAGGAATCAACATAGT
1 AAGAAATATATAGAGAACATCGAAAAGGAATCAACAGAGT
51976413 AAG
1 AAG
51976416 GAATCAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.56, C:0.09, G:0.18, T:0.17
Consensus pattern (40 bp):
AAGAAATATATAGAGAACATCGAAAAGGAATCAACAGAGT
Found at i:51978640 original size:32 final size:32
Alignment explanation
Indices: 51978601--51978693 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
51978591 TTAGATATTG
* *
51978601 ATTATGTTTTAAGCTTGTTAGATATTTAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
51978633 ATTATGTTTTAAGCTTGTTGGTTATTGAATTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTT
*
51978665 ATTATGTTTTAAGCTTGTTGGATACTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
51978694 ATGATTGACA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTT
Found at i:51980570 original size:18 final size:19
Alignment explanation
Indices: 51980535--51980573 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51980525 AGTTCAAAAA
51980535 TATTAAAAAAAAACATTTT
1 TATTAAAAAAAAACATTTT
* *
51980554 TATTCAAAAATAA-ATTTT
1 TATTAAAAAAAAACATTTT
51980572 TA
1 TA
51980574 AAGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TATTAAAAAAAAACATTTT
Found at i:51980731 original size:56 final size:57
Alignment explanation
Indices: 51980588--51980741 Score: 159
Period size: 59 Copynumber: 2.7 Consensus size: 57
51980578 TTTTTTTAAC
* * **
51980588 TTTTAAAATTAGAATTAAATTGATAAGTTTTGTAAATGTTCAGAGCTAAATTTATTGAA
1 TTTTTAAATTAGAATTAAATTGATAAATTTTGTAAACATTCAGAGCTAAA--TATTGAA
* * * * *
51980647 TTTTTAGAATTAGAATTAGA-TGACAAATTTTGTAAACATTGAGGGCTAAA-ATTGAG
1 TTTTTA-AATTAGAATTAAATTGATAAATTTTGTAAACATTCAGAGCTAAATATTGAA
* * *
51980703 TTTTTAAATTAGGATCAAATTGATAAATTGTGTAAACAT
1 TTTTTAAATTAGAATTAAATTGATAAATTTTGTAAACAT
51980742 GGAATGACTA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
55 10 0.13
56 28 0.35
59 29 0.37
60 12 0.15
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (57 bp):
TTTTTAAATTAGAATTAAATTGATAAATTTTGTAAACATTCAGAGCTAAATATTGAA
Done.