Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 28 of 310
Found at i:7452661 original size:11 final size:11
Alignment explanation
Indices: 7452647--7452671 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7452637 TTTTTCTAAA
7452647 TTTTTTAGTAT
1 TTTTTTAGTAT
7452658 TTTTTTAGTAT
1 TTTTTTAGTAT
7452669 TTT
1 TTT
7452672 ATATTGGTGG
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTAGTAT
Found at i:7459995 original size:38 final size:38
Alignment explanation
Indices: 7459934--7460034 Score: 148
Period size: 38 Copynumber: 2.6 Consensus size: 38
7459924 ATTTGATGTG
*
7459934 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAAA
**
7459974 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
*
7460012 TATCCGGGATAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
7460035 CTAGTGCTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
38 44 0.77
39 5 0.09
40 8 0.14
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.25
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAAA
Found at i:7460042 original size:38 final size:38
Alignment explanation
Indices: 7459950--7460057 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
7459940 GGCTTAAAGA
** *
7459950 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
7459988 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * * *
7460026 CCCGCAGGCCTAGTGCTAGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
7460058 CCTTTGTGCC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:7461787 original size:18 final size:18
Alignment explanation
Indices: 7461764--7461802 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7461754 TAATTGTATT
*
7461764 TAAAACTTAATTTAAAAA
1 TAAAACATAATTTAAAAA
* *
7461782 TAAAACATATTTTAAATA
1 TAAAACATAATTTAAAAA
7461800 TAA
1 TAA
7461803 TTATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAACATAATTTAAAAA
Found at i:7469264 original size:28 final size:27
Alignment explanation
Indices: 7469232--7469290 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
7469222 ATAAAAAATA
7469232 TAAATACAATATAAATATAT-G-AATTTCT
1 TAAATA-AA-ATAAATATATAGCAATTT-T
*
7469260 TAAATAAAATAAGTATATAGCAATTTT
1 TAAATAAAATAAATATATAGCAATTTT
7469287 TAAA
1 TAAA
7469291 GGGAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 9 0.32
27 8 0.29
28 11 0.39
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (27 bp):
TAAATAAAATAAATATATAGCAATTTT
Found at i:7469894 original size:29 final size:29
Alignment explanation
Indices: 7469823--7469894 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
7469813 CAAATAATTT
* *
7469823 ATAATAAAATTACACTTTACCCCTTAAAT
1 ATAATAAAATTATACTTTACCCCTTAAAA
*
7469852 ATGAA-AAACA-TATA-TTTAATCCCTTAAAA
1 AT-AATAAA-ATTATACTTT-ACCCCTTAAAA
7469881 ATAATAAAATTATA
1 ATAATAAAATTATA
7469895 AATTAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
28 6 0.17
29 26 0.74
30 3 0.09
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.33
Consensus pattern (29 bp):
ATAATAAAATTATACTTTACCCCTTAAAA
Found at i:7470252 original size:48 final size:47
Alignment explanation
Indices: 7470200--7470291 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 47
7470190 TACATACCCT
* *
7470200 AATCCAACCGAATATGAAGAAAAAATCGTTGAATTTAATTAATATTCC
1 AATCCAACCGAAAATG-AGAAAAAATAGTTGAATTTAATTAATATTCC
* ** *
7470248 AATCCAACCTAAAATGAGAGCAAATAGTTGGATTTAATTAATAT
1 AATCCAACCGAAAATGAGAAAAAATAGTTGAATTTAATTAATAT
7470292 ATTTTATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 24 0.63
48 14 0.37
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (47 bp):
AATCCAACCGAAAATGAGAAAAAATAGTTGAATTTAATTAATATTCC
Found at i:7480082 original size:5 final size:5
Alignment explanation
Indices: 7480056--7480115 Score: 92
Period size: 5 Copynumber: 12.8 Consensus size: 5
7480046 AACCAAAGAT
7480056 TAAA- TAAA- TAAA- TAAA- TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC
7480102 TAAAC TAAAC TAAA
1 TAAAC TAAAC TAAA
7480116 GAACATTCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 16 0.29
5 39 0.71
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAC
Found at i:7496425 original size:30 final size:30
Alignment explanation
Indices: 7496389--7496451 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
7496379 CCGGGAAAGA
* *
7496389 ATGAAACATCCAACAATCCGATGAGTTGTT
1 ATGAAACATCCAACAACCCGATAAGTTGTT
7496419 ATGAAACATCCAACAACCCGATAAGTTGTT
1 ATGAAACATCCAACAACCCGATAAGTTGTT
7496449 ATG
1 ATG
7496452 TATGTGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (30 bp):
ATGAAACATCCAACAACCCGATAAGTTGTT
Found at i:7498684 original size:8 final size:9
Alignment explanation
Indices: 7498658--7498690 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7498648 TTAAAATTAT
*
7498658 TATATATTA
1 TATATTTTA
7498667 TATATTTTA
1 TATATTTTA
7498676 TAT-TTTTA
1 TATATTTTA
7498684 TATATTT
1 TATATTT
7498691 CTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATATTTTA
Found at i:7499259 original size:89 final size:88
Alignment explanation
Indices: 7499123--7499385 Score: 431
Period size: 89 Copynumber: 3.0 Consensus size: 88
7499113 TTGAAAAACA
* *
7499123 ACATTGTCCTAAGATAAGATAAAGCC--AATAAGCTACGAACATTTTCACTTGGAGTTTAAACAG
1 ACATTGTCCTAAGATAAGATAAAGCCATAACAAGCTACGAACATTTTCACTTGGATTTTAAACAG
*
7499186 GCTTTTCAGACAACAACAGGGAT
66 GCTTTTCAGATAACAACAGGGAT
* * *
7499209 ACATTGTCCTCACATAAGATAAAGCCAGTAACAAACTACGAACATTTTCACTTGGATTTTAAACA
1 ACATTGTCCTAAGATAAGATAAAGCCA-TAACAAGCTACGAACATTTTCACTTGGATTTTAAACA
7499274 GGCTTTTCAGATAACAACAGGGAT
65 GGCTTTTCAGATAACAACAGGGAT
*
7499298 ACATTGTCCTAAGAGAAGATAAAGCCATTAACAAGCTACGAACATTTTCACTTGGATTTTAAACA
1 ACATTGTCCTAAGATAAGATAAAGCCA-TAACAAGCTACGAACATTTTCACTTGGATTTTAAACA
7499363 GGCTTTTCAGATAACAACAGGGA
65 GGCTTTTCAGATAACAACAGGGA
7499386 CTGCTTGCAA
Statistics
Matches: 163, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
86 24 0.15
89 139 0.85
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (88 bp):
ACATTGTCCTAAGATAAGATAAAGCCATAACAAGCTACGAACATTTTCACTTGGATTTTAAACAG
GCTTTTCAGATAACAACAGGGAT
Found at i:7501560 original size:59 final size:59
Alignment explanation
Indices: 7501462--7501596 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
7501452 TTTATCTTGA
* * *
7501462 AATTTAATTTTT-TT-AAGTTGGATTTTAAATTTTAAAATTGTTATCACATTATGGTCTG
1 AATTT-ATTTTTATTCAAGTTGGATCTTAAATTTGAAAATTGTTATCACATTAGGGTCTG
* * *
7501520 AATTTATTTTTATTCAAGTTAGGA-CTTAAATTTGACAATTGTTATTACATTAGGGTTTG
1 AATTTATTTTTATTCAAGTT-GGATCTTAAATTTGAAAATTGTTATCACATTAGGGTCTG
*
7501579 AATTT-TTTTTATCCAAGT
1 AATTTATTTTTATTCAAGT
7501597 AGCCTTTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 6 0.09
58 19 0.28
59 39 0.58
60 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (59 bp):
AATTTATTTTTATTCAAGTTGGATCTTAAATTTGAAAATTGTTATCACATTAGGGTCTG
Found at i:7509378 original size:6 final size:6
Alignment explanation
Indices: 7509363--7509402 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
7509353 AATCTTGATT
* * *
7509363 TTGTTA TTGTGG TTGTGG TTGTGA TTGTGA TTGTGA TTGT
1 TTGTGA TTGTGA TTGTGA TTGTGA TTGTGA TTGTGA TTGT
7509403 TTTGCAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.55
Consensus pattern (6 bp):
TTGTGA
Found at i:7511282 original size:15 final size:17
Alignment explanation
Indices: 7511249--7511285 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7511239 CATATAAGTG
7511249 TTAAATAAGTATTTGTTA
1 TTAAATAAG-ATTTGTTA
7511267 TTAAATAA-ATTT-TTA
1 TTAAATAAGATTTGTTA
7511282 TTAA
1 TTAA
7511286 TAGATATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
18 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TTAAATAAGATTTGTTA
Found at i:7511405 original size:19 final size:19
Alignment explanation
Indices: 7511383--7511419 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7511373 GAAACAGGGG
*
7511383 AAGGAAAGAAGGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
7511402 AAGGAAAGAAAGAAAAAG
1 AAGGAAAGAAAGAAAAAG
7511420 GAAAAATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAAAGA
Found at i:7512516 original size:51 final size:54
Alignment explanation
Indices: 7512436--7512545 Score: 145
Period size: 51 Copynumber: 2.1 Consensus size: 54
7512426 TCACCTTATC
* * *
7512436 GTTACTGTTCCGGATTCGTTCAGAAGAGGTA-T-TCTGTACCT-TATTGTTACT
1 GTTACTGTTCCGGATTCGATCAGAAGAGGTACTCTATGTACCTCTACTGTTACT
* * *
7512487 GTTACTGTTCCGGATTTGATCCGATGAGGTACTCTATGTACCTCTACTGTTACT
1 GTTACTGTTCCGGATTCGATCAGAAGAGGTACTCTATGTACCTCTACTGTTACT
7512541 GTTAC
1 GTTAC
7512546 CGTTACTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
51 27 0.54
52 1 0.02
53 8 0.16
54 14 0.28
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (54 bp):
GTTACTGTTCCGGATTCGATCAGAAGAGGTACTCTATGTACCTCTACTGTTACT
Found at i:7512739 original size:54 final size:54
Alignment explanation
Indices: 7512670--7512841 Score: 265
Period size: 54 Copynumber: 3.2 Consensus size: 54
7512660 AAAATAAAGG
*
7512670 TACTGAATAACTGACTGCT-ACTAAATAAATGACTGTTACTGAATAACTGATTAT
1 TACTGAATAATTGACTG-TGACTAAATAAATGACTGTTACTGAATAACTGATTAT
* *
7512724 TACTGAATAATTGACTGTGACTTAATAAATGACTGTTACTGAATAACTTATTAT
1 TACTGAATAATTGACTGTGACTAAATAAATGACTGTTACTGAATAACTGATTAT
* * * *
7512778 TACTAAATAATTGACTGTGACTGAATAAATGACTGTTACTAAATAAATGATTAT
1 TACTGAATAATTGACTGTGACTAAATAAATGACTGTTACTGAATAACTGATTAT
7512832 TACTGAATAA
1 TACTGAATAA
7512842 CTGATTAATA
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 107 0.99
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (54 bp):
TACTGAATAATTGACTGTGACTAAATAAATGACTGTTACTGAATAACTGATTAT
Found at i:7512848 original size:18 final size:18
Alignment explanation
Indices: 7512670--7512841 Score: 173
Period size: 18 Copynumber: 9.6 Consensus size: 18
7512660 AAAATAAAGG
* *
7512670 TACTGAATAACTGACTGC
1 TACTGAATAAATGACTGT
*
7512688 TACTAAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
7512706 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
7512724 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
* *
7512742 GACTTAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * * *
7512760 TACTGAATAACTTATTAT
1 TACTGAATAAATGACTGT
* *
7512778 TACTAAATAATTGACTGT
1 TACTGAATAAATGACTGT
*
7512796 GACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
7512814 TACTAAATAAATGATTAT
1 TACTGAATAAATGACTGT
7512832 TACTGAATAA
1 TACTGAATAA
7512842 CTGATTAATA
Statistics
Matches: 122, Mismatches: 32, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 122 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:7513196 original size:33 final size:33
Alignment explanation
Indices: 7513159--7513224 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
7513149 TATACTATTG
7513159 AGTTTATTATATGATTTTAAGAGTTTGTAATAT
1 AGTTTATTATATGATTTTAAGAGTTTGTAATAT
7513192 AGTTTATTATATGATTTTAAGAGTTTGTAATAT
1 AGTTTATTATATGATTTTAAGAGTTTGTAATAT
7513225 TTTTCTTACA
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:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (33 bp):
AGTTTATTATATGATTTTAAGAGTTTGTAATAT
Found at i:7515901 original size:32 final size:32
Alignment explanation
Indices: 7515859--7515920 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
7515849 ACTCGGATAA
7515859 TGTTCACAATTGTTTCTATTAAAAGTAGACAG
1 TGTTCACAATTGTTTCTATTAAAAGTAGACAG
*
7515891 TGTTCCCAATTGTTTCTATTAAAAGTAGAC
1 TGTTCACAATTGTTTCTATTAAAAGTAGAC
7515921 TCATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
TGTTCACAATTGTTTCTATTAAAAGTAGACAG
Found at i:7518958 original size:46 final size:46
Alignment explanation
Indices: 7518906--7519126 Score: 327
Period size: 46 Copynumber: 4.8 Consensus size: 46
7518896 AGTGTGCTCT
7518906 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7518952 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7518998 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
7519044 GTGATATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
7519090 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
7519127 TATGACATCA
Statistics
Matches: 163, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 163 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7520061 original size:49 final size:51
Alignment explanation
Indices: 7519947--7520079 Score: 171
Period size: 49 Copynumber: 2.6 Consensus size: 51
7519937 GGGGTGTTAC
* * * * *
7519947 ACACGTAGTAGCCAGCACTTCGTGCTACACACGTGATCAAAGTTATCGGGT
1 ACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTTATCCGGT
* * * *
7519998 ACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGT
1 ACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTTATCCGGT
7520047 ACACGTAGTAGCCTGCACTTAGTACTACACACG
1 ACACGTAGTAGCCTGCACTTAGTACTACACACG
7520080 TGACCTCACA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
49 38 0.54
50 3 0.04
51 29 0.41
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (51 bp):
ACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCAAAGTTATCCGGT
Found at i:7522396 original size:22 final size:23
Alignment explanation
Indices: 7522371--7522416 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7522361 CAGCCAAACC
7522371 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7522393 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
7522416 A
1 A
7522417 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7522422 original size:23 final size:23
Alignment explanation
Indices: 7522378--7522422 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7522368 ACCAATTCAA
*
7522378 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
7522401 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
7522423 CACATACCCA
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:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:7525850 original size:41 final size:39
Alignment explanation
Indices: 7525805--7525891 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
7525795 AAATAGGTTT
*
7525805 TTAGCG-ACGTTTGAATGAAAAACGCCACTAAAGAACAAGCA
1 TTAGCGAACGTTTGAA--AAAAA-ACCACTAAAGAACAAGCA
* * *
7525846 TTAGCGACACTTTTTAAAAAAAACCACTAAAGAACGAGCA
1 TTAGCGA-ACGTTTGAAAAAAAACCACTAAAGAACAAGCA
7525886 TTAGCG
1 TTAGCG
7525892 GCGCTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 22 0.55
41 11 0.28
43 7 0.17
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (39 bp):
TTAGCGAACGTTTGAAAAAAAACCACTAAAGAACAAGCA
Found at i:7528570 original size:22 final size:21
Alignment explanation
Indices: 7528514--7528570 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
7528504 GTTTACGGTA
* * *
7528514 TATGGTTAAGGGTTTAATGTT
1 TATGGTTAAGAGTTTAAGGAT
*
7528535 TATGAGTTATGAGTTTAAGGAT
1 TATG-GTTAAGAGTTTAAGGAT
7528557 TATGGTTTAAGAGT
1 TATGG-TTAAGAGT
7528571 GGTTTAAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (21 bp):
TATGGTTAAGAGTTTAAGGAT
Found at i:7528677 original size:22 final size:21
Alignment explanation
Indices: 7528645--7528685 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
7528635 ATTTTAAAAT
7528645 TTATAGTTTAGGGTTTAGAGA
1 TTATAGTTTAGGGTTTAGAGA
7528666 TTATGAGTTTAGGGTTTAGA
1 TTAT-AGTTTAGGGTTTAGA
7528686 TTAATTAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (21 bp):
TTATAGTTTAGGGTTTAGAGA
Found at i:7528802 original size:14 final size:14
Alignment explanation
Indices: 7528785--7528823 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
7528775 ATCATTATAG
7528785 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
7528799 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
7528813 TTTAGAGTTTA
1 TTTAGGGTTTA
7528824 AAGTGTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:7528979 original size:32 final size:32
Alignment explanation
Indices: 7528933--7529003 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
7528923 GGTTTACTTA
7528933 AGGA-TTAGACTTTATATATATTAAATGGTTT
1 AGGATTTAGACTTTATATATATTAAATGGTTT
*
7528964 AGGATTTAGGCTTTATATATATTAAATGGTTT
1 AGGATTTAGACTTTATATATATTAAATGGTTT
7528996 AGGATTTA
1 AGGATTTA
7529004 AAGTTTAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (32 bp):
AGGATTTAGACTTTATATATATTAAATGGTTT
Found at i:7532765 original size:44 final size:44
Alignment explanation
Indices: 7532702--7532790 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
7532692 GCTATCGCTT
7532702 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
7532746 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
7532790 T
1 T
7532791 GATGCTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
Found at i:7535800 original size:31 final size:30
Alignment explanation
Indices: 7535762--7535819 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7535752 AAACTATAAC
7535762 AGAGGAAGATAAAAAAGATTACCAAAAGATT
1 AGAGGAAGAT-AAAAAGATTACCAAAAGATT
* *
7535793 AGAGGAAGATAAGAATATTACCAAAAG
1 AGAGGAAGATAAAAAGATTACCAAAAG
7535820 CAAATGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.16
Consensus pattern (30 bp):
AGAGGAAGATAAAAAGATTACCAAAAGATT
Found at i:7539776 original size:31 final size:30
Alignment explanation
Indices: 7539740--7539797 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7539730 AAACTATAAC
7539740 AGAGGAAGATAAAAAAGATTACCAAAAGATT
1 AGAGGAAGAT-AAAAAGATTACCAAAAGATT
* *
7539771 AGAGGAAGATAAGAATATTACCAAAAG
1 AGAGGAAGATAAAAAGATTACCAAAAG
7539798 CAAATGTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.16
Consensus pattern (30 bp):
AGAGGAAGATAAAAAGATTACCAAAAGATT
Found at i:7544899 original size:50 final size:50
Alignment explanation
Indices: 7544824--7544993 Score: 286
Period size: 50 Copynumber: 3.4 Consensus size: 50
7544814 CCATGGCAAC
7544824 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
7544874 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
7544924 AAGTGATAAGTGATAGCTTCGGCTACACTTATATGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
7544974 CAAGTGAAAAGTGGTAGCTT
1 -AAGTGATAAGTGATAGCTT
7544994 TTGTTACCTG
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 96 0.85
51 17 0.15
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:7545014 original size:31 final size:31
Alignment explanation
Indices: 7544976--7545124 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
7544966 ACAAATGACA
*** *
7544976 AGTGAAAAGTGGTAGCTTTTGTTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
7545007 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
7545038 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
7545069 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
7545100 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
7545125 AAGTGACAAG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:7545297 original size:49 final size:49
Alignment explanation
Indices: 7545146--7545367 Score: 285
Period size: 49 Copynumber: 4.6 Consensus size: 49
7545136 GATTTCCGTA
* * * * * *
7545146 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTG
* * * *
7545193 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
7545239 TAAGACCATAGCTGGGCTATGGCATCGATATGTGAAATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
7545288 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
7545337 TAAGACCATAGCTGGGCTATGACATCGATAT
1 TAAGACCATAGCTGGGCTATGGCATCGATAT
7545368 ATGAAGATGT
Statistics
Matches: 159, Mismatches: 11, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
46 26 0.16
47 38 0.24
48 13 0.08
49 82 0.52
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
Found at i:7557394 original size:23 final size:23
Alignment explanation
Indices: 7557312--7557398 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
7557302 CCTGATCAGT
*
7557312 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
7557334 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
7557354 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
7557377 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
7557399 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:7557794 original size:15 final size:15
Alignment explanation
Indices: 7557769--7557826 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
7557759 TCATATATAT
7557769 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
7557785 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
7557800 AATAATTTCAATCAA
1 TATAAATTCAATCAA
7557815 TATAAATTCAAT
1 TATAAATTCAAT
7557827 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:7558867 original size:8 final size:8
Alignment explanation
Indices: 7558854--7558882 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7558844 TATCTTTATT
7558854 ATATAATA
1 ATATAATA
7558862 ATATAATA
1 ATATAATA
7558870 ATATAATA
1 ATATAATA
7558878 ATATA
1 ATATA
7558883 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:7560339 original size:22 final size:23
Alignment explanation
Indices: 7560314--7560375 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
7560304 CAACCAAATC
7560314 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7560336 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
**
7560359 ACGTCATCACATATTTA
1 AATTCAT-ACATATTTA
7560376 AAACCAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 6 0.18
23 18 0.55
24 9 0.27
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7562345 original size:35 final size:35
Alignment explanation
Indices: 7562306--7562388 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
7562296 ATTTCCATTG
7562306 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
1 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
7562341 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
1 ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
7562376 ATTTCATTCTATT
1 ATTTCATTCTATT
7562389 CCTAATAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.48
Consensus pattern (35 bp):
ATTTCATTCTATTTCATCATAAACTTACAGCTTTA
Found at i:7564532 original size:18 final size:18
Alignment explanation
Indices: 7564509--7564560 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
7564499 CGAGCTTGAA
7564509 AGCAAGATGTGTGAGCTC
1 AGCAAGATGTGTGAGCTC
*
7564527 AGCAAGATGTGCGAGCTC
1 AGCAAGATGTGTGAGCTC
* *
7564545 AGCAAAAGGTGTGAGC
1 AGCAAGATGTGTGAGC
7564561 CCTATAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.35, T:0.17
Consensus pattern (18 bp):
AGCAAGATGTGTGAGCTC
Found at i:7564712 original size:44 final size:43
Alignment explanation
Indices: 7564658--7564781 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 43
7564648 CGAGCAAGTT
* *
7564658 TAAATACAAGCCCGAATAGGTGCAAGCCGAAGTGGCAAACGGTC
1 TAAATACAAGCCCGAAT-GGTGCAAGCCGAAGTGACAAACAGTC
* * **
7564702 TAAATGCAAGCCC-AAGTGGATGCAAGTCGAAGTGACGGACAGTC
1 TAAATACAAGCCCGAA-TGG-TGCAAGCCGAAGTGACAAACAGTC
* * *
7564746 TAAATACAAG-CCGAGTGGGTGCAAGCCAAAATGACA
1 TAAATACAAGCCCGAAT-GGTGCAAGCCGAAGTGACA
7564782 GACTGAAGGC
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
43 20 0.31
44 44 0.69
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.15
Consensus pattern (43 bp):
TAAATACAAGCCCGAATGGTGCAAGCCGAAGTGACAAACAGTC
Found at i:7572006 original size:130 final size:130
Alignment explanation
Indices: 7571773--7572032 Score: 493
Period size: 130 Copynumber: 2.0 Consensus size: 130
7571763 GAATTTGTTG
*
7571773 CAAAATTTCTAATCTGTCAGCAAGTGAAAACAGAGCATCAAGTACCAACGAGTTTATTACAACCT
1 CAAAATGTCTAATCTGTCAGCAAGTGAAAACAGAGCATCAAGTACCAACGAGTTTATTACAACCT
7571838 ATTATGATTCCTGAATGGAAGTGGGAACACATTACGATGGATTTTGTATCAGGATTGCCTGTGAC
66 ATTATGATTCCTGAATGGAAGTGGGAACACATTACGATGGATTTTGTATCAGGATTGCCTGTGAC
* *
7571903 CAAAATGTCTAATCTGTCAGCAAGTGAAAGCAGAGCATCAAGTACCAACGGGTTTATTACAACCT
1 CAAAATGTCTAATCTGTCAGCAAGTGAAAACAGAGCATCAAGTACCAACGAGTTTATTACAACCT
7571968 ATTATGATTCCTGAATGGAAGTGGGAACACATTACGATGGATTTTGTATCAGGATTGCCTGTGAC
66 ATTATGATTCCTGAATGGAAGTGGGAACACATTACGATGGATTTTGTATCAGGATTGCCTGTGAC
7572033 TCCAAAAAAG
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (130 bp):
CAAAATGTCTAATCTGTCAGCAAGTGAAAACAGAGCATCAAGTACCAACGAGTTTATTACAACCT
ATTATGATTCCTGAATGGAAGTGGGAACACATTACGATGGATTTTGTATCAGGATTGCCTGTGAC
Found at i:7574256 original size:7 final size:7
Alignment explanation
Indices: 7574244--7574273 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
7574234 TACACTTATC
7574244 TGATAAG
1 TGATAAG
7574251 TGATAAG
1 TGATAAG
7574258 TGATAAG
1 TGATAAG
7574265 TGATAAG
1 TGATAAG
7574272 TG
1 TG
7574274 GTAGCTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
TGATAAG
Found at i:7574286 original size:51 final size:51
Alignment explanation
Indices: 7574200--7574314 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
7574190 TGAGTACTTC
* *
7574200 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
* * *
7574251 TGATAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
*
7574302 TGACAAGTGATAA
1 TGATAAGTGATAA
7574315 ATGTGATCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
TGATAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATAAG
Found at i:7579971 original size:23 final size:21
Alignment explanation
Indices: 7579928--7579971 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
7579918 TCCATCAAAC
* *
7579928 AATAAAAAATATTTTTTACAT
1 AATAAAAAATAATTTTCACAT
7579949 AATAATAAATATAATTTTCACAT
1 AATAA-AAA-ATAATTTTCACAT
7579972 CTTTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAAAAAATAATTTTCACAT
Found at i:7591268 original size:1 final size:1
Alignment explanation
Indices: 7591262--7591315 Score: 99
Period size: 1 Copynumber: 54.0 Consensus size: 1
7591252 ATTTATTGGC
*
7591262 TTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7591316 GCCTTTTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.02, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:7593451 original size:67 final size:67
Alignment explanation
Indices: 7593343--7593476 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
7593333 CAAATTTAGC
7593343 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
1 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
7593408 CT
66 CT
*
7593410 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACTGACATA
1 AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
7593475 CT
66 CT
7593477 TTGCTCTAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (67 bp):
AGCTGAGGGTATTGTTTCTGCCTGTGTTCTTTGTTCAGTTTTCTTTTTTTGGTAGAACCGACATA
CT
Found at i:7598186 original size:5 final size:5
Alignment explanation
Indices: 7598176--7598202 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7598166 ATTATGGGCG
7598176 GTGGA GTGGA GTGGA GTGGA GTGGA GT
1 GTGGA GTGGA GTGGA GTGGA GTGGA GT
7598203 TAGTAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.59, T:0.22
Consensus pattern (5 bp):
GTGGA
Found at i:7607038 original size:16 final size:16
Alignment explanation
Indices: 7607017--7607056 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7607007 AAAATTATTC
7607017 ATTTAT-ACATTTTATA
1 ATTTATAACATTTTA-A
7607033 ATTTATAACATTTTAA
1 ATTTATAACATTTTAA
*
7607049 ATTAATAA
1 ATTTATAA
7607057 TAGTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTATAACATTTTAA
Found at i:7610928 original size:13 final size:13
Alignment explanation
Indices: 7610912--7610964 Score: 54
Period size: 14 Copynumber: 4.0 Consensus size: 13
7610902 TTTAAAAATT
7610912 TTAATTAAATTAA
1 TTAATTAAATTAA
*
7610925 TTAATT-AATCAA
1 TTAATTAAATTAA
*
7610937 TTAATATAAATAAA
1 TTAAT-TAAATTAA
*
7610951 TTGAATAAAATTAA
1 TT-AATTAAATTAA
7610965 AAATTAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
12 10 0.30
13 7 0.21
14 13 0.39
15 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:7612937 original size:14 final size:15
Alignment explanation
Indices: 7612912--7612940 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7612902 ATCAAGAATT
7612912 AATATATAAATAAAA
1 AATATATAAATAAAA
7612927 AATAT-TAAATAAAA
1 AATATATAAATAAAA
7612941 TATAATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATATAAATAAAA
Found at i:7616170 original size:15 final size:15
Alignment explanation
Indices: 7616131--7616172 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
7616121 AATAATAAAA
*
7616131 ATATAATAATAATTT
1 ATATAATTATAATTT
*
7616146 ATATATTTATAATTT
1 ATATAATTATAATTT
7616161 -TATAAATTATAA
1 ATAT-AATTATAA
7616173 ATAATCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATTATAATTT
Found at i:7616876 original size:11 final size:11
Alignment explanation
Indices: 7616862--7616931 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
7616852 CAATATTCGA
*
7616862 AAAATAACAAT
1 AAAATAACAAC
*
7616873 AAAATAAGAAC
1 AAAATAACAAC
* *
7616884 AATATAATAAC
1 AAAATAACAAC
** *
7616895 AAAATAGTAAT
1 AAAATAACAAC
*
7616906 AAAATAGCAAC
1 AAAATAACAAC
* *
7616917 AAAATTACAGC
1 AAAATAACAAC
7616928 AAAA
1 AAAA
7616932 CAGTTGATTC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 47 1.00
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:7622558 original size:36 final size:36
Alignment explanation
Indices: 7622510--7622582 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
7622500 TATATCAAGT
*
7622510 CTTACACGTATTGAATAGATTCATATGCCAACCAGA
1 CTTACACGTATTGAATACATTCATATGCCAACCAGA
* *
7622546 CTTACACTTATTGAATACATTCTTATGCCAACCAGA
1 CTTACACGTATTGAATACATTCATATGCCAACCAGA
7622582 C
1 C
7622583 ATCAATGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (36 bp):
CTTACACGTATTGAATACATTCATATGCCAACCAGA
Found at i:7624534 original size:2 final size:2
Alignment explanation
Indices: 7624527--7624557 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7624517 TTTTAGTTGT
7624527 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7624558 CTTATATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7625076 original size:18 final size:18
Alignment explanation
Indices: 7625053--7625102 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
7625043 TTATTGAAAA
*
7625053 TTATTTTATATTTTAAAT
1 TTATTTAATATTTTAAAT
* *
7625071 TTATTTAATTTTTTATAT
1 TTATTTAATATTTTAAAT
*
7625089 TTA-TAAATATTTTA
1 TTATTTAATATTTTA
7625103 TATGCTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATTTAATATTTTAAAT
Found at i:7625102 original size:25 final size:26
Alignment explanation
Indices: 7625051--7625102 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
7625041 TTTTATTGAA
*
7625051 AATTATTTTATATTTTAAATTTATTT
1 AATTATTTTATATTTTAAATATATTT
7625077 AATT-TTTTATATTTATAAATAT-TTT
1 AATTATTTTATATTT-TAAATATATTT
7625102 A
1 A
7625103 TATGCTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
AATTATTTTATATTTTAAATATATTT
Found at i:7625103 original size:17 final size:18
Alignment explanation
Indices: 7625060--7625105 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
7625050 AAATTATTTT
* *
7625060 ATATTTTAAATTTATTTA
1 ATATTTTATATTTATTAA
*
7625078 ATTTTTTATATTTA-TAA
1 ATATTTTATATTTATTAA
7625095 ATATTTTATAT
1 ATATTTTATAT
7625106 GCTAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTTATATTTATTAA
Found at i:7628106 original size:20 final size:20
Alignment explanation
Indices: 7628081--7628120 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7628071 TGGAAAATGA
*
7628081 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
7628101 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7628121 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7628112 original size:34 final size:35
Alignment explanation
Indices: 7628066--7628132 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
7628056 CTGTAAAATA
*
7628066 TTTTCTGGAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGGAAAATGATTTACTGGAAAATATTTTAC
*
7628100 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGGAAAATGATTTACTGGAAAATATTTT
7628133 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCTGGAAAATGATTTACTGGAAAATATTTTAC
Found at i:7628136 original size:14 final size:14
Alignment explanation
Indices: 7628060--7628136 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 14
7628050 GATTGGCTGT
7628060 AAAATATTTTCTGG
1 AAAATATTTTCTGG
7628074 AAAATGA-TTTCTGG
1 AAAAT-ATTTTCTGG
*
7628088 AAAATGTTTTACTTTTCTGT
1 AAAA-----TA-TTTTCTGG
*
7628108 AAAATGATTTACTGG
1 AAAAT-ATTTTCTGG
7628123 AAAATATTTTCTGG
1 AAAATATTTTCTGG
7628137 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
14 24 0.48
15 13 0.26
16 1 0.02
18 1 0.02
19 1 0.02
20 10 0.20
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (14 bp):
AAAATATTTTCTGG
Found at i:7628235 original size:20 final size:20
Alignment explanation
Indices: 7628207--7628283 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
7628197 TCCGGAAAAG
7628207 TTATTTTTACATATATTAAA
1 TTATTTTTACATATATTAAA
* *
7628227 TTGTTTTTACATATATATTAA
1 TTATTTTTACATATAT-TAAA
* *
7628248 TAAATTTTT--ATATTTTAAA
1 T-TATTTTTACATATATTAAA
7628267 TTATTTTTACATATATT
1 TTATTTTTACATATATT
7628284 GCAATGATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.13
19 4 0.09
20 26 0.58
21 4 0.09
22 5 0.11
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
TTATTTTTACATATATTAAA
Found at i:7628322 original size:18 final size:18
Alignment explanation
Indices: 7628299--7628334 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7628289 GATTTATTTA
7628299 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
7628317 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
7628335 GGTTTAATTG
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:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:7630607 original size:21 final size:22
Alignment explanation
Indices: 7630573--7630618 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
7630563 GAGGATGTGG
7630573 AAGAAGATTTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
7630595 AAGAAGA-TTGCTTAGAAGAGA
1 AAGAAGATTTGCTTAGAAGAGA
7630616 AAG
1 AAG
7630619 GAGAAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.48, C:0.04, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAAGATTTGCTTAGAAGAGA
Found at i:7631173 original size:10 final size:10
Alignment explanation
Indices: 7631158--7631191 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
7631148 CCACTTCAAC
7631158 GAATTATTTA
1 GAATTATTTA
7631168 GAATTA-TTA
1 GAATTATTTA
7631177 -AATTATTTA
1 GAATTATTTA
7631186 GAATTA
1 GAATTA
7631192 GAATCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 5 0.23
9 6 0.27
10 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
GAATTATTTA
Found at i:7633930 original size:20 final size:20
Alignment explanation
Indices: 7633893--7633930 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7633883 TGATGGGGAG
*
7633893 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
7633913 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
7633931 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:7635778 original size:46 final size:46
Alignment explanation
Indices: 7635726--7635907 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
7635716 AGTGTGCTCT
7635726 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7635772 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7635818 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
7635864 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
7635908 TCATGTCAAA
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
45 1 0.01
46 128 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7642622 original size:24 final size:24
Alignment explanation
Indices: 7642571--7642619 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
7642561 CTGTCTCTAT
7642571 AATTATAAAATATTAAAAAATTTA
1 AATTATAAAATATTAAAAAATTTA
7642595 AATTATAAAA-A-TAAAACAATTTA
1 AATTATAAAATATTAAAA-AATTTA
7642618 AA
1 AA
7642620 ATTTTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AATTATAAAATATTAAAAAATTTA
Found at i:7642667 original size:15 final size:14
Alignment explanation
Indices: 7642632--7642697 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
7642622 TTTTTATGAA
7642632 ATAAAAATTA-AATT
1 ATAAAAATTATAA-T
7642646 ATGAAAAATATATAAT
1 AT-AAAAAT-TATAAT
*
7642662 AT-AAAATTATAAA
1 ATAAAAATTATAAT
*
7642675 ATAAAAATACATAAT
1 ATAAAAAT-TATAAT
7642690 ATTAAAAA
1 A-TAAAAA
7642698 AATAAAGATG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
13 7 0.16
14 12 0.28
15 11 0.26
16 11 0.26
17 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAAAAATTATAAT
Found at i:7652902 original size:18 final size:16
Alignment explanation
Indices: 7652873--7652906 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
7652863 ATTAGTATTA
7652873 ATTTTTTTTAATTTTT
1 ATTTTTTTTAATTTTT
7652889 ATTTTTTATATAATTTTT
1 ATTTTTT-T-TAATTTTT
7652907 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
ATTTTTTTTAATTTTT
Found at i:7653110 original size:11 final size:11
Alignment explanation
Indices: 7653079--7653103 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7653069 TGTTAAAAAG
7653079 TAACAAAATAA
1 TAACAAAATAA
7653090 TAACAAAATAA
1 TAACAAAATAA
7653101 TAA
1 TAA
7653104 TATAATAGTG
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (11 bp):
TAACAAAATAA
Found at i:7659590 original size:17 final size:17
Alignment explanation
Indices: 7659570--7659608 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7659560 AAATGGGATG
**
7659570 AAAATAATTTTTTAATT
1 AAAATAATTAATTAATT
*
7659587 AAAAAAATTAATTAATT
1 AAAATAATTAATTAATT
7659604 AAAAT
1 AAAAT
7659609 TTTTAAACCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATAATTAATTAATT
Found at i:7660029 original size:20 final size:20
Alignment explanation
Indices: 7659995--7660032 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7659985 TGATCACTTC
7659995 GTAACAAAATAATAACATAA
1 GTAACAAAATAATAACATAA
7660015 GTAACTAAAAT-ATAACAT
1 GTAAC-AAAATAATAACAT
7660033 TTTAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
GTAACAAAATAATAACATAA
Found at i:7660183 original size:3 final size:3
Alignment explanation
Indices: 7660175--7660203 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7660165 TTCAAAATTG
7660175 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7660204 GACGAACTGA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7661108 original size:17 final size:18
Alignment explanation
Indices: 7661069--7661108 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7661059 AAACGTATTT
7661069 TAAAATTTCAGATAAATA
1 TAAAATTTCAGATAAATA
7661087 T-AAATTT-A-ATCAAATA
1 TAAAATTTCAGAT-AAATA
7661103 TAAAAT
1 TAAAAT
7661109 ATATTAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.10
16 7 0.35
17 10 0.50
18 1 0.05
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAATTTCAGATAAATA
Found at i:7670621 original size:37 final size:37
Alignment explanation
Indices: 7670580--7670653 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
7670570 TAAGAAATGG
7670580 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
1 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
*
7670617 CAAGCTTAATAGGCTGTATTCAAAACTGATTAAACTC
1 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
7670654 AGCATATCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (37 bp):
CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
Found at i:7671287 original size:146 final size:146
Alignment explanation
Indices: 7671023--7671316 Score: 579
Period size: 146 Copynumber: 2.0 Consensus size: 146
7671013 AGTAGTAAAT
*
7671023 CAACAAATAAAAACAAGGCTGCATCCTGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
1 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
7671088 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
66 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
7671153 AAAAACGGATTCATTG
131 AAAAACGGATTCATTG
7671169 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
1 CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
7671234 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
66 AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
7671299 AAAAACGGATTCATTG
131 AAAAACGGATTCATTG
7671315 CA
1 CA
7671317 TCCAGCAACT
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (146 bp):
CAACAAATAAAAACAAGGCTGCATCCCGATTCTGAAGGCCAGATTAATATTGTTTTTCACCAGTC
AAGTACTCACTGACTAATGTTGAATTATCAATCACTAAGATGGCCTCCTGGAGACAAAATGAACC
AAAAACGGATTCATTG
Found at i:7673142 original size:31 final size:31
Alignment explanation
Indices: 7673107--7673170 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 31
7673097 TTAAATTAGT
* *
7673107 AAAT-ATAAAATTATACTTTAGTCTCTTTAAA
1 AAATAATAAAATTATAATTTAAT-TCTTTAAA
*
7673138 AAATAATAAAATTTTAATTTAATTCTTTAAA
1 AAATAATAAAATTATAATTTAATTCTTTAAA
7673169 AA
1 AA
7673171 TTACATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (31 bp):
AAATAATAAAATTATAATTTAATTCTTTAAA
Found at i:7675163 original size:5 final size:5
Alignment explanation
Indices: 7675153--7675193 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
7675143 AATAATTAAG
7675153 TATAT TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
7675194 ATAAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:7675263 original size:31 final size:30
Alignment explanation
Indices: 7675228--7675288 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
7675218 GAAACAGAAT
*
7675228 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
7675259 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
7675289 AATAAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:7676864 original size:39 final size:39
Alignment explanation
Indices: 7676757--7676891 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
7676747 GACCTCGAGT
* * *
7676757 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
7676798 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
7676836 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
7676875 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
7676892 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:7683920 original size:18 final size:18
Alignment explanation
Indices: 7683897--7683989 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
7683887 CCCAACTACT
*
7683897 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
7683915 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
7683933 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
7683951 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
7683969 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
7683987 GTA
1 GTA
7683990 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:7683949 original size:36 final size:36
Alignment explanation
Indices: 7683897--7683989 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
7683887 CCCAACTACT
*
7683897 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
7683933 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
7683969 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
7683990 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:7686636 original size:13 final size:13
Alignment explanation
Indices: 7686599--7686662 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
7686589 AGTTTTTTAT
7686599 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
7686612 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
7686625 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
7686638 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
7686651 TGCTTTGGAAAA
1 TGCTTTTGAAAA
7686663 ATTTAAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:7691012 original size:83 final size:82
Alignment explanation
Indices: 7690918--7691075 Score: 196
Period size: 83 Copynumber: 1.9 Consensus size: 82
7690908 TATCACAGTA
* * * *
7690918 AAAATATAATTTTATCATT-TTAATAGTTTATATTTTTATAAATT-TAAAAAAA-TTAAATAAAA
1 AAAATACAATTTTATCATTATTAAT--TTAAGA-TTTTATAAATTACAAAAAAACTTAAATAAAA
**
7690980 TTTTTATATTTTTAGAGAGTC
63 AATTT-TATTTTTAGAGAGTC
*
7691001 AAAATACAATTTTATCCTTATTAATTTAAGATTTTATAAATTACAAAAAAACTTAAATAAAAAAT
1 AAAATACAATTTTATCATTATTAATTTAAGATTTTATAAATTACAAAAAAACTTAAATAAAAAAT
7691066 TTTATTTTTA
66 TTTATTTTTA
7691076 AAAAATCCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
81 11 0.17
82 19 0.29
83 30 0.46
84 5 0.08
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (82 bp):
AAAATACAATTTTATCATTATTAATTTAAGATTTTATAAATTACAAAAAAACTTAAATAAAAAAT
TTTATTTTTAGAGAGTC
Found at i:7697908 original size:51 final size:51
Alignment explanation
Indices: 7697837--7697997 Score: 279
Period size: 51 Copynumber: 3.2 Consensus size: 51
7697827 CTGATCACAT
*
7697837 TTATCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
7697888 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTATCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
7697938 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
7697989 TTGTCACTT
1 TTATCACTT
7697998 ATCAAATGGT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 48 0.47
51 55 0.53
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:7703142 original size:44 final size:44
Alignment explanation
Indices: 7703075--7703285 Score: 253
Period size: 44 Copynumber: 4.5 Consensus size: 44
7703065 CTGATCACAT
* *
7703075 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
7703119 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-C-C--A-C
7703167 ATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 --TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
7703213 TTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTG-------TCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
7703264 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
7703286 AGTACTCAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 30
0.81 0.02 0.16
Matches are distributed among these distances:
43 5 0.03
44 55 0.37
45 1 0.01
46 1 0.01
47 2 0.01
48 1 0.01
49 1 0.01
50 34 0.23
51 48 0.32
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:7703170 original size:94 final size:96
Alignment explanation
Indices: 7703072--7703278 Score: 301
Period size: 94 Copynumber: 2.1 Consensus size: 96
7703062 ACACTGATCA
* *
7703072 CATTTATCACTTGTCACTGATTAGATAAGTGTAGCTAAATCTACCACTTATCACTTG-TCACTGA
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTTCACTGA
7703136 TCAGATAAGTGTAGCT-AAGCTACCACTTAT
66 TCAGATAAGTGTAGCTGAAGCTACCACTTAT
7703166 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTAT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG-----T-T
*
7703231 CACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
60 CACTGATCAGATAAGTGTAGCTGAAGCTACCACTTAT
* *
7703268 CACTTGTCACT
1 CATTTATCACT
7703279 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
94 55 0.55
101 23 0.23
102 22 0.22
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (96 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTTCACTGA
TCAGATAAGTGTAGCTGAAGCTACCACTTAT
Found at i:7703228 original size:51 final size:50
Alignment explanation
Indices: 7703075--7703278 Score: 276
Period size: 51 Copynumber: 4.2 Consensus size: 50
7703065 CTGATCACAT
* * *
7703075 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAA---A--TC-TACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
*
7703119 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
7703169 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* * *
7703220 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
7703271 TTGTCACT
1 TTATCACT
7703279 GATCAGAAGT
Statistics
Matches: 144, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
44 34 0.24
47 1 0.01
49 1 0.01
50 37 0.26
51 71 0.49
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:7709745 original size:42 final size:42
Alignment explanation
Indices: 7709698--7709781 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
7709688 AGTCGTCCTT
7709698 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
1 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
7709740 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
1 AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
7709782 TTCTTTTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (42 bp):
AGTTTGAGTTTTGTATTGTTTGTCTTGTAATAAAGAGGTAAC
Found at i:7722030 original size:32 final size:31
Alignment explanation
Indices: 7721994--7722075 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 31
7721984 AATTTTTTAA
* *
7721994 ATTTTTAAAAATTCAAAAAAATTATAAATATT
1 ATTTTTAAAAATT-AAAAAAATCATAAAAATT
*
7722026 ATTTTTAAAGATT--AAAAATCATAAAAATT
1 ATTTTTAAAAATTAAAAAAATCATAAAAATT
* *
7722055 ATTTTTTAAAATTTAAAAAAT
1 ATTTTTAAAAATTAAAAAAAT
7722076 TAATTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 25 0.58
31 6 0.14
32 12 0.28
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (31 bp):
ATTTTTAAAAATTAAAAAAATCATAAAAATT
Found at i:7723615 original size:20 final size:20
Alignment explanation
Indices: 7723592--7723708 Score: 65
Period size: 20 Copynumber: 5.4 Consensus size: 20
7723582 TGATATAAAC
7723592 TTATAAAAATTATAAAAAAA
1 TTATAAAAATTATAAAAAAA
**
7723612 TTATAAGTATTATAAAAATCTAA
1 TTATAAAAATTATAAAAA---AA
* * *
7723635 TAAAATATAAAATTTTTATAAAAA
1 T----TATAAAAATTATAAAAAAA
*
7723659 TGTACT-AAAATTATATAAAAA
1 T-TA-TAAAAATTATAAAAAAA
* *
7723680 TCATAAAAATTATAAAAAAGG
1 TTATAAAAATTATAAAAAA-A
7723701 TTATAAAA
1 TTATAAAA
7723709 TTGTTAAATT
Statistics
Matches: 73, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
19 1 0.01
20 30 0.41
21 23 0.32
22 1 0.01
23 3 0.04
24 3 0.04
27 12 0.16
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TTATAAAAATTATAAAAAAA
Found at i:7723625 original size:29 final size:29
Alignment explanation
Indices: 7723592--7723707 Score: 85
Period size: 29 Copynumber: 3.9 Consensus size: 29
7723582 TGATATAAAC
*
7723592 TTATAAAAATTATAAAAAAATTATAAGTA
1 TTATAAAAATTATAAAAAAATTATAAATA
* * *
7723621 TTATAAAAA-TCTAATAAAA-TATAAAATTT
1 TTATAAAAATTATAAAAAAATTAT-AAA-TA
** *
7723650 TTATAAAAATGTACTAAAATTA-TATAAAAA
1 TTATAAAAAT-TA-TAAAAAAATTATAAATA
* *
7723680 TCATAAAAATTATAAAAAAGGTTATAAA
1 TTATAAAAATTATAAAAAA-ATTATAAA
7723708 ATTGTTAAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.05
28 15 0.23
29 21 0.32
30 15 0.23
31 4 0.06
32 8 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
TTATAAAAATTATAAAAAAATTATAAATA
Found at i:7723710 original size:20 final size:19
Alignment explanation
Indices: 7723636--7723698 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
7723626 AAAATCTAAT
*
7723636 AAAAT-ATAAAATTTTTATA
1 AAAATCATAAAA-TTATATA
*
7723655 AAAATGTACTAAAATTATATA
1 AAAAT-CA-TAAAATTATATA
7723676 AAAATCATAAAAATTATA-A
1 AAAATCAT-AAAATTATATA
7723695 AAAA
1 AAAA
7723699 GGTTATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 11 0.29
20 10 0.26
21 12 0.32
22 5 0.13
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATCATAAAATTATATA
Found at i:7724306 original size:18 final size:18
Alignment explanation
Indices: 7724278--7724321 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
7724268 GTTTGATTAA
7724278 TTTTATAATTTATTAGAA-T
1 TTTTAT-ATTT-TTAGAAGT
*
7724297 TTTTATATTTTTATAAGT
1 TTTTATATTTTTAGAAGT
7724315 TTTTATA
1 TTTTATA
7724322 AGTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 12 0.52
19 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTAGAAGT
Found at i:7724317 original size:10 final size:9
Alignment explanation
Indices: 7724278--7724346 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 9
7724268 GTTTGATTAA
7724278 TTTTATAAT
1 TTTTATAAT
*
7724287 TTATTAGAAT
1 TT-TTATAAT
7724297 TTTTAT-AT
1 TTTTATAAT
7724305 TTTTATAAGT
1 TTTTATAA-T
7724315 TTTTATAAGT
1 TTTTATAA-T
* *
7724325 TTATATAAA
1 TTTTATAAT
*
7724334 TTTCAT-AT
1 TTTTATAAT
7724342 TTTTA
1 TTTTA
7724347 ATGTTTGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
8 13 0.27
9 10 0.20
10 26 0.53
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:7724327 original size:18 final size:18
Alignment explanation
Indices: 7724278--7724329 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
7724268 GTTTGATTAA
7724278 TTTTATAATTTATTAGAAT
1 TTTTATAATTTA-TAGAAT
* *
7724297 TTTTATATTTTTATA-AGT
1 TTTTATA-ATTTATAGAAT
7724315 TTTTATAAGTTTATA
1 TTTTATAA-TTTATA
7724330 TAAATTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 15 0.54
19 9 0.32
20 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTATAGAAT
Found at i:7729061 original size:19 final size:20
Alignment explanation
Indices: 7729021--7729061 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7729011 GTTTTTCAAA
*
7729021 TTTCAAAAATGAGAATTATT
1 TTTCAAAAATGAGAAATATT
*
7729041 TTTCGAAAATGA-AAATATT
1 TTTCAAAAATGAGAAATATT
7729060 TT
1 TT
7729062 GATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTCAAAAATGAGAAATATT
Found at i:7744259 original size:26 final size:26
Alignment explanation
Indices: 7744230--7744294 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 26
7744220 AATTTTAAAA
*
7744230 ATTATATTTAATAAAATAAAGCATTT
1 ATTATATTTAATAAAATAAAACATTT
*
7744256 ATTATATTTTTTAATATAATAAAACATTT
1 ATTATA---TTTAATAAAATAAAACATTT
*
7744285 AATATATTTA
1 ATTATATTTA
7744295 TGGTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.30
29 23 0.70
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
ATTATATTTAATAAAATAAAACATTT
Found at i:7744268 original size:29 final size:29
Alignment explanation
Indices: 7744236--7744293 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
7744226 AAAAATTATA
* *
7744236 TTTAATAAAATAAAGCATTTATTATATTT
1 TTTAATAAAATAAAACATTTAATATATTT
*
7744265 TTTAATATAATAAAACATTTAATATATTT
1 TTTAATAAAATAAAACATTTAATATATTT
7744294 ATGGTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAATAAAATAAAACATTTAATATATTT
Found at i:7744415 original size:17 final size:16
Alignment explanation
Indices: 7744385--7744433 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
7744375 TAGTGTGTTA
*
7744385 TATTTTTTAAAAAATT
1 TATTTTTAAAAAAATT
*
7744401 TATTTTTAAATAAAAAT
1 TATTTTTAAA-AAAATT
*
7744418 TAATTTTAAAAAAATT
1 TATTTTTAAAAAAATT
7744434 CAAATATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTTTTAAAAAAATT
Found at i:7756616 original size:12 final size:13
Alignment explanation
Indices: 7756601--7756643 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
7756591 TTTCACAGAA
7756601 CATTTTT-TTTTT
1 CATTTTTCTTTTT
7756613 CATTTTTCTTTTT
1 CATTTTTCTTTTT
*
7756626 C-TTCTTCTTTTT
1 CATTTTTCTTTTT
*
7756638 CCTTTT
1 CATTTT
7756644 CATAAAACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.77
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:7763531 original size:37 final size:37
Alignment explanation
Indices: 7763470--7763615 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
7763460 TACGTATGAT
* *
7763470 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
7763505 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
7763542 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
7763579 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
7763616 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:7763632 original size:46 final size:46
Alignment explanation
Indices: 7763579--7763847 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
7763569 TAAGTGTAGC
* **
7763579 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
7763625 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
7763671 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
7763723 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
7763769 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
7763821 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
7763848 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:7763698 original size:52 final size:52
Alignment explanation
Indices: 7763622--7763841 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
7763612 TAGCTAAAGC
* *
7763622 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
7763675 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
7763727 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
7763773 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
7763825 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
7763842 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:7763744 original size:98 final size:98
Alignment explanation
Indices: 7763579--7763847 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
7763569 TAAGTGTAGC
* * *
7763579 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
7763644 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
7763678 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
7763743 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
7763776 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
7763841 GATCAGA
66 GATCAGA
7763848 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:7767028 original size:49 final size:50
Alignment explanation
Indices: 7766973--7767176 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
7766963 TTCGTTTTCT
*
7766973 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
7767022 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
7767071 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
7767129 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
7767177 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:7767143 original size:58 final size:59
Alignment explanation
Indices: 7767057--7767175 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
7767047 TACACGAAAT
7767057 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
7767115 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
7767174 CA
1 CA
7767176 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:7767156 original size:28 final size:28
Alignment explanation
Indices: 7767066--7767156 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
7767056 TCACATATCA
7767066 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
7767094 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
7767124 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
7767152 CTTAC
1 CTTAC
7767157 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:7768490 original size:37 final size:37
Alignment explanation
Indices: 7768429--7768574 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
7768419 TACGTATGAT
* *
7768429 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
7768464 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
7768501 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
7768538 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
7768575 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:7768591 original size:46 final size:46
Alignment explanation
Indices: 7768538--7768708 Score: 234
Period size: 46 Copynumber: 3.6 Consensus size: 46
7768528 TAAGTGTAGC
*
7768538 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* **
7768584 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* *
7768630 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
7768682 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
7768709 AGTACTCAAA
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
46 67 0.61
48 1 0.01
50 1 0.01
52 40 0.37
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:7768654 original size:52 final size:52
Alignment explanation
Indices: 7768581--7768694 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 52
7768571 TAGCTAAAGC
* **
7768581 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
7768634 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
7768686 TATCACTTT
1 TATCACTTT
7768695 GTCACTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 44 0.80
53 11 0.20
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:7771202 original size:3 final size:3
Alignment explanation
Indices: 7771194--7771218 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7771184 TTAATTCTAG
7771194 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7771219 AATCGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7773240 original size:28 final size:28
Alignment explanation
Indices: 7773200--7773255 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
7773190 ACTTGGCATA
7773200 GAATATTTCTTTTACCTCCTCTAGAAAT
1 GAATATTTCTTTTACCTCCTCTAGAAAT
7773228 GAATATTTCTTTTACCTCCTCTAGAAAT
1 GAATATTTCTTTTACCTCCTCTAGAAAT
7773256 TGACATGTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (28 bp):
GAATATTTCTTTTACCTCCTCTAGAAAT
Found at i:7783706 original size:15 final size:15
Alignment explanation
Indices: 7783686--7783731 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
7783676 AAATTTTAAA
7783686 TAATTTATTATTTTT
1 TAATTTATTATTTTT
*
7783701 TAATTTATTAATTTT
1 TAATTTATTATTTTT
* *
7783716 AAATTTA-GATTTTT
1 TAATTTATTATTTTT
7783730 TA
1 TA
7783732 TAAATATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 6 0.23
15 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TAATTTATTATTTTT
Found at i:7783812 original size:82 final size:82
Alignment explanation
Indices: 7783725--7783975 Score: 493
Period size: 82 Copynumber: 3.1 Consensus size: 82
7783715 TAAATTTAGA
*
7783725 TTTTTTATAAATATTTTTAAAATCTTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
7783790 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
7783807 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
7783872 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
7783889 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
1 TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
7783954 TTATATGTAAATTGAAT
66 TTATATGTAAATTGAAT
7783971 TTTTT
1 TTTTT
7783976 AATAGATACC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 168 1.00
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (82 bp):
TTTTTTATAAATATTTTTAAAATATTTAGTCTTGTTTTTATTAATTTGTTTGAATTATTTCTATT
TTATATGTAAATTGAAT
Found at i:7784242 original size:14 final size:14
Alignment explanation
Indices: 7784223--7784264 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
7784213 AGCCTCGAAT
*
7784223 CTCAAAATCTAAAC
1 CTCAAACTCTAAAC
7784237 CTCAAACTCTAAA-
1 CTCAAACTCTAAAC
7784250 CTCAAACT-TAAAC
1 CTCAAACTCTAAAC
7784263 CT
1 CT
7784265 TGAACTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 10 0.38
14 12 0.46
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (14 bp):
CTCAAACTCTAAAC
Found at i:7793423 original size:70 final size:71
Alignment explanation
Indices: 7793306--7793449 Score: 177
Period size: 70 Copynumber: 2.0 Consensus size: 71
7793296 ACTGAAAATT
* * *
7793306 TTCAAAATATGTTAGGTGGGTGTCACATTATCCAGGACTTGGTATCGC-ATCTCGA-AGACAATA
1 TTCAAAATATGTCAGGTGGGTATCACATTATCCAGGACTTGGCATCGCGATCTC-ATAGACAATA
*
7793369 GCCAAAC
65 GACAAAC
** *
7793376 TTCAAAATATGTCAGGTGGGTATTGCGA-TATCCAGGGCTTGGCATCGCGATCTCATAGACAATA
1 TTCAAAATATGTCAGGTGGGTATCAC-ATTATCCAGGACTTGGCATCGCGATCTCATAGACAATA
*
7793440 GATAAAC
65 GACAAAC
7793447 TTC
1 TTC
7793450 CCAATTTGGG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
70 41 0.65
71 22 0.35
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (71 bp):
TTCAAAATATGTCAGGTGGGTATCACATTATCCAGGACTTGGCATCGCGATCTCATAGACAATAG
ACAAAC
Found at i:7804475 original size:13 final size:13
Alignment explanation
Indices: 7804457--7804482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7804447 CTCGCATATT
7804457 TATTTAGTTCCCA
1 TATTTAGTTCCCA
7804470 TATTTAGTTCCCA
1 TATTTAGTTCCCA
7804483 CAGCTCGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (13 bp):
TATTTAGTTCCCA
Done.