Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 106 of 185
Found at i:33388535 original size:17 final size:17
Alignment explanation
Indices: 33388515--33388548 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33388505 CCAAAAAAAT
33388515 ACGAGGAAAAAAACCCC
1 ACGAGGAAAAAAACCCC
*
33388532 ACGAGTAAAAAAACCCC
1 ACGAGGAAAAAAACCCC
33388549 CAAACAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.29, G:0.15, T:0.03
Consensus pattern (17 bp):
ACGAGGAAAAAAACCCC
Found at i:33394752 original size:26 final size:26
Alignment explanation
Indices: 33394716--33394774 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
33394706 ATATTTCTTG
* *
33394716 AAATCTTATCA-GAGGCAAAATCGTTA
1 AAATTTTATCATG-GGCAAAATCGTCA
*
33394742 AAATTTTATCATGGGTAAAATCGTCA
1 AAATTTTATCATGGGCAAAATCGTCA
33394768 AAATTTT
1 AAATTTT
33394775 GCTAATGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (26 bp):
AAATTTTATCATGGGCAAAATCGTCA
Found at i:33398082 original size:133 final size:133
Alignment explanation
Indices: 33397844--33398244 Score: 739
Period size: 133 Copynumber: 3.0 Consensus size: 133
33397834 CTAATGAGAT
33397844 TGATATTTGGGCTTTCATGAATATTTGTGTATAAATTTATTATTTAATTGATTATTAGTTGAGTA
1 TGATATTTGGGCTTTCATGAATATTTGTGTATAAATTTATTATTTAATTGATTATTAGTTGAGTA
33397909 TTATTTCTGATTTGATTGAGTTTTTATGTGTTTTTGTTAAATTGCTAGAATACTATAATTGGCAC
66 TTATTTCTGATTTGATTGAGTTTTTATGTGTTTTTGTTAAATTGCTAGAATACTATAATTGGCAC
33397974 CTC
131 CTC
*
33397977 TGATATTTGGGCTTTCATGAATATTTGTGTATAAATTTATTATTTAATTGATTATTAGTTGAGAA
1 TGATATTTGGGCTTTCATGAATATTTGTGTATAAATTTATTATTTAATTGATTATTAGTTGAGTA
33398042 TTATTTCTGATTTGATTGAGTTTTTATGTGTTTTTGTTAAATTGCTAGAATACTATAATTGGCAC
66 TTATTTCTGATTTGATTGAGTTTTTATGTGTTTTTGTTAAATTGCTAGAATACTATAATTGGCAC
33398107 CTC
131 CTC
* * *
33398110 TAATATTTGGGCTTTCATGAATATTTGTGTATAAATTAATTATTTAATTGATTATTAGTTGATTA
1 TGATATTTGGGCTTTCATGAATATTTGTGTATAAATTTATTATTTAATTGATTATTAGTTGAGTA
* *
33398175 TTATTTCCGATTTGATTGAGTTTTTATGTGTTTTTTGTTAAATTGCTAGAATACTATAATTGACA
66 TTATTTCTGATTTGATTGAGTTTTTATGTG-TTTTTGTTAAATTGCTAGAATACTATAATTGGCA
33398240 CCTC
130 CCTC
33398244 T
1 T
33398245 AGTAGAATAT
Statistics
Matches: 260, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
133 222 0.85
134 38 0.15
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (133 bp):
TGATATTTGGGCTTTCATGAATATTTGTGTATAAATTTATTATTTAATTGATTATTAGTTGAGTA
TTATTTCTGATTTGATTGAGTTTTTATGTGTTTTTGTTAAATTGCTAGAATACTATAATTGGCAC
CTC
Found at i:33406088 original size:20 final size:19
Alignment explanation
Indices: 33406052--33406108 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
33406042 TTTTATTTAA
* *
33406052 TTTATAATTAATTATAATTT
1 TTTATAATTAA-AATAATAT
33406072 TTTATAATATAAAATAAATAT
1 TTTATAAT-TAAAAT-AATAT
33406093 TTTAT-ATTAAAATAAT
1 TTTATAATTAAAATAAT
33406109 GAAGATAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 3 0.09
19 6 0.18
20 12 0.36
21 12 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTATAATTAAAATAATAT
Found at i:33406831 original size:19 final size:19
Alignment explanation
Indices: 33406809--33406878 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
33406799 AAATATTACA
*
33406809 AAAATTTCACAATAATTTT
1 AAAATTTCAAAATAATTTT
*
33406828 AAAATTTTTAAAATAATTTTT
1 AAAA-TTTCAAAATAA-TTTT
33406849 AAAATTT-AAAAT-ATTTAT
1 AAAATTTCAAAATAATTT-T
33406867 AAAAATTTCAAA
1 -AAAATTTCAAA
33406879 TTTTAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.07
18 2 0.05
19 16 0.36
20 15 0.34
21 8 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTTCAAAATAATTTT
Found at i:33406831 original size:20 final size:20
Alignment explanation
Indices: 33406808--33406878 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
33406798 CAAATATTAC
*
33406808 AAAAATTTCACAATAATTTT
1 AAAAATTTCAAAATAATTTT
* *
33406828 AAAATTTTTAAAATAATTTT
1 AAAAATTTCAAAATAATTTT
*
33406848 TAAAATTT-AAAAT-ATTTAT
1 AAAAATTTCAAAATAATTT-T
33406867 AAAAATTTCAAA
1 AAAAATTTCAAA
33406879 TTTTAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.09
19 13 0.30
20 26 0.60
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATTTCAAAATAATTTT
Found at i:33406856 original size:28 final size:28
Alignment explanation
Indices: 33406825--33406906 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
33406815 TCACAATAAT
33406825 TTTAAAATTTTTAAAATAATTTTTAAAA
1 TTTAAAATTTTTAAAATAATTTTTAAAA
* *
33406853 TTTAAAATATTTATAAA-AA--TTTCAAA
1 TTTAAAATTTTTA-AAATAATTTTTAAAA
* *
33406879 TTTTAAA-TTTTAAAATAAATTCTTAAAA
1 TTTAAAATTTTTAAAAT-AATTTTTAAAA
33406907 AATCTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
24 3 0.07
25 4 0.09
26 14 0.33
28 19 0.44
29 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
TTTAAAATTTTTAAAATAATTTTTAAAA
Found at i:33406879 original size:19 final size:19
Alignment explanation
Indices: 33406798--33406883 Score: 63
Period size: 19 Copynumber: 4.5 Consensus size: 19
33406788 TCTCTCTTAA
*
33406798 CAAATA-TTACAAAAATTT
1 CAAATATTTATAAAAATTT
*
33406816 CACAATAATTT-TAAAATTTTT
1 CA-AAT-ATTTATAAAA-ATTT
* *
33406837 AAAATAATTT-TTAAAATTT
1 CAAAT-ATTTATAAAAATTT
*
33406856 AAAATATTTATAAAAATTT
1 CAAATATTTATAAAAATTT
33406875 CAAAT-TTTA
1 CAAATATTTA
33406884 AATTTTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
18 10 0.18
19 23 0.41
20 17 0.30
21 6 0.11
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (19 bp):
CAAATATTTATAAAAATTT
Found at i:33406886 original size:26 final size:26
Alignment explanation
Indices: 33406825--33406899 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
33406815 TCACAATAAT
* *
33406825 TTTAAAATTTTTAAAATAATTTTTAAAA
1 TTTAAAA-TTTTAAAATAA-ATTTCAAA
*
33406853 TTTAAAATATTTATAA-AAATTTCAAA
1 TTTAAAAT-TTTAAAATAAATTTCAAA
*
33406879 TTTTAAATTTTAAAATAAATT
1 TTTAAAATTTTAAAATAAATT
33406900 CTTAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 6 0.15
26 18 0.45
27 3 0.08
28 13 0.32
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTAAAATTTTAAAATAAATTTCAAA
Found at i:33411778 original size:28 final size:28
Alignment explanation
Indices: 33411723--33411798 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
33411713 TCAGATTTTT
* *
33411723 CCATAAAGGC-ATCCCTTTCAAAGTTCG
1 CCATAAAGGCTATTCTTTTCAAAGTTCG
* *
33411750 CCATAAAGGTTATTCTTTTCAGAGTTCG
1 CCATAAAGGCTATTCTTTTCAAAGTTCG
33411778 CCATAAAGGCTATTCTTTTCA
1 CCATAAAGGCTATTCTTTTCA
33411799 TTTATGTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 9 0.21
28 34 0.79
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (28 bp):
CCATAAAGGCTATTCTTTTCAAAGTTCG
Found at i:33413482 original size:100 final size:100
Alignment explanation
Indices: 33413358--33413537 Score: 272
Period size: 100 Copynumber: 1.8 Consensus size: 100
33413348 GTGAAATTGT
* * * * *
33413358 TCATGATCTTAAATCAAATGAACATAGGTTGCGATCTTAAATCA-ATGAACCTTAATAATATCAG
1 TCATGATATTAAATCAAATGAACATAGGTTACAATATTAAATCAGAT-AACCTTAATAATACCAG
*
33413422 CTATGATATTAAATCAACAAGCTAAAATAAAATTAA
65 CTACGATATTAAATCAACAAGCTAAAATAAAATTAA
*
33413458 TCATGATATTAAATCAAATGAACATAGGTTACAATATTAAATCAGCTAACCTTAATAATACCAGC
1 TCATGATATTAAATCAAATGAACATAGGTTACAATATTAAATCAGATAACCTTAATAATACCAGC
*
33413523 TACGATCTTAAATCA
66 TACGATATTAAATCA
33413538 GCGAGCTGTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 70 0.99
101 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (100 bp):
TCATGATATTAAATCAAATGAACATAGGTTACAATATTAAATCAGATAACCTTAATAATACCAGC
TACGATATTAAATCAACAAGCTAAAATAAAATTAA
Found at i:33413597 original size:67 final size:67
Alignment explanation
Indices: 33413526--33413986 Score: 228
Period size: 67 Copynumber: 7.0 Consensus size: 67
33413516 TACCAGCTAC
** *
33413526 GATCTTAAATCAGCGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATTGTTC
1 GATCTTAAATCAATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACTTAAATAAAATTGTTC
33413591 AT
66 AT
* * * * * * *
33413593 GATC-TAAATCAAATGAAC--TT-AG-GTTGTGATCTT-AATAAGCTAA-TGTTAATAATATCAG
1 GATCTTAAATC-AATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACT-TAAATAAAAT-TG
*
33413651 CTGCA-
63 -TTCAT
* * * * * * * *
33413656 -ATATTAAATCAATGAGTTGTTCGGAGTTGCAATCCTAAATCAACTAACATAAATAAAATTCTCC
1 GATCTTAAATCAATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACTTAAATAAAATTGTTC
33413720 AT
66 AT
* * * * * * * **
33413722 GATCTTAAATCAAATGA-AT-TT-AG-GTTGTGATATTAAATCAACTAA-TGTTAATAACA-TCA
1 GATCTTAAATC-AATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACT-TAAATAAAATTGT
33413781 T-AT
64 TCAT
* * * * * *
33413784 GCGATCTTAAATCAGTGAGTTGTTCGAAGTTACGATATTAAATCAGCTAACTCAAATAAAATTGT
1 --GATCTTAAATCAATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACTTAAATAAAATTGT
33413849 TCAT
64 TCAT
* * * * ** *
33413853 GATATTAAATCAAATGAAC--TT-AG-GTTGCGATCTTAAATAAGCTAACATT-AATAGTATCAG
1 GATCTTAAATC-AATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAAC-TTAAATAAAAT-TG
* *
33413913 CT-AC
63 TTCAT
* ** * * *
33413917 GATATTAAATCAGCGAGCTGTTCGGAGTTGTGATCTTAAATCAGTTATCTTAAATAAAATTGTTC
1 GATCTTAAATCAATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACTTAAATAAAATTGTTC
33413982 AT
66 AT
33413984 GAT
1 GAT
33413987 AGATAAAATA
Statistics
Matches: 283, Mismatches: 78, Indels: 66
0.66 0.18 0.15
Matches are distributed among these distances:
61 1 0.00
62 25 0.09
63 27 0.10
64 81 0.29
65 14 0.05
66 23 0.08
67 98 0.35
68 12 0.04
69 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (67 bp):
GATCTTAAATCAATGAGCTGTTCGGAGTTGCGATCTTAAATCAGCTAACTTAAATAAAATTGTTC
AT
Found at i:33413826 original size:131 final size:131
Alignment explanation
Indices: 33413426--33413987 Score: 605
Period size: 131 Copynumber: 4.3 Consensus size: 131
33413416 TATCAGCTAT
* ** * *
33413426 GATATTAAATCAAC-AAGCTAAAATAAAATTAATCATGATATTAAATCAAATGAACATAGGTTAC
1 GATATTAAATCAACTAA-CTCAAATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGC
* * ** * * * *
33413490 AATATTAAATCAGCTAACCTTAATAATACCAGCTACGATCTTAAATCAGCGAGCTGTTCGGAGTT
65 GATATTAAATCAACTAATGTTAATAATATCAGCTGCGATCTTAAATCAGTGAGTTGTTCGGAGTT
33413555 GC
130 GC
* * * *
33413557 GATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGAT-CTAAATCAAATGAACTTAGGTTGTG
1 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGCG
* * * *
33413621 ATCTT-AAT-AAGCTAATGTTAATAATATCAGCTGCAATATTAAATCAATGAGTTGTTCGGAGTT
66 ATATTAAATCAA-CTAATGTTAATAATATCAGCTGCGATCTTAAATCAGTGAGTTGTTCGGAGTT
33413684 GC
130 GC
* ** * * * * *
33413686 AATCCTAAATCAACTAACAT-AAATAAAATTCTCCATGATCTTAAATCAAATGAATTTAGGTTGT
1 GATATTAAATCAACTAAC-TCAAATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGC
* ** *
33413750 GATATTAAATCAACTAATGTTAATAACATCATATGCGATCTTAAATCAGTGAGTTGTTCGAAGTT
65 GATATTAAATCAACTAATGTTAATAATATCAGCTGCGATCTTAAATCAGTGAGTTGTTCGGAGTT
*
33413815 AC
130 GC
*
33413817 GATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGCG
1 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGCG
* ** * * * * *
33413882 ATCTTAAAT-AAGCTAACATTAATAGTATCAGCTACGATATTAAATCAGCGAGCTGTTCGGAGTT
66 ATATTAAATCAA-CTAATGTTAATAATATCAGCTGCGATCTTAAATCAGTGAGTTGTTCGGAGTT
*
33413946 GT
130 GC
* ** * *
33413948 GATCTTAAATCAGTTATCTTAAATAAAATTGTTCATGATA
1 GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATA
33413988 GATAAAATAG
Statistics
Matches: 359, Mismatches: 64, Indels: 16
0.82 0.15 0.04
Matches are distributed among these distances:
128 1 0.00
129 80 0.22
130 55 0.15
131 219 0.61
132 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (131 bp):
GATATTAAATCAACTAACTCAAATAAAATTGTTCATGATATTAAATCAAATGAACTTAGGTTGCG
ATATTAAATCAACTAATGTTAATAATATCAGCTGCGATCTTAAATCAGTGAGTTGTTCGGAGTTG
C
Found at i:33414095 original size:23 final size:23
Alignment explanation
Indices: 33414069--33414114 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33414059 AAGTGGCGTG
*
33414069 CATTCCACGTACGTGGTAGCACA
1 CATTCCACGTACATGGTAGCACA
*
33414092 CATTCCACGTATATGGTAGCACA
1 CATTCCACGTACATGGTAGCACA
33414115 AGACCTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (23 bp):
CATTCCACGTACATGGTAGCACA
Found at i:33415784 original size:31 final size:32
Alignment explanation
Indices: 33415725--33415789 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
33415715 GGCAAATTAC
33415725 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
33415757 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
33415788 AA
1 AA
33415790 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:33429260 original size:25 final size:25
Alignment explanation
Indices: 33429232--33429280 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
33429222 CTATTTTTGA
*
33429232 TAGTATATCCTGAAACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
33429257 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
33429281 ATGGACTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:33431034 original size:16 final size:18
Alignment explanation
Indices: 33431007--33431039 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33430997 TATGAGGTAT
33431007 ATATCTATGAAA-TGATA
1 ATATCTATGAAAGTGATA
33431024 ATATC-ATGAAAGTGAT
1 ATATCTATGAAAGTGAT
33431040 TATGATTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (18 bp):
ATATCTATGAAAGTGATA
Found at i:33432389 original size:60 final size:60
Alignment explanation
Indices: 33432282--33432401 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
33432272 GCGATGTCAG
* * *
33432282 GGTACGCGCCAGGAAATTGCATCCACGTCAGCGTGACTTGCTGACGTGGAAGGAAATCGC
1 GGTACGCGCCAGGAAATCGCATCCACGTCAGCGTGACTTACTAACGTGGAAGGAAATCGC
33432342 GGTACGCGCCAGGAAATCGCATCCACGTCAGCGCT-ACTTACTAACGTGGAAGGAAATCGC
1 GGTACGCGCCAGGAAATCGCATCCACGTCAGCG-TGACTTACTAACGTGGAAGGAAATCGC
33432402 ACCCTCTAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 55 0.98
61 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (60 bp):
GGTACGCGCCAGGAAATCGCATCCACGTCAGCGTGACTTACTAACGTGGAAGGAAATCGC
Found at i:33444340 original size:20 final size:19
Alignment explanation
Indices: 33444315--33444354 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33444305 GGCTTTAATT
33444315 TGAGCTTAAATTATTATATA
1 TGAGCTT-AATTATTATATA
* *
33444335 TGAGCTTGATTATTGTATA
1 TGAGCTTAATTATTATATA
33444354 T
1 T
33444355 ATTAGGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (19 bp):
TGAGCTTAATTATTATATA
Found at i:33448621 original size:24 final size:24
Alignment explanation
Indices: 33448592--33448657 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
33448582 TCTTTCTAGA
* *
33448592 ATATTTAATATTTATTAGTATAAT
1 ATATTTAACATTTATTAGCATAAT
33448616 ATATTTAACATTTATTAGCATAAT
1 ATATTTAACATTTATTAGCATAAT
* *
33448640 ATATTTGACATTAATTAG
1 ATATTTAACATTTATTAG
33448658 AATTTAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (24 bp):
ATATTTAACATTTATTAGCATAAT
Found at i:33451734 original size:25 final size:25
Alignment explanation
Indices: 33451705--33451762 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
33451695 TATTTTAAAT
* * *
33451705 AAAAATTAGGAATTGTAA-ATTTTCA
1 AAAAATAAGAAATTATAATATTTT-A
33451730 AAAAATAAGAAATTATAATATTTTA
1 AAAAATAAGAAATTATAATATTTTA
33451755 AAAAATAA
1 AAAAATAA
33451763 AAAAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (25 bp):
AAAAATAAGAAATTATAATATTTTA
Found at i:33451910 original size:18 final size:17
Alignment explanation
Indices: 33451889--33451936 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 17
33451879 TAAAATTGAT
33451889 TTTTTAAAATTTTTTATA
1 TTTTT-AAATTTTTTATA
*
33451907 TTTTTTATATTTTTTATA
1 -TTTTTAAATTTTTTATA
33451925 TTTTTAAATTTT
1 TTTTTAAATTTT
33451937 AATTTTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 11 0.41
18 11 0.41
19 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTAAATTTTTTATA
Found at i:33451930 original size:8 final size:9
Alignment explanation
Indices: 33451887--33451929 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
33451877 GATAAAATTG
*
33451887 ATTTTTTAAA
1 ATTTTTT-AT
33451897 ATTTTTTAT
1 ATTTTTTAT
33451906 ATTTTTTAT
1 ATTTTTTAT
33451915 ATTTTTTAT
1 ATTTTTTAT
33451924 ATTTTT
1 ATTTTT
33451930 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:33452289 original size:14 final size:13
Alignment explanation
Indices: 33452270--33452313 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 13
33452260 TATAAAAAGC
33452270 AAAAGAAGAAAGAG
1 AAAAG-AGAAAGAG
33452284 AAAAGAGAAAAGAG
1 AAAAGAG-AAAGAG
33452298 AAAAGAGAAA-AG
1 AAAAGAGAAAGAG
33452310 AAAA
1 AAAA
33452314 TCATTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.21
13 5 0.17
14 18 0.62
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAGAG
Found at i:33452294 original size:21 final size:21
Alignment explanation
Indices: 33452270--33452310 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33452260 TATAAAAAGC
33452270 AAAAGA-AGAAAGAGAAAAGAG
1 AAAAGAGA-AAAGAGAAAAGAG
33452291 AAAAGAGAAAAGAGAAAAGA
1 AAAAGAGAAAAGAGAAAAGA
33452311 AAATCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAAAGAGAAAAGAGAAAAGAG
Found at i:33452590 original size:20 final size:21
Alignment explanation
Indices: 33452562--33452600 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33452552 AAAGTAAAAA
*
33452562 TTAATTAATTTAA-ATAATAT
1 TTAAATAATTTAATATAATAT
33452582 TTAAATAATTTAATATAAT
1 TTAAATAATTTAATATAAT
33452601 GATACATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAATAATTTAATATAATAT
Found at i:33460452 original size:18 final size:19
Alignment explanation
Indices: 33460429--33460467 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33460419 ACTTATGTTA
*
33460429 TTTGTTTGAT-TATTATTT
1 TTTGTTTAATGTATTATTT
*
33460447 TTTGTTTAATGTTTTATTT
1 TTTGTTTAATGTATTATTT
33460466 TT
1 TT
33460468 ATATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTGTTTAATGTATTATTT
Found at i:33463672 original size:27 final size:27
Alignment explanation
Indices: 33463285--33463662 Score: 441
Period size: 27 Copynumber: 14.0 Consensus size: 27
33463275 GGCAAATAAT
* *
33463285 CGAAATACCTTTAAAGGGTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
*
33463312 CGAAATACCCTTGAAGGGTAAAACGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
* ** *
33463339 CAAAATACCCTCAAAGGGTAAAATGAT
1 CGAAATACCCTTGAAGGGTAAAATGAC
* ** *
33463366 CGAAATATCCGCGAAGGCTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
* *
33463393 TGAAATACCCCTGAAGGGTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
*
33463420 CGAAATACCCTTGAAGGGTAAAACGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
* ** *
33463447 CAAAATACCCTCAAAGGGTAAAATGAT
1 CGAAATACCCTTGAAGGGTAAAATGAC
* ** *
33463474 CGAAATATCCGCGAAGGCTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
* *
33463501 TGAAATACCCCTGAAGGGTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
*
33463528 CGAAATACCCTTGAAGGGTAAAACGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
* ** *
33463555 CAAAATACCCTCAAAGGGTAAAATGAT
1 CGAAATACCCTTGAAGGGTAAAATGAC
* ** *
33463582 CGAAATATCCGCGAAGGCTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
* *
33463609 TGAAATACCCCTGAAGGGTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
33463636 CGAAATACCCTTGAAGGGTAAAATGAC
1 CGAAATACCCTTGAAGGGTAAAATGAC
33463663 TGTTATACCC
Statistics
Matches: 292, Mismatches: 59, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 292 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
CGAAATACCCTTGAAGGGTAAAATGAC
Found at i:33463672 original size:108 final size:108
Alignment explanation
Indices: 33463298--33463658 Score: 722
Period size: 108 Copynumber: 3.3 Consensus size: 108
33463288 AATACCTTTA
33463298 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
1 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
33463363 GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
66 GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
33463406 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
1 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
33463471 GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
66 GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
33463514 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
1 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
33463579 GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
66 GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
33463622 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAA
1 AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAA
33463659 TGACTGTTAT
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 253 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (108 bp):
AAGGGTAAAATGACCGAAATACCCTTGAAGGGTAAAACGACCAAAATACCCTCAAAGGGTAAAAT
GATCGAAATATCCGCGAAGGCTAAAATGACTGAAATACCCCTG
Found at i:33463848 original size:27 final size:26
Alignment explanation
Indices: 33463824--33463906 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
33463814 TATACTGGTG
33463824 GCTTTGCCACATATACTGTTACTGGCA
1 GCTTTGCCACAT-TACTGTTACTGGCA
* *
33463851 GCTTTGCTACGTTACTGTTACTGGCA
1 GCTTTGCCACATTACTGTTACTGGCA
** * * *
33463877 GCTTTGCTGCATCACTATTACTGACA
1 GCTTTGCCACATTACTGTTACTGGCA
33463903 GCTT
1 GCTT
33463907 GGCTGCGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 39 0.80
27 10 0.20
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
GCTTTGCCACATTACTGTTACTGGCA
Found at i:33466265 original size:6 final size:6
Alignment explanation
Indices: 33466254--33466282 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
33466244 TTTTTTTTAT
33466254 ATCCAA ATCCAA ATCCAA ATCCAA ATCCA
1 ATCCAA ATCCAA ATCCAA ATCCAA ATCCA
33466283 TTTTATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
ATCCAA
Found at i:33466554 original size:26 final size:26
Alignment explanation
Indices: 33466524--33466577 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
33466514 ACATGATCTT
33466524 AACCTTTCTTACTTTGTACTAAAAAG
1 AACCTTTCTTACTTTGTACTAAAAAG
33466550 AACCTTTCTTACTTTGTACTAAAAAG
1 AACCTTTCTTACTTTGTACTAAAAAG
33466576 AA
1 AA
33466578 AAAAAAAATG
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:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (26 bp):
AACCTTTCTTACTTTGTACTAAAAAG
Found at i:33467388 original size:27 final size:26
Alignment explanation
Indices: 33467342--33467393 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
33467332 GTTATAAAAT
*
33467342 AAAGAAATATGGAGAGAATAAAGAAC
1 AAAGAAATATGGAAAGAATAAAGAAC
*
33467368 AAAGAAAATAT-GAAAGCAATAGAGAA
1 AAAG-AAATATGGAAAG-AATAAAGAA
33467394 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.63, C:0.04, G:0.21, T:0.12
Consensus pattern (26 bp):
AAAGAAATATGGAAAGAATAAAGAAC
Found at i:33471233 original size:5 final size:5
Alignment explanation
Indices: 33471218--33471248 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
33471208 TGAGCATTCG
*
33471218 ATCGA AACGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
33471249 AATTTTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (5 bp):
ATCGA
Found at i:33472042 original size:30 final size:31
Alignment explanation
Indices: 33472003--33472062 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
33471993 GGAGGTGAGA
*
33472003 TGGGAAGGGAATAAAAGTTTTAGGAGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
* *
33472034 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGAGAAAA
33472063 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGAGAAAAG
Found at i:33472370 original size:18 final size:18
Alignment explanation
Indices: 33472344--33472378 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33472334 ATTCGAGTTG
33472344 ATTCAAATAACTCGATTA
1 ATTCAAATAACTCGATTA
*
33472362 ATTCGAATAACTCGATT
1 ATTCAAATAACTCGATT
33472379 CGTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATTCAAATAACTCGATTA
Found at i:33477026 original size:28 final size:28
Alignment explanation
Indices: 33476986--33477039 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
33476976 AATTTGTTTT
* *
33476986 ATTTTAATGCATGTTATTAATG-TGTCTA
1 ATTTTAATACATGCT-TTAATGATGTCTA
*
33477014 ATTTTATTACATGCTTTAATGATGTC
1 ATTTTAATACATGCTTTAATGATGTC
33477040 CAAAGTCCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (28 bp):
ATTTTAATACATGCTTTAATGATGTCTA
Found at i:33480584 original size:23 final size:22
Alignment explanation
Indices: 33480541--33480584 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
33480531 AAGATAGAAA
*
33480541 AAGAAAAAAAGAGTGGAAAAAC
1 AAGAAAAAAAGAGAGGAAAAAC
* *
33480563 AAGAAGAAAAAGTGAGGTAAAA
1 AAGAA-AAAAAGAGAGGAAAAA
33480585 TTGAGAGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (22 bp):
AAGAAAAAAAGAGAGGAAAAAC
Found at i:33483804 original size:28 final size:27
Alignment explanation
Indices: 33483754--33483817 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
33483744 TTTTTTTGTA
* * * *
33483754 AATGTGTTTTATTTTAATGCATGTTATT
1 AATGTGTCTAATTTTAATACATGCT-TT
*
33483782 AATGTGTCTAATTTTATTACATGCTTT
1 AATGTGTCTAATTTTAATACATGCTTT
33483809 AATGATGTC
1 AATG-TGTC
33483818 CAAAGTCCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.52
Consensus pattern (27 bp):
AATGTGTCTAATTTTAATACATGCTTT
Found at i:33484247 original size:33 final size:32
Alignment explanation
Indices: 33484185--33484248 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
33484175 CACATGCTAA
* *
33484185 GGCTATTTCGTTCTAGTTGTTCACTCACAAGG
1 GGCTATTTCATTCTAGTTGTTCACCCACAAGG
33484217 GGCTATTTCTATTCTAGTT-TTCACACCACAAG
1 GGCTATTTC-ATTCTAGTTGTTCAC-CCACAAG
33484249 ACCATTGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (32 bp):
GGCTATTTCATTCTAGTTGTTCACCCACAAGG
Found at i:33486380 original size:21 final size:21
Alignment explanation
Indices: 33486356--33486396 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33486346 TATAGCAAAT
*
33486356 ATCTCATAATTTACTAAGTTC
1 ATCTCATAATTAACTAAGTTC
**
33486377 ATCTTTTAATTAACTAAGTT
1 ATCTCATAATTAACTAAGTT
33486397 TTCTTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (21 bp):
ATCTCATAATTAACTAAGTTC
Found at i:33490413 original size:36 final size:36
Alignment explanation
Indices: 33490311--33490415 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 36
33490301 CAAGAAGTTG
* *
33490311 GAAAGACTCGATATCTCATTTAGGATCTTAGGATTGA
1 GAAA-ACTTGATATCTCATTTAGGATCTTGGGATTGA
*
33490348 GAAGACTTGATATCTCA-TTAGGGATCTTGGGATTGA
1 GAAAACTTGATATCTCATTTA-GGATCTTGGGATTGA
*
33490384 GAAAACTTGATATCTCATTTAGGAGCTTGGGA
1 GAAAACTTGATATCTCATTTAGGATCTTGGGA
33490416 AGGTCCGATA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
35 3 0.05
36 52 0.85
37 6 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (36 bp):
GAAAACTTGATATCTCATTTAGGATCTTGGGATTGA
Found at i:33495837 original size:21 final size:21
Alignment explanation
Indices: 33495812--33495856 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
33495802 GATATGATCT
*
33495812 TCCTTTATGGGTTAGATATCA
1 TCCTTGATGGGTTAGATATCA
*
33495833 TCCTTGATGGGTTAGATATTA
1 TCCTTGATGGGTTAGATATCA
33495854 TCC
1 TCC
33495857 ACATAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (21 bp):
TCCTTGATGGGTTAGATATCA
Found at i:33506796 original size:14 final size:14
Alignment explanation
Indices: 33506777--33506837 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
33506767 AGATTTTTTG
* *
33506777 AATTATTATTAATT
1 AATTATAATTAAAT
33506791 AATTATAATTAAAT
1 AATTATAATTAAAT
*
33506805 AATTGA-AGTTAAA-
1 AATT-ATAATTAAAT
*
33506818 AATTAGAATTAAATT
1 AATTATAATTAAA-T
33506833 AATTA
1 AATTA
33506838 GTCATCTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 1 0.03
13 10 0.26
14 22 0.56
15 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (14 bp):
AATTATAATTAAAT
Found at i:33506829 original size:13 final size:14
Alignment explanation
Indices: 33506784--33506838 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
33506774 TTGAATTATT
* *
33506784 ATTAATTAATTATA
1 ATTAAATAATTAGA
33506798 ATTAAATAATT-GA
1 ATTAAATAATTAGA
33506811 AGTTAAA-AATTAGA
1 A-TTAAATAATTAGA
33506825 ATTAAATTAATTAG
1 ATTAAA-TAATTAG
33506839 TCATCTTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 11 0.31
14 18 0.51
15 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
ATTAAATAATTAGA
Found at i:33520062 original size:61 final size:61
Alignment explanation
Indices: 33519977--33520091 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
33519967 AATGAATTTA
* * * *
33519977 ATATTAAATTTATTTCAATATTTATCTAGGTAGTATTTTATTAATTTAATATTAGTATGAG
1 ATATTAAATTAATTTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAGTATGAG
*
33520038 ATATTAAATTAAATTTAAAT-TTTATCTAGATAATATTTTATTACTTTAATATTA
1 ATATTAAATT-AATTTAAATATTTATCTAGATAATATTTTATTAATTTAATATTA
33520092 ATGTGTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
61 41 0.85
62 7 0.15
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.51
Consensus pattern (61 bp):
ATATTAAATTAATTTAAATATTTATCTAGATAATATTTTATTAATTTAATATTAGTATGAG
Found at i:33521793 original size:68 final size:68
Alignment explanation
Indices: 33521674--33521805 Score: 203
Period size: 68 Copynumber: 1.9 Consensus size: 68
33521664 TGGTTCAACA
* *
33521674 TCCTGGTGGACTTCATATGTTGCCATAGCCCAGCTATGGTACTACATAATATGGTGTTATGTTTA
1 TCCTGGTAGACTTCATATGTTGCCATAGCCCAGCTATGGTACTACACAATATGGTGTTATGTTTA
33521739 CTG
66 CTG
* * *
33521742 TCCTGGTAGACTTTATATGTTGTCATAGCCCAGCTATGGT-CTTGCACAATATGGTGTTATGTTT
1 TCCTGGTAGACTTCATATGTTGCCATAGCCCAGCTATGGTAC-TACACAATATGGTGTTATGTTT
33521806 TCCATAGACC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 1 0.02
68 57 0.98
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (68 bp):
TCCTGGTAGACTTCATATGTTGCCATAGCCCAGCTATGGTACTACACAATATGGTGTTATGTTTA
CTG
Found at i:33548645 original size:56 final size:56
Alignment explanation
Indices: 33548559--33548672 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
33548549 TTTCTTAATG
*
33548559 TGCTTGCCAAGCCGATTTTCACCCTTTGTCCACAACTGTCAAAAATGAATAAAATT
1 TGCTTGCAAAGCCGATTTTCACCCTTTGTCCACAACTGTCAAAAATGAATAAAATT
33548615 TGCTTGCAAAGCCGATTTTCACCCTTTGTCCACAACTGTCAAAAATGAATAAAATT
1 TGCTTGCAAAGCCGATTTTCACCCTTTGTCCACAACTGTCAAAAATGAATAAAATT
33548671 TG
1 TG
33548673 TGTAAATATA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (56 bp):
TGCTTGCAAAGCCGATTTTCACCCTTTGTCCACAACTGTCAAAAATGAATAAAATT
Found at i:33548729 original size:27 final size:27
Alignment explanation
Indices: 33548699--33548750 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
33548689 AAATAATTAA
*
33548699 AATTTAA-TATGTTCATAATTTAAGTTT
1 AATTTAATTAT-TTCATAATTAAAGTTT
*
33548726 AATTTAATTATTTTATAATTAAAGT
1 AATTTAATTATTTCATAATTAAAGT
33548751 ATGAATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (27 bp):
AATTTAATTATTTCATAATTAAAGTTT
Found at i:33549402 original size:16 final size:17
Alignment explanation
Indices: 33549353--33549406 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
33549343 TCATTTTGCA
*
33549353 TTTGAGTACACATGCTC
1 TTTGAGTACATATGCTC
33549370 TTT--GTACATCTATTGCT-
1 TTTGAGTACA--TA-TGCTC
33549387 TTTGAGTACATATGCTC
1 TTTGAGTACATATGCTC
33549404 TTT
1 TTT
33549407 TCTTCTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
15 5 0.17
16 4 0.13
17 12 0.40
18 4 0.13
19 5 0.17
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (17 bp):
TTTGAGTACATATGCTC
Found at i:33552597 original size:27 final size:27
Alignment explanation
Indices: 33552566--33552855 Score: 348
Period size: 27 Copynumber: 10.8 Consensus size: 27
33552556 TCATCTCTTA
33552566 AGGGTATTTCGGTCATTTTACCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* * * * * *
33552593 GGGGTATTTTGATCATTCTATCCTTTG
1 AGGGTATTTCGGTCATTTTACCCTATG
* *
33552620 GGGGTATTTGGGTCATTTTACCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* * *
33552647 AGGGTATTTCAGTCATTCTATCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* * * *
33552674 GGGGTATTTTGATCATTTTACCCCATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* * *
33552701 GGGGTATTTCGATCATTTTATCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* *
33552728 AGGGTATTTCGGTTATTTTACCATATG
1 AGGGTATTTCGGTCATTTTACCCTATG
33552755 AGGGTATTTCGGTCA-TTTACCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* *
33552781 AGGGTATTTTGGTTATTTTACCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
* * *
33552808 AGGGTATTTTGGTTATGTTACCCTATG
1 AGGGTATTTCGGTCATTTTACCCTATG
33552835 AGGGTATTTCGGTCATTTTAC
1 AGGGTATTTCGGTCATTTTAC
33552856 TTATTTTGGA
Statistics
Matches: 223, Mismatches: 39, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.10
27 200 0.90
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (27 bp):
AGGGTATTTCGGTCATTTTACCCTATG
Found at i:33563735 original size:58 final size:58
Alignment explanation
Indices: 33563624--33563736 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
33563614 AGGCTCGAGC
* * * * **
33563624 TCTTTCCCTTAGTGAATATAGGAACAAATCTAATCTTAGTGCTTCTTTGGGTACTCCA
1 TCTTTCCCTTAATAAATATAGGAACAAATCTAATCTTAATGCTTCCTCAGGTACTCCA
* * * *
33563682 TCTTTCCCTTAATAAATATGGGAACGACTTTAATCTTAATGCTTCCTCAGGTACT
1 TCTTTCCCTTAATAAATATAGGAACAAATCTAATCTTAATGCTTCCTCAGGTACT
33563737 TCGGCTAACA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (58 bp):
TCTTTCCCTTAATAAATATAGGAACAAATCTAATCTTAATGCTTCCTCAGGTACTCCA
Found at i:33569240 original size:40 final size:38
Alignment explanation
Indices: 33569196--33569322 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 38
33569186 GCATTTTTAA
* *
33569196 CGGCGTTTGGATAAAAATGCTACTAAAAATCAAGCATTAG
1 CGGCGTTTGG-TAAAAACGCCACTAAAAAT-AAGCATTAG
** * * *
33569236 CGGCGTTTTTCTACAAACGCCACTAAAGATGGAGCATTAG
1 CGGCG-TTTGGTAAAAACGCCACTAAAAAT-AAGCATTAG
33569276 CGGCGCTTTTTGG--AAAACGCCACTAAAAATAAGCATTAG
1 CGGCG---TTTGGTAAAAACGCCACTAAAAATAAGCATTAG
33569315 CGGCGTTT
1 CGGCGTTT
33569323 TCTGAAAAGC
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
36 3 0.04
39 13 0.18
40 48 0.68
41 3 0.04
42 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (38 bp):
CGGCGTTTGGTAAAAACGCCACTAAAAATAAGCATTAG
Found at i:33569343 original size:39 final size:40
Alignment explanation
Indices: 33569217--33569335 Score: 147
Period size: 40 Copynumber: 3.0 Consensus size: 40
33569207 TAAAAATGCT
*
33569217 ACTAAAAATCAAGCATTAGCGGCGTTTTTCT-ACAAACGCC
1 ACTAAAAATCAAGCATTAGCGGCGCTTTTCTGA-AAACGCC
* **
33569257 ACTAAAGATGGAGCATTAGCGGCGCTTTT-TGGAAAACGCC
1 ACTAAAAATCAAGCATTAGCGGCGCTTTTCT-GAAAACGCC
33569297 ACTAAAAAT-AAGCATTAGCGGCG-TTTTCTGAAAAGCGCC
1 ACTAAAAATCAAGCATTAGCGGCGCTTTTCTGAAAA-CGCC
33569336 GCAAAAAACC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
38 9 0.13
39 19 0.28
40 40 0.58
41 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (40 bp):
ACTAAAAATCAAGCATTAGCGGCGCTTTTCTGAAAACGCC
Found at i:33569440 original size:41 final size:41
Alignment explanation
Indices: 33569393--33569619 Score: 310
Period size: 41 Copynumber: 5.5 Consensus size: 41
33569383 TTTAGCGAAG
* *
33569393 TTTTTGAAAAAGCGTCGCTAATGATCGGGCCTTTAGCGGCA
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCA
* * *
33569434 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCATTAGCGGCG
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCA
* * ** *
33569475 TTTTTGAAAATGCGCCTCTAATGCTCGTTCCTTTAGTGGCA
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCA
* *
33569516 TTTTTGAAAAAGCGCCGCTAATGCTTGGGCCTTTAGCGGCG
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCA
* * *
33569557 TTTTTGAAAGAGCGCCGCTAATGCACGGGCCTTTAGCGGCC
1 TTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCA
*
33569598 TTTTTGAGAAAGCGCCGCTAAT
1 TTTTTGAAAAAGCGCCGCTAAT
33569620 CATAAAAAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCA
Found at i:33569602 original size:123 final size:123
Alignment explanation
Indices: 33569393--33569619 Score: 350
Period size: 123 Copynumber: 1.8 Consensus size: 123
33569383 TTTAGCGAAG
*
33569393 TTTTTGAAAAAGCGTCGCTAATGATCGGGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
1 TTTTTGAAAAAGCGCCGCTAATGATCGGGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * *
33569458 TCGGGCCATTAGCGGCGTTTTTGA-AAATGCGCCTCTAATGCTCGTTCCTTTAGTGGCA
66 ACGGGCCATTAGCGGCCTTTTTGAGAAA-GCGCCGCTAATGCTCGTTCCTTTAGTGGCA
* * *
33569516 TTTTTGAAAAAGCGCCGCTAATGCTTGGGCCTTTAGCGGCGTTTTTGAA-AGAGCGCCGCTAATG
1 TTTTTGAAAAAGCGCCGCTAATGATCGGGCCTTTAGCGGCATTTTTGAAGA-AGCGCCGCTAATG
*
33569580 CACGGGCCTTTAGCGGCCTTTTTGAGAAAGCGCCGCTAAT
65 CACGGGCCATTAGCGGCCTTTTTGAGAAAGCGCCGCTAAT
33569620 CATAAAAAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
122 1 0.01
123 90 0.96
124 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (123 bp):
TTTTTGAAAAAGCGCCGCTAATGATCGGGCCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
ACGGGCCATTAGCGGCCTTTTTGAGAAAGCGCCGCTAATGCTCGTTCCTTTAGTGGCA
Found at i:33570172 original size:38 final size:38
Alignment explanation
Indices: 33570130--33570203 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
33570120 GGATTTAAGG
*
33570130 TTTAAGGGTTAAG-GGTTATGCTTTAGAGGTTAGGGGGA
1 TTTAAGGGTT-AGTGGCTATGCTTTAGAGGTTAGGGGGA
*
33570168 TTTAAGGGTTAGTGGCTATGCTTTAGGGGTTAGGGG
1 TTTAAGGGTTAGTGGCTATGCTTTAGAGGTTAGGGG
33570204 TTTAGGGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.20, C:0.04, G:0.41, T:0.35
Consensus pattern (38 bp):
TTTAAGGGTTAGTGGCTATGCTTTAGAGGTTAGGGGGA
Found at i:33570992 original size:37 final size:38
Alignment explanation
Indices: 33570950--33571044 Score: 140
Period size: 38 Copynumber: 2.5 Consensus size: 38
33570940 AGATTTAAAG
*
33570950 TTTAGGGGTTAGGGGTTATGC-TTAGGGGTT-TGGAGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTATGG-GGA
*
33570987 TTTAGGGGTTAAGGGTTATGCTTTAAGGGTTATGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTATGGGGA
*
33571025 TTTAGAGGTTAGGGGTTATG
1 TTTAGGGGTTAGGGGTTATG
33571045 GAGTTGGGGT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
37 20 0.38
38 29 0.56
39 3 0.06
ACGTcount: A:0.19, C:0.02, G:0.42, T:0.37
Consensus pattern (38 bp):
TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTATGGGGA
Found at i:33572781 original size:28 final size:28
Alignment explanation
Indices: 33572749--33572839 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
33572739 TAAGTTAAAA
33572749 TTTTGAGAAATAATTATTAAAATTATGG
1 TTTTGAGAAATAATTATTAAAATTATGG
* * * ***
33572777 TTTTG-GTTTAAAGATATT-TTTAAGTTAAAA
1 TTTTGAG---AAATA-ATTATTAAAATTATGG
33572807 TTTTGAGAAATAATTATTAAAATTATGG
1 TTTTGAGAAATAATTATTAAAATTATGG
33572835 TTTTG
1 TTTTG
33572840 GTTTAAAGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
27 4 0.09
28 21 0.47
30 16 0.36
31 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.47
Consensus pattern (28 bp):
TTTTGAGAAATAATTATTAAAATTATGG
Found at i:33572791 original size:58 final size:58
Alignment explanation
Indices: 33572722--33572865 Score: 288
Period size: 58 Copynumber: 2.5 Consensus size: 58
33572712 AATAAAATTA
33572722 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATAATTATTAAAATTATGGTTT
1 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATAATTATTAAAATTATGGTTT
33572780 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATAATTATTAAAATTATGGTTT
1 TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATAATTATTAAAATTATGGTTT
33572838 TGGTTTAAAGATATTTTTAAGTTAAAAT
1 TGGTTTAAAGATATTTTTAAGTTAAAAT
33572866 CTCACTATTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 86 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (58 bp):
TGGTTTAAAGATATTTTTAAGTTAAAATTTTGAGAAATAATTATTAAAATTATGGTTT
Found at i:33573609 original size:29 final size:29
Alignment explanation
Indices: 33573544--33573609 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
33573534 ATTTTTGTAA
33573544 AAATAATATGATTTATATTTGATTTATTG
1 AAATAATATGATTTATATTTGATTTATTG
* *
33573573 ATATTAATATTATTT-TATTTG-TTTAATTTG
1 A-AATAATATGATTTATATTTGATTT-A-TTG
33573603 AAATAAT
1 AAATAAT
33573610 TATATAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.10
29 13 0.42
30 15 0.48
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (29 bp):
AAATAATATGATTTATATTTGATTTATTG
Found at i:33573816 original size:43 final size:42
Alignment explanation
Indices: 33573760--33574040 Score: 211
Period size: 43 Copynumber: 6.1 Consensus size: 42
33573750 CACCAAACAA
*
33573760 TAGCGGCGTTTGTGGAAAAAGCGCCGCGAAAGAACATGACCTT
1 TAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGAACATGACCTT
* *
33573803 TAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGAACATGACCTT
* * * * **
33573846 TAGCGGCGTTTGTAGGAAAAGCACCGCTAAAGAAAAAGCGCCGCGA
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAG-AACA-TGAC-CTT
* * * *
33573892 AAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACATGACCTT
1 TAG--C--GGCGTTT----------GT-GGAAAAGCGCCGCTAAAGAACATGACCTT
*
33573949 TAGCGGCGTTTGTAGGAAAAGCACCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGAACATGACCTT
* *
33573992 TAGCGGTGTTTGTGGGAAAAGCGCCACTAAAGAACATGACCTT
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGAACATGACCTT
33574035 TAGCGG
1 TAGCGG
33574041 TTAGCGACGT
Statistics
Matches: 187, Mismatches: 33, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
43 139 0.74
44 5 0.03
45 2 0.01
46 3 0.02
48 1 0.01
50 5 0.03
53 5 0.03
55 1 0.01
57 3 0.02
58 2 0.01
59 3 0.02
60 18 0.10
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (42 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:33573884 original size:17 final size:17
Alignment explanation
Indices: 33573862--33573896 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33573852 CGTTTGTAGG
*
33573862 AAAAGCACCGCTAAAGA
1 AAAAGCACCGCGAAAGA
*
33573879 AAAAGCGCCGCGAAAGA
1 AAAAGCACCGCGAAAGA
33573896 A
1 A
33573897 CATGACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.23, G:0.23, T:0.03
Consensus pattern (17 bp):
AAAAGCACCGCGAAAGA
Found at i:33573918 original size:60 final size:60
Alignment explanation
Indices: 33573822--33573939 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 60
33573812 TTGTGGGAAT
* *
33573822 AGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAAGAAAA
1 AGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTAGGAAAAGCACCGCTAAAGAAAA
* * *
33573882 AGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAA
1 AGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTAGGAAAAGCACCGCTAAAGAA
33573940 CATGACCTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (60 bp):
AGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTAGGAAAAGCACCGCTAAAGAAAA
Found at i:33573947 original size:146 final size:146
Alignment explanation
Indices: 33573760--33574025 Score: 424
Period size: 146 Copynumber: 1.8 Consensus size: 146
33573750 CACCAAACAA
* * *
33573760 TAGCGGCGTTTGTGGAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGC
1 TAGCGGCATTTGTGGAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTAGGAAAAGC
* *
33573825 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAAGAAAAAGCGCCGC
66 ACCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAAGCACCACTAAAGAAAAAGCGCCGC
33573890 GAAAGAACATGACCTT
131 GAAAGAACATGACCTT
* * * *
33573906 TAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAAGC
1 TAGCGGCATTTGTGGAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTAGGAAAAGC
* * *
33573971 ACCGCTAAAGAACATGACCTTTAGCGGTGTTTGTGGGAAAAGCGCCACTAAAGAA
66 ACCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAAGCACCACTAAAGAA
33574026 CATGACCTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
146 108 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (146 bp):
TAGCGGCATTTGTGGAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTAGGAAAAGC
ACCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGGAAAAGCACCACTAAAGAAAAAGCGCCGC
GAAAGAACATGACCTT
Found at i:33573953 original size:103 final size:103
Alignment explanation
Indices: 33573774--33573982 Score: 418
Period size: 103 Copynumber: 2.0 Consensus size: 103
33573764 GGCGTTTGTG
33573774 GAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACA
1 GAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACA
33573839 TGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAA
66 TGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAA
33573877 GAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACA
1 GAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACA
33573942 TGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAA
66 TGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAA
33573980 GAA
1 GAA
33573983 CATGACCTTT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.18
Consensus pattern (103 bp):
GAAAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGGAATAGCGCCGCTAAAGAACA
TGACCTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAA
Found at i:33574041 original size:43 final size:43
Alignment explanation
Indices: 33573879--33574040 Score: 261
Period size: 43 Copynumber: 3.8 Consensus size: 43
33573869 CCGCTAAAGA
* *
33573879 AAAAGCGCCGCGAAAGAACATGACCTTTAGCGGCATTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGG
* *
33573922 AATAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGG
* *
33573965 AAAAGCACCGCTAAAGAACATGACCTTTAGCGGTGTTTGTGGG
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGG
*
33574008 AAAAGCGCCACTAAAGAACATGACCTTTAGCGG
1 AAAAGCGCCGCTAAAGAACATGACCTTTAGCGG
33574041 TTAGCGACGT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 109 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGGG
Found at i:33574558 original size:21 final size:22
Alignment explanation
Indices: 33574509--33574558 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
33574499 TTTACAAAGT
*
33574509 TATAATATTTTTTTTATGAATA
1 TATAATATTATTTTTATGAATA
**
33574531 -AGCATATTATTTTTAT-AATA
1 TATAATATTATTTTTATGAATA
33574551 TATAATAT
1 TATAATAT
33574559 GAACACGTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
TATAATATTATTTTTATGAATA
Found at i:33580710 original size:21 final size:22
Alignment explanation
Indices: 33580661--33580710 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
33580651 GATCAAATGA
*
33580661 GAGAAAAAGAAAAGAGCGAAAAT
1 GAGAAAAAGAAAAGA-CAAAAAT
*
33580684 -A-CAAAAGAAAAGA-AAAAAT
1 GAGAAAAAGAAAAGACAAAAAT
33580703 GAGAAAAA
1 GAGAAAAA
33580711 TAAATAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 6
0.71 0.10 0.19
Matches are distributed among these distances:
19 5 0.23
20 1 0.05
21 15 0.68
22 1 0.05
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (22 bp):
GAGAAAAAGAAAAGACAAAAAT
Found at i:33585063 original size:24 final size:25
Alignment explanation
Indices: 33585034--33585092 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
33585024 TGGTCTATTA
**
33585034 CGTACCAAAATTTCCA-TACCATTT
1 CGTACCAAAATCCCCATTACCATTT
33585058 CGTACC-AAA-CCCCATTACCATTT
1 CGTACCAAAATCCCCATTACCATTT
*
33585081 TGTACCAAAATC
1 CGTACCAAAATC
33585093 AAAATTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 3 0.10
23 16 0.55
24 9 0.31
25 1 0.03
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (25 bp):
CGTACCAAAATCCCCATTACCATTT
Found at i:33587793 original size:23 final size:23
Alignment explanation
Indices: 33587765--33587814 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
33587755 ACCTCTTTTC
* *
33587765 TGAATGAAACTTAGCAGATCCAT
1 TGAATGAAACATAGCAGACCCAT
*
33587788 TGAATGAAACATAGTAGACCCAT
1 TGAATGAAACATAGCAGACCCAT
33587811 TGAA
1 TGAA
33587815 CATAACATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (23 bp):
TGAATGAAACATAGCAGACCCAT
Found at i:33594304 original size:5 final size:5
Alignment explanation
Indices: 33594294--33594349 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
33594284 ATTAACATGC
33594294 AAATA AAATA AAATA AAATA AAATA AGTAATAA ATAATA CAAAT- AAAT-
1 AAATA AAATA AAATA AAATA AAATA A--AAT-A A-AATA -AAATA AAATA
33594342 AAATA AAA
1 AAATA AAA
33594350 ATTGGGTTGC
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 8 0.17
5 24 0.52
6 4 0.09
7 8 0.17
8 2 0.04
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:33594341 original size:24 final size:23
Alignment explanation
Indices: 33594294--33594351 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
33594284 ATTAACATGC
*
33594294 AAATAAAATAAAATAAAATAAAAT
1 AAATAAAA-ATAATAAAATAAAAT
*
33594318 AAGTAATAAATAATACAAAT-AAAT
1 AAATAA-AAATAATA-AAATAAAAT
33594342 AAATAAAAAT
1 AAATAAAAAT
33594352 TGGGTTGCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 19 0.66
25 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
AAATAAAAATAATAAAATAAAAT
Found at i:33602865 original size:43 final size:42
Alignment explanation
Indices: 33602744--33602916 Score: 159
Period size: 45 Copynumber: 4.0 Consensus size: 42
33602734 AAAGTTTTAC
* * *
33602744 GCCCAGCGCTGGTCAATGAAATTGAA-AAATATTATATAAATATGT
1 GCCCAGCACTGGTCGATGAAA-T-AACAAATATTATAT--ATATAT
* * *
33602789 GCCCAGCACTAGTCGAAGAAATCAACAATTATTATATATATAT
1 GCCCAGCACTGGTCGATGAAAT-AACAAATATTATATATATAT
* *
33602832 GCCCAGCACTGGTTGATGAAAGTGACAAATATTATATATATATGT
1 GCCCAGCACTGGTCGATGAAA-TAACAAATATTATATATATA--T
* * * *
33602877 GCCCAACACTGGTAGGTGAAACAACAAATATTATATATAT
1 GCCCAGCACTGGTCGATGAAATAACAAATATTATATATAT
33602917 GTGTGTCCAG
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
43 40 0.37
44 21 0.20
45 46 0.43
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (42 bp):
GCCCAGCACTGGTCGATGAAATAACAAATATTATATATATAT
Found at i:33602951 original size:89 final size:89
Alignment explanation
Indices: 33602770--33603007 Score: 228
Period size: 89 Copynumber: 2.7 Consensus size: 89
33602760 TGAAATTGAA
* * * * ** * *
33602770 AAATATTATATAAATATGTGCCCAGCACTAGTCGAAGAAATCAACAATTATTATATATA-TATGC
1 AAATATTATATATATATGTGCCCAACACTGGTAGGTGAAACCAACAAATATTATATATATTATGC
* * ***
33602834 CCAGCACTGGTTGATGAAAGTGAC
66 CCAGCACTAGCTGATGAAACCAAC
*
33602858 AAATATTATATATATATGTGCCCAACACTGGTAGGTGAAA-CAACAAATATTATATATATGTGTG
1 AAATATTATATATATATGTGCCCAACACTGGTAGGTGAAACCAACAAATATTATATATAT-TATG
* * *
33602922 TCCAGCACTAGCTGGTGAAACCAAT
65 CCCAGCACTAGCTGATGAAACCAAC
* * * * * * *
33602947 AAATAATATATGTGTGTGTGTCCAACACTGGTTGGTGAAACCAACAAATAATAGTATATAT
1 AAATATTATATATATATGTGCCCAACACTGGTAGGTGAAACCAACAAATATTA-TATATAT
33603008 ACCCTATACC
Statistics
Matches: 123, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
87 17 0.14
88 34 0.28
89 54 0.44
90 11 0.09
91 7 0.06
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (89 bp):
AAATATTATATATATATGTGCCCAACACTGGTAGGTGAAACCAACAAATATTATATATATTATGC
CCAGCACTAGCTGATGAAACCAAC
Found at i:33602965 original size:45 final size:45
Alignment explanation
Indices: 33602856--33603007 Score: 173
Period size: 45 Copynumber: 3.4 Consensus size: 45
33602846 GATGAAAGTG
* * * *
33602856 ACAAATATTATATATATATGTGCCCAACACT-GGTAGGTGAAA-CA
1 ACAAATAATATATATATGTGTGTCCAACACTAGCT-GGTGAAACCA
* *
33602900 ACAAATATTATATATATGTGTGTCCAGCACTAGCTGGTGAAACCA
1 ACAAATAATATATATATGTGTGTCCAACACTAGCTGGTGAAACCA
* * * * *
33602945 ATAAATAATATATGTGTGTGTGTCCAACACTGGTTGGTGAAACCA
1 ACAAATAATATATATATGTGTGTCCAACACTAGCTGGTGAAACCA
33602990 ACAAATAATAGTATATAT
1 ACAAATAATA-TATATAT
33603008 ACCCTATACC
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
44 35 0.38
45 51 0.56
46 5 0.05
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (45 bp):
ACAAATAATATATATATGTGTGTCCAACACTAGCTGGTGAAACCA
Found at i:33610637 original size:50 final size:50
Alignment explanation
Indices: 33610581--33610714 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
33610571 GGTGCCCATG
* *
33610581 CCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACAGGG-GACCTCTAATCTCAGTGCCAACA
* * * *
33610631 CTATGTCCCAAACATGGTCTTACATGGGACCTCTAATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTCAGTGCCAACA
*
33610681 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCT
33610715 TCACACCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
50 73 0.97
51 2 0.03
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACAGGGGACCTCTAATCTCAGTGCCAACA
Found at i:33611358 original size:17 final size:17
Alignment explanation
Indices: 33611333--33611366 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33611323 ATCAAAATAA
*
33611333 ACATTTTTCACCTATGG
1 ACATCTTTCACCTATGG
*
33611350 ACATCTTTCAGCTATGG
1 ACATCTTTCACCTATGG
33611367 TCTTACTCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (17 bp):
ACATCTTTCACCTATGG
Found at i:33616863 original size:17 final size:17
Alignment explanation
Indices: 33616843--33616877 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33616833 ATTTATAAAG
* *
33616843 TTACCCTATTTGAGTTA
1 TTACACTATTTGACTTA
33616860 TTACACTATTTGACTTA
1 TTACACTATTTGACTTA
33616877 T
1 T
33616878 ATATTAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (17 bp):
TTACACTATTTGACTTA
Found at i:33619494 original size:57 final size:58
Alignment explanation
Indices: 33619399--33619522 Score: 205
Period size: 57 Copynumber: 2.2 Consensus size: 58
33619389 AAAATTTGTA
*
33619399 GGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAAATTGAATCATTT
1 GGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAAATTGAATCATTT
* *
33619457 GGAAATGAATGTGGTTTTCT-TAAAATGAAAATGAAAATGGAGAAAATTGAATCATTT
1 GGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAAATTGAATCATTT
*
33619514 AGAAATGAA
1 GGAAATGAA
33619523 CAAGTAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 44 0.71
58 18 0.29
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (58 bp):
GGAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAATGGAGAAAATTGAATCATTT
Found at i:33625509 original size:18 final size:17
Alignment explanation
Indices: 33625486--33625519 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33625476 ATATAATTAA
33625486 ATGATAACTATTTATTTT
1 ATGAT-ACTATTTATTTT
*
33625504 ATGATATTATTTATTT
1 ATGATACTATTTATTT
33625520 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
ATGATACTATTTATTTT
Found at i:33625815 original size:28 final size:28
Alignment explanation
Indices: 33625775--33625837 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
33625765 GTCATTATCA
33625775 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
33625803 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
33625831 ACCCCAT
1 ACCCCAT
33625838 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:33626740 original size:46 final size:46
Alignment explanation
Indices: 33626692--33626838 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
33626682 TAGGGTTTAG
*
33626692 GGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAG
1 GGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAA
* * * ** * * *
33626738 GGTT--TTGTGTTTAGAATTTTTAA-GAAAAAAATCAAATAAATTAGGGTTTAA
1 GGTTACTTGAG--TA-AA---TTAATTATAAATTTTAAAAAAATTA--GATTAA
*
33626789 GGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTTAGATTAA
1 GGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAA
33626835 GGTT
1 GGTT
33626839 TAAGGTTTTT
Statistics
Matches: 72, Mismatches: 18, Indels: 22
0.64 0.16 0.20
Matches are distributed among these distances:
44 4 0.06
46 15 0.21
47 6 0.08
48 13 0.18
49 14 0.19
50 6 0.08
51 10 0.14
53 4 0.06
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (46 bp):
GGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAA
Found at i:33626761 original size:97 final size:97
Alignment explanation
Indices: 33626570--33626875 Score: 378
Period size: 97 Copynumber: 3.3 Consensus size: 97
33626560 AATTTTAAGG
* *
33626570 TTTTAA-GAAAAAATTAAATAAATAAGGGTTTAGGG-T--TT-AG---GTTAATTATAAATTTT-
1 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
*
33626626 AAAAAATTAGATTAGGGTTTAACGTTTATGGT
66 AAAAAATTAGATTAGGGTTTAACGTTTATGAT
33626658 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
***
33626723 AAAAAATTAGATTAGGGTTTTGTGTTTA-GAAT
66 AAAAAATTAGATTAGGGTTTAACGTTTATG-AT
* * *
33626755 TTTTAAGAAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTGAGTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
* *
33626820 AAAAATTTAGATTAAGGTTTAA-G-----G-T
66 AAAAAATTAGATTAGGGTTTAACGTTTATGAT
33626845 TTTTAAGG-AAAAATTAAATAAATTAGGGTTT
1 TTTTAAGGAAAAAATTAAATAAATTAGGGTTT
33626876 GCGGTTTAGG
Statistics
Matches: 193, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
88 6 0.03
89 50 0.26
90 9 0.05
92 3 0.02
93 2 0.01
96 17 0.09
97 106 0.55
ACGTcount: A:0.43, C:0.01, G:0.17, T:0.39
Consensus pattern (97 bp):
TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTA
AAAAAATTAGATTAGGGTTTAACGTTTATGAT
Found at i:33627275 original size:126 final size:126
Alignment explanation
Indices: 33626933--33627337 Score: 569
Period size: 126 Copynumber: 3.2 Consensus size: 126
33626923 AAAAGTTCCA
* * * *
33626933 ACGTGGACACTCTTTTGCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGTTTCTGAGCAA
1 ACGTGGACACTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGCAA
* * * * * * * *
33626998 ATAGTGTTAAAAATGTTTTAAGTAGGATGCATTGTCAGCAAAAGTACTAAAAAAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * *
33627059 ATGTAGACACTGTTTTGCTACAGTAGTTTTTG-AAAAATAATTTTGAGAAGATGTTTCTGAGCAA
1 ACGTGGACACTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGCAA
*
33627123 ATAGTGTCAAAAACACTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
33627184 ACATGGACGCTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAGCAA
1 ACGTGGACACTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGCAA
* * *
33627249 ATAGTGTCAAAAACGCTTCAAGCAGGATGTAATGTCAACAAAAGAACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
33627310 ACGTGAACGCTCTTTTGCTACAATAGTT
1 ACGTGGACACTCTTTTGCTACAGTAGTT
33627338 CCTATTTGGC
Statistics
Matches: 247, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
125 108 0.44
126 139 0.56
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (126 bp):
ACGTGGACACTCTTTTGCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCAATGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:33628799 original size:43 final size:43
Alignment explanation
Indices: 33628738--33628942 Score: 329
Period size: 43 Copynumber: 4.8 Consensus size: 43
33628728 TATGATAAAA
*
33628738 AAACGCCGCTAAAGAACATGATCTTTAGCAGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
*
33628781 AAACGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* *
33628824 AAACGTCGCTAAAGAACATGATCTTTAGCGGCGCTTTACTCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* * *
33628867 AAATGCCGATAAAGAACATGATCTTTAGCGGCGCTTTACTCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
* *
33628910 AAACGCCGCTAAACAACATGACCTTTAGCGGCG
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCG
33628943 TTTTTGGTAA
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 150 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
Found at i:33633263 original size:114 final size:114
Alignment explanation
Indices: 33632404--33633219 Score: 1219
Period size: 114 Copynumber: 7.2 Consensus size: 114
33632394 CATATTTAAT
*
33632404 GTTGGGCTTAGGTTTTTTTTGCGGCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTAGCGG
1 GTTGGGCTTAGG-TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
* *
33632469 CGCTTTCTTAAAAACGCCGCTAAATCTATGAAAGCTCAGAAAACGGCAT-
65 CGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
33632518 GTTGGGCTTAGGTTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
1 GTTGGGCTTAGG-TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
33632583 CGC-TT-TTAAGAAAGCGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
65 CGCTTTCTTAA-AAA-CGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
* **
33632633 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTTAAAAATACCGCTAAAGCCCTGAGCATTAGCGGC
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* *
33632698 GCTTTCTTAAAAACGCAGCTAAATCCACGAAAGCTTAGAAAACGGCATC
66 GCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
* *
33632747 GTTGGGCTTAGGTTTTTTTGCGGCGGTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTTGCGGC
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * * * *
33632812 GCTTTTTTAAAAACGCCGTTAAATCTACGAAAGCTCAGAAAATGGCATT
66 GCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
* *
33632861 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGC
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * *
33632926 GCTTTCTAAAAAACACCGCTAAATCCACGAAAGCTCAGAAAACGGCGTC
66 GCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
* * * *
33632975 ATTGGGCTTAGG-ATTTTTGCGGCGCTTTCTCAAAACCGCCGCTAAAGCCCTGATCATTAGCGGC
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * * * * *
33633039 GTTTTCTTAAAAACACCACTAAATCCACGAAAGCTTAGAAAACGACGTC
66 GCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
*
33633088 GTTGGGCTTAGTTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * * * * *
33633153 GCTTTCTTAAAAACACCGCGAAATCTC-CGAAAGCTCGGTAAACAGCGTC
66 GCTTTCTTAAAAACGCCGCTAAATC-CACGAAAGCTCAGAAAACGGCATC
33633202 GTTGGGCTTAGGTTTTTT
1 GTTGGGCTTAGGTTTTTT
33633220 ACGTGGCGTT
Statistics
Matches: 638, Mismatches: 57, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
112 4 0.01
113 106 0.17
114 506 0.79
115 18 0.03
116 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (114 bp):
GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
GCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGGCATC
Found at i:33637947 original size:18 final size:18
Alignment explanation
Indices: 33637920--33637956 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
33637910 GAAAAAAGAA
* *
33637920 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGATAGGAT
33637938 ACATAAAAGGGATAGGAT
1 ACATAAAAGGGATAGGAT
33637956 A
1 A
33637957 TGCACCTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.27, T:0.22
Consensus pattern (18 bp):
ACATAAAAGGGATAGGAT
Found at i:33638597 original size:7 final size:7
Alignment explanation
Indices: 33638587--33638626 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
33638577 TTATATACAT
33638587 AATACTA
1 AATACTA
33638594 AATACTA
1 AATACTA
33638601 AATACTA
1 AATACTA
33638608 AATACTA
1 AATACTA
33638615 AATACTA
1 AATACTA
33638622 AATAC
1 AATAC
33638627 GAATCGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33640868 original size:19 final size:20
Alignment explanation
Indices: 33640822--33640868 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
33640812 TTTTGGCCAG
*
33640822 TTTAATATGTTTAAATTTTA
1 TTTAATATATTTAAATTTTA
* *
33640842 TTT-TTATATTTTAATTTT-
1 TTTAATATATTTAAATTTTA
33640860 TTTAATATA
1 TTTAATATA
33640869 ATTTGATTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.14
19 16 0.73
20 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTAATATATTTAAATTTTA
Found at i:33640902 original size:25 final size:24
Alignment explanation
Indices: 33640848--33640902 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 24
33640838 TTTATTTTTA
*
33640848 TATTTTAATTTTTTTAATATAATT
1 TATTTTAATTTTTATAATATAATT
*
33640872 TGATTTCTATATTTTTATAATATTA-T
1 T-ATTT-TA-ATTTTTATAATATAATT
33640898 TATTT
1 TATTT
33640903 AGTTCAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 8 0.31
26 4 0.15
27 13 0.50
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
TATTTTAATTTTTATAATATAATT
Found at i:33641616 original size:58 final size:59
Alignment explanation
Indices: 33641506--33641619 Score: 178
Period size: 59 Copynumber: 1.9 Consensus size: 59
33641496 AGTAGAGGGC
* * *
33641506 ACCCAACTATGGTTATTTTTCTTTTTGGTTACCCAATTATGAAAAGTTACAAAATGGTT
1 ACCCAACTATGGTTATTTTTCTTTTTGATCACCCAACTATGAAAAGTTACAAAATGGTT
33641565 ACCCAACTATGGTT-TTTTTCTCTTTTGATCACCCAACTATG-AAAGTTACAAAATG
1 ACCCAACTATGGTTATTTTTCT-TTTTGATCACCCAACTATGAAAAGTTACAAAATG
33641620 ATCATCCAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 21 0.41
59 30 0.59
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (59 bp):
ACCCAACTATGGTTATTTTTCTTTTTGATCACCCAACTATGAAAAGTTACAAAATGGTT
Found at i:33641629 original size:58 final size:59
Alignment explanation
Indices: 33641505--33641632 Score: 179
Period size: 58 Copynumber: 2.2 Consensus size: 59
33641495 TAGTAGAGGG
* * * *
33641505 CACCCAACTATGGTTATTTTTCTTTTTGGTTACCCAATTATGAAAAGTTACAAAATGGT
1 CACCCAACTATGGTTATTTTTCTTTTTGATCACCCAACTATGAAAAGTTACAAAATGAT
*
33641564 TACCCAACTATGGTT-TTTTTCTCTTTTGATCACCCAACTATG-AAAGTTACAAAATGAT
1 CACCCAACTATGGTTATTTTTCT-TTTTGATCACCCAACTATGAAAAGTTACAAAATGAT
*
33641622 CATCCAACTAT
1 CACCCAACTAT
33641633 TCAAATTTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 31 0.51
59 30 0.49
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (59 bp):
CACCCAACTATGGTTATTTTTCTTTTTGATCACCCAACTATGAAAAGTTACAAAATGAT
Found at i:33642370 original size:16 final size:16
Alignment explanation
Indices: 33642336--33642369 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
33642326 ATTAAACATG
33642336 AAATGATCCAAACCCA
1 AAATGATCCAAACCCA
*
33642352 AAATGA-CCTAACCCA
1 AAATGATCCAAACCCA
33642367 AAA
1 AAA
33642370 AAACTCAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.53, C:0.29, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATGATCCAAACCCA
Found at i:33643322 original size:6 final size:6
Alignment explanation
Indices: 33643311--33643350 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
33643301 CAGCCTAAAA
* *
33643311 AACAGC AACAGC AACATC AACATC AACATC AACATC AACA
1 AACATC AACATC AACATC AACATC AACATC AACATC AACA
33643351 CCAGCAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.53, C:0.33, G:0.05, T:0.10
Consensus pattern (6 bp):
AACATC
Found at i:33643361 original size:18 final size:18
Alignment explanation
Indices: 33643311--33643362 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
33643301 CAGCCTAAAA
* *
33643311 AACAGCAACAGCAACATC
1 AACACCAACAACAACATC
* *
33643329 AACATCAACATCAACATC
1 AACACCAACAACAACATC
*
33643347 AACACCAGCAACAACA
1 AACACCAACAACAACA
33643363 AGCCATATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.52, C:0.35, G:0.06, T:0.08
Consensus pattern (18 bp):
AACACCAACAACAACATC
Found at i:33650554 original size:19 final size:19
Alignment explanation
Indices: 33650530--33650567 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33650520 AATAATTAAA
33650530 TATTTGTACTTAGATATTG
1 TATTTGTACTTAGATATTG
33650549 TATTTGTACTTAGATATTG
1 TATTTGTACTTAGATATTG
33650568 ACACAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (19 bp):
TATTTGTACTTAGATATTG
Found at i:33650912 original size:18 final size:18
Alignment explanation
Indices: 33650886--33650921 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33650876 TTTGATTCAC
*
33650886 CGTCATCATCATTATCAT
1 CGTCATCATCATCATCAT
*
33650904 CGTCGTCATCATCATCAT
1 CGTCATCATCATCATCAT
33650922 TATCACTTTC
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:0.25, C:0.31, G:0.08, T:0.36
Consensus pattern (18 bp):
CGTCATCATCATCATCAT
Found at i:33652405 original size:72 final size:73
Alignment explanation
Indices: 33652313--33652487 Score: 239
Period size: 72 Copynumber: 2.4 Consensus size: 73
33652303 AAAATCACAT
* * * *
33652313 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAATAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
33652377 GACCAAAC
66 AACCAAAC
* * *
33652385 ATAAATAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAATAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
33652448 AAACCAAAC
65 AAACCAAAC
*
33652457 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAATAACTATTGATAAAACTAATTTAGCA
33652488 TTGTTGTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
71 1 0.01
72 84 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (73 bp):
ATAAATAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:33652930 original size:18 final size:18
Alignment explanation
Indices: 33652909--33652974 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
33652899 TCCATCAATT
33652909 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
33652927 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
33652945 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
*
33652963 TTAACATCATTT
1 TGAACATCATTT
33652975 CTCATATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:33655661 original size:19 final size:19
Alignment explanation
Indices: 33655637--33655743 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
33655627 GTGGTGGAAA
*
33655637 AGAGGAACAAAGAAGCAGC
1 AGAGGAACAAAGAACCAGC
*
33655656 AGAGGAATAAAGAACCAGCACC
1 AGAGGAACAAAGAACCAG---C
* *
33655678 AGCAAAGGAACAAATAACCAGT
1 AG---AGGAACAAAGAACCAGC
33655700 AGAGGAACAAAGAACTAGCACCAGC
1 AGAGGAACAAAG----A--ACCAGC
33655725 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
33655744 GATGGGAGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
19 31 0.45
21 1 0.01
22 5 0.07
23 1 0.01
25 31 0.45
ACGTcount: A:0.51, C:0.21, G:0.24, T:0.04
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:33655680 original size:25 final size:25
Alignment explanation
Indices: 33655652--33655743 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 25
33655642 AACAAAGAAG
*
33655652 CAGCAGAGGAATAAAGAACCAGCAC
1 CAGCAGAGGAACAAAGAACCAGCAC
* *
33655677 CAGCAAAGGAAC--A-AA-TA--AC
1 CAGCAGAGGAACAAAGAACCAGCAC
* *
33655696 CAGTAGAGGAACAAAGAACTAGCAC
1 CAGCAGAGGAACAAAGAACCAGCAC
33655721 CAGCAGAGGAACAAAGAACCAGC
1 CAGCAGAGGAACAAAGAACCAGC
33655744 GATGGGAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
19 12 0.22
21 2 0.04
22 4 0.07
23 3 0.06
25 33 0.61
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.04
Consensus pattern (25 bp):
CAGCAGAGGAACAAAGAACCAGCAC
Found at i:33655689 original size:44 final size:44
Alignment explanation
Indices: 33655639--33655743 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 44
33655629 GGTGGAAAAG
* *
33655639 AGGAACAAAGAAGCAGCAGAGGAATAAAGAACCAGCACCAGCAA
1 AGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGCAA
* * * *
33655683 AGGAACAAATAACCAGTAGAGGAACAAAGAACTAGCACCAGCAG
1 AGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGCAA
33655727 AGGAACAAAGAACCAGC
1 AGGAACAAAGAACCAGC
33655744 GATGGGAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.51, C:0.21, G:0.24, T:0.04
Consensus pattern (44 bp):
AGGAACAAAGAACCAGCAGAGGAACAAAGAACCAGCACCAGCAA
Found at i:33656082 original size:33 final size:33
Alignment explanation
Indices: 33656023--33656101 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 33
33656013 TAACATCAAA
* *
33656023 ACTTAATTGA-TTCTTTAAATTATTTTATGAGG
1 ACTTAATTGATTTTTTTAAATTATTTTAGGAGG
*
33656055 ACTTAATTGATTTTTTTTAATTATTTTAGGAGG
1 ACTTAATTGATTTTTTTAAATTATTTTAGGAGG
*
33656088 -CTTAAATGATTTTT
1 ACTTAATTGATTTTT
33656102 AAGGATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 23 0.55
33 19 0.45
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (33 bp):
ACTTAATTGATTTTTTTAAATTATTTTAGGAGG
Found at i:33656225 original size:19 final size:19
Alignment explanation
Indices: 33656174--33656239 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 19
33656164 ATTTTAATTT
33656174 TTTTAATAATATTTAATAAC
1 TTTTAATAAT-TTTAATAAC
33656194 TTATATAAT-ATTTT-ATAAC
1 TT-T-TAATAATTTTAATAAC
*
33656213 ATTTTAATAATTTCTAATAAT
1 -TTTTAATAATTT-TAATAAC
33656234 TTTTAA
1 TTTTAA
33656240 AAAAAAGTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
18 4 0.10
19 10 0.26
20 14 0.36
21 7 0.18
22 4 0.10
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATAATTTTAATAAC
Found at i:33656512 original size:20 final size:21
Alignment explanation
Indices: 33656475--33656514 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
33656465 TATTTTCCAT
33656475 AATTTTCTTATATATTTTTAC
1 AATTTTCTTATATATTTTTAC
33656496 AATTTT-TTATA-AGTTTTTA
1 AATTTTCTTATATA-TTTTTA
33656515 TATTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTTTCTTATATATTTTTAC
Found at i:33664579 original size:3 final size:3
Alignment explanation
Indices: 33664571--33664602 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
33664561 TTTTATTTAC
33664571 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
33664603 CCTATGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33666435 original size:27 final size:28
Alignment explanation
Indices: 33666385--33666438 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
33666375 AACATAAAAA
* *
33666385 TATAAAAATATGTACATGTGTATGTATT
1 TATAAAAATATGTACAAGTATATGTATT
*
33666413 TATAAAAA-ATGTATAAGTATATGTAT
1 TATAAAAATATGTACAAGTATATGTAT
33666439 ATAGATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (28 bp):
TATAAAAATATGTACAAGTATATGTATT
Found at i:33666975 original size:17 final size:18
Alignment explanation
Indices: 33666953--33666986 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33666943 AAATATGTAA
*
33666953 CATATGTATATA-AGATG
1 CATATGCATATATAGATG
33666970 CATATGCATATATAGAT
1 CATATGCATATATAGAT
33666987 AAATATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (18 bp):
CATATGCATATATAGATG
Found at i:33668621 original size:44 final size:45
Alignment explanation
Indices: 33668530--33668627 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
33668520 AAGACTTGTA
* **
33668530 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTT
* * *
33668575 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTT
33668619 TCTTCGATC
1 TCTTCGATC
33668628 GATTCTACTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 31 0.66
45 16 0.34
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCTT
Found at i:33668948 original size:133 final size:133
Alignment explanation
Indices: 33668762--33669007 Score: 377
Period size: 133 Copynumber: 1.8 Consensus size: 133
33668752 ATCTACTTCG
* * * *
33668762 CCACCAGTATGGGAAGATAAAATCTGTATATTCGATCCACTTCGCTGCGGATATAGGAAGACAGG
1 CCACCAATATGGGAAGACAAAATATGTATATTCGATCCACTTCGCTGCGGATATAGGAAGACAAG
* *
33668827 ACCTATTACCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTATTTTCTTCGATTCACT
66 ACCTACTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATTCACT
33668892 CCA
131 CCA
* * *
33668895 CCACCAATATGGGGAGACAAGATATGTATATTCGATCCACTTCGCTATC-GATATAGGAAGACAA
1 CCACCAATATGGGAAGACAAAATATGTATATTCGATCCACTTCGCT-GCGGATATAGGAAGACAA
* *
33668959 GACCTACTATCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCT
65 GACCTACTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT
33669008 GTTATCTTTC
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
133 100 0.99
134 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (133 bp):
CCACCAATATGGGAAGACAAAATATGTATATTCGATCCACTTCGCTGCGGATATAGGAAGACAAG
ACCTACTACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATTCACT
CCA
Found at i:33679865 original size:30 final size:30
Alignment explanation
Indices: 33679776--33679866 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
33679766 GAGAATCATG
**
33679776 AATGCATTTGTATACATCAAACTTTAATGC
1 AATGCATTTGTATACATCAAACTTTAATTT
* *
33679806 AATTGGCA-ATGTTATACATC-AATTTTAATTT
1 AA-T-GCATTTG-TATACATCAAACTTTAATTT
*
33679837 GATGCATTTGTATACATCAAACTTTAATTT
1 AATGCATTTGTATACATCAAACTTTAATTT
33679867 TAGTTCAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
29 11 0.22
30 15 0.31
31 12 0.24
32 11 0.22
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (30 bp):
AATGCATTTGTATACATCAAACTTTAATTT
Found at i:33680247 original size:29 final size:31
Alignment explanation
Indices: 33680181--33680247 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 31
33680171 GAAATGTGAA
*
33680181 AATTAAACCAAAATTAAAGTTTAATGTATAC
1 AATTACACCAAAATTAAAGTTTAATGTATAC
*
33680212 AAATACACC-AAATTAAAG-TTAATGTATA-
1 AATTACACCAAAATTAAAGTTTAATGTATAC
33680240 ACATTACA
1 A-ATTACA
33680248 AATTGTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 1 0.03
29 15 0.47
30 9 0.28
31 7 0.22
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (31 bp):
AATTACACCAAAATTAAAGTTTAATGTATAC
Found at i:33681425 original size:17 final size:18
Alignment explanation
Indices: 33681391--33681425 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33681381 ATAGAAGGTG
33681391 AAATAAGTATACATTTAA
1 AAATAAGTATACATTTAA
*
33681409 AAATAATTATA-ATTTAA
1 AAATAAGTATACATTTAA
33681426 TAGAAGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATAAGTATACATTTAA
Found at i:33681430 original size:44 final size:44
Alignment explanation
Indices: 33681380--33681504 Score: 180
Period size: 44 Copynumber: 2.9 Consensus size: 44
33681370 AATTAAACAA
* * *
33681380 AATAGAAGGTGAAATAAGTATACATTTAAAAATAATTATAATTT
1 AATAGAAGTTGAAATAACTATACATTTAAAAATAATTATAATTG
33681424 AATAGAAGTTGAAATAACTATACATTTAAAAATAATTATAATTG
1 AATAGAAGTTGAAATAACTATACATTTAAAAATAATTATAATTG
** * *
33681468 AATAGAAGTTGTGATAATTACACA-TTAAAAATAATTA
1 AATAGAAGTTGAAATAACTATACATTTAAAAATAATTA
33681505 GAATAAGAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 13 0.18
44 61 0.82
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.34
Consensus pattern (44 bp):
AATAGAAGTTGAAATAACTATACATTTAAAAATAATTATAATTG
Found at i:33687915 original size:3 final size:3
Alignment explanation
Indices: 33687909--33687934 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33687899 AATAATAATA
33687909 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
33687935 AGAAGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:33690701 original size:28 final size:29
Alignment explanation
Indices: 33690650--33690711 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
33690640 CGTCTGAGAG
33690650 AAAAAAAGGGAGAAATGAAGTTTTTTTT-
1 AAAAAAAGGGAGAAATGAAGTTTTTTTTC
*
33690678 AAAACAAGGGATGAAATGAA-TTTTTTTTC
1 AAAAAAAGGGA-GAAATGAAGTTTTTTTTC
33690707 AAAAA
1 AAAAA
33690712 TTTTTAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (29 bp):
AAAAAAAGGGAGAAATGAAGTTTTTTTTC
Found at i:33690703 original size:29 final size:28
Alignment explanation
Indices: 33690650--33690711 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
33690640 CGTCTGAGAG
*
33690650 AAAAAAAGGGAGAAATGAAGTTTTTTTT
1 AAAAAAAGGGAGAAATGAAGTTTTTTTC
* *
33690678 AAAACAAGGGATGAAATGAATTTTTTTTC
1 AAAAAAAGGGA-GAAATGAAGTTTTTTTC
33690707 AAAAA
1 AAAAA
33690712 TTTTTAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.48, C:0.03, G:0.18, T:0.31
Consensus pattern (28 bp):
AAAAAAAGGGAGAAATGAAGTTTTTTTC
Found at i:33691414 original size:29 final size:29
Alignment explanation
Indices: 33691362--33691427 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
33691352 CTTTGCATAC
* *
33691362 TTATTATTATCATTATTATTTTATCTTGTT
1 TTATTATTATCATCATTATTTTAT-TTCTT
33691392 TT-TTATTATCATCATT-TTATTATTTCTT
1 TTATTATTATCATCATTATT-TTATTTCTT
33691420 TTATTATT
1 TTATTATT
33691428 TTTGGCACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 22 0.69
30 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (29 bp):
TTATTATTATCATCATTATTTTATTTCTT
Found at i:33695843 original size:49 final size:49
Alignment explanation
Indices: 33695770--33695909 Score: 235
Period size: 49 Copynumber: 2.8 Consensus size: 49
33695760 GAGCATAAAT
*
33695770 TAAAGTAAATGTGCTAAAATGTTGAGGGATAGATAAGGAAATCAAAGGAC
1 TAAAGTAAAT-TGCTAAAATGTTGAGGGACAGATAAGGAAATCAAAGGAC
*
33695820 TAAAGTAAATTGCTAAAATGTTGAGGGACAGATAGGGAAATCAAAGGAC
1 TAAAGTAAATTGCTAAAATGTTGAGGGACAGATAAGGAAATCAAAGGAC
* *
33695869 TAAAGTAAATTGCTAAAATGTTGAGGGACCGATAGGGAAAT
1 TAAAGTAAATTGCTAAAATGTTGAGGGACAGATAAGGAAAT
33695910 TAAACCAGGC
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 77 0.89
50 10 0.11
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (49 bp):
TAAAGTAAATTGCTAAAATGTTGAGGGACAGATAAGGAAATCAAAGGAC
Done.