Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 109 of 292
Found at i:33314273 original size:27 final size:26
Alignment explanation
Indices: 33314217--33314396 Score: 105
Period size: 27 Copynumber: 6.7 Consensus size: 26
33314207 TGTAGGATAG
* *
33314217 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCGAAATACCCTAGTTTCTAA
* * *
33314243 AATTATCGAAATACCACTGGTTTCTGA
1 AATTACCGAAATACC-CTAGTTTCTAA
* *
33314270 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCGAAATACCC-TAGTTTCTAA
* *
33314297 AATTACCAAAACACCCCT-GATTTAC-AA
1 AATTACCGAAATA-CCCTAG-TTT-CTAA
* *
33314324 AATTACAGAAATACCCTTAACTTTCTAAA
1 AATTACCGAAATACCC-T-AGTTTCT-AA
** * *
33314353 AATTATAGAAATACCATTGGTTTAC-AA
1 AATTACCGAAATACC-CTAGTTT-CTAA
*
33314380 AATTACTGAAATACCCT
1 AATTACCGAAATACCCT
33314397 TGATTTGTAG
Statistics
Matches: 117, Mismatches: 25, Indels: 24
0.70 0.15 0.14
Matches are distributed among these distances:
26 18 0.15
27 72 0.62
28 9 0.08
29 18 0.15
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTACCGAAATACCCTAGTTTCTAA
Found at i:33314327 original size:54 final size:54
Alignment explanation
Indices: 33314217--33314421 Score: 200
Period size: 54 Copynumber: 3.8 Consensus size: 54
33314207 TGTAGGATAG
* * * * * *
33314217 AATTACCAAAATACCC-TAGTTTGTAAAATTATCGAAATACCACTGGTTT-CTGA
1 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAACACCACTGGTTTAC-AA
* *
33314270 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAACACCCCTGATTTACAA
1 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAACACCACTGGTTTACAA
* * * * *
33314324 AATTACAGAAATACCCTTAACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTAA-TTTGT-AAAATTACCA-AAACACCACTGGTTTACAA
* * * *
33314380 AATTACTGAAATACCCTTGATTTGTAGATTTACCAAAACACC
1 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAACACC
33314422 CTTGTAGGAT
Statistics
Matches: 124, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
53 15 0.12
54 58 0.47
55 11 0.09
56 40 0.32
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAACACCACTGGTTTACAA
Found at i:33314494 original size:27 final size:27
Alignment explanation
Indices: 33314419--33314520 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 27
33314409 TTACCAAAAC
* * * * *
33314419 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCCTGTAGGGTAAAATGACCATAAT
* *
33314446 ACCCCTAATA-GGTAAAAAGACCATAA-
1 ACCCCT-GTAGGGTAAAATGACCATAAT
* *
33314472 AGCCCCTGTAGGGTAAAGTGACCGTAAT
1 A-CCCCTGTAGGGTAAAATGACCATAAT
* *
33314500 ACCCTTGTATGGTAAAATGAC
1 ACCCCTGTAGGGTAAAATGAC
33314521 GAATATCCCT
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
26 3 0.05
27 51 0.89
28 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (27 bp):
ACCCCTGTAGGGTAAAATGACCATAAT
Found at i:33315367 original size:25 final size:25
Alignment explanation
Indices: 33315330--33315398 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
33315320 GGAAGTGCTA
* *
33315330 AAAGGGCTCTGCCCCAGTTTA-CCG
1 AAAGGGCTTTGCCCCAGTTTATCAG
33315354 AAACGGGCTTTGCCCCAGTTTATCAG
1 AAA-GGGCTTTGCCCCAGTTTATCAG
33315380 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
33315399 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.07
25 33 0.80
26 5 0.12
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:33318284 original size:38 final size:38
Alignment explanation
Indices: 33318187--33318289 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
33318177 GGCTTAAAGA
** * *
33318187 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
33318225 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
* *
33318263 CTCGCAGGCTTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
33318290 TCGGGCCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
Found at i:33318342 original size:43 final size:43
Alignment explanation
Indices: 33318266--33318527 Score: 438
Period size: 43 Copynumber: 6.1 Consensus size: 43
33318256 GATAAATCTC
* * *
33318266 GCAGGCTTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33318307 GCAGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33318350 GCAGGCTTCGTGCCGATGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33318393 GCAGGCTTCGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33318436 GCAGGCTTCGTGCAGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
33318479 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
33318522 CCAGGC
1 GCAGGC
33318528 GTAATGCCAG
Statistics
Matches: 207, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
41 15 0.07
42 2 0.01
43 190 0.92
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:33319830 original size:31 final size:31
Alignment explanation
Indices: 33319795--33319939 Score: 240
Period size: 31 Copynumber: 4.7 Consensus size: 31
33319785 CGTTTATAGT
33319795 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33319826 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33319857 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
33319887 AAAGGCTTCGGCCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33319918 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33319940 TCAAGACTAA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
30 34 0.32
31 73 0.68
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33319872 original size:61 final size:62
Alignment explanation
Indices: 33319795--33319939 Score: 231
Period size: 61 Copynumber: 2.4 Consensus size: 62
33319785 CGTTTATAGT
*
33319795 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
33319857 AAAGGCTTCAG-CCAGTGATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTTATGG
1 AAAGGCTTCAGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
**
33319918 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCAGCCCAGTGATATG
33319940 TCAAGACTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
61 62 0.81
62 15 0.19
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (62 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33321105 original size:2 final size:2
Alignment explanation
Indices: 33321098--33321125 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33321088 ATCGGGTATG
33321098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33321126 AGTATGCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33321608 original size:24 final size:24
Alignment explanation
Indices: 33321576--33321757 Score: 276
Period size: 24 Copynumber: 7.6 Consensus size: 24
33321566 TATCTCAAAT
33321576 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
33321600 GCACTATGTGTGCGATT-ACTATG
1 GCACTATGTGTGCGATTCACTATG
33321623 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
33321647 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
*
33321671 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATG
* * *
33321695 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATG
* ** *
33321719 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTCACTATG
*
33321743 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
33321758 ACATAATAAG
Statistics
Matches: 150, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
23 23 0.15
24 127 0.85
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTCACTATG
Found at i:33321770 original size:48 final size:47
Alignment explanation
Indices: 33321576--33321779 Score: 243
Period size: 48 Copynumber: 4.3 Consensus size: 47
33321566 TATCTCAAAT
*
33321576 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTAC-TATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TACATATA
* *
33321623 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATACA-TATA
* *
33321671 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTAC-TATA
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA--TACATATA
* ** * *
33321719 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGA-ACATAATAA
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATACAT-AT-A
33321767 GCACTATGTGTGC
1 GCACTATGTGTGC
33321780 CACATTCGGT
Statistics
Matches: 139, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
45 2 0.01
46 3 0.02
47 41 0.29
48 91 0.65
50 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (47 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATACATATA
Found at i:33321771 original size:72 final size:71
Alignment explanation
Indices: 33321576--33321779 Score: 250
Period size: 72 Copynumber: 2.8 Consensus size: 71
33321566 TATCTCAAAT
33321576 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTACT-AT-GGCACTATGTGTGCGAT
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA--ACTAATAGGCACTATGTGTGCGAT
*
33321639 TCACTATG
64 TCACTATA
** * *
33321647 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATT
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGAACTAATA-GGCACTATGTGTGCGATT
*
33321712 TACTATA
65 CACTATA
* ** * * *
33321719 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGAAC-TAATAGGCACTATGTGTGC
33321780 CACATTCGGT
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
71 39 0.35
72 68 0.60
73 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (71 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGAACTAATAGGCACTATGTGTGCGATTC
ACTATA
Found at i:33327736 original size:2 final size:2
Alignment explanation
Indices: 33327729--33327764 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33327719 ATCGGGTATG
33327729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33327765 AGTATGCCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33328246 original size:24 final size:24
Alignment explanation
Indices: 33328214--33328396 Score: 269
Period size: 24 Copynumber: 7.6 Consensus size: 24
33328204 TATCTCAAAT
33328214 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
33328238 GCACTATGTGTGCGACTT-ACTATG
1 GCACTATGTGTGCGA-TTCACTATG
33328262 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
33328286 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTCACTATG
*
33328310 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTCACTATG
* * *
33328334 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATG
* ** *
33328358 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTCACTATG
*
33328382 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
33328397 ACATAATAAG
Statistics
Matches: 150, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
23 2 0.01
24 146 0.97
25 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTCACTATG
Found at i:33328409 original size:48 final size:48
Alignment explanation
Indices: 33328214--33328418 Score: 225
Period size: 48 Copynumber: 4.3 Consensus size: 48
33328204 TATCTCAAAT
* * *
33328214 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACTTACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
* * *
33328262 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTCACTATG
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACAT-AATATA
* * ** *
33328310 GCACTATGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
* ** * *
33328358 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATAATATA
*
33328406 GCACTGTGTGTGC
1 GCACTATGTGTGC
33328419 CACATTCGGT
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
47 2 0.01
48 132 0.94
49 7 0.05
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATAATATA
Found at i:33333861 original size:38 final size:38
Alignment explanation
Indices: 33333810--33333892 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
33333800 ATATGAGTAT
33333810 ACCTGTTGAGCCTACGGAATTTATGATTAAAGTGTCAA
1 ACCTGTTGAGCCTACGGAATTTATGATTAAAGTGTCAA
33333848 ACCTGTTGAGCCTACGGAATTTATGATTAAAGTGTCAA
1 ACCTGTTGAGCCTACGGAATTTATGATTAAAGTGTCAA
*
33333886 ACTTGTT
1 ACCTGTT
33333893 AGGCAAATGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (38 bp):
ACCTGTTGAGCCTACGGAATTTATGATTAAAGTGTCAA
Found at i:33340916 original size:10 final size:11
Alignment explanation
Indices: 33340897--33340921 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33340887 ATGTGCTCTC
33340897 TTTTCTTTTTT
1 TTTTCTTTTTT
33340908 TTTTCTTTTTT
1 TTTTCTTTTTT
33340919 TTT
1 TTT
33340922 AACACGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:33342931 original size:22 final size:24
Alignment explanation
Indices: 33342906--33342951 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
33342896 ATTCTATGCT
33342906 AATTGATAA-AGAT-TAA-TATATA
1 AATT-ATAATAGATATAATTATATA
33342928 AATTATAATAGATATAATTATATA
1 AATTATAATAGATATAATTATATA
33342952 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATAATAGATATAATTATATA
Found at i:33343049 original size:16 final size:16
Alignment explanation
Indices: 33343008--33343049 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
33342998 AAAATTGATA
33343008 ATAATTAATATATATT
1 ATAATTAATATATATT
*
33343024 ATAATGAATATA-ATT
1 ATAATTAATATATATT
33343039 ATATATTAATA
1 ATA-ATTAATA
33343050 ATTATCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATTAATATATATT
Found at i:33343060 original size:22 final size:22
Alignment explanation
Indices: 33343005--33343051 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
33342995 CCTAAAATTG
33343005 ATAAT-AAT-TAA-TATATATT
1 ATAATGAATATAATTATATATT
33343024 ATAATGAATATAATTATATATT
1 ATAATGAATATAATTATATATT
33343046 AATAAT
1 -ATAAT
33343052 TATCTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAATGAATATAATTATATATT
Found at i:33347805 original size:26 final size:27
Alignment explanation
Indices: 33347738--33347837 Score: 112
Period size: 26 Copynumber: 3.6 Consensus size: 27
33347728 ATACAGAAAA
* *
33347738 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* *
33347767 TGTGGCAGTGCCACCAGAACAG-TATA
1 TGTGGCAGAGCCACCAGAACAGATATT
*
33347793 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
33347821 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
33347838 GACGCTTCCT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.36
27 3 0.05
28 21 0.34
29 15 0.25
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:33355604 original size:55 final size:56
Alignment explanation
Indices: 33355539--33355653 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
33355529 AGCATGGCTG
* *
33355539 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
33355595 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
33355650 CCAG
1 CCAG
33355654 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:33355616 original size:27 final size:27
Alignment explanation
Indices: 33355564--33355653 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
33355554 GTGACAGAGT
33355564 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
33355593 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
33355620 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
33355648 CACCAG
1 CACCAG
33355654 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:33356058 original size:8 final size:8
Alignment explanation
Indices: 33356042--33356073 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
33356032 CCCAAAATAC
33356042 CGGCTTTT
1 CGGCTTTT
*
33356050 CGGCATTT
1 CGGCTTTT
33356058 CGGCTTTT
1 CGGCTTTT
33356066 CGGCTTTT
1 CGGCTTTT
33356074 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:33361464 original size:34 final size:33
Alignment explanation
Indices: 33361417--33361511 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 33
33361407 TTATTTGCAT
*
33361417 ACTGTACTAAAATGGGCTAAGGCCCAGACTGCC
1 ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
* * * *
33361450 ACTGTTACTGAAATGGGCTCAGGCCTAGATTGCT
1 ACTG-TACTGAAATGGGCTAAGGCCCAGACTGCC
*
33361484 ACTGCTACTGAAAGAGGGGCTAAGGCCC
1 ACTG-TACTG-AA-ATGGGCTAAGGCCC
33361512 TTAACTGAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
33 4 0.08
34 33 0.66
35 2 0.04
36 11 0.22
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (33 bp):
ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
Found at i:33365441 original size:48 final size:48
Alignment explanation
Indices: 33365370--33365899 Score: 898
Period size: 48 Copynumber: 11.0 Consensus size: 48
33365360 CAAGAAAAAT
*
33365370 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33365418 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33365466 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365514 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365562 ATATGTATATATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365610 ATATGTATATGTGGTAAAGCCGAAGGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365658 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365706 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365754 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
33365802 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
33365850 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
33365898 AT
1 AT
33365900 GTGTGTATAT
Statistics
Matches: 451, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 451 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:33368533 original size:13 final size:13
Alignment explanation
Indices: 33368515--33368539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33368505 GAATTGATAT
33368515 GTGTGAAAATTTA
1 GTGTGAAAATTTA
33368528 GTGTGAAAATTT
1 GTGTGAAAATTT
33368540 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTA
Found at i:33378147 original size:39 final size:41
Alignment explanation
Indices: 33378033--33378218 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
33378023 GCTACTCGTT
* *
33378033 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
33378073 CAAATGCCTTTGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
33378113 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
33378152 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
33378193 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33378219 TATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 64 0.51
41 23 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:33378148 original size:79 final size:82
Alignment explanation
Indices: 33378033--33378218 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
33378023 GCTACTCGTT
* * *
33378033 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCC
* *
33378096 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
33378113 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
33378176 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
33378193 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33378219 TATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
78 5 0.05
79 45 0.49
80 30 0.33
81 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33386325 original size:79 final size:80
Alignment explanation
Indices: 33386157--33386341 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
33386147 GCTACTCGTT
* *
33386157 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCC
* *
33386221 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * ** *
33386238 CAATGCCTTCGGG-CTTTGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCCG
*
33386301 ATATAGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
33386317 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
33386342 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCCGA
TATAGTAACTAGCAC
Found at i:33386341 original size:40 final size:40
Alignment explanation
Indices: 33386138--33386341 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
33386128 CGGAATTTAA
** *
33386138 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33386178 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
33386218 CCCGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTTGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33386257 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
33386297 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33386337 CCGGA
1 CCGGA
33386342 CATCATTCGA
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33392401 original size:58 final size:60
Alignment explanation
Indices: 33392331--33392463 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 60
33392321 GTCACTTTAA
* * **
33392331 TATTAAAATAATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATT
1 TATTAAAATAATATAATACTTATTAAAAGATAAATATTAAATTAAATTTAATATTAAAAC
* * *
33392389 TATTAAATTAATAAAATACTTATTTAAAAGATAAATATTAAATTTAATTTAATATTAAAAC
1 TATTAAAATAATATAATACTTA-TTAAAAGATAAATATTAAATTAAATTTAATATTAAAAC
33392450 TATTAAAATAATAT
1 TATTAAAATAATAT
33392464 TAATTTTGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 20 0.32
60 1 0.02
61 42 0.67
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (60 bp):
TATTAAAATAATATAATACTTATTAAAAGATAAATATTAAATTAAATTTAATATTAAAAC
Found at i:33395695 original size:19 final size:19
Alignment explanation
Indices: 33395667--33395704 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33395657 TTTATGAGTA
*
33395667 TGTTATAAGTTCGGCTAAG
1 TGTTAGAAGTTCGGCTAAG
33395686 TGTTAGAAGTTCGGCTAAG
1 TGTTAGAAGTTCGGCTAAG
33395705 CTTGGATAAC
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:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (19 bp):
TGTTAGAAGTTCGGCTAAG
Found at i:33401726 original size:15 final size:15
Alignment explanation
Indices: 33401706--33401734 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33401696 GTATTGTTGC
33401706 TTGATAACACGGTGA
1 TTGATAACACGGTGA
33401721 TTGATAACACGGTG
1 TTGATAACACGGTG
33401735 TGTGAGGCAT
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:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:33403303 original size:18 final size:18
Alignment explanation
Indices: 33403272--33403306 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33403262 AATTAGCCAG
* *
33403272 TTTCTTCTTTCCCTTAGC
1 TTTCTACTTCCCCTTAGC
33403290 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
33403307 AGGATGACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGC
Found at i:33404782 original size:25 final size:25
Alignment explanation
Indices: 33404754--33404808 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
33404744 TTGACAAGTT
** *
33404754 ATGAATACATGGTTGAATTTACTTG
1 ATGAATACATGACTAAATTTACTTG
33404779 ATGAATACATGACTAAATTTACTTG
1 ATGAATACATGACTAAATTTACTTG
33404804 ATGAA
1 ATGAA
33404809 ACGATTGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (25 bp):
ATGAATACATGACTAAATTTACTTG
Found at i:33409328 original size:22 final size:22
Alignment explanation
Indices: 33409303--33409360 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 22
33409293 AATATTTAAT
33409303 TAAATTTTTGACTAAATTAAGA
1 TAAATTTTTGACTAAATTAAGA
33409325 TAAATGTTTTATTGACTAAATTAAGA
1 TAAA---TTT-TTGACTAAATTAAGA
33409351 TAAATGTTTT
1 TAAAT-TTTT
33409361 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 2 0.06
25 3 0.10
26 19 0.61
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.45
Consensus pattern (22 bp):
TAAATTTTTGACTAAATTAAGA
Found at i:33409343 original size:26 final size:26
Alignment explanation
Indices: 33409310--33409363 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33409300 AATTAAATTT
33409310 TTGACTAAATTAAGATAAATGTTTTA
1 TTGACTAAATTAAGATAAATGTTTTA
33409336 TTGACTAAATTAAGATAAATGTTTTA
1 TTGACTAAATTAAGATAAATGTTTTA
33409362 TT
1 TT
33409364 TTGTAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (26 bp):
TTGACTAAATTAAGATAAATGTTTTA
Found at i:33409591 original size:26 final size:27
Alignment explanation
Indices: 33409536--33409590 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
33409526 TTAGTTCAAT
* * *
33409536 AATTTAACTTATATTTTTACATAATAA
1 AATTAAACTTACAATTTTACATAATAA
33409563 AATTAAACTTACAATTTTACATAATAA
1 AATTAAACTTACAATTTTACATAATAA
33409590 A
1 A
33409591 TCATTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (27 bp):
AATTAAACTTACAATTTTACATAATAA
Found at i:33410482 original size:17 final size:18
Alignment explanation
Indices: 33410460--33410498 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
33410450 AGGGTTAAGG
*
33410460 TTTTTAGGGTTTTTGGT-
1 TTTTTAAGGTTTTTGGTA
33410477 TTTTTAAGGTTTTTGGTA
1 TTTTTAAGGTTTTTGGTA
33410495 TTTT
1 TTTT
33410499 GAAAGTGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (18 bp):
TTTTTAAGGTTTTTGGTA
Found at i:33417024 original size:93 final size:93
Alignment explanation
Indices: 33416912--33417082 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
33416902 CCCATAAGTG
** *
33416912 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACACAA-TGCAA
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACACAACT-CAA
*
33416976 CGAGCTCGGATGCCTAGTTACATCTCTCA
65 CGAGCTCAGATGCCTAGTTACATCTCTCA
* *
33417005 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACACAACTCAAC
*
33417070 GAGTTCAGATGCC
66 GAGCTCAGATGCC
33417083 CAAATATCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACACAACTCAAC
GAGCTCAGATGCCTAGTTACATCTCTCA
Found at i:33417075 original size:46 final size:46
Alignment explanation
Indices: 33416903--33417072 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
33416893 TGTAACCCGC
** *
33416903 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
* * *
33416949 CCATAAGTGAACTCGGACACAA-TGCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACT-CAACGAGCTC-GA--AC-A-TTCGCAT
* *
33416999 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
33417042 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
33417073 TTCAGATGCC
Statistics
Matches: 100, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
45 1 0.01
46 55 0.55
47 22 0.22
48 1 0.01
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
Found at i:33419483 original size:10 final size:9
Alignment explanation
Indices: 33419460--33419485 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33419450 TTTGGTGTTA
33419460 GTTTTTGAT
1 GTTTTTGAT
33419469 GTTTTTGAT
1 GTTTTTGAT
33419478 GTTTTTGA
1 GTTTTTGA
33419486 GATCTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:33426755 original size:17 final size:16
Alignment explanation
Indices: 33426729--33426763 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
33426719 TTGGGGAAAG
*
33426729 AGGAGGGGAGGAGTAA
1 AGGAGGGGAGGAGGAA
33426745 AGGAGGGGGAGGAGGAA
1 AGGA-GGGGAGGAGGAA
33426762 AG
1 AG
33426764 AGAAGGTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.60, T:0.03
Consensus pattern (16 bp):
AGGAGGGGAGGAGGAA
Found at i:33440316 original size:8 final size:8
Alignment explanation
Indices: 33440305--33440357 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
33440295 ATATATTAAT
33440305 TTATATTA
1 TTATATTA
33440313 TTATATTA
1 TTATATTA
33440321 TTATATTA
1 TTATATTA
*
33440329 TTACATTA
1 TTATATTA
*
33440337 -TATA-TG
1 TTATATTA
33440343 TTATATTA
1 TTATATTA
33440351 TATATAT
1 T-TATAT
33440358 ATATGTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
6 1 0.03
7 7 0.18
8 25 0.66
9 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:33441450 original size:57 final size:58
Alignment explanation
Indices: 33441360--33441469 Score: 179
Period size: 57 Copynumber: 1.9 Consensus size: 58
33441350 AAATATAGTG
*
33441360 ATTGGTAGCAATTCCGCCTAAGTTGTGAGCTACCGTAGCTCTGTGTGAGCATCGATGT
1 ATTGGTAGCAATTCCGCATAAGTTGTGAGCTACCGTAGCTCTGTGTGAGCATCGATGT
*
33441418 ATTGGTAGTAATT-CGCATAAGTTGTG-GACTACCGTAGCTCTGTGTGAGCATC
1 ATTGGTAGCAATTCCGCATAAGTTGTGAG-CTACCGTAGCTCTGTGTGAGCATC
33441470 AAAGTATATG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
56 1 0.02
57 36 0.73
58 12 0.24
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (58 bp):
ATTGGTAGCAATTCCGCATAAGTTGTGAGCTACCGTAGCTCTGTGTGAGCATCGATGT
Found at i:33441852 original size:110 final size:110
Alignment explanation
Indices: 33441659--33441878 Score: 386
Period size: 110 Copynumber: 2.0 Consensus size: 110
33441649 CAAGTATAAA
* *
33441659 TTATGATATGATGAGCTAATCTATGTTATGATATTATGTGTAATTGCTTGACTAACTTTGATGAT
1 TTATGATATGATGAGCTAATCTATGTGATGATATTATGTGTAATTGCTTGACTAAATTTGATGAT
* *
33441724 GAAGTTGTAGGTGATAGGATAATGATTTATTTGCTTGAATGCAAG
66 GAAGTTGTAGGTGATAGGATAATGATTTATTTGCTTCAATACAAG
*
33441769 TTATGATATGATGAGCTCATCTATGTGATGATATTATGTGTAATTGCTTGACTAAATTTGATGAT
1 TTATGATATGATGAGCTAATCTATGTGATGATATTATGTGTAATTGCTTGACTAAATTTGATGAT
*
33441834 GAAGTTGTATGTGATAGGATAATGATTTATTTGCTTCAATACAAG
66 GAAGTTGTAGGTGATAGGATAATGATTTATTTGCTTCAATACAAG
33441879 CATGTTTGAT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (110 bp):
TTATGATATGATGAGCTAATCTATGTGATGATATTATGTGTAATTGCTTGACTAAATTTGATGAT
GAAGTTGTAGGTGATAGGATAATGATTTATTTGCTTCAATACAAG
Found at i:33452518 original size:28 final size:28
Alignment explanation
Indices: 33452487--33452542 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
33452477 TTTCTAATTA
* * *
33452487 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
33452515 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
33452543 TTTAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:33452618 original size:28 final size:26
Alignment explanation
Indices: 33452586--33452674 Score: 67
Period size: 30 Copynumber: 3.2 Consensus size: 26
33452576 CATTGTTTTT
33452586 TATTATCATATATTTTATCTATAAATTA
1 TATTAT-ATATATTTTAT-TATAAATTA
*
33452614 TATTATATTATATATTTTATTTTATACATT-
1 TA-T-TA-TATATATTTTA--TTATAAATTA
*
33452644 TCTT-TATATATTTT-TTATAAAATTA
1 TATTATATATATTTTATTAT-AAATTA
33452669 TATTAT
1 TATTAT
33452675 TATTTACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
23 4 0.08
24 4 0.08
25 3 0.06
26 11 0.22
28 3 0.06
29 2 0.04
30 13 0.27
31 8 0.16
32 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTATATATATTTTATTATAAATTA
Found at i:33452671 original size:19 final size:21
Alignment explanation
Indices: 33452647--33452685 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
33452637 ATACATTTCT
*
33452647 TTATA-TATTTTTTA-TAAAA
1 TTATATTATTATTTACTAAAA
33452666 TTATATTATTATTTACTAAA
1 TTATATTATTATTTACTAAA
33452686 TTTGTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATTATTATTTACTAAAA
Found at i:33453035 original size:18 final size:17
Alignment explanation
Indices: 33452998--33453048 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
33452988 TATTATACGT
* * *
33452998 ATACCATATTATATTTC
1 ATACTATATTTTATTAC
33453015 ATACTATATTTTTATTAC
1 ATACTATA-TTTTATTAC
33453033 ATACTATATTTTATTA
1 ATACTATATTTTATTA
33453049 TTCAATATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (17 bp):
ATACTATATTTTATTAC
Found at i:33453117 original size:20 final size:22
Alignment explanation
Indices: 33453081--33453128 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
33453071 ATCTTTCTCA
* *
33453081 TATTTTTTTATTATATATTATT
1 TATTTTTTTATTATATACTAAT
33453103 TATTTTTTT-TT-TATACTAAT
1 TATTTTTTTATTATATACTAAT
33453123 TATTTT
1 TATTTT
33453129 ACCATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.54
21 2 0.08
22 9 0.38
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTTTTATTATATACTAAT
Found at i:33453124 original size:24 final size:22
Alignment explanation
Indices: 33453081--33453127 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
33453071 ATCTTTCTCA
33453081 TATTTTTTTATTATATATTATT
1 TATTTTTTTATTATATATTATT
*
33453103 TATTTTTTTTTTATACTAATTATT
1 TATTTTTTTATTATA-T-ATTATT
33453127 T
1 T
33453128 TACCATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.64
23 1 0.05
24 7 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTTTTATTATATATTATT
Found at i:33453180 original size:21 final size:22
Alignment explanation
Indices: 33453154--33453214 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
33453144 GCAAAATACT
33453154 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
33453175 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
33453197 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
33453215 ACATAACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:33456039 original size:18 final size:18
Alignment explanation
Indices: 33456018--33456053 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33456008 ACTACAAGAC
33456018 TGACTATTACTGAATAAT
1 TGACTATTACTGAATAAT
* *
33456036 TGACTGTTATTGAATAAT
1 TGACTATTACTGAATAAT
33456054 CAAAGGATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (18 bp):
TGACTATTACTGAATAAT
Found at i:33458298 original size:15 final size:15
Alignment explanation
Indices: 33458280--33458309 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33458270 TATTCTATTT
*
33458280 ATATTAGGATAATTA
1 ATATTAAGATAATTA
33458295 ATATTAAGATAATTA
1 ATATTAAGATAATTA
33458310 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:33458354 original size:10 final size:10
Alignment explanation
Indices: 33458335--33458366 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
33458325 TTTTAGGATT
33458335 TTAT-TTTAA
1 TTATCTTTAA
33458344 TTATCTTTAA
1 TTATCTTTAA
33458354 TTATCTTTAA
1 TTATCTTTAA
33458364 TTA
1 TTA
33458367 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:33464729 original size:3 final size:3
Alignment explanation
Indices: 33464721--33464808 Score: 116
Period size: 3 Copynumber: 31.0 Consensus size: 3
33464711 ATTTTAAATT
33464721 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
33464769 TTA TT- TTA TT- TTA TTTA TT- TTA -AA TTA TT- TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33464809 ATAAAATTCT
Statistics
Matches: 76, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
2 11 0.14
3 62 0.82
4 3 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33468258 original size:15 final size:15
Alignment explanation
Indices: 33468240--33468269 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33468230 TATTTTATTT
*
33468240 ATATTAGGATAATTA
1 ATATTAAGATAATTA
33468255 ATATTAAGATAATTA
1 ATATTAAGATAATTA
33468270 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:33468314 original size:10 final size:10
Alignment explanation
Indices: 33468295--33468326 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
33468285 TTTTAGGATT
33468295 TTAT-TTTAA
1 TTATCTTTAA
33468304 TTATCTTTAA
1 TTATCTTTAA
33468314 TTATCTTTAA
1 TTATCTTTAA
33468324 TTA
1 TTA
33468327 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:33470947 original size:13 final size:13
Alignment explanation
Indices: 33470931--33470963 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33470921 TTTAATTAAA
*
33470931 TTAGTTAATTAGT
1 TTAGATAATTAGT
33470944 TTAGATAATTAGT
1 TTAGATAATTAGT
33470957 TTA-ATAA
1 TTAGATAA
33470964 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:33475816 original size:6 final size:6
Alignment explanation
Indices: 33475805--33475895 Score: 89
Period size: 6 Copynumber: 15.3 Consensus size: 6
33475795 AATCCTCCAA
* *
33475805 TTTTAT TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTAT TTTCTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT
* * * *
33475852 TATTTA- TTTTAT TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
33475896 CAATTTTCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
4 4 0.06
5 4 0.06
6 55 0.80
7 4 0.06
8 2 0.03
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:33475833 original size:22 final size:22
Alignment explanation
Indices: 33475806--33475895 Score: 89
Period size: 22 Copynumber: 4.1 Consensus size: 22
33475796 ATCCTCCAAT
33475806 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTTATTTTTATTTTTA
*
33475828 TTTATTCTTATTTTTATTTTCT-
1 TTTATTTTTATTTTTATTTT-TA
*
33475850 TTTA--TTTA-TTTTATTCTTA
1 TTTATTTTTATTTTTATTTTTA
* *
33475869 TTTTTCTTTTGATTTTTATTTTCA
1 TTTAT-TTTT-ATTTTTATTTTTA
33475893 TTT
1 TTT
33475896 CAATTTTCTC
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
18 1 0.02
19 11 0.20
20 3 0.05
22 26 0.47
23 2 0.04
24 12 0.22
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTTTA
Found at i:33475866 original size:31 final size:28
Alignment explanation
Indices: 33475807--33475889 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 28
33475797 TCCTCCAATT
33475807 TTATTTTTATTTTTATTTTTATTTATTC
1 TTATTTTTATTTTTATTTTTATTTATTC
*
33475835 TTATTTTTATTTTCTTTTATTTATTTTATTC
1 TTATTTTTATTTT-TATT-TTTA-TTTATTC
* *
33475866 TTATTTTTCTTTTGATTTTTATTT
1 TTATTTTTATTTTTATTTTTATTT
33475890 TCATTTCAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 16 0.33
29 7 0.15
30 6 0.12
31 19 0.40
ACGTcount: A:0.16, C:0.05, G:0.01, T:0.78
Consensus pattern (28 bp):
TTATTTTTATTTTTATTTTTATTTATTC
Found at i:33484750 original size:30 final size:30
Alignment explanation
Indices: 33484678--33484750 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
33484668 ATGGCTTGCC
* * *
33484678 ACACAGCTATGTGTTTCACACGGTTGGTTG
1 ACACAACTGTGTGTTTCACACAGTTGGTTG
*
33484708 ACACGA-TCGTGTGTCTT-ACACAGTTGGTTG
1 ACACAACT-GTGTGT-TTCACACAGTTGGTTG
33484738 ACACAACTGTGTG
1 ACACAACTGTGTG
33484751 CTACTAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 1 0.03
30 31 0.89
31 3 0.09
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (30 bp):
ACACAACTGTGTGTTTCACACAGTTGGTTG
Found at i:33486850 original size:41 final size:41
Alignment explanation
Indices: 33486750--33486880 Score: 158
Period size: 41 Copynumber: 3.2 Consensus size: 41
33486740 TTTCTAAATC
* * * *
33486750 AATGAAAAGGTTGAAAAGAAAGTTATTCAAAAAGGATAATA
1 AATGAAAAGGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
* *
33486791 TATGAAAAAGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
1 AATGAAAAGGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
* *
33486832 AATGAAAAGGTTGAAAAGGATGTT-TACCGGAAAA-TATAACA
1 AATGAAAAGGTTGAAAAGGAAGTTAT-CC-GAAAAGGATAACA
33486873 AATGAAAA
1 AATGAAAA
33486881 AGATGTGTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 72 0.92
42 5 0.06
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
Found at i:33492640 original size:40 final size:40
Alignment explanation
Indices: 33492513--33492642 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
33492503 ATGCTGGAAA
* *
33492513 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
33492553 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
33492593 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
33492633 TTATATCCGG
1 TTATATCCGG
33492643 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:33500671 original size:40 final size:40
Alignment explanation
Indices: 33500544--33500673 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
33500534 ATGCTGGAAA
* *
33500544 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
33500584 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
33500624 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
33500664 TTATATCCGG
1 TTATATCCGG
33500674 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:33507833 original size:29 final size:29
Alignment explanation
Indices: 33507801--33507873 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
33507791 CTTCGAGCTC
*
33507801 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
33507830 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
33507859 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
33507874 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:33510612 original size:28 final size:28
Alignment explanation
Indices: 33510566--33510634 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33510556 TTTAAAACCC
*
33510566 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33510593 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33510621 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
33510635 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:33512287 original size:20 final size:20
Alignment explanation
Indices: 33512264--33512301 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33512254 CACATCCAAA
*
33512264 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
33512284 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
33512302 GCGAATAAAC
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:33514420 original size:19 final size:18
Alignment explanation
Indices: 33514383--33514426 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
33514373 ATACATACAG
33514383 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
33514400 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
33514419 TACTAATT
1 TAATAATT
33514427 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:33527163 original size:13 final size:14
Alignment explanation
Indices: 33527147--33527175 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
33527137 TTAAAGCATA
33527147 TAATTACAC-AATT
1 TAATTACACGAATT
33527160 TAATTACACGAATT
1 TAATTACACGAATT
33527174 TA
1 TA
33527176 CCTCGACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (14 bp):
TAATTACACGAATT
Found at i:33532524 original size:24 final size:25
Alignment explanation
Indices: 33532496--33532542 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
33532486 TCCGACCCAA
*
33532496 TTTTACTGAAATATG-AATGGAAGC
1 TTTTACTGAAATAAGTAATGGAAGC
* *
33532520 TTTTAGTGGAATAAGTAATGGAA
1 TTTTACTGAAATAAGTAATGGAA
33532543 CTTGGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.34
Consensus pattern (25 bp):
TTTTACTGAAATAAGTAATGGAAGC
Found at i:33534669 original size:33 final size:33
Alignment explanation
Indices: 33534627--33534692 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
33534617 ATGAAGAAAC
33534627 CATGGCTAGGGTTTTCCAAGCTTCCAAGCTTGA
1 CATGGCTAGGGTTTTCCAAGCTTCCAAGCTTGA
33534660 CATGGCTAGGGTTTTCCAAGCTTCCAAGCTTGA
1 CATGGCTAGGGTTTTCCAAGCTTCCAAGCTTGA
33534693 TTATAAGTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.30
Consensus pattern (33 bp):
CATGGCTAGGGTTTTCCAAGCTTCCAAGCTTGA
Found at i:33541465 original size:23 final size:23
Alignment explanation
Indices: 33541439--33541483 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
33541429 TGGGTATGTG
*
33541439 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
33541462 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
33541484 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:33546623 original size:28 final size:28
Alignment explanation
Indices: 33546578--33546666 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 28
33546568 ACATACATGT
* * *
33546578 ATATGGCCCACTAAGCCCAATCTCATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
* *
33546606 ATATGGCCCATTGGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCC-AATCACATTC
* *
33546635 GTATGGCCCATTAGGCCCAAATCACATAC
1 ATATGGCCCATTAGGCCC-AATCACATTC
33546664 ATA
1 ATA
33546667 GTCATGCTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:33550466 original size:31 final size:31
Alignment explanation
Indices: 33550423--33550486 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
33550413 CCTTTTCATA
*
33550423 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
* **
33550454 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATAATTCATAACACTAGGCCGAAGCCT
33550485 TT
1 TT
33550487 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTAGGCCGAAGCCT
Found at i:33550722 original size:25 final size:23
Alignment explanation
Indices: 33550679--33550872 Score: 237
Period size: 25 Copynumber: 8.0 Consensus size: 23
33550669 TGCTTTATCA
*
33550679 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
33550703 TAGTAACTGGGGCAAAAGCCCTTTT
1 TA-TAACTGGGGCATAAGCCC-TTT
33550728 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
33550751 ATCATAACTGGGGCATAAGCCCTTCAT
1 -T-ATAACTGGGGCATAAGCCCTT--T
* *
33550778 CATAACTAGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
33550801 ATCATAACTGGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
33550826 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
33550849 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
33550872 T
1 T
33550873 GCACTTCCTC
Statistics
Matches: 152, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
23 49 0.32
24 24 0.16
25 78 0.51
27 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:33550944 original size:9 final size:9
Alignment explanation
Indices: 33550930--33550986 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33550920 ATCTCATGTG
33550930 CATATCATA
1 CATATCATA
*
33550939 CATATCATGTG
1 CATATCA--TA
33550950 CATATCATA
1 CATATCATA
* *
33550959 CATGTCATGTG
1 CATATCA--TA
33550970 CATATCATA
1 CATATCATA
33550979 CATATCAT
1 CATATCAT
33550987 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:33550946 original size:20 final size:20
Alignment explanation
Indices: 33550918--33550988 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
33550908 GCATTTATGA
*
33550918 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33550938 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
33550958 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
33550978 ACATATCATGT
1 ACATATCATGT
33550989 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:33550953 original size:11 final size:11
Alignment explanation
Indices: 33550923--33550977 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
33550913 TATGAACATC
33550923 TCATGTGCATA
1 TCATGTGCATA
*
33550934 TCA--TACATA
1 TCATGTGCATA
33550943 TCATGTGCATA
1 TCATGTGCATA
* *
33550954 TCA--TACATG
1 TCATGTGCATA
33550963 TCATGTGCATA
1 TCATGTGCATA
33550974 TCAT
1 TCAT
33550978 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:33552257 original size:27 final size:27
Alignment explanation
Indices: 33552223--33552301 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
33552213 GGGCATATTC
*
33552223 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
33552250 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
* *
33552277 GTCACTTTACCCTAATAGGGGTATT
1 GTCATTTTACCCT-ACAGGGGTATT
33552302 TTAGTCATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 37 0.80
28 9 0.20
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:33552372 original size:27 final size:27
Alignment explanation
Indices: 33552340--33552556 Score: 184
Period size: 27 Copynumber: 8.0 Consensus size: 27
33552330 TGGTAAATCA
* *
33552340 ACAAACCAAAGGTATTTCAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
** ** **
33552367 GTAAACCAATAGTATTTCTATAATTTTT
1 ACAAACCAAGGGTATTTCGGTAA-TTTT
* * * *
33552395 AGAAAGTCAAGGGTATTTCTGTAACTTT
1 ACAAA-CCAAGGGTATTTCGGTAATTTT
** * *
33552423 GTAAA-TAAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
** *
33552449 ACAAATTAAGGGTATTTCGGTAATTTC
1 ACAAACCAAGGGTATTTCGGTAATTTT
*
33552476 ACAAACCAAGGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
* * *
33552503 ACAAACTAATGGTATTTTGGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
**
33552530 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTCGGTAATTTT
33552557 GTAAATCGAG
Statistics
Matches: 155, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
26 20 0.13
27 108 0.70
28 13 0.08
29 14 0.09
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
ACAAACCAAGGGTATTTCGGTAATTTT
Found at i:33552490 original size:54 final size:54
Alignment explanation
Indices: 33552429--33552556 Score: 211
Period size: 54 Copynumber: 2.4 Consensus size: 54
33552419 CTTTGTAAAT
*
33552429 AAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
* * *
33552483 AAGGGTATTTTGGTAATTTTACAAACTAATGGTATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
*
33552537 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTT
33552557 GTAAATCGAG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACC
Found at i:33552530 original size:81 final size:80
Alignment explanation
Indices: 33552402--33552555 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 80
33552392 TTTAGAAAGT
** **
33552402 CAAGGGTATTTCTGTAACTTTGTAAATAAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTC
1 CAAGGGTATTTCTGTAACTTTACAAATAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
*
33552467 GGTAATTTCACAAAC
66 AGTAATTTCACAAAC
* *
33552482 CAAGGGTATTT-TGGTAATTTTACAAACTAATGGTATTTTGGTAATTTTACAAACCAAGGGTATT
1 CAAGGGTATTTCT-GTAACTTTACAAA-TAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATT
*
33552546 TTAGTAATTT
64 TCAGTAATTT
33552556 TGTAAATCGA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.02
80 21 0.33
81 42 0.66
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTCTGTAACTTTACAAATAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
AGTAATTTCACAAAC
Found at i:33552568 original size:27 final size:27
Alignment explanation
Indices: 33552350--33552597 Score: 162
Period size: 27 Copynumber: 9.1 Consensus size: 27
33552340 ACAAACCAAA
* * * *
33552350 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
33552377 AGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* *
33552406 GGTATTTCT-GTAACTTTGTAAAT-AAG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * *
33552432 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
** * * *
33552459 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * *
33552486 GGTATTTTGGTAATTTTACAAA-CTAAT
1 GGTATTTTAGTAATTTTATAAATC-AAG
* * *
33552513 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* *
33552540 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** * *
33552567 GGTAAAATAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
33552594 GGTA
1 GGTA
33552598 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 22 0.12
27 130 0.71
28 15 0.08
29 14 0.08
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:33552580 original size:81 final size:81
Alignment explanation
Indices: 33552432--33552581 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 81
33552422 TGTAAATAAG
** * *** *
33552432 GGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAATAGT
33552497 AATTTTACAAACTAAT
66 AATTTTACAAACTAAT
* *** * *
33552513 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAATAGT
33552578 AATT
66 AATT
33552582 CTGTAAATCA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAAGGGTAAAATAGT
AATTTTACAAACTAAT
Found at i:33552598 original size:27 final size:27
Alignment explanation
Indices: 33552548--33552677 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
33552538 AGGGTATTTT
* *
33552548 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33552575 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
33552602 AGTAATTCTATAAATCGACGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
33552628 AATAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
33552655 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
33552678 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 23 0.26
27 66 0.74
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:33552652 original size:53 final size:54
Alignment explanation
Indices: 33552548--33552671 Score: 178
Period size: 53 Copynumber: 2.3 Consensus size: 54
33552538 AGGGTATTTT
* * *
33552548 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTATGTAAATCGACGGTAAAATAATAATTCTGTAAATCAAGGGTAAAAC
* * *
33552602 AGTAATTCTATAAATCGACGGTAAAA-AATAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTATGTAAATCGACGGTAAAATAATAATTCTGTAAATCAAGGGTAAAAC
*
33552655 GGTAATTATGTAAATCG
1 AGTAATTATGTAAATCG
33552672 GGGGTACTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
53 39 0.63
54 23 0.37
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (54 bp):
AGTAATTATGTAAATCGACGGTAAAATAATAATTCTGTAAATCAAGGGTAAAAC
Found at i:33561281 original size:28 final size:28
Alignment explanation
Indices: 33561234--33561301 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
33561224 CTTAAAACCC
33561234 TAGGGGT-ATATT-GGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
33561261 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33561289 TAGGGGTAATTTC
1 TAGGGGTAATTTC
33561302 ATGATCTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:33563156 original size:19 final size:18
Alignment explanation
Indices: 33563119--33563162 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
33563109 ATACATACAG
33563119 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
33563136 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
33563155 TACTAATT
1 TAATAATT
33563163 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:33565586 original size:28 final size:28
Alignment explanation
Indices: 33565541--33565609 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
33565531 CTTAAAACCC
*
33565541 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33565568 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
33565596 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
33565610 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:33567402 original size:12 final size:12
Alignment explanation
Indices: 33567387--33567411 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33567377 ACAGTAAATA
33567387 ATAAAAATTTTC
1 ATAAAAATTTTC
33567399 ATAAAAATTTTC
1 ATAAAAATTTTC
33567411 A
1 A
33567412 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:33567462 original size:19 final size:18
Alignment explanation
Indices: 33567425--33567468 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
33567415 ATACATACAG
33567425 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
33567442 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
33567461 TACTAATT
1 TAATAATT
33567469 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:33570920 original size:43 final size:43
Alignment explanation
Indices: 33570816--33570921 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
33570806 GGTCTTGCAT
*
33570816 GTAATCACATATCGGTGCCACTGTCCCAGACAGGGTCTTACTC
1 GTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTC
* * * *
33570859 GTAATCACATATCAATGCCTCTGTCCTAGATAGGGTCTTACTC
1 GTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTC
33570902 GTAATCACATA-CTGATGCCA
1 GTAATCACATATC-GATGCCA
33570922 ACGTATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
GTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTC
Found at i:33573827 original size:27 final size:27
Alignment explanation
Indices: 33573751--33573840 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
33573741 TTTAGTTTAC
* *
33573751 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACTGAAATA-CCTTCGATTTG
* *
33573778 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTCGATTTG
*
33573805 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTCGATTTG
33573832 TAAAATTAC
1 TAAAATTAC
33573841 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTCGATTTG
Found at i:33573850 original size:54 final size:54
Alignment explanation
Indices: 33573751--33573857 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
33573741 TTTAGTTTAC
* * *
33573751 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
33573805 TAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
33573858 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 8 0.18
54 37 0.82
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:33573865 original size:27 final size:27
Alignment explanation
Indices: 33573835--33573895 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
33573825 CGACTTGTAA
33573835 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
33573862 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
33573889 AATTACC
1 AATTACC
33573896 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:33573893 original size:54 final size:54
Alignment explanation
Indices: 33573846--33573985 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
33573836 ATTACCAAAG
* *
33573846 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGACTTACAAAATTACCGTTT
* * * * * *
33573900 TACCCCTGATTTTCATAATCATCATTTTACCCTCGACTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGACTTACAAAATTACCGTTT
*
33573954 TACCCTCGATTTACAGAATTA-CAGTTTTACCC
1 TACCCCCGATTTACAGAATTATC-GTTTTACCC
33573986 ATGATTTAGA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 70 0.99
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTATCGTTTTACCCCCGACTTACAAAATTACCGTTT
Found at i:33573898 original size:27 final size:27
Alignment explanation
Indices: 33573846--33574037 Score: 163
Period size: 27 Copynumber: 7.2 Consensus size: 27
33573836 ATTACCAAAG
*
33573846 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
33573873 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * * * * *
33573900 TACCCCTGATTTTCATAATCATCATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
33573927 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
33573954 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
33573981 TACCCATGATTT--AGACTTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
*** * *
33574006 TACCATTGATTTATAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
33574033 TACCC
1 TACCC
33574038 TTAATTTACA
Statistics
Matches: 135, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
25 20 0.15
27 115 0.85
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:33574006 original size:25 final size:28
Alignment explanation
Indices: 33573951--33574056 Score: 91
Period size: 27 Copynumber: 4.0 Consensus size: 28
33573941 AAAATTACCG
* *
33573951 TTTTACCC-TCGATTTACAGAATTAC-A
1 TTTTACCCATTGATTTATAGAATTACTA
*
33573977 GTTTTACCCA-TGA-TT-TAGACTTACTA
1 -TTTTACCCATTGATTTATAGAATTACTA
*
33574003 TTTTA-CCATTGATTTATAGAATTACTG
1 TTTTACCCATTGATTTATAGAATTACTA
* * *
33574030 TTTTACCC-TTAATTTACAAAATTACTA
1 TTTTACCCATTGATTTATAGAATTACTA
33574057 AAATACCCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
24 3 0.05
25 15 0.23
26 5 0.08
27 39 0.61
28 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (28 bp):
TTTTACCCATTGATTTATAGAATTACTA
Found at i:33574063 original size:27 final size:27
Alignment explanation
Indices: 33574033--33574263 Score: 148
Period size: 27 Copynumber: 8.5 Consensus size: 27
33574023 ATTACTGTTT
* *
33574033 TACCCTTAATTTACAAAATTACTAAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* *
33574060 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* *
33574087 TACCCCTAGTTTGTAAAATTA-TCAAAA
1 TACCCTTAGTTTGCAAAATTACT-AAAA
* ** **
33574114 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* * * *
33574141 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
* * *
33574168 TACCCCT-GATTTACAAAGTTAC-AGAAA
1 TACCCTTAG-TTTGCAAAATTACTA-AAA
*
33574195 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTT-AGTTTGC--AAAATTACTA-AAA
* * * *
33574224 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTAGTTTGCAAAATTACTAAAA
*
33574251 TACCCTTGGTTTG
1 TACCCTTAGTTTG
33574264 TAGATTTACC
Statistics
Matches: 162, Mismatches: 31, Indels: 22
0.75 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 136 0.84
28 7 0.04
29 18 0.11
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTAGTTTGCAAAATTACTAAAA
Found at i:33574091 original size:54 final size:54
Alignment explanation
Indices: 33574033--33574172 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
33574023 ATTACTGTTT
**
33574033 TACCCTTAATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
33574087 TACCCCTAGTTTGTAAAATTA-TCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTAATTTGTAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAAAA
* *
33574141 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTTAATTTGTAAAATTACTAAAATACCC
33574173 CTGATTTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.99
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (54 bp):
TACCCTTAATTTGTAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:33574196 original size:81 final size:81
Alignment explanation
Indices: 33574048--33574202 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
33574038 TTAATTTACA
* * * *
33574048 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
33574113 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
33574129 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTATCA
33574191 GAAATACCCTTG
64 -AAATACCCTTG
33574203 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 56 0.85
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:33574346 original size:27 final size:26
Alignment explanation
Indices: 33574316--33574375 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
33574306 ACCCCTATTA
33574316 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGT-AAGCCCCTGTAG
** * *
33574343 GGTAAAGTGACCGTAATCCCCTGTAT
1 GGTAAAAAGACCGTAAGCCCCTGTAG
33574369 GGTAAAA
1 GGTAAAA
33574376 TGATGAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
GGTAAAAAGACCGTAAGCCCCTGTAG
Found at i:33574363 original size:26 final size:27
Alignment explanation
Indices: 33574324--33574374 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
33574314 TAGGTAAAAA
33574324 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
* *
33574351 GACCGT-AATCCCCTGTATGGTAAA
1 GACCGTAAAGCCCCTGTAGGGTAAA
33574375 ATGATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.22
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:33575627 original size:9 final size:9
Alignment explanation
Indices: 33575615--33575671 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
33575605 TTTGATAAAC
33575615 ATGATATGT
1 ATGATATGT
*
33575624 ATGATATGCAC
1 ATGATATG--T
*
33575635 ATGACATGT
1 ATGATATGT
*
33575644 ATGATATGCAC
1 ATGATATG--T
33575655 ATGATATGT
1 ATGATATGT
33575664 ATGATATG
1 ATGATATG
33575672 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:33575638 original size:20 final size:20
Alignment explanation
Indices: 33575613--33575675 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
33575603 ATTTTGATAA
33575613 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33575633 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
33575653 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33575673 ACA
1 ACA
33575676 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33575784 original size:24 final size:24
Alignment explanation
Indices: 33575728--33575917 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
33575718 GGAGGAAGTG
33575728 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
33575751 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
33575775 AAAAGGGCTTATGCCCCAGTTAGC
1 AAAAGGGCTTATGCCCCAGTTATC
33575799 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
33575823 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
33575846 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
33575870 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
33575894 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
33575918 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.28
24 97 0.64
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:33575851 original size:71 final size:71
Alignment explanation
Indices: 33575728--33575917 Score: 267
Period size: 71 Copynumber: 2.6 Consensus size: 71
33575718 GGAGGAAGTG
* *
33575728 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
33575793 GTTAGC
66 GTTAGA
*
33575799 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
*
33575863 AGTTATA
65 AGTTAGA
* *
33575870 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
33575918 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTAGA
Found at i:33575874 original size:47 final size:47
Alignment explanation
Indices: 33575728--33575918 Score: 276
Period size: 47 Copynumber: 4.0 Consensus size: 47
33575718 GGAGGAAGTG
*
33575728 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
** *
33575775 AAAAGGGCTTATGCCCCAGTTAGCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTA-TTAAAGGGCTTATGCCCCAGTTATA
*
33575823 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
* *
33575870 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATT-AAAG-GGCTTATGCC-CCAGTTATA
33575919 TGATAAAGCA
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 66 0.50
48 53 0.40
49 12 0.09
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
Found at i:33576145 original size:31 final size:31
Alignment explanation
Indices: 33576110--33576173 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33576100 CGTTTACCGT
*
33576110 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
33576141 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33576172 AA
1 AA
33576174 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33579002 original size:27 final size:27
Alignment explanation
Indices: 33578948--33579046 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
33578938 TTAGAATACT
* *
33578948 TTAGTTTACTAAAATTACCGAAATACCC
1 TTAGTTT-GTAAAATTACTGAAATACCC
*
33578976 TTAGTTTGTAAAAATACTGAAATACCC
1 TTAGTTTGTAAAATTACTGAAATACCC
* *
33579003 -TCGATTTGTAAAATTACTAAAATA-CC
1 TTAG-TTTGTAAAATTACTGAAATACCC
* *
33579029 TTCGACTTGTAAAATTAC
1 TTAG-TTTGTAAAATTAC
33579047 CAAAGTACCC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.06
27 51 0.82
28 7 0.11
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
TTAGTTTGTAAAATTACTGAAATACCC
Found at i:33579087 original size:53 final size:53
Alignment explanation
Indices: 33579025--33579216 Score: 134
Period size: 53 Copynumber: 3.6 Consensus size: 53
33579015 ATTACTAAAA
* **
33579025 TACCTTCGACTTGTAAAATTACCAAAGTACCCCCATTTACAGAATTATC-GTTT
1 TACCCTCGACTTACAAAATTACCAAAGTACCCCCATTTACAGAATTA-CAGTTT
* **** **
33579078 TACCCTCGACTTACACAATTACCGTTTTACCCTGATTTACAGAATTACAGTTT
1 TACCCTCGACTTACAAAATTACCAAAGTACCCCCATTTACAGAATTACAGTTT
* * * * *** ** *
33579131 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGACTTACAAAATTACCAAAGTACCC-CCATTTACAGAATTACAGTTT
** * * *
33579185 TACCCTTAATTTACAAAATTACTAAAATACCC
1 TACCCTCGACTTACAAAATTACCAAAGTACCC
33579217 TTAGTTTGTA
Statistics
Matches: 114, Mismatches: 23, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
52 1 0.01
53 68 0.60
54 45 0.39
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (53 bp):
TACCCTCGACTTACAAAATTACCAAAGTACCCCCATTTACAGAATTACAGTTT
Found at i:33579097 original size:27 final size:27
Alignment explanation
Indices: 33579059--33579207 Score: 185
Period size: 27 Copynumber: 5.6 Consensus size: 27
33579049 AAGTACCCCC
33579059 ATTTACAGAATTA-TCGTTTTACCCTCG
1 ATTTACAGAATTACT-GTTTTACCCTCG
* * *
33579086 ACTTACACAATTACCGTTTTACCCT-G
1 ATTTACAGAATTACTGTTTTACCCTCG
*
33579112 ATTTACAGAATTACAGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCG
* * *
33579139 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCG
**
33579166 ATTTACAGAATTACTGTTTTACCCTTA
1 ATTTACAGAATTACTGTTTTACCCTCG
*
33579193 ATTTACAAAATTACT
1 ATTTACAGAATTACT
33579208 AAAATACCCT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
26 23 0.22
27 83 0.78
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACTGTTTTACCCTCG
Found at i:33579197 original size:54 final size:53
Alignment explanation
Indices: 33579059--33579208 Score: 194
Period size: 53 Copynumber: 2.8 Consensus size: 53
33579049 AAGTACCCCC
* * **
33579059 ATTTACAGAATTA-TCGTTTTACCCTCGACTTACACAATTACCGTTTTACCCTG
1 ATTTACAGAATTACT-GTTTTACCCTCGATTTACAAAATTACTATTTTACCCTG
* * *
33579112 ATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCC-TG
**
33579166 ATTTACAGAATTACTGTTTTACCCTTAATTTACAAAATTACTA
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
33579209 AAATACCCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 44 0.52
54 40 0.48
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (53 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTG
Found at i:33579354 original size:81 final size:81
Alignment explanation
Indices: 33579200--33579354 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
33579190 TTAATTTACA
* * * *
33579200 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTATCAAA
33579265 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* *
33579281 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTATAAAGTTA-CAG
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAG-TTTATAAAATTATCA-
33579344 AAATACCCTTG
64 AAATACCCTTG
33579355 ACTTTTAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 3 0.05
81 63 0.95
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTATCAAA
ATACCCTTGGTTTGTG
Found at i:33579410 original size:27 final size:27
Alignment explanation
Indices: 33579158--33579413 Score: 149
Period size: 27 Copynumber: 9.4 Consensus size: 27
33579148 ATTACTATTT
* * * ***
33579158 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGGTTTATAAAATTACTGAAA
** * *
33579185 TACCCTTAATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * **
33579212 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * * *
33579239 TACCCCTAGTTTGTAAAATTA-TCAAAA
1 TACCCTTGGTTTATAAAATTACT-GAAA
* * *
33579266 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
*** * **
33579293 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
* * * *
33579320 TACCCCTGATTTATAAAGTTACAGAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
*
33579347 TACCCTTGACTTT-TAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACT-GAAA
* *
33579375 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACTGAAA
33579402 TACCCTTGGTTT
1 TACCCTTGGTTT
33579414 GTAGATTTAC
Statistics
Matches: 185, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
27 164 0.89
28 21 0.11
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACTGAAA
Found at i:33579423 original size:27 final size:27
Alignment explanation
Indices: 33579199--33579436 Score: 187
Period size: 27 Copynumber: 8.8 Consensus size: 27
33579189 CTTAATTTAC
*
33579199 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * *
33579226 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
33579253 AAAATTA-TCAAAATACCCTTGGTTTGT
1 AAAATTACT-AAAATACCCTTGGTTTGT
* ** ***
33579280 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * * *
33579307 AAAATTACCAAAATACCCCTGATTTAT
1 AAAATTACTAAAATACCCTTGGTTTGT
* *
33579334 AAAGTTAC-AGAAATACCCTTGACTTT-T
1 AAAATTACTA-AAATACCCTTG-GTTTGT
* **
33579361 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACTA-AAATACCCTTGGTTTGT
*
33579389 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTGT
* * * *
33579416 AGATTTACCAAAACACCCTTG
1 AAAATTACTAAAATACCCTTG
33579437 TAGGATGAAA
Statistics
Matches: 170, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.01
27 147 0.86
28 22 0.13
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTGT
Done.