Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 122 of 172
Found at i:34744420 original size:7 final size:7
Alignment explanation
Indices: 34744408--34744445 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
34744398 TCTTCCCATT
34744408 CCACCTC
1 CCACCTC
34744415 CCACCTC
1 CCACCTC
34744422 CCACCTC
1 CCACCTC
34744429 CCACCTC
1 CCACCTC
34744436 CCACCTC
1 CCACCTC
34744443 CCA
1 CCA
34744446 TCTACCCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.71, G:0.00, T:0.13
Consensus pattern (7 bp):
CCACCTC
Found at i:34746736 original size:14 final size:14
Alignment explanation
Indices: 34746717--34746743 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34746707 ATCTTTAATA
34746717 TATATATTTATATT
1 TATATATTTATATT
34746731 TATATATTTATAT
1 TATATATTTATAT
34746744 AAGAAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATATTTATATT
Found at i:34748116 original size:12 final size:12
Alignment explanation
Indices: 34748095--34748128 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34748085 TATATATTTT
*
34748095 AAAATTATATAA
1 AAAATAATATAA
34748107 AAAATAATATAA
1 AAAATAATATAA
*
34748119 AAATTAATAT
1 AAAATAATAT
34748129 GGGCGGGTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:34750308 original size:16 final size:16
Alignment explanation
Indices: 34750284--34750314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34750274 GCAACAAGTA
*
34750284 GCTGGACATTCATGTG
1 GCTGAACATTCATGTG
34750300 GCTGAACATTCATGT
1 GCTGAACATTCATGT
34750315 ACTTGGCCGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (16 bp):
GCTGAACATTCATGTG
Found at i:34757527 original size:16 final size:15
Alignment explanation
Indices: 34757484--34757528 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
34757474 TCCTTTGTTT
34757484 TTTTTCTTTTTCCTC
1 TTTTTCTTTTTCCTC
*
34757499 TTTCTTCACTTTTCTCTC
1 TTT-TTC-TTTTTC-CTC
34757517 TTTTTCTTTTTC
1 TTTTTCTTTTTC
34757529 AAGTGAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 3 0.12
16 8 0.32
17 8 0.32
18 6 0.24
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTCTTTTTCCTC
Found at i:34770723 original size:20 final size:22
Alignment explanation
Indices: 34770684--34770723 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34770674 TAATTACAAT
*
34770684 TTTCTCTCAAGTTCCTCTTTAA
1 TTTCTCTCAAGCTCCTCTTTAA
34770706 TTTCTCTCAA-CTCC-CTTT
1 TTTCTCTCAAGCTCCTCTTT
34770724 TTTAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.15, C:0.33, G:0.03, T:0.50
Consensus pattern (22 bp):
TTTCTCTCAAGCTCCTCTTTAA
Found at i:34773195 original size:25 final size:25
Alignment explanation
Indices: 34773038--34773182 Score: 272
Period size: 25 Copynumber: 5.8 Consensus size: 25
34773028 TATTTTGATA
34773038 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
34773063 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
34773088 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
34773113 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
34773138 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
34773163 TTATTTGATATAATAAAATA
1 TTATTTGATGTAATAAAATA
34773183 TAAATTTTTT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 117 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:34774453 original size:125 final size:125
Alignment explanation
Indices: 34774231--34774596 Score: 563
Period size: 125 Copynumber: 2.9 Consensus size: 125
34774221 CAAATATGCT
34774231 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
34774296 GAAGCGATTTTACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCA
* * *
34774356 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGAAACTTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* *
34774421 GAAGCAATTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCA
** * * *
34774481 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCAGAAATTCTTCTTA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGGT
* * * * *
34774545 TGAATCGTTTTTATACTATTTGCTCAGAAACGTTAACTCAAAATTATTTCTT
65 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTT
34774597 TTAGGGCCTA
Statistics
Matches: 218, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
124 2 0.01
125 216 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACCA
Found at i:34774989 original size:16 final size:16
Alignment explanation
Indices: 34774968--34775000 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34774958 TTTCGAGAAA
34774968 CCATTAATATTGTAGG
1 CCATTAATATTGTAGG
34774984 CCATTAATATTGTAGG
1 CCATTAATATTGTAGG
34775000 C
1 C
34775001 TACTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (16 bp):
CCATTAATATTGTAGG
Found at i:34776114 original size:15 final size:15
Alignment explanation
Indices: 34776094--34776122 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34776084 TATTTTAAAA
34776094 TATATATTTTATATG
1 TATATATTTTATATG
34776109 TATATATTTTATAT
1 TATATATTTTATAT
34776123 ATATTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATATATTTTATATG
Found at i:34778558 original size:41 final size:41
Alignment explanation
Indices: 34778351--34778547 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
34778341 TTTATCGTTA
* * * * *
34778351 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
34778392 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
34778433 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
34778474 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
34778515 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
34778548 AAGAGCCGGT
Statistics
Matches: 147, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 142 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:34778818 original size:33 final size:33
Alignment explanation
Indices: 34778762--34778859 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
34778752 ATAGATATGT
*
34778762 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
34778794 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
34778827 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
34778860 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:34786093 original size:41 final size:41
Alignment explanation
Indices: 34786027--34786220 Score: 281
Period size: 41 Copynumber: 4.8 Consensus size: 41
34786017 TTTATCGTTA
* * * * *
34786027 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
34786068 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
34786109 GTGACACATTTCAG-CTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
34786149 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
34786190 GTG--ACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
34786221 AAGAGCCGGT
Statistics
Matches: 143, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
39 28 0.20
40 41 0.29
41 71 0.50
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:34786163 original size:81 final size:80
Alignment explanation
Indices: 34786027--34786220 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 80
34786017 TTTATCGTTA
* *
34786027 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACAT--TTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
34786092 TAGCAGGCTTAATGCCG
64 TAGCAGGCTTAATGCCG
*
34786109 GTGACACATTTCAG-CTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCAGACTATAAG
1 GTG--ACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
34786171 TCTAGCAGGCTTAATGCCG
62 TCTAGCAGGCTTAATGCCG
*
34786190 GTGACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACATTTCAGACTATAAGTCTAGCAGGCT
34786221 AAGAGCCGGT
Statistics
Matches: 103, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
79 8 0.08
80 18 0.17
81 62 0.60
82 10 0.10
83 1 0.01
84 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (80 bp):
GTGACATTTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTCTA
GCAGGCTTAATGCCG
Found at i:34786257 original size:122 final size:122
Alignment explanation
Indices: 34786027--34786274 Score: 279
Period size: 122 Copynumber: 2.0 Consensus size: 122
34786017 TTTATCGTTA
* * *
34786027 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
* * ** *
34786092 TAGCAGGCTTAATGCCGGTGACACATTTCAGCTATAAGTCTAGCAGGCTTAATGCCG
66 TAGCAGGCTTAAAGCCGGTGACACATATCAGCTATAAACCTAGCAGGCTAAATGCCG
* * * *
34786149 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACA-T-TTCGGACTATAAGTC
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
*** * *
34786212 TAGCAGGC-TAAGAGCCGGTGTATTGA-ATCAGGTTTTAAAACCTAGCAGGCTAAATGCCG
66 TAGCAGGCTTAA-AGCCGGTG-ACACATATCA-GCTAT-AAACCTAGCAGGCTAAATGCCG
34786271 GTGA
1 GTGA
34786275 ATCCGTTTAA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
119 3 0.03
120 32 0.30
121 6 0.06
122 64 0.61
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (122 bp):
GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAAAGCCGGTGACACATATCAGCTATAAACCTAGCAGGCTAAATGCCG
Found at i:34786491 original size:33 final size:33
Alignment explanation
Indices: 34786435--34786532 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
34786425 ATAGATATGT
*
34786435 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
34786467 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
34786500 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
34786533 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:34790377 original size:28 final size:25
Alignment explanation
Indices: 34790346--34790431 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 25
34790336 AAGGCAATCC
34790346 AAAATAAATAATGTATACGAAACAATTT
1 AAAATAAATAAT-TAT-CG-AACAATTT
*
34790374 AAAATAGATAA-TATCGAACAATTT
1 AAAATAAATAATTATCGAACAATTT
** *
34790398 AATGTAAATAA-TA-C-ATATAATTT
1 AAAATAAATAATTATCGA-ACAATTT
34790421 AAAATAAATAA
1 AAAATAAATAA
34790432 AATATAAACC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
22 1 0.02
23 16 0.32
24 18 0.36
25 2 0.04
26 3 0.06
28 10 0.20
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (25 bp):
AAAATAAATAATTATCGAACAATTT
Found at i:34790428 original size:23 final size:23
Alignment explanation
Indices: 34790369--34790438 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
34790359 TATACGAAAC
* *
34790369 AATTTAAAATAGATAATATCGA-AC
1 AATTTAAAATAAATAATA-C-ATAT
**
34790393 AATTTAATGTAAATAATACATAT
1 AATTTAAAATAAATAATACATAT
34790416 AATTTAAAATAAATAA-A-ATAT
1 AATTTAAAATAAATAATACATAT
34790437 AA
1 AA
34790439 ACCGTTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 6 0.15
22 2 0.05
23 16 0.41
24 15 0.38
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTTAAAATAAATAATACATAT
Found at i:34790731 original size:15 final size:15
Alignment explanation
Indices: 34790708--34790748 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
34790698 TGTGAGGCTG
*
34790708 AATTTAAAGGGAGTA
1 AATTGAAAGGGAGTA
34790723 AATTGAAAGGGAGTA
1 AATTGAAAGGGAGTA
34790738 AATTGAAAGGG
1 AATTGAAAGGG
34790749 GCACAAACGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.22
Consensus pattern (15 bp):
AATTGAAAGGGAGTA
Found at i:34794714 original size:27 final size:27
Alignment explanation
Indices: 34794668--34794924 Score: 277
Period size: 27 Copynumber: 9.5 Consensus size: 27
34794658 AGACCCTAAA
*
34794668 ATAGGGT-AAATGATCAAAATACCCCC
1 ATAGGGTAAAATGATCGAAATACCCCC
* *
34794694 ATAGGATAAAATGATCGAAATACCCTC
1 ATAGGGTAAAATGATCGAAATACCCCC
* * *
34794721 ATAAGGTAAAATGACCAAAATACCCCC
1 ATAGGGTAAAATGATCGAAATACCCCC
* *
34794748 ATAGGATAAAATGATCGAAATACCCTCT
1 ATAGGGTAAAATGATCGAAATACCC-CC
* * ** *
34794776 ATAGGATAAAAT-AACTGATTTACCCCT
1 ATAGGGTAAAATGATC-GAAATACCCCC
*
34794803 ATAGGGTAAAATGATCGAAATA-CCCT
1 ATAGGGTAAAATGATCGAAATACCCCC
* * *
34794829 ATAGGGTAAAATGACCAAAATACCCCTA
1 ATAGGGTAAAATGATCGAAATACCCC-C
* * *
34794857 ATAGGGTAGAATAACCGAAATACCCCC
1 ATAGGGTAAAATGATCGAAATACCCCC
*
34794884 ATAGGGTAGAATGATCGAAATACCCCC
1 ATAGGGTAAAATGATCGAAATACCCCC
34794911 ATAGGGTAAAATGA
1 ATAGGGTAAAATGA
34794925 CTGTTATACG
Statistics
Matches: 195, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
26 30 0.15
27 120 0.62
28 45 0.23
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
ATAGGGTAAAATGATCGAAATACCCCC
Found at i:34794842 original size:81 final size:81
Alignment explanation
Indices: 34794668--34794924 Score: 306
Period size: 81 Copynumber: 3.2 Consensus size: 81
34794658 AGACCCTAAA
* * *
34794668 ATAGGGT-AAATGATCAAAATACCCCCATAGGATAAAATGA-TCGAAATA-CCCTCATAAGGTAA
1 ATAGGGTAAAATGATCAAAATACCCCTATAGGATAAAATAACT-GAAATACCCCT-ATAGGGTAA
* *
34794730 AATGACCAAAATACCCCC
64 AATGATCGAAATACCCCC
* * **
34794748 ATAGGATAAAATGATCGAAATACCCTCTATAGGATAAAATAACTGATTTACCCCTATAGGGTAAA
1 ATAGGGTAAAATGATCAAAATACCC-CTATAGGATAAAATAACTGAAATACCCCTATAGGGTAAA
*
34794813 ATGATCGAAATA-CCCT
65 ATGATCGAAATACCCCC
* * * * * *
34794829 ATAGGGTAAAATGACCAAAATACCCCTAATAGGGTAGAATAACCGAAATACCCCCATAGGGTAGA
1 ATAGGGTAAAATGATCAAAATACCCCT-ATAGGATAAAATAACTGAAATACCCCTATAGGGTAAA
34794894 ATGATCGAAATACCCCC
65 ATGATCGAAATACCCCC
34794911 ATAGGGTAAAATGA
1 ATAGGGTAAAATGA
34794925 CTGTTATACG
Statistics
Matches: 150, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
80 8 0.05
81 83 0.55
82 54 0.36
83 5 0.03
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (81 bp):
ATAGGGTAAAATGATCAAAATACCCCTATAGGATAAAATAACTGAAATACCCCTATAGGGTAAAA
TGATCGAAATACCCCC
Found at i:34795453 original size:33 final size:35
Alignment explanation
Indices: 34795387--34795460 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 35
34795377 TCATTGCATG
** *
34795387 ACTGATATCTATTATTGTTATGGGCCAAGGTCCC-
1 ACTGATATCTATTATTGAAATGGGCCAAAGTCCCT
34795421 ACTGATA-CTATTATTGAAATTGGG-CAAAGTCCCT
1 ACTGATATCTATTATTGAAA-TGGGCCAAAGTCCCT
34795455 ACTGAT
1 ACTGAT
34795461 TACTGGCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (35 bp):
ACTGATATCTATTATTGAAATGGGCCAAAGTCCCT
Found at i:34797595 original size:19 final size:19
Alignment explanation
Indices: 34797571--34797611 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
34797561 TTGCTTTATT
34797571 CATTAAATTTAAGTATTAG
1 CATTAAATTTAAGTATTAG
*
34797590 CATTAAATTTAAGTATTTG
1 CATTAAATTTAAGTATTAG
34797609 CAT
1 CAT
34797612 ATGCAACACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (19 bp):
CATTAAATTTAAGTATTAG
Found at i:34800300 original size:21 final size:21
Alignment explanation
Indices: 34800274--34800314 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34800264 AGACGAGCAA
* *
34800274 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
34800295 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
34800315 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:34803191 original size:6 final size:6
Alignment explanation
Indices: 34803180--34803205 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34803170 CCAATTTCTT
34803180 TTCATC TTCATC TTCATC TTCATC TT
1 TTCATC TTCATC TTCATC TTCATC TT
34803206 AGCTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (6 bp):
TTCATC
Found at i:34807998 original size:41 final size:41
Alignment explanation
Indices: 34807953--34808032 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
34807943 AAAATTGGAG
* *
34807953 GCACACAGGCGTGTTTCAGGCCGTGTGGGACACATGGGCAC
1 GCACACAGGCGTGTGTCAGGCCGTGAGGGACACATGGGCAC
* * **
34807994 GCACACCGGTGTGTGTCAGGTTGTGAGGGACACATGGGC
1 GCACACAGGCGTGTGTCAGGCCGTGAGGGACACATGGGC
34808033 GTGTGCCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.19, C:0.24, G:0.39, T:0.19
Consensus pattern (41 bp):
GCACACAGGCGTGTGTCAGGCCGTGAGGGACACATGGGCAC
Found at i:34812760 original size:3 final size:3
Alignment explanation
Indices: 34812752--34812795 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
34812742 ACAAATTTCA
34812752 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
34812796 CTTTTATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:34812832 original size:17 final size:18
Alignment explanation
Indices: 34812797--34812835 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
34812787 TTATTATTAC
*
34812797 TTTTATATATATACGTATT
1 TTTTACATATATAC-TATT
34812816 TTTTACATATATA-TATT
1 TTTTACATATATACTATT
34812833 TTT
1 TTT
34812836 ATTACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTACATATATACTATT
Found at i:34814039 original size:27 final size:27
Alignment explanation
Indices: 34814007--34814237 Score: 241
Period size: 27 Copynumber: 8.6 Consensus size: 27
34813997 AGACCCTAAA
* *
34814007 ATAGGGTAAAATCATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
34814034 ATAGGGTAAAATGACTGAAATACCCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
34814061 ATAAGGTAAAATGACCAAAATACCTCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
34814088 ATAAGATAAAATGATCGAAATACCCTCC
1 ATAGGGTAAAATGACCGAAATACCC-CC
* * *
34814116 ATAGGATAAAATGACCGAAATA-TCCT
1 ATAGGGTAAAATGACCGAAATACCCCC
* *
34814142 ATAGGGT-AAATGACCAAAATACCCCTA
1 ATAGGGTAAAATGACCGAAATACCCC-C
* * *
34814169 ATAGGATAGAATGACTGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
34814196 ATAGGGTAGAATGATCAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
34814223 ATAGGGTAAAATGAC
1 ATAGGGTAAAATGAC
34814238 TGTTATACGC
Statistics
Matches: 168, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
25 13 0.08
26 9 0.05
27 109 0.65
28 37 0.22
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:34815016 original size:109 final size:108
Alignment explanation
Indices: 34814755--34815076 Score: 434
Period size: 109 Copynumber: 3.0 Consensus size: 108
34814745 TGAGTTAAAA
* * * **
34814755 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCTAGCACATTAGGGCATAT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
34814818 TTCCTCGAATTTCCAAACACAAAATATTGT-CTTATTTCGAAAT
66 TTTCTCGAATTTCCAAACGCAAAATATT-TCCTTATTTTGAAAT
* * *
34814861 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * *
34814926 TTTCTAGAGTTTCCGAACGCAAAACATTTCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAATATTTCCTTATTTTGAAA-T
* *
34814970 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGTACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
34815035 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCCAAACGCAAAATATTTCCTTATTTTGAAA
34815077 AATTTTCCTT
Statistics
Matches: 186, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
106 30 0.16
107 1 0.01
108 58 0.31
109 97 0.52
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (108 bp):
TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAATATTTCCTTATTTTGAAAT
Found at i:34816407 original size:18 final size:18
Alignment explanation
Indices: 34816384--34816424 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
34816374 ATTTTGTTTC
34816384 AAAAAT-AAGAAAAGAAAA
1 AAAAATCAA-AAAAGAAAA
34816402 AAAAATCGAAAAAAGAAAA
1 AAAAATC-AAAAAAGAAAA
34816421 AAAA
1 AAAA
34816425 TATGCAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 13 0.62
20 2 0.10
ACGTcount: A:0.83, C:0.02, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAATCAAAAAAGAAAA
Found at i:34817312 original size:132 final size:132
Alignment explanation
Indices: 34817093--34817521 Score: 669
Period size: 132 Copynumber: 3.2 Consensus size: 132
34817083 TGCTGTTGTT
* * * *
34817093 GATCTGCTCTACTACTGCTTAGAGAGACAGGATCTACAATCTTTAACCTACTCCACTACTACTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTTAACCTACTCCACTACTGCTTA
* *
34817158 AGGAGATAGGACTAATGGCTTAAATCAGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTCT
66 GGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTCT
*
34817223 TT
131 TC
* *
34817225 GATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAATCTTTGACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTTAACCTACTCCACTACTGCTTA
* * * **
34817290 GGGAGATCGGACTAATGGCTTAAATCTGCTTCTACACTATCTTGGGAAGATAAGATTCGCTATCT
66 GGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTCT
34817355 TC
131 TC
* * * * *
34817357 GATCTGCTCTACTACTGCTTAGGGGGATAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTTAACCTACTCCACTACTGCTTA
* *
34817422 GGGAGATAGGACTAATGGATTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTAT
66 GGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTCT
34817487 TC
131 TC
34817489 GATCTGCTCCACTACTGCTTAGGGAGACAGAAT
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAAT
34817522 TTGTAATCTT
Statistics
Matches: 266, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 266 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTTAACCTACTCCACTACTGCTTA
GGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTCT
TC
Found at i:34817577 original size:46 final size:46
Alignment explanation
Indices: 34817527--34817761 Score: 409
Period size: 46 Copynumber: 5.1 Consensus size: 46
34817517 AGAATTTGTA
*
34817527 ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
34817573 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
34817619 ATTTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
34817665 ATCTTCGATCTACTCTC-CTGCCAAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTC-CGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
34817711 ATTTTCGATCTACTCCGCTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
34817757 ATCTT
1 ATCTT
34817762 TTCAACCTGC
Statistics
Matches: 179, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 1 0.01
46 177 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (46 bp):
ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:34819039 original size:7 final size:6
Alignment explanation
Indices: 34819022--34819052 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
34819012 TTGGCCTCTC
34819022 CTTTTT CTTTTT CTTTTT CTTTCTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTT-TT CTTTTT
34819053 TTTCCCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:34819039 original size:12 final size:13
Alignment explanation
Indices: 34819022--34819056 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
34819012 TTGGCCTCTC
34819022 CTTTTTCTTT-TT
1 CTTTTTCTTTCTT
34819034 CTTTTTCTTTCTT
1 CTTTTTCTTTCTT
34819047 CTTTTT-TTTC
1 CTTTTTCTTTC
34819057 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTCTTTCTT
Found at i:34819163 original size:14 final size:15
Alignment explanation
Indices: 34819140--34819172 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
34819130 ATTGACGCTT
*
34819140 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
34819154 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
34819169 TTCC
1 TTCC
34819173 CAGCTTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:34822795 original size:21 final size:22
Alignment explanation
Indices: 34822771--34822813 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
34822761 GTATTTCTTA
* *
34822771 GTTATGTTTTA-ATTTTTAATG
1 GTTATATTTTACAATTTTAATG
34822792 GTTATATTTTACAATTTTAATG
1 GTTATATTTTACAATTTTAATG
34822814 AATCAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (22 bp):
GTTATATTTTACAATTTTAATG
Found at i:34823263 original size:13 final size:13
Alignment explanation
Indices: 34823215--34823286 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 13
34823205 CAAATAAACC
34823215 AAAATTGTATTACT
1 AAAATT-TATTACT
*
34823229 AAAATTCATCT-CT
1 AAAATTTAT-TACT
34823242 AAAATTTTATTACT
1 AAAA-TTTATTACT
*
34823256 AAAATTTACTA-T
1 AAAATTTATTACT
34823268 AAAA--TATTACT
1 AAAATTTATTACT
34823279 ATAAATTT
1 A-AAATTT
34823287 TACACCAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
10 4 0.09
11 2 0.04
12 8 0.17
13 15 0.32
14 18 0.38
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (13 bp):
AAAATTTATTACT
Found at i:34823272 original size:12 final size:12
Alignment explanation
Indices: 34823241--34823289 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
34823231 AATTCATCTC
*
34823241 TAAAATTTTATTA
1 TAAAA-TTTACTA
34823254 CTAAAATTTACTA
1 -TAAAATTTACTA
34823267 TAAAATATTACTA
1 TAAAAT-TTACTA
*
34823280 TAAATTTTAC
1 TAAAATTTAC
34823290 ACCAATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 10 0.31
13 17 0.53
14 5 0.16
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATTTACTA
Found at i:34824984 original size:20 final size:17
Alignment explanation
Indices: 34824961--34825004 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 17
34824951 TTTTAACATA
34824961 ATTTTTAATAATTTATATTT
1 ATTTTTAA-AATTT-T-TTT
*
34824981 ATTTTTAAGATTTTTTT
1 ATTTTTAAAATTTTTTT
34824998 ATTTTTA
1 ATTTTTA
34825005 GGATTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 1 0.04
19 4 0.17
20 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTTTTAAAATTTTTTT
Found at i:34825000 original size:17 final size:17
Alignment explanation
Indices: 34824978--34825012 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
34824968 ATAATTTATA
34824978 TTTATTTTTAAGATTTT
1 TTTATTTTTAAGATTTT
*
34824995 TTTATTTTTAGGATTTT
1 TTTATTTTTAAGATTTT
34825012 T
1 T
34825013 GTTAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (17 bp):
TTTATTTTTAAGATTTT
Found at i:34832043 original size:42 final size:42
Alignment explanation
Indices: 34831944--34832093 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 42
34831934 AATGCCAACG
* * *
34831944 TCCCAGACGTGGTCTTACATGTAATCTAACAACGATGCCACTA
1 TCCCAGACATGGTCTTACACGTAATCTAACAACGA-GCCAATA
* *
34831987 TCCCAGACAGGGTCTTACACGTAATCATATACGAC-A-CCAATA
1 TCCCAGACATGGTCTTACACGTAATC-TA-ACAACGAGCCAATA
*
34832029 TCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGAGGCCAA-A
1 TCCCAGACATGGTCTTACACGT-AATCT-AACAACGA-GCCAATA
* *
34832072 GTCCCAAACGTGGTCTTACACG
1 -TCCCAGACATGGTCTTACACG
34832094 ATGTCACATT
Statistics
Matches: 89, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 29 0.33
44 26 0.29
45 4 0.04
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCTAACAACGAGCCAATA
Found at i:34832902 original size:7 final size:7
Alignment explanation
Indices: 34832890--34832915 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34832880 AATTACAAGT
34832890 TATTTAC
1 TATTTAC
34832897 TATTTAC
1 TATTTAC
34832904 TATTTAC
1 TATTTAC
34832911 TATTT
1 TATTT
34832916 TAACCTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAC
Found at i:34835281 original size:8 final size:8
Alignment explanation
Indices: 34835268--34835298 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
34835258 GTTTTATTAT
34835268 TATAATAA
1 TATAATAA
*
34835276 TATAATAT
1 TATAATAA
34835284 TATAATAA
1 TATAATAA
34835292 TATAATA
1 TATAATA
34835299 TAACAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATAATAA
Found at i:34835286 original size:16 final size:16
Alignment explanation
Indices: 34835265--34835299 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
34835255 CTTGTTTTAT
34835265 TATTATAATAATATAA
1 TATTATAATAATATAA
34835281 TATTATAATAATATAA
1 TATTATAATAATATAA
34835297 TAT
1 TAT
34835300 AACAATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTATAATAATATAA
Found at i:34835300 original size:13 final size:15
Alignment explanation
Indices: 34835265--34835308 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
34835255 CTTGTTTTAT
34835265 TATTATAATAATATAA
1 TATTATAATAATAT-A
34835281 TATTATAATAATATA
1 TATTATAATAATATA
*
34835296 -A-TATAACAATATA
1 TATTATAATAATATA
34835309 CTTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 1 0.04
15 1 0.04
16 14 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTATAATAATATA
Found at i:34841236 original size:11 final size:11
Alignment explanation
Indices: 34841206--34841239 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
34841196 TTTGAATTTT
34841206 AGGGTTAAAAA
1 AGGGTTAAAAA
*
34841217 AGGGCTAAAAA
1 AGGGTTAAAAA
*
34841228 AGGTTTAAAAA
1 AGGGTTAAAAA
34841239 A
1 A
34841240 TTTTATGGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.56, C:0.03, G:0.24, T:0.18
Consensus pattern (11 bp):
AGGGTTAAAAA
Found at i:34843509 original size:41 final size:41
Alignment explanation
Indices: 34843447--34843591 Score: 245
Period size: 41 Copynumber: 3.5 Consensus size: 41
34843437 GACTATACGT
34843447 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
34843488 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * *
34843529 CTAACAGGCTAAGTGCCGGTGATCTGAATCAAGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
34843570 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
34843592 ATCTATTAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:34844943 original size:15 final size:16
Alignment explanation
Indices: 34844913--34844953 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
34844903 ATATATTTTC
*
34844913 TTTATTATTATGCATT
1 TTTATTATTATCCATT
34844929 TTTATT-TTATCCA-T
1 TTTATTATTATCCATT
34844943 TTTATTATTAT
1 TTTATTATTAT
34844954 TTCTATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATTATCCATT
Found at i:34845100 original size:12 final size:12
Alignment explanation
Indices: 34845085--34845109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34845075 TCCTTTTTAT
34845085 TTTATTTATTCA
1 TTTATTTATTCA
34845097 TTTATTTATTCA
1 TTTATTTATTCA
34845109 T
1 T
34845110 CTACCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:34849158 original size:3 final size:3
Alignment explanation
Indices: 34849143--34849193 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
34849133 CAATTATATG
* * * *
34849143 TAT TAT TAG TAT TAT TAG TAT TAT TAT TAT TAT TAT TTT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34849191 TAT
1 TAT
34849194 ATTTTCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:34849400 original size:25 final size:25
Alignment explanation
Indices: 34849366--34849431 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
34849356 ATTTTATAAC
34849366 TTCAAAATATATATATGAATACAT-TT
1 TTCAAAATATATATATG--TACATATT
34849392 TT-AAAATATATATATGTACATATT
1 TTCAAAATATATATATGTACATATT
34849416 TTCATAAATATATATA
1 TTCA-AAATATATATA
34849432 CATGCTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
23 5 0.14
24 4 0.11
25 15 0.41
26 13 0.35
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (25 bp):
TTCAAAATATATATATGTACATATT
Found at i:34849982 original size:69 final size:69
Alignment explanation
Indices: 34849871--34850008 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
34849861 CTTTTCAAAC
* *
34849871 CCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTATTGGGCATGATCCTT
1 CCAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
34849936 TTTT
66 TTTT
* *
34849940 CCAAGTTTTAAATGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTTT
1 CCAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
34850005 TTTT
66 TTTT
34850009 TTTAATTCAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (69 bp):
CCAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
TTTT
Found at i:34855746 original size:44 final size:45
Alignment explanation
Indices: 34855690--34855817 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
34855680 GTGAAGATAA
* * * *
34855690 CAGATCTTGCCTTCTTATACTGACAGCGAAGCAAATCGAAGACAC
1 CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACAC
* * * *
34855735 CAG-CCTTGCCTTCCTGTACT-ACAGCGGAGCAGA-CTTAAGATAG
1 CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACAC
*
34855778 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAA
1 CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAA
34855818 AACATCATAG
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 19 0.28
44 30 0.44
45 17 0.25
46 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CAGACCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACAC
Found at i:34856375 original size:92 final size:91
Alignment explanation
Indices: 34856177--34856614 Score: 350
Period size: 92 Copynumber: 4.9 Consensus size: 91
34856167 GATAGCAAGT
* * * *
34856177 CTTATTTCCCTAAAGTTGCAGTGGAATAGATGGAAGC-TAAATCGCAGATCTTATCTCTCTGAAG
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATCACAGATCTTATCTCTCTGAAG
* *
34856241 TT-ACAATAGAGCAGATCATATCAAAT
66 TTGA-AGTAGAGCAGATCATATCAAAC
* * * * * * *
34856267 CTTTTTTTCTTAAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTATGAA
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGC-ATAAATCACAGATCTTATCTCTCTGAA
34856332 GTTGAAGTAGAGCAGAT-AGTATCAAAC
65 GTTGAAGTAGAGCAGATCA-TATCAAAC
* * * * *
34856359 CTCATCTCCCTGAAGTTGCAATGGAACAGGTTGAAG-AT--A-CA-AG-TCTTATCTCTCTAAAG
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATCACAGATCTTATCTCTCTGAAG
* * * * * *
34856418 TTGCAGTGGAGCAGACCGAAAATAGCGAAT
66 TTGAAGTAGAGCAGATC----ATATCAAAC
* * * ***
34856448 CTTATTTCCCTAAAGTTACAGTGGAACAGATTGAAGCTATACATTGTAGATCTTATCTCTCTGAA
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGC-ATAAATCACAGATCTTATCTCTCTGAA
* *
34856513 GTTGCAGTAGAGTAGATCATATCAAAC
65 GTTGAAGTAGAGCAGATCATATCAAAC
* * *
34856540 CTTATCTCCCTGAAGTTTCAGTGGAGCA-AGTTGAAG-AT--A-C-CA-ATCTTATCTCTCTGAA
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGA-TTGAAGCATAAATCACAGATCTTATCTCTCTGAA
* *
34856598 GTTGCAGTGGAGCAGAT
65 GTTGAAGTAGAGCAGAT
34856615 TGAAGCTATT
Statistics
Matches: 279, Mismatches: 52, Indels: 39
0.75 0.14 0.11
Matches are distributed among these distances:
85 58 0.21
86 3 0.01
87 1 0.00
88 2 0.01
89 35 0.13
90 36 0.13
91 4 0.01
92 107 0.38
93 2 0.01
95 2 0.01
96 29 0.10
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (91 bp):
CTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATCACAGATCTTATCTCTCTGAAG
TTGAAGTAGAGCAGATCATATCAAAC
Found at i:34856482 original size:181 final size:181
Alignment explanation
Indices: 34856277--34856613 Score: 516
Period size: 181 Copynumber: 1.9 Consensus size: 181
34856267 CTTTTTTTCT
*
34856277 TAAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTATGAAGTTGAAGTAG
1 TAAAGTTACAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTATGAAGTTGAAGTAG
*
34856342 AGCAGAT-AGTATCAAACCTCATCTCCCTGAAGTTGCAATGGAACAGGTTGAAGATA-CAAGTCT
66 AGCAGATCA-TATCAAACCTCATCTCCCTGAAGTTGCAATGGAACAAGTTGAAGATACCAA-TCT
34856405 TATCTCTCTAAAGTTGCAGTGGAGCAGACCGAAAATAGCGAATCTTATTTCCC
129 TATCTCTCTAAAGTTGCAGTGGAGCAGACCGAAAATAGCGAATCTTATTTCCC
* * ** * *
34856458 TAAAGTTACAGTGGAACAGATTGAAGCTATACATTGTAGATCTTATCTCTCTGAAGTTGCAGTAG
1 TAAAGTTACAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTATGAAGTTGAAGTAG
* * * * *
34856523 AGTAGATCATATCAAACCTTATCTCCCTGAAGTTTCAGTGGAGCAAGTTGAAGATACCAATCTTA
66 AGCAGATCATATCAAACCTCATCTCCCTGAAGTTGCAATGGAACAAGTTGAAGATACCAATCTTA
*
34856588 TCTCTCTGAAGTTGCAGTGGAGCAGA
131 TCTCTCTAAAGTTGCAGTGGAGCAGA
34856614 TTGAAGCTAT
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
181 136 0.97
182 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (181 bp):
TAAAGTTACAGTAGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTATGAAGTTGAAGTAG
AGCAGATCATATCAAACCTCATCTCCCTGAAGTTGCAATGGAACAAGTTGAAGATACCAATCTTA
TCTCTCTAAAGTTGCAGTGGAGCAGACCGAAAATAGCGAATCTTATTTCCC
Found at i:34856922 original size:114 final size:115
Alignment explanation
Indices: 34856721--34856953 Score: 369
Period size: 114 Copynumber: 2.0 Consensus size: 115
34856711 GACGTTGTAA
* *
34856721 TGGAGCAGACTAAAACCACAAATCTCGTCCCCCTGAAGTTGCTGCGAAGAAGTTTGAAGTTACAA
1 TGGAGCAGACTAAAACCACAAATCTCGTCCCCCTGAAGTTGCTGCGAAGAAGATTGAAATTACAA
* *
34856786 GTCATACCTCTCTGAAGTGCAGTAAAGTGGATTGAAGCAACGAGACACAG
66 CTCATACCTCTCTGAAGTGCAGTAAAGTGGATAGAAGCAACGAGACACAG
** *
34856836 TGGAGCAGACTAAAACCATGAATCTTG-CCCCCTGAAGTTGCTGCGAAGAAGATTGAAATTACAA
1 TGGAGCAGACTAAAACCACAAATCTCGTCCCCCTGAAGTTGCTGCGAAGAAGATTGAAATTACAA
* * *
34856900 CTCATATCTCTCTGAAGTGCAGTAGAGTGGATAGAAGCAATGAGACACAG
66 CTCATACCTCTCTGAAGTGCAGTAAAGTGGATAGAAGCAACGAGACACAG
34856950 TGGA
1 TGGA
34856954 CTGGAATGAG
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
114 84 0.78
115 24 0.22
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (115 bp):
TGGAGCAGACTAAAACCACAAATCTCGTCCCCCTGAAGTTGCTGCGAAGAAGATTGAAATTACAA
CTCATACCTCTCTGAAGTGCAGTAAAGTGGATAGAAGCAACGAGACACAG
Found at i:34857931 original size:25 final size:26
Alignment explanation
Indices: 34857898--34857963 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
34857888 ATTTTACAAC
34857898 TTCA-AAATATATATATGAATACAT-TT
1 TTCATAAATATATATATG--TACATATT
34857924 TT-AT-AATATATATATGTACATATT
1 TTCATAAATATATATATGTACATATT
34857948 TTCATAAATATATATA
1 TTCATAAATATATATA
34857964 CATGCTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.14
24 4 0.11
25 15 0.42
26 12 0.33
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (26 bp):
TTCATAAATATATATATGTACATATT
Found at i:34857965 original size:22 final size:21
Alignment explanation
Indices: 34857906--34857966 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 21
34857896 ACTTCAAAAT
34857906 ATATATATGAATACATTTTTATA
1 ATATATAT--ATACATTTTTATA
34857929 ATATATATATGTACATATTTTCATA
1 ATATATATA--TACAT-TTTT-ATA
34857954 A-ATATATATACAT
1 ATATATATATACAT
34857967 GCTTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 1 0.03
22 5 0.15
23 13 0.38
24 11 0.32
25 4 0.12
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (21 bp):
ATATATATATACATTTTTATA
Found at i:34859793 original size:12 final size:13
Alignment explanation
Indices: 34859761--34859801 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
34859751 CTCTTTTTTT
*
34859761 AAATGAAAAAAAC
1 AAATGAAAACAAC
*
34859774 AAA-AAAAACAA-
1 AAATGAAAACAAC
34859785 AAATGAAAACAAC
1 AAATGAAAACAAC
34859798 AAAT
1 AAAT
34859802 TTGAGGCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 3 0.13
12 13 0.57
13 7 0.30
ACGTcount: A:0.78, C:0.10, G:0.05, T:0.07
Consensus pattern (13 bp):
AAATGAAAACAAC
Found at i:34864919 original size:21 final size:22
Alignment explanation
Indices: 34864881--34864921 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34864871 TAATCTTATC
34864881 ATAATTATAAAAAAAAATATTG
1 ATAATTATAAAAAAAAATATTG
* *
34864903 ATAATT-TAAACACAAATAT
1 ATAATTATAAAAAAAAATAT
34864922 GAACTTAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
ATAATTATAAAAAAAAATATTG
Found at i:34866639 original size:13 final size:13
Alignment explanation
Indices: 34866621--34866650 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34866611 ACTAAATGTA
*
34866621 ATTTTACCACTAT
1 ATTTTAACACTAT
34866634 ATTTTAACACTAT
1 ATTTTAACACTAT
34866647 ATTT
1 ATTT
34866651 GATTTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTTAACACTAT
Found at i:34868673 original size:14 final size:14
Alignment explanation
Indices: 34868656--34868685 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34868646 CCTTTTGGTT
34868656 CCTTTCTTGCCTTC
1 CCTTTCTTGCCTTC
*
34868670 CCTTTCTTGCTTTC
1 CCTTTCTTGCCTTC
34868684 CC
1 CC
34868686 CCCTGCTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.43, G:0.07, T:0.50
Consensus pattern (14 bp):
CCTTTCTTGCCTTC
Found at i:34870322 original size:26 final size:25
Alignment explanation
Indices: 34870253--34870343 Score: 68
Period size: 26 Copynumber: 3.7 Consensus size: 25
34870243 ACATAGTGAT
*
34870253 AATAATAATAAATAAGAAAT--AC-
1 AATAATAATAAATAATAAATAAACG
* *
34870275 AATAAATAAT-CATACATTAATAAACG
1 AAT-AATAATAAATA-ATAAATAAACG
34870301 AATAATAATAAATAGATAAATAAGA-G
1 AATAATAATAAATA-ATAAATAA-ACG
34870327 TAATAATAAT-AATAATA
1 -AATAATAATAAATAATA
34870344 GTAGTAGTAG
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
22 6 0.11
23 10 0.18
25 11 0.20
26 18 0.33
27 10 0.18
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (25 bp):
AATAATAATAAATAATAAATAAACG
Found at i:34872390 original size:132 final size:132
Alignment explanation
Indices: 34872232--34872855 Score: 921
Period size: 132 Copynumber: 4.7 Consensus size: 132
34872222 CAGTACAGGA
* * * * *
34872232 AGACAAGATCTACAATCTTCATCCTACTTCATTGCTACTCAGGGAGATAGGACTAGTGGCTTAAA
1 AGACAAGATCTACAATCTTCAACCTACTTCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTCAA
* * *
34872297 TCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTTGATTTTCTCCACTACTACTTAG
66 TCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACTACTTAG
34872362 GG
131 GG
* * *
34872364 AGACAAGATCTACAATCTTCAACCTAC-TCTATTGTTGCTCGGGGAGATAGGACTGGTGGCTTCA
1 AGACAAGATCTACAATCTTCAACCTACTTC-ACTGCTGCTCAGGGAGATAGGACTGGTGGCTTCA
** * * *
34872428 ATCTGCTTCCCTACTATATTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCTACTACTGCTTA
65 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACTACTTA
34872493 GGG
130 GGG
* * *
34872496 AGACAGGATCTACAATCTTCAACCTA-TTCCACTGCTGCTCAGAGAAATAGGACTGGTGGCTTCA
1 AGACAAGATCTACAATCTTCAACCTACTT-CACTGCTGCTCAGGGAGATAGGACTGGTGGCTTCA
* * *
34872560 ATCTGCTTCCCTACTACCTTGGGAAGATAATATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
65 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACTACTTA
*
34872625 GGA
130 GGG
* * * *
34872628 AGATATGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGGTGGCTTCAA
1 AGACAAGATCTACAATCTTCAACCTACTTCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTCAA
34872693 TCTGCTTCCCTACTACCTTGGGAAGATAAGATTCA-CTGTCTTCGATCTGCTCCACTACTACTTA
66 TCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATC-GTCTTCGATCTGCTCCACTACTACTTA
34872757 GGG
130 GGG
* * *
34872760 AGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTGGCTTCAA
1 AGACAAGATCTACAATCTTCAACCTACTTCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTCAA
*
34872825 TCCGCTTCCCTACTACCTTGGGAAGATAAGA
66 TCTGCTTCCCTACTACCTTGGGAAGATAAGA
34872856 CTCGCCATGA
Statistics
Matches: 445, Mismatches: 42, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
131 3 0.01
132 440 0.99
133 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AGACAAGATCTACAATCTTCAACCTACTTCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTCAA
TCTGCTTCCCTACTACCTTGGGAAGATAAGATTCATCGTCTTCGATCTGCTCCACTACTACTTAG
GG
Found at i:34872647 original size:44 final size:44
Alignment explanation
Indices: 34872467--34872811 Score: 177
Period size: 44 Copynumber: 7.8 Consensus size: 44
34872457 AGATTCACCG
* * *
34872467 TCTTCGATCTGCTCTACTACTGCTTAGGGAGACAGGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
* ** * * * * ****
34872511 TCTTCAACCTATTCCACTGCTGCTCAGAGAAATAGGA-CTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
* * ** *
34872554 GCTTCAATCTGCTTCC-CTACTACCTT-GGGAAGATAATATTCGT-C-G
1 TCTTCAATCTGC-TCCACTACT-GCTTAGGG-AGATAGGA-TC-TACAA
* * *
34872599 TCTTCGATCTGCTCCACTACTGCTTAGGAAGATATGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
* * * ****
34872643 TCTTCAACCTACTCCACTGCTGCTTAGGGAGATAGGA-CTGGTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
* * * **
34872686 GCTTCAATCTGCTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACTG
1 TCTTCAATCTGC-TCCACTACT-GCTTAGGG-AGATAGGATCT-ACAA
* * *
34872731 TCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
* * * *
34872775 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGA
34872812 CTAGTGGCTT
Statistics
Matches: 218, Mismatches: 65, Indels: 36
0.68 0.20 0.11
Matches are distributed among these distances:
42 1 0.00
43 37 0.17
44 139 0.64
45 39 0.18
46 1 0.00
47 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAA
Found at i:34873546 original size:108 final size:108
Alignment explanation
Indices: 34873357--34873578 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 108
34873347 GAAAAATGCT
* * * * **
34873357 TGAAAAATATTATCACAATGGACAATATGAAATTTTGTTGAAAGCAAATCTCAAAATGGATAAAT
1 TGAAAAAGATTATCACAATGAACAAGATGAAATTTTATTGAAAGCAAAGATCAAAATGGATAAAT
* * * *
34873422 TAATCGAGATTGCAAATTTTGCT-AGAATATGAAATGAGTAAGA
66 TAATCAAGATAGCAAATTTTGCTAAG-ATACGAAATGAATAAGA
* *
34873465 TGAAAAAGATTATCACAATGAACAAGATGGAATTTTATTGAGAGCAAAGATCAAAAT-GACTAAA
1 TGAAAAAGATTATCACAATGAACAAGATGAAATTTTATTGAAAGCAAAGATCAAAATGGA-TAAA
34873529 TTAATCAAGATAGCAAATTTTGCTAAGATACGAAATGAATAAGA
65 TTAATCAAGATAGCAAATTTTGCTAAGATACGAAATGAATAAGA
34873573 TGAAAA
1 TGAAAA
34873579 CAGGTGCCCC
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
107 2 0.02
108 96 0.96
109 2 0.02
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.27
Consensus pattern (108 bp):
TGAAAAAGATTATCACAATGAACAAGATGAAATTTTATTGAAAGCAAAGATCAAAATGGATAAAT
TAATCAAGATAGCAAATTTTGCTAAGATACGAAATGAATAAGA
Found at i:34873880 original size:7 final size:7
Alignment explanation
Indices: 34873841--34873878 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
34873831 TGGCCTCTCA
34873841 TTTTTC-
1 TTTTTCT
34873847 TTTTTCT
1 TTTTTCT
*
34873854 TTTTCCT
1 TTTTTCT
34873861 TTTTTCT
1 TTTTTCT
34873868 TTTTT-T
1 TTTTTCT
34873874 TTTTT
1 TTTTT
34873879 TTAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 12 0.41
7 17 0.59
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:34876154 original size:3 final size:3
Alignment explanation
Indices: 34876090--34876134 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
34876080 ATTATTTTGT
*
34876090 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34876135 CCGTCTTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:34876870 original size:111 final size:110
Alignment explanation
Indices: 34876660--34876952 Score: 457
Period size: 111 Copynumber: 2.7 Consensus size: 110
34876650 CTAATTGAGG
* * *
34876660 CAATATTTAGCGTTTGGAAATTCGAGGAAACATGCCCTAAGGTGCTGGGTGTCAACTTTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAACTTTTCTCGT
34876725 TCAACCAAATGGCTTAATATCCTATTCAAAAATTTTAAAATAAGA
66 TCAACCAAATGGCTTAATATCCTATTCAAAAATTTTAAAATAAGA
**
34876770 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTTCTCG
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTC-AACTTTTCTCG
* *
34876835 TTCAACCAAATGGCTTAATATCCTTTTCAAAAATTTTAAAATAAGG
65 TTCAACCAAATGGCTTAATATCCTATTCAAAAATTTTAAAATAAGA
* * *
34876881 CAATGTTTTGCGTTTGGAAATTCGA-AGAACGTGCCCTAAGGTGCTGGGTTTCAA--TTTCTCGT
1 CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAACTTTTCTCGT
*
34876943 TTAACCAAAT
66 TCAACCAAAT
34876953 TGCCAAATAT
Statistics
Matches: 170, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
107 17 0.10
109 1 0.01
110 74 0.44
111 78 0.46
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (110 bp):
CAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAACTTTTCTCGT
TCAACCAAATGGCTTAATATCCTATTCAAAAATTTTAAAATAAGA
Found at i:34877709 original size:11 final size:11
Alignment explanation
Indices: 34877693--34877728 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
34877683 TGTGTTTTGA
34877693 TTTGTTTTAAT
1 TTTGTTTTAAT
34877704 TTTGTTTTAAT
1 TTTGTTTTAAT
*
34877715 TATTATTTTAAT
1 T-TTGTTTTAAT
34877727 TT
1 TT
34877729 ATACGCTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (11 bp):
TTTGTTTTAAT
Found at i:34878340 original size:16 final size:17
Alignment explanation
Indices: 34878315--34878353 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
34878305 CTATTTTACT
34878315 TATT-TTATATATATAC
1 TATTATTATATATATAC
*
34878331 -ATTATTATATATGTAC
1 TATTATTATATATATAC
34878347 TATTATT
1 TATTATT
34878354 TACATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 11 0.55
17 6 0.30
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (17 bp):
TATTATTATATATATAC
Found at i:34883104 original size:3 final size:3
Alignment explanation
Indices: 34883096--34883144 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
34883086 TTAATAAACG
* *
34883096 AAT AAT AAT AAAT AGAT AAAT AAG AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34883144 A
1 A
34883145 GTAGTAGTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 31 0.79
4 7 0.18
5 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:34883117 original size:26 final size:25
Alignment explanation
Indices: 34883048--34883139 Score: 70
Period size: 26 Copynumber: 3.7 Consensus size: 25
34883038 ACATAGTGAT
*
34883048 AATAATAATAAATAAGAAAT--AC-
1 AATAATAATAAATAATAAATAAACG
* *
34883070 AATAAATAAT-CATACATTAATAAACG
1 AAT-AATAATAAATA-ATAAATAAACG
34883096 AATAATAATAAATAGATAAATAAGA-G
1 AATAATAATAAATA-ATAAATAA-ACG
34883122 TAATAATAAT-AATAATAA
1 -AATAATAATAAATAATAA
34883140 TAATAGTAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
22 6 0.11
23 10 0.18
25 12 0.21
26 18 0.32
27 10 0.18
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (25 bp):
AATAATAATAAATAATAAATAAACG
Found at i:34891417 original size:21 final size:22
Alignment explanation
Indices: 34891380--34891422 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
34891370 TAAATTGATT
*
34891380 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAATATAAC
34891402 CATTAAAAAT-TAAAATATAAC
1 CATTAAAAATGTAAAATATAAC
34891423 TAAAAAACAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
CATTAAAAATGTAAAATATAAC
Found at i:34894490 original size:395 final size:395
Alignment explanation
Indices: 34893760--34894552 Score: 1516
Period size: 395 Copynumber: 2.0 Consensus size: 395
34893750 TTTCATTTTG
34893760 AATTTCATTTTATTTTAAAAATGTAAGAAAAAGCCCCTTCGTTAGAAATTAGAAGTTAGAAAAGG
1 AATTTCATTTTATTTTAAAAATGTAAGAAAAAGCCCCTTCGTTAGAAATTAGAAGTTAGAAAAGG
*
34893825 CACACTAGAAAAAACGAAGGATGGCTAGAATCTATACAGTGATTTTTTTTTCGCAATTTTTGTTG
66 CACACTAGAAAAAACGAAGGATGGCTAGAATCTACACAGTGATTTTTTTTTCGCAATTTTTGTTG
*
34893890 AACCGTATGCATCAAAAGGTGCCTATACGGCTGCTAAGGGATACAATTTTATCCTAATCAACCGA
131 AACCGTATGCATCAAAAGGTGCCTATACGGCTACTAAGGGATACAATTTTATCCTAATCAACCGA
34893955 ATTTATCGAGAAAAATTACTTTTTTAGGCCAAGAGGTTGATAACGAGATCTCGAATCAACTTATT
196 ATTTATCGAGAAAAATTACTTTTTTAGGCCAAGAGGTTGATAACGAGATCTCGAATCAACTTATT
34894020 GGCCTTATGGTATATCTCAGTATAGAGAATGATACCAAAGATCTGTATTTGTTTATAAACTCTCC
261 GGCCTTATGGTATATCTCAGTATAGAGAATGATACCAAAGATCTGTATTTGTTTATAAACTCTCC
34894085 TGGCGGATGGGTAATACCTGGAGGTAGCTATTTATGATACTATGCAATTTGTGCAACCAGATGTG
326 TGGCGGATGGGTAATACCTGGAGGTAGCTATTTATGATACTATGCAATTTGTGCAACCAGATGTG
34894150 CATAC
391 CATAC
*
34894155 AATTTCATTTTATTTTAAAAATGTAAGAAAAAGCCCCTTCGTTAGAAATTAGAAGTTAGAAAATG
1 AATTTCATTTTATTTTAAAAATGTAAGAAAAAGCCCCTTCGTTAGAAATTAGAAGTTAGAAAAGG
*
34894220 CACACTAGAAAAAACGAAGGATGGCTGGAATCTACACAGTGA-TTTTTTTTCGCAATTTTTGTTG
66 CACACTAGAAAAAACGAAGGATGGCTAGAATCTACACAGTGATTTTTTTTTCGCAATTTTTGTTG
34894284 AACCGTATGCATCAAAAGGTGCCTATACGGCTACTAAGGGATACAATTTTATCCTAATCAACCGA
131 AACCGTATGCATCAAAAGGTGCCTATACGGCTACTAAGGGATACAATTTTATCCTAATCAACCGA
* *
34894349 CTTTATCGAGAAAAATTACTTTTTTTAGGCCAAGAGGTTGATAGCGAGATCTCGAATCAACTTAT
196 ATTTATCGAGAAAAATTAC-TTTTTTAGGCCAAGAGGTTGATAACGAGATCTCGAATCAACTTAT
34894414 TGGCCTTATGGTATATCTCAGTATAGAGAATGATACCAAAGATCTGTATTTGTTTATAAACTCTC
260 TGGCCTTATGGTATATCTCAGTATAGAGAATGATACCAAAGATCTGTATTTGTTTATAAACTCTC
34894479 CTGGCGGATGGGTAATACCTGGAGGTAGCTATTTATGATACTATGCAATTTGTGCAACCAGATGT
325 CTGGCGGATGGGTAATACCTGGAGGTAGCTATTTATGATACTATGCAATTTGTGCAACCAGATGT
34894544 GCATAC
390 GCATAC
34894550 AAT
1 AAT
34894553 ATGCATGGGA
Statistics
Matches: 391, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
394 104 0.27
395 287 0.73
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (395 bp):
AATTTCATTTTATTTTAAAAATGTAAGAAAAAGCCCCTTCGTTAGAAATTAGAAGTTAGAAAAGG
CACACTAGAAAAAACGAAGGATGGCTAGAATCTACACAGTGATTTTTTTTTCGCAATTTTTGTTG
AACCGTATGCATCAAAAGGTGCCTATACGGCTACTAAGGGATACAATTTTATCCTAATCAACCGA
ATTTATCGAGAAAAATTACTTTTTTAGGCCAAGAGGTTGATAACGAGATCTCGAATCAACTTATT
GGCCTTATGGTATATCTCAGTATAGAGAATGATACCAAAGATCTGTATTTGTTTATAAACTCTCC
TGGCGGATGGGTAATACCTGGAGGTAGCTATTTATGATACTATGCAATTTGTGCAACCAGATGTG
CATAC
Found at i:34897955 original size:3 final size:3
Alignment explanation
Indices: 34897947--34897975 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34897937 AAAGGATAGA
34897947 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34897976 AAGGGATAAA
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:34899018 original size:18 final size:18
Alignment explanation
Indices: 34898997--34899034 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
34898987 AACCTATTAT
34898997 GTATGCAAAACCCCATAA
1 GTATGCAAAACCCCATAA
*
34899015 GTATGCCAAACCCCATAA
1 GTATGCAAAACCCCATAA
34899033 GT
1 GT
34899035 TTGGGTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.18
Consensus pattern (18 bp):
GTATGCAAAACCCCATAA
Found at i:34901794 original size:15 final size:15
Alignment explanation
Indices: 34901768--34901807 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
34901758 TATCTCTTTT
**
34901768 ATTTTCTTTTCTCTCA
1 ATTTT-TTTTCTCAAA
34901784 ATTTTTTTTCTCAAA
1 ATTTTTTTTCTCAAA
34901799 ATTTTTTTT
1 ATTTTTTTT
34901808 TTATTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTTTCTCAAA
Found at i:34912075 original size:19 final size:20
Alignment explanation
Indices: 34912053--34912090 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34912043 CTATTTTATA
34912053 ATTTTTAA-TTTTTAAAAAC
1 ATTTTTAATTTTTTAAAAAC
34912072 ATTTTTAATTTTTTAAAAA
1 ATTTTTAATTTTTTAAAAA
34912091 TAATTATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTAATTTTTTAAAAAC
Found at i:34912674 original size:18 final size:19
Alignment explanation
Indices: 34912653--34912688 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34912643 TTAAATAGTA
34912653 TTAAAA-ATAATTTTATAT
1 TTAAAAGATAATTTTATAT
*
34912671 TTAAAAGATATTTTTATA
1 TTAAAAGATAATTTTATA
34912689 AGAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAAAAGATAATTTTATAT
Found at i:34914220 original size:27 final size:28
Alignment explanation
Indices: 34914185--34914246 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
34914175 AAAATCAAAC
*
34914185 TTAACAACCTAGG-TTTTGAAATCTGTTT
1 TTAA-AACCTAGGTTTTTGAAACCTGTTT
*
34914213 TTAAAACCTTGGTTTTTGAAACCTGTTT
1 TTAAAACCTAGGTTTTTGAAACCTGTTT
34914241 TTAAAA
1 TTAAAA
34914247 ATCAACCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (28 bp):
TTAAAACCTAGGTTTTTGAAACCTGTTT
Found at i:34914229 original size:15 final size:13
Alignment explanation
Indices: 34914207--34914246 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
34914197 GTTTTGAAAT
34914207 CTGTTTTTAAAAC
1 CTGTTTTTAAAAC
*
34914220 CTTGGTTTTTGAAAC
1 C-T-GTTTTTAAAAC
34914235 CTGTTTTTAAAA
1 CTGTTTTTAAAA
34914247 ATCAACCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 10 0.43
14 2 0.09
15 11 0.48
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (13 bp):
CTGTTTTTAAAAC
Found at i:34915220 original size:21 final size:21
Alignment explanation
Indices: 34915194--34915240 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
34915184 AATTTAATTC
34915194 TTTTCTTTTATGTTCTTTTAA
1 TTTTCTTTTATGTTCTTTTAA
* * *
34915215 TTTTCTTTTTTTTTCTTTTAT
1 TTTTCTTTTATGTTCTTTTAA
34915236 TTTTC
1 TTTTC
34915241 ATTCTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTATGTTCTTTTAA
Found at i:34915222 original size:11 final size:10
Alignment explanation
Indices: 34915194--34915238 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
34915184 AATTTAATTC
34915194 TTTTCTTTTA
1 TTTTCTTTTA
*
34915204 TGTTCTTTTAA
1 TTTTCTTTT-A
*
34915215 TTTTCTTTTT
1 TTTTCTTTTA
34915225 TTTTCTTTTA
1 TTTTCTTTTA
34915235 TTTT
1 TTTT
34915239 TCATTCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:34915248 original size:21 final size:21
Alignment explanation
Indices: 34915206--34915248 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34915196 TTCTTTTATG
* *
34915206 TTCTTTTAATTTTCTTTTTTT
1 TTCTTTTAATTTTCATTCTTT
*
34915227 TTCTTTTATTTTTCATTCTTT
1 TTCTTTTAATTTTCATTCTTT
34915248 T
1 T
34915249 CTACTTCTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (21 bp):
TTCTTTTAATTTTCATTCTTT
Found at i:34916068 original size:21 final size:21
Alignment explanation
Indices: 34916044--34916087 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
34916034 ATTCAACGAA
34916044 AACCCAGAAAAAAGATTTTTT
1 AACCCAGAAAAAAGATTTTTT
*
34916065 AACCCAGAATAAAGATTTTTT
1 AACCCAGAAAAAAGATTTTTT
34916086 AA
1 AA
34916088 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (21 bp):
AACCCAGAAAAAAGATTTTTT
Found at i:34916293 original size:18 final size:20
Alignment explanation
Indices: 34916270--34916315 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34916260 GAAAATAAGG
34916270 AAAAAAATT-AT-AAAACAA
1 AAAAAAATTGATCAAAACAA
* *
34916288 AAAAAAATTGCTCAAAACGA
1 AAAAAAATTGATCAAAACAA
34916308 AAAAAAAT
1 AAAAAAAT
34916316 ATAGGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 1 0.04
20 14 0.58
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAAAAATTGATCAAAACAA
Found at i:34919478 original size:19 final size:20
Alignment explanation
Indices: 34919454--34919495 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
34919444 ATTCTAAAAG
* *
34919454 CTTTTTTTTCTT-TTTTTTT
1 CTTTTTGTTCTTATATTTTT
34919473 CTTTTTGTTCTTATATTTTT
1 CTTTTTGTTCTTATATTTTT
34919493 CTT
1 CTT
34919496 GATCTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (20 bp):
CTTTTTGTTCTTATATTTTT
Found at i:34920531 original size:23 final size:18
Alignment explanation
Indices: 34920483--34920520 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
34920473 TTAATATTGC
34920483 ATTTATTTATTTGTTGTG
1 ATTTATTTATTTGTTGTG
34920501 ATTTATTTATTTGTTGTG
1 ATTTATTTATTTGTTGTG
34920519 AT
1 AT
34920521 ATGATGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.16, T:0.66
Consensus pattern (18 bp):
ATTTATTTATTTGTTGTG
Found at i:34923299 original size:30 final size:30
Alignment explanation
Indices: 34923263--34923436 Score: 287
Period size: 30 Copynumber: 5.8 Consensus size: 30
34923253 ACTTTTCTCA
*
34923263 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
34923293 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
34923323 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
34923352 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
34923382 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
34923412 ATTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
34923437 CTTGTACCTA
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
29 28 0.21
30 106 0.79
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:34923343 original size:59 final size:59
Alignment explanation
Indices: 34923263--34923436 Score: 312
Period size: 59 Copynumber: 2.9 Consensus size: 59
34923253 ACTTTTCTCA
34923263 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
34923323 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* *
34923382 ACTAGCCACTCTTTTTCCACCACCAACTCCATTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTC-TTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
34923437 CTTGTACCTA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
59 60 0.54
60 51 0.46
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (59 bp):
ACTAGCCACTCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:34923418 original size:89 final size:90
Alignment explanation
Indices: 34923263--34923436 Score: 287
Period size: 89 Copynumber: 1.9 Consensus size: 90
34923253 ACTTTTCTCA
*
34923263 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
* *
34923328 CCAC-TCTTTTCCACCACCAACTCC
66 CCACACCTTCTCCACCACCAACTCC
* * *
34923352 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCATTAG
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
34923417 CCACACCTTCTCCACCACCA
66 CCACACCTTCTCCACCACCA
34923437 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 65 0.83
90 13 0.17
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (90 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
CCACACCTTCTCCACCACCAACTCC
Found at i:34923652 original size:16 final size:17
Alignment explanation
Indices: 34923613--34923646 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34923603 AAGAGTTATT
34923613 GTGAAGGCTAGTTTTTTG
1 GTGAA-GCTAGTTTTTTG
*
34923631 GAGAAGCTAGTTTTTT
1 GTGAAGCTAGTTTTTT
34923647 TTGAAGATTA
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:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (17 bp):
GTGAAGCTAGTTTTTTG
Found at i:34924054 original size:25 final size:25
Alignment explanation
Indices: 34923930--34924143 Score: 135
Period size: 25 Copynumber: 8.7 Consensus size: 25
34923920 TTGTTATTAT
34923930 TATATTTCTTAATATTATATTA--TA
1 TATATTT-TTAATATTATATTATGTA
* *
34923954 TATATTCTTT--TAATATATTA-G-G
1 TATATT-TTTAATATTATATTATGTA
* *
34923976 TATATTTTAAAT-TCTATATTACGTA
1 TATATTTTTAATAT-TATATTATGTA
* *
34924001 TATATATATTT-ATACTATTTTATGTA
1 TATAT-T-TTTAATATTATATTATGTA
* *
34924027 TATATCTTTAATATTATATTATTTA
1 TATATTTTTAATATTATATTATGTA
* *
34924052 TATATATTTGTACATGTTATCTTATGTA
1 TATAT-TTT-TA-ATATTATATTATGTA
* *
34924080 TATA-TCTT-A-ACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
* * *
34924102 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTAATATTATATTATGTA
*
34924127 CATATTTTTAATATTAT
1 TATATTTTTAATATTAT
34924144 CACGTATTTT
Statistics
Matches: 146, Mismatches: 27, Indels: 33
0.71 0.13 0.16
Matches are distributed among these distances:
21 2 0.01
22 28 0.19
23 12 0.08
24 13 0.09
25 50 0.34
26 21 0.14
27 4 0.03
28 16 0.11
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATATTATATTATGTA
Found at i:34924142 original size:20 final size:20
Alignment explanation
Indices: 34924117--34924172 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
34924107 TTTTAACACT
34924117 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
34924137 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
34924156 TTATATATGTACATATT
1 ATAT-TATGTACATATT
34924173 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:34924311 original size:16 final size:14
Alignment explanation
Indices: 34924292--34924325 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
34924282 TATTATTCTA
34924292 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
34924307 GATATTTTATATTTT
1 -ATATTTTATATTTT
34924322 ATAT
1 ATAT
34924326 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:34924320 original size:7 final size:8
Alignment explanation
Indices: 34924292--34924325 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
34924282 TATTATTCTA
34924292 ATATTTTG
1 ATATTTTG
34924300 ATATTTTG
1 ATATTTTG
34924308 ATATTTT-
1 ATATTTTG
34924315 ATATTTT-
1 ATATTTTG
34924322 ATAT
1 ATAT
34924326 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:34924327 original size:16 final size:15
Alignment explanation
Indices: 34924292--34924332 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
34924282 TATTATTCTA
34924292 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
34924308 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
34924324 ATATTTTAT
1 ATATTTTAT
34924333 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:34925917 original size:12 final size:12
Alignment explanation
Indices: 34925900--34925935 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34925890 AACATTTTGA
34925900 CATTCATGCATT
1 CATTCATGCATT
34925912 CATTCATGCATT
1 CATTCATGCATT
*
34925924 CATTCATACATT
1 CATTCATGCATT
34925936 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:34934522 original size:73 final size:70
Alignment explanation
Indices: 34934354--34934545 Score: 222
Period size: 73 Copynumber: 2.6 Consensus size: 70
34934344 TAAGCCTTTT
* * *
34934354 AATTTTTGTTTTTCAAAATCAACTCATATTGCCTAGAGGGTGAGTTGAGCCTCGGGCACGCTGAA
1 AATTTTTG-TTTTCAAAATCAACTCATATTG-CGAGA-GGTGAGTTGAGCCTCGGACACGATGAA
* *
34934419 GTATTTTC
63 GTAATCTC
* ** *
34934427 AATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
1 AATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGATGAAG
34934492 TAATCTC
64 TAATCTC
* *
34934499 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
34934546 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
71 17 0.17
72 31 0.31
73 53 0.52
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (70 bp):
AATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAAGTA
ATCTC
Found at i:34934745 original size:84 final size:87
Alignment explanation
Indices: 34934570--34934898 Score: 346
Period size: 84 Copynumber: 3.7 Consensus size: 87
34934560 ACTTTTTCAA
* * * *
34934570 AATC-ACTCATATTGCGAGAGTGAGTGAGTCGAGCCTCAGTTCACGCCAATGTA-TTTCAATTTC
1 AATCAACTCATATTGCGAGA--G-GTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
*
34934633 TGTCTTCATTATTATGTTTTTGAAAG
63 T-TTTTCATTATTATGTTTTTGAAAG
*
34934659 AATCAGCTCATATTGCGAGAGGTGAG-TGAGCCTCAGGTCACGCCGA-GTATTTTCAATTT-TTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTTT
34934721 TTCATTATTATGTTTTTGAAAG
66 TTCATTATTATGTTTTTGAAAG
* * *
34934743 AATCAACTCGTATTGCGAGAGGCGAGTTGAACCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTC-
* * ** *
34934808 GTTTTTCAAT-TTCTGTCTTTCCAAAAAAAA
63 -TTTTTCATTATTATGT-TTT----TGAAAG
* * *
34934838 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTT
34934899 TGTTTGTCAA
Statistics
Matches: 206, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
84 46 0.22
85 15 0.07
86 26 0.13
87 13 0.06
88 14 0.07
89 4 0.02
90 19 0.09
91 11 0.05
93 20 0.10
95 38 0.18
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (87 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTTT
TTCATTATTATGTTTTTGAAAG
Found at i:34934815 original size:14 final size:14
Alignment explanation
Indices: 34934796--34934828 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
34934786 CGCCGAGGTA
34934796 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
34934810 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
*
34934824 CTTTC
1 TTTTC
34934829 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:34935041 original size:77 final size:76
Alignment explanation
Indices: 34934833--34935132 Score: 348
Period size: 77 Copynumber: 4.0 Consensus size: 76
34934823 TCTTTCCAAA
* *
34934833 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAAT
* *
34934897 T-T-TGTTTGT
66 TCTATTTTTAT
* *
34934906 --CAAAATCAACTCATATTGCGAGAGGTGA-TTGAGCCTCAGGG-CACGCTGAGATATTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCTGAGGTA-TTTTCAA
34934967 ATTCTATTTTTAT
64 ATTCTATTTTTAT
* *
34934980 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAT
1 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAA
* **
34935045 TTTTGCTTTT-T
65 TTCTATTTTTAT
* * **
34935056 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACG-TCGAGGTCCTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
34935120 AATTCTATTTTTA
63 AATTCTATTTTTA
34935133 ATTTCTTTTT
Statistics
Matches: 191, Mismatches: 22, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
70 20 0.10
71 33 0.17
72 4 0.02
73 1 0.01
74 5 0.03
75 40 0.21
76 2 0.01
77 66 0.35
78 20 0.10
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAAT
TCTATTTTTAT
Found at i:34935091 original size:75 final size:73
Alignment explanation
Indices: 34934833--34935098 Score: 344
Period size: 75 Copynumber: 3.6 Consensus size: 73
34934823 TCTTTCCAAA
* *
34934833 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
*
34934898 TTGTTTGT
66 TTGTTTTT
* *
34934906 --CAAAATCAACTCATATTGCGAGAGGTGA-TTGAGCCTCAGGG-CACGCTGAGATATTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGACACGCTGAGGTA-TTTTC-A
34934967 ATTCTAT-TTTTAT
63 ATT-T-TGTTTT-T
*
34934980 AAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAAT
1 -AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA-
34935045 TTTTGCTTTTT
64 TTTTG-TTTTT
* *
34935056 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGG
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
34935099 CCACACGTCG
Statistics
Matches: 168, Mismatches: 11, Indels: 26
0.82 0.05 0.13
Matches are distributed among these distances:
70 20 0.12
71 33 0.20
72 4 0.02
73 4 0.02
74 2 0.01
75 41 0.24
76 4 0.02
77 40 0.24
78 20 0.12
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
TTGTTTTT
Found at i:34935324 original size:69 final size:69
Alignment explanation
Indices: 34935250--34935381 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 69
34935240 GTTTTAATTC
*
34935250 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC-CTCAAGTCACATTGAGTA-TTTCAATTT
1 AAAAAATCAACTCATA-TGCGAGAGGTGA-TTGAACGCTCAAGAC-CATTGAGTATTTTCAATTT
34935313 ATCATCA
63 ATCATCA
*
34935320 AAAAAATCAACTCATATGCGAGAGGTGATTGAACGCTCAAGACCATTGGGTATTTTCAATTT
1 AAAAAATCAACTCATATGCGAGAGGTGATTGAACGCTCAAGACCATTGAGTATTTTCAATTT
34935382 CTGCTCAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
68 14 0.24
69 28 0.48
70 16 0.28
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (69 bp):
AAAAAATCAACTCATATGCGAGAGGTGATTGAACGCTCAAGACCATTGAGTATTTTCAATTTATC
ATCA
Found at i:34935602 original size:70 final size:71
Alignment explanation
Indices: 34935397--34935612 Score: 204
Period size: 70 Copynumber: 3.1 Consensus size: 71
34935387 CAATTTATGT
* * *
34935397 TTTTC-AAAAATCAACTCATATTGCGAGA-GTGAGTTGAGC-C-TC-ACATGCTGAGGTGTTTCA
1 TTTTCAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCTCGGCTACATGCTGAGGTCTTTCA
*
34935457 ATTTCTAT
66 A-TTCT-G
* * *
34935465 TTTTCAAAAAAGCAACTCATATTGCGA-AGAGTGAGTTGAGCTTGGCTTACA--C-GAGGTATTT
1 TTTTCAAAAAAACAACTCATATTGCGAGAG-GTGAGTTGAGCTCGGC-TACATGCTGAGGT-CTT
34935526 TCAATTCTG
63 TCAATTCTG
*
34935535 TTTGTCAAAAAAAC-ACTCATATTGTGAGAGGTGAGTTGAGTCTCGGCTACATGCTGA-GTCTTT
1 TTT-TCAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAG-CTCGGCTACATGCTGAGGTCTTT
34935598 -AATTCTG
64 CAATTCTG
34935605 CTTTTCAA
1 -TTTTCAA
34935613 TTTCTGTTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 28
0.77 0.06 0.17
Matches are distributed among these distances:
68 6 0.05
69 20 0.16
70 51 0.41
71 31 0.25
72 11 0.09
73 2 0.02
74 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (71 bp):
TTTTCAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCTCGGCTACATGCTGAGGTCTTTCA
ATTCTG
Found at i:34935783 original size:14 final size:14
Alignment explanation
Indices: 34935764--34935791 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34935754 CTGAGGTCTT
34935764 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
34935778 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
34935792 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:34936132 original size:102 final size:102
Alignment explanation
Indices: 34935942--34936184 Score: 323
Period size: 102 Copynumber: 2.4 Consensus size: 102
34935932 TTTCTGTTTG
* * * * *
34935942 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCCGAGGTATTTTCAA
* ** *
34936007 TTTCTGCTTTTCAATTTCTGTTTTTTCATTTATTA-TTT
66 ATTCTGCTTTTCAAACTCTG-TTTTTAATTT-TTACTTT
*
34936045 TCAAATATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTCGAG-TCACATGCCGAGGTATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCACATGCCGAGGTATTTTCA
34936108 AATTCTG-TCTTTCAAACTCTGTTTTTAATTTTTACTTT
65 AATTCTGCT-TTTCAAACTCTGTTTTTAATTTTTACTTT
*
34936146 TCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
34936185 TTTAATTTCT
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
100 3 0.02
101 25 0.20
102 84 0.68
103 12 0.10
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (102 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCCGAGGTATTTTCAA
ATTCTGCTTTTCAAACTCTGTTTTTAATTTTTACTTT
Found at i:34936339 original size:77 final size:74
Alignment explanation
Indices: 34936178--34936427 Score: 279
Period size: 75 Copynumber: 3.3 Consensus size: 74
34936168 AGAGGTGAGT
* * * * **
34936178 TGAGCCTTTT-AATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTG
1 TGAGGCTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* **
34936242 CTCACGTGC
66 GTCACACGC
*
34936251 TGA-GCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TGAGGC--TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
34936315 TCGGGTCACACGC
62 TCAGGTCACACGC
*
34936328 TGAGGCGTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCA
1 TGAGGC-TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
34936393 GGCCACACAC
65 GGTCACACGC
* * *
34936403 TAAGGTCTTTTCAAATTCTGTTTTT
1 TGAGG-CTTTTCAATTTCTGCTTTT
34936428 AATTTCTGCT
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
72 1 0.01
73 3 0.02
74 4 0.03
75 73 0.48
76 7 0.05
77 61 0.40
78 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (74 bp):
TGAGGCTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GTCACACGC
Found at i:34936440 original size:14 final size:13
Alignment explanation
Indices: 34936418--34936454 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
34936408 TCTTTTCAAA
34936418 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
*
34936431 TTCTGCTTTTCAAT
1 TTCTG-TTTTTAAT
34936445 TTCTGTTTTT
1 TTCTGTTTTT
34936455 TCAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:34937255 original size:30 final size:30
Alignment explanation
Indices: 34937219--34937363 Score: 254
Period size: 30 Copynumber: 4.8 Consensus size: 30
34937209 ACTTTTCTCA
*
34937219 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
34937249 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
34937279 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
34937309 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
34937339 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
34937364 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 109 1.00
ACGTcount: A:0.26, C:0.50, G:0.03, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:34937267 original size:18 final size:18
Alignment explanation
Indices: 34937246--34937298 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
34937236 CACCACCAAC
34937246 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
34937264 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
34937276 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
34937294 TCCAC
1 TCCAC
34937299 CACCAACTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
13 3 0.11
14 1 0.04
15 2 0.07
16 1 0.04
17 3 0.11
18 11 0.41
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:34937955 original size:49 final size:49
Alignment explanation
Indices: 34937876--34938060 Score: 125
Period size: 50 Copynumber: 3.7 Consensus size: 49
34937866 AATATTATAT
* * *
34937876 TATATATATTCTTTTAATATATTA-G-GTATATTTTAAATTCTATATTACG
1 TATATATATT-TTATACTATATTATGTATATATTTTAAATTCTATATTA-G
*
34937925 TATATATATTTTATACTAT-TTATGTATATATCTTTAATATTATATTATTA-
1 TATATATATTTTATACTATATTATGTATATAT-TTTAA-ATTCTA-TATTAG
* * *
34937975 TATATATATTTTTTACATGTTATCTTATGTATATATCTT-AA--CTATATTATG
1 TATATATATTTTATAC----TATATTATGTATATATTTTAAATTCTATATTA-G
* * *
34938026 TATGTAT-TTTTAACACTATATTATGTACATATTTT
1 TATATATATTTT-ATACTATATTATGTATATATTTT
34938061 TAATATTATC
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
47 19 0.17
48 8 0.07
49 20 0.18
50 26 0.24
51 13 0.12
52 6 0.05
53 1 0.01
54 5 0.05
55 12 0.11
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (49 bp):
TATATATATTTTATACTATATTATGTATATATTTTAAATTCTATATTAG
Found at i:34937976 original size:24 final size:24
Alignment explanation
Indices: 34937850--34937979 Score: 87
Period size: 24 Copynumber: 5.5 Consensus size: 24
34937840 CTTTTTTTGT
*
34937850 TATTATTATATTTC-TTAATATTA
1 TATTATTATATATCTTTAATATTA
*
34937873 TATTA-TATATATTCTTT--TAATA
1 TATTATTATATA-TCTTTAATATTA
**
34937895 TATTA-GGTATAT-TTTAA-ATTCTA
1 TATTATTATATATCTTTAATA-T-TA
* * * *
34937918 TATTACGTATATATATTTTATACTA
1 TATTA-TTATATATCTTTAATATTA
34937943 T-TTATGTATATATCTTTAATATTA
1 TATTAT-TATATATCTTTAATATTA
34937967 TATTATTATATAT
1 TATTATTATATAT
34937980 ATATTTTTTA
Statistics
Matches: 82, Mismatches: 13, Indels: 23
0.69 0.11 0.19
Matches are distributed among these distances:
20 3 0.04
21 2 0.02
22 18 0.22
23 14 0.17
24 28 0.34
25 12 0.15
26 4 0.05
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
TATTATTATATATCTTTAATATTA
Found at i:34937989 original size:29 final size:31
Alignment explanation
Indices: 34937935--34938010 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 31
34937925 TATATATATT
* *
34937935 TTATACTATT-TATGTATATATCTTTA-ATA
1 TTATATTATTATATATATATATCTTTACATA
* *
34937964 TTATATTATTATATATATAT-TTTTTACATG
1 TTATATTATTATATATATATATCTTTACATA
*
34937994 TTATCTTATGTATATAT
1 TTATATTAT-TATATAT
34938011 CTTAACTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 14 0.36
30 18 0.46
31 7 0.18
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (31 bp):
TTATATTATTATATATATATATCTTTACATA
Found at i:34938025 original size:22 final size:24
Alignment explanation
Indices: 34937999--34938057 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
34937989 ACATGTTATC
34937999 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
34938021 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
34938046 TTATGTACATAT
1 TTATGTATATAT
34938058 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:34938047 original size:25 final size:25
Alignment explanation
Indices: 34938015--34938063 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34938005 ATATATCTTA
**
34938015 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
34938040 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
34938064 TATTATCACG
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:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:34938068 original size:20 final size:19
Alignment explanation
Indices: 34938042--34938097 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
34938032 TTTTTAACAC
34938042 TATATTATGTACATATTTT
1 TATATTATGTACATATTTT
* *
34938061 TAATATTAT-CACGTATTTT
1 T-ATATTATGTACATATTTT
*
34938080 TTTATATATGTACATATT
1 TATAT-TATGTACATATT
34938098 GATGTAGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 13 0.45
20 13 0.45
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (19 bp):
TATATTATGTACATATTTT
Found at i:34938234 original size:16 final size:15
Alignment explanation
Indices: 34938210--34938257 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
34938200 TAATTATTAT
*
34938210 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
34938226 TATTTTAATATTTTA
1 TATTTTAATATTTTA
34938241 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
34938257 T
1 T
34938258 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Done.