Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 113 of 292
Found at i:34415014 original size:29 final size:29
Alignment explanation
Indices: 34414982--34415113 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
34414972 ATAGTGAATC
34414982 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34415011 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
34415041 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
34415070 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34415099 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34415114 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:34415123 original size:59 final size:59
Alignment explanation
Indices: 34414982--34415113 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
34414972 ATAGTGAATC
34414982 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
34415041 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
34415099 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34415114 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:34416438 original size:19 final size:18
Alignment explanation
Indices: 34416414--34416449 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34416404 CCCCCTTTTT
*
34416414 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
34416433 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
34416450 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:34418504 original size:27 final size:27
Alignment explanation
Indices: 34418474--34418627 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
34418464 ATAGTGAATC
34418474 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
34418501 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
34418529 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
34418556 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
34418585 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
34418614 TGCACACTTAGTGC
1 CGCACACTTAGTGC
34418628 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:34418521 original size:29 final size:28
Alignment explanation
Indices: 34418474--34418627 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
34418464 ATAGTGAATC
34418474 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
34418501 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
34418529 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
34418556 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
34418585 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
34418614 TGCACACTTAGTGC
1 CGCACACTTAGTGC
34418628 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:34418545 original size:55 final size:55
Alignment explanation
Indices: 34418474--34418577 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
34418464 ATAGTGAATC
34418474 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
34418529 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
34418578 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:34419273 original size:2 final size:2
Alignment explanation
Indices: 34419261--34419294 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
34419251 TGATGGTCGA
*
34419261 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34419295 CAACTATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34422185 original size:31 final size:31
Alignment explanation
Indices: 34422143--34422202 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
34422133 AGCAGCAATG
34422143 TGAAAAAAATTGCTAAATCTAAGACCTAATA
1 TGAAAAAAATTGCTAAATCTAAGACCTAATA
* * *
34422174 TGAAAATAATTGCTAAATTTAATACCTAA
1 TGAAAAAAATTGCTAAATCTAAGACCTAA
34422203 CTTAGACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (31 bp):
TGAAAAAAATTGCTAAATCTAAGACCTAATA
Found at i:34426404 original size:102 final size:102
Alignment explanation
Indices: 34426228--34426432 Score: 410
Period size: 102 Copynumber: 2.0 Consensus size: 102
34426218 CTAAGCAGGT
34426228 AGTTCTTTCAATCAAGCTATTGAGATTGCAAAAAGTCACTGTTTCCCCTATCAAACAACGCTGAA
1 AGTTCTTTCAATCAAGCTATTGAGATTGCAAAAAGTCACTGTTTCCCCTATCAAACAACGCTGAA
34426293 GCTTCCATAATTGTTCGTTTTCAATGTGACCAACAAC
66 GCTTCCATAATTGTTCGTTTTCAATGTGACCAACAAC
34426330 AGTTCTTTCAATCAAGCTATTGAGATTGCAAAAAGTCACTGTTTCCCCTATCAAACAACGCTGAA
1 AGTTCTTTCAATCAAGCTATTGAGATTGCAAAAAGTCACTGTTTCCCCTATCAAACAACGCTGAA
34426395 GCTTCCATAATTGTTCGTTTTCAATGTGACCAACAAC
66 GCTTCCATAATTGTTCGTTTTCAATGTGACCAACAAC
34426432 A
1 A
34426433 ACTTTTGAGT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (102 bp):
AGTTCTTTCAATCAAGCTATTGAGATTGCAAAAAGTCACTGTTTCCCCTATCAAACAACGCTGAA
GCTTCCATAATTGTTCGTTTTCAATGTGACCAACAAC
Found at i:34433453 original size:16 final size:15
Alignment explanation
Indices: 34433432--34433481 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
34433422 CTTGAAGTAC
*
34433432 ATGAAAATGATGATAT
1 ATGAAAAT-ATGAAAT
34433448 ATG-AAATATGAAAT
1 ATGAAAATATGAAAT
*
34433462 ATGAAAGTATGAAATT
1 ATGAAAATATGAAA-T
34433478 ATGA
1 ATGA
34433482 TATACGGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 9 0.30
15 13 0.43
16 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (15 bp):
ATGAAAATATGAAAT
Found at i:34433474 original size:8 final size:7
Alignment explanation
Indices: 34433436--34433481 Score: 56
Period size: 7 Copynumber: 6.1 Consensus size: 7
34433426 AAGTACATGA
34433436 AAATGATG
1 AAAT-ATG
*
34433444 ATATATG
1 AAATATG
34433451 AAATATG
1 AAATATG
34433458 AAATATG
1 AAATATG
34433465 AAAGTATG
1 AAA-TATG
34433473 AAATTATG
1 AAA-TATG
34433481 A
1 A
34433482 TATACGGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 19 0.56
8 15 0.44
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (7 bp):
AAATATG
Found at i:34443523 original size:25 final size:25
Alignment explanation
Indices: 34443495--34443542 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34443485 TTATACCATG
* * *
34443495 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34443520 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34443543 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34443611 original size:20 final size:20
Alignment explanation
Indices: 34443586--34443644 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
34443576 TAAATATGGT
34443586 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
34443606 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
34443626 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34443645 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34443626 original size:11 final size:11
Alignment explanation
Indices: 34443590--34443644 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34443580 TATGGTATGT
34443590 ATGATATGCAC
1 ATGATATGCAC
* *
34443601 ATGAAATG--T
1 ATGATATGCAC
34443610 ATGATATGCAC
1 ATGATATGCAC
*
34443621 ATGATATG--T
1 ATGATATGCAC
34443630 ATGATATGCAC
1 ATGATATGCAC
34443641 ATGA
1 ATGA
34443645 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34443722 original size:24 final size:24
Alignment explanation
Indices: 34443695--34443813 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
34443685 GAGGAAGTGA
*
34443695 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
34443719 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
*
34443742 ACAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
34443766 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34443790 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34443814 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
23 21 0.25
24 52 0.62
25 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34443771 original size:47 final size:47
Alignment explanation
Indices: 34443697--34443788 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
34443687 GGAAGTGAAA
34443697 AAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAC
1 AAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAC
** *
34443744 AAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTAT
1 AAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
34443789 TAAAAGAGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (47 bp):
AAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAC
Found at i:34444048 original size:31 final size:31
Alignment explanation
Indices: 34444010--34444098 Score: 151
Period size: 31 Copynumber: 2.9 Consensus size: 31
34444000 CAGTAAAGGC
34444010 TTCGGCCCAGTAATATGAAATATGAAAAGAA
1 TTCGGCCCAGTAATATGAAATATGAAAAGAA
**
34444041 TTCGGCCCAGTAATATGAAATATGAAAAGGC
1 TTCGGCCCAGTAATATGAAATATGAAAAGAA
*
34444072 TTCGGCCCAGTATTATGAAATATGAAA
1 TTCGGCCCAGTAATATGAAATATGAAA
34444099 TATGAAAAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (31 bp):
TTCGGCCCAGTAATATGAAATATGAAAAGAA
Found at i:34456831 original size:28 final size:26
Alignment explanation
Indices: 34456770--34456841 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
34456760 GTTAAATATG
*
34456770 TTTTATTTATGTCTTAGTTAATACATA
1 TTTTAATT-TGTCTTAGTTAATACATA
* *
34456797 TCATTAATTTGTCTTAGTTTATTACATCA
1 T-TTTAATTTGTCTTAG-TTAATACAT-A
* *
34456826 TTTTAATGTGTTTTAG
1 TTTTAATTTGTCTTAG
34456842 CTCCAGTCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
27 9 0.25
28 25 0.69
29 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (26 bp):
TTTTAATTTGTCTTAGTTAATACATA
Found at i:34459744 original size:93 final size:93
Alignment explanation
Indices: 34459635--34459805 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
34459625 GCCCCTAAGT
* *
34459635 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
34459700 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
34459728 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAT
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
34459793 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34459806 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34459802 original size:46 final size:46
Alignment explanation
Indices: 34459630--34459802 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
34459620 AACCCGCCCC
* * * * *
34459630 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
34459676 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
34459724 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
34459769 TAAGTGAACTCGGACTCAACTCATCGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34459803 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:34459821 original size:46 final size:45
Alignment explanation
Indices: 34459680--34459821 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
34459670 CATCCATAAA
34459680 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
34459727 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
*
34459773 TGAACTCGGACTCAACTCATCGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
34459819 TGA
1 TGA
34459822 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:34460261 original size:30 final size:30
Alignment explanation
Indices: 34460227--34460286 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
34460217 ATTTAATACG
34460227 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
34460257 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
34460287 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:34471898 original size:29 final size:29
Alignment explanation
Indices: 34471837--34471900 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
34471827 TAATATGATT
* ** * *
34471837 TGGGCCTAATGGGCCATATGAAGGTGAAT
1 TGGGCCTAATGGGCCATAAGAAAATAAAC
*
34471866 TGGGCCTAGTGGGCCATAAGAAAATAAAC
1 TGGGCCTAATGGGCCATAAGAAAATAAAC
34471895 TGGGCC
1 TGGGCC
34471901 AGATGGGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATAAGAAAATAAAC
Found at i:34473003 original size:17 final size:18
Alignment explanation
Indices: 34472970--34473004 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34472960 GTTTAAGAAG
34472970 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
34472988 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
34473005 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:34474052 original size:842 final size:844
Alignment explanation
Indices: 34472197--34475567 Score: 5850
Period size: 843 Copynumber: 4.0 Consensus size: 844
34472187 AGTGAAAATC
* * *** * *
34472197 GTAATTAAGGGAAAATTACCGAAATACACCTAAGGGCGAAAATGACCAAAATACCCCTAGATGTT
1 GTAATTAAGGGAAAATTACCGAAATGCCCCTAAGGATAAAAATGACCAAAAAACCCCTAGGTGTT
* * *
34472262 GAATGTAAGTTTTGTGGATGTGACACGCATACATATGATGTTCTGCTT-GGTTGCATATGGGGTG
66 GAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGGGTG
34472326 GGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCACCGA
131 GGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCACCGA
** * * * *
34472391 CAACTTTTGAAGCCCAATATGTAAATGATGGTAGTTCCGCAATCGGGCTACCATTGGTGTATGGG
196 CGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGTGGG
* *
34472456 CTGGATGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACGGAGCTGGTGTGTAGTGGAT
261 CTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTGGAT
*
34472521 GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTTTTCTG
326 GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTTCTG
* *
34472586 TCGAGGGTTGTACACACTGAGTTTGCGAAAACCCACCCCCTCTTTTATTTTATTTTCAGGTGATG
391 TCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTGATA
* * *
34472651 CTCAGTAGACGGTTCAAT-TTTGGAGGGACTGTGGGTGGCTAGCTAGCAAGACAAATTTGGAC-T
456 CTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGACTT
*
34472714 TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTTAGACCAGATTGTAATAAGGTTTTC
521 TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTTTC
* * *
34472779 ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGTGAAGTTAAATATGGGTT
586 ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGGTT
34472844 TCCTAAATTATAGTATGTTTTCTACG-TTTCTGCAACTTAATTTCTAAATGATAAGTTTTCTTAA
651 TCCTAAATTATAGTATGTTTTCTACGTTTTC-GCAACTTAATTTCTAAATGATAAGTTTTCTTAA
*
34472908 ATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTGTTAAGGTGTTTAAGAAGGGT
715 ATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGGGT
* * *
34472973 TTTCAATGAAAACACGGTTTTCACTAAAACACTTCAATGTGACACGCTGAATTCGGCCATAAA-T
780 TTCCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCCGAATTCGGCCATAAACT
* * * *
34473037 CATAATTAAGGGAAAATTACCGAAATGCCTCTAAGGGA-AAAAATGACCAAAATA-CCCTTGGAT
1 -GTAATTAAGGGAAAATTACCGAAATGCCCCTAA-GGATAAAAATGACCAAAAAACCCCTAGG-T
* * * * **
34473100 GTTGAATGTATGTTTTGTGGATGTAACAT-AATACATATGATGTTCTGTTTAGGTTGCATATGGG
63 GTTGAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGG
* * * *
34473164 GTGGGAATTATGGTACGGAGGAAGTATATGAAGATCGCATGGTTGCCTAACAATCGTGGAACTAC
128 GTGGGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCAC
* *
34473229 CGACGGCTTTTAAAGCCCAATATGTAAATGATGGTAGCTCCGCAACCGGGCTACCATTGGTGTGT
193 CGACGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGT
* * **
34473294 GGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATAGGGGACGGAGCTGGTGTGTAGCA
258 GGGCTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTG
* *
34473359 AATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTGTTTT
323 GATGGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTT
* * *
34473424 CTGCCGAGGGTTGTACATACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAAGTG
388 CTGTCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTG
* * *
34473489 ATGCTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCCAGCTAGCAAGACAAATTTGGA
453 ATACTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGA
34473554 C-TTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTT
518 CTTTTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTT
34473618 TTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGG
583 TTCATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGG
34473683 GTTTCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTT
648 GTTTCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTT
34473748 AAATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGG
713 AAATCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGG
34473813 GTTTCCAATGAAAACACGGTTTTCGCT-AAACACTTCAATGTGACACGCCGAATTCGGCCATAAA
778 GTTTCCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCCGAATTCGGCCATAAA
34473877 CT
843 CT
*
34473879 GTAATTAAGGGAAAATTACCGAAATGCCCCTTAGGATAAAAATGACCAAAAAACCCCTAGGTGTT
1 GTAATTAAGGGAAAATTACCGAAATGCCCCTAAGGATAAAAATGACCAAAAAACCCCTAGGTGTT
34473944 GAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGGGTG
66 GAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGGGTG
* * *
34474009 GGAGTTATGGTACGGAGGAAGTATATGAGGATTGCATGGTTGCCTGACAATTGTGGATCCACCGA
131 GGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCACCGA
*
34474074 CGGCTTTTAATGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGTGGG
196 CGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGTGGG
*
34474139 CTGGGTGGGTCGATATTTATATCCCTACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTGGAT
261 CTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTGGAT
34474204 GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTTCTG
326 GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTTCTG
* *
34474269 TCGAGGGTTGTACACACTGATTTTGTGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTGATA
391 TCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTGATA
34474334 CTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGACTT
456 CTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGACTT
34474399 TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTTTC
521 TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTTTC
34474464 ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGGTT
586 ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGGTT
34474529 TCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTTAAA
651 TCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTTAAA
34474594 TCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGGGTT
716 TCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGGGTT
34474659 TCCAATGAAAACACGGTTTTCGCT-AAACACTTCAATGTGACACGCCGAATTCGGCCATAAACT
781 TCCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCCGAATTCGGCCATAAACT
*
34474722 GTAATTAAGGGAAAATTACCGAAATGCCCCTTAGGATAAAAATGACCAAAAAACCCCTAGGTGTT
1 GTAATTAAGGGAAAATTACCGAAATGCCCCTAAGGATAAAAATGACCAAAAAACCCCTAGGTGTT
34474787 GAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGGGTG
66 GAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGGGTG
* *
34474852 GGAATTATGGTACGGAGGAAGTATATGAGGATTGCATGGTTGCCTGACAATTGTGGATCCACCGA
131 GGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCACCGA
*
34474917 CGGCTTTTAATGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGTGGG
196 CGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGTGGG
*
34474982 CTGGGTGGGTCGATATTTATATCCCTACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTGGAT
261 CTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTGGAT
34475047 GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTTCTG
326 GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTTCTG
* *
34475112 TCGAGGGTTGTACACACTGATTTTGTGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTGATA
391 TCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTGATA
34475177 CTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGACTT
456 CTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGACTT
34475242 TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTTTC
521 TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTTTC
34475307 ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGGTT
586 ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGGTT
34475372 TCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTTAAA
651 TCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTTAAA
34475437 TCAAATGCTTAAAACAAGGCTTTCGCAACTGAAA-G-GTGTTTATTAAGGTTTCTTTTGTTTAAG
716 TCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGG-------TGTTTAAG
* * *
34475500 AAGGGTTTTCAATGAAAACATGGTTTTCGCTAAAACACTTCAATGTGACACGCCAAATTCGGCCA
774 AAGGGTTTCCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCCGAATTCGGCCA
34475565 TAA
839 TAA
34475568 CGTTTGGGCC
Statistics
Matches: 2429, Mismatches: 83, Indels: 28
0.96 0.03 0.01
Matches are distributed among these distances:
840 27 0.01
841 531 0.22
842 723 0.30
843 1076 0.44
848 37 0.02
849 35 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (844 bp):
GTAATTAAGGGAAAATTACCGAAATGCCCCTAAGGATAAAAATGACCAAAAAACCCCTAGGTGTT
GAATGTAAGTTTTATGGATGTGACATGCATACATATGATGTTCTACTTAGGTTGCATATGGGGTG
GGAATTATGGTACGGAGGAAGTATATGAGGATCGCATGGTTGCCTGACAATCGTGGATCCACCGA
CGGCTTTTAAAGCCCAATATGTAAATGAAGGTAGTTCCGCAACCGGGCTACCATTGGTGTGTGGG
CTGGGTGGGTCGATATTTATATCCCCACATGGTGTGATGGGGGACAGAGCTGGTGTGTAGTGGAT
GGATAATTTGAATGGGATTGCATTGCATGTTTGATGTATGATGATTTTTGAATGCTTATTTTCTG
TCGAGGGTTGTACACACTGAGTTTGCGAAAACTCACCCCCTCTTTTATTTTATTTTCAGGTGATA
CTCAGTAGACGGTTCGATGTTTGGAGGGACTCTGGGTGGCTAGCAAGCAAGACAAATTTGGACTT
TTTTTTTAAGCTTATAAGTTTTATTTTATTATGTATGTTTCAGACCAGATTGTAATAAGGTTTTC
ATTATGCTATTATTACTTGAAGTATTATTATTTCCATTGTAATTACGAGAAGTTGAACATGGGTT
TCCTAAATTATAGTATGTTTTCTACGTTTTCGCAACTTAATTTCTAAATGATAAGTTTTCTTAAA
TCAAATGCTTAAAACAAGGCTTTCGCAACTGAAAGGTGTGTTTATTAAGGTGTTTAAGAAGGGTT
TCCAATGAAAACACGGTTTTCGCTAAAACACTTCAATGTGACACGCCGAATTCGGCCATAAACT
Found at i:34477787 original size:18 final size:18
Alignment explanation
Indices: 34477754--34477791 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34477744 TAGTATCTCA
*
34477754 TCCAAACTTGTTCTCACTT
1 TCCAAACTTATTCTCA-TT
34477773 TCCAAAC-TATTCTCATT
1 TCCAAACTTATTCTCATT
34477790 TC
1 TC
34477792 TGAATGCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.24, C:0.32, G:0.03, T:0.42
Consensus pattern (18 bp):
TCCAAACTTATTCTCATT
Found at i:34479606 original size:40 final size:40
Alignment explanation
Indices: 34479561--34479690 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
34479551 CGGAATATAA
34479561 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
34479601 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
34479641 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
34479681 CCGGATATAA
1 CCGGATATAA
34479691 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34479705 original size:40 final size:40
Alignment explanation
Indices: 34479577--34479727 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
34479567 ATAAGCATGT
* * *
34479577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
34479617 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
34479657 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* *
34479697 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
34479728 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:34479711 original size:80 final size:79
Alignment explanation
Indices: 34479577--34479727 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
34479567 ATAAGCATGT
*
34479577 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
34479642 CGGATATAGCCGCTA
65 CGGATATAGCCGCTA
* * ** * *
34479657 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
34479720 CCGGATAT
64 CCGGATAT
34479728 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCGCTA
Found at i:34486131 original size:27 final size:27
Alignment explanation
Indices: 34486072--34486250 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
34486062 TTTGGTTTAC
34486072 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* ** * *
34486098 AAAATTACTAAAATACCATTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
34486125 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
34486152 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
34486179 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
34486206 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
34486233 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
34486251 TCGACCTGTA
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 14 0.10
27 121 0.89
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:34486261 original size:81 final size:81
Alignment explanation
Indices: 34486072--34486304 Score: 233
Period size: 81 Copynumber: 2.9 Consensus size: 81
34486062 TTTGGTTTAC
* * ** * *
34486072 AAAATTACCAAAATA-CCC-TGCTTTGTAAAATTA-CTAAAATACCATTGGTTTATAAAATTACC
1 AAAATTACCAAAATACCCCGAGC-CTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACC
*
34486134 AAAATACCCCTAGTTTGT
64 AAAATACCCCTAATTTGT
* **
34486152 AAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
34486217 AATACCCCTAATTTGT
66 AATACCCCTAATTTGT
* ** ** * *
34486233 GAAATTACTGAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACC
1 AAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACC
*
34486296 AAAGTACCC
64 AAAATACCC
34486305 TCGATTTATA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 20 0.15
81 106 0.82
82 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:34486264 original size:27 final size:27
Alignment explanation
Indices: 34486234--34486308 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
34486224 CTAATTTGTG
34486234 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
34486261 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
34486288 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
34486309 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:34486319 original size:27 final size:27
Alignment explanation
Indices: 34486300--34486645 Score: 392
Period size: 27 Copynumber: 12.8 Consensus size: 27
34486290 ATTACCAAAG
34486300 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
34486327 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
34486354 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
34486381 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
*
34486408 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
34486435 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* * *
34486462 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
*
34486489 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
34486516 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
**
34486543 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
34486570 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
34486597 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
34486624 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
34486646 TAAAATACCC
Statistics
Matches: 285, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
26 2 0.01
27 281 0.99
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:34486320 original size:54 final size:54
Alignment explanation
Indices: 34486124--34486377 Score: 149
Period size: 54 Copynumber: 4.7 Consensus size: 54
34486114 CATTGGTTTA
* * * * * * *
34486124 TAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTCGA-CTTG
* * * * * * * *
34486178 TAAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTAATTTG
1 TAAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTC-GACTTG
* * ** * * **
34486232 TGAAATTACTGAAA-TACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTAC-CAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
*** *
34486286 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTG
1 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
****
34486340 TAAAATTACCGTTTTACCCTCGATTTATAGAATTACCG
1 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCG
34486378 TTTTACCCTC
Statistics
Matches: 166, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
53 3 0.02
54 156 0.94
55 7 0.04
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (54 bp):
TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
Found at i:34486682 original size:81 final size:81
Alignment explanation
Indices: 34486327--34486689 Score: 214
Period size: 81 Copynumber: 4.5 Consensus size: 81
34486317 ATTACCGTTT
* ** *** * * *
34486327 TACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTC-AGT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGA-T
* ***
34486391 TTACAGAATTACTATTT
65 TTACAAAATTACTAAAA
* * * * *** * *
34486408 TACCCTCGATTTATAGAATTATCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CAGA
1 TACCCTTGATTTACAAAATTACCGCAATACCCTC-GATTTACAAAATTACCATTTTACCCTC-GA
* **
34486471 TTTACATAATTATCGT--TT
64 TTTACAAAATTA-C-TAAAA
* * *** *
34486489 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * ***
34486554 TATAGAATTACTATTT
66 TACAAAATTACTAAAA
* *** * **
34486570 TACCCTTGATTTACAAAATTACTGTTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCGATT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
34486635 TACAAAATTACTAAAA
66 TACAAAATTACTAAAA
* *** *
34486651 TACCCTTGGTTTGTGAAATTACCGCAATACCCTCAATTT
1 TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTT
34486690 GTAAAACTAC
Statistics
Matches: 237, Mismatches: 36, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
79 1 0.00
80 3 0.01
81 228 0.96
82 4 0.02
83 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTTGATTTACAAAATTACCGCAATACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACTAAAA
Found at i:34487518 original size:25 final size:25
Alignment explanation
Indices: 34487489--34487536 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34487479 TTATAATATG
* * *
34487489 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34487514 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34487537 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34487605 original size:20 final size:20
Alignment explanation
Indices: 34487580--34487638 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
34487570 TAAATATGGT
34487580 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
34487600 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
34487620 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34487639 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34487715 original size:24 final size:24
Alignment explanation
Indices: 34487688--34487830 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
34487678 GAGGAAGTGA
34487688 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34487712 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34487736 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34487759 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
34487783 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34487807 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34487831 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34487781 original size:47 final size:47
Alignment explanation
Indices: 34487688--34487830 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
34487678 GAGGAAGTGA
34487688 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
34487736 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
34487783 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
34487831 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:34487804 original size:71 final size:72
Alignment explanation
Indices: 34487688--34487831 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
34487678 GAGGAAGTGA
*
34487688 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
34487751 CCAGTTAT
65 CCAGTTAT
** * *
34487759 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
34487824 CAGTTAT
66 CAGTTAT
34487831 A
1 A
34487832 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:34488057 original size:31 final size:31
Alignment explanation
Indices: 34488022--34488116 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
34488012 CGTTTACAGT
34488022 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34488053 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
34488084 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34488115 AA
1 AA
34488117 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34490982 original size:27 final size:27
Alignment explanation
Indices: 34490923--34491101 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
34490913 TTTGGTTTAC
34490923 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* ** * *
34490949 AAAATTACTAAAATACCATTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
34490976 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
34491003 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
34491030 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
34491057 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
34491084 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
34491102 TCGACCTGTA
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 14 0.10
27 121 0.89
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:34491112 original size:81 final size:81
Alignment explanation
Indices: 34490923--34491155 Score: 233
Period size: 81 Copynumber: 2.9 Consensus size: 81
34490913 TTTGGTTTAC
* * ** * *
34490923 AAAATTACCAAAATA-CCC-TGCTTTGTAAAATTA-CTAAAATACCATTGGTTTATAAAATTACC
1 AAAATTACCAAAATACCCCGAGC-CTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACC
*
34490985 AAAATACCCCTAGTTTGT
64 AAAATACCCCTAATTTGT
* **
34491003 AAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
34491068 AATACCCCTAATTTGT
66 AATACCCCTAATTTGT
* ** ** * *
34491084 GAAATTACTGAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACC
1 AAAATTACCAAAATACCC-CGAGCCTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACC
*
34491147 AAAGTACCC
64 AAAATACCC
34491156 TCGATTTATA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 20 0.15
81 106 0.82
82 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:34491115 original size:27 final size:27
Alignment explanation
Indices: 34491085--34491159 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
34491075 CTAATTTGTG
34491085 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
34491112 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
34491139 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
34491160 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:34491171 original size:54 final size:54
Alignment explanation
Indices: 34490975--34491282 Score: 144
Period size: 54 Copynumber: 5.7 Consensus size: 54
34490965 CATTGGTTTA
* * * * * * *
34490975 TAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTCGA-CTTG
* * * * * * * *
34491029 TAAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCC-CTAATTTG
1 TAAAATTACCAAAGTACCCTCGA-TTTATAGAATTACCGAAATACCCTC-GACTTG
* * ** * * **
34491083 TGAAATTACTGAAA-TACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTAC-CAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
*** *
34491137 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTG
1 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
**** * *** *
34491191 TAAAATTACCGTTTTACTCTCGATTTATAGAATTACCGTTTTACCCTC-AGTT-
1 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
* ***
34491243 TACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 TA-A-AATTACCAAAGTACCCTCGATTTATAGAATTACCG
34491283 TTTTACCCCT
Statistics
Matches: 213, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
52 2 0.01
53 7 0.03
54 197 0.92
55 7 0.03
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (54 bp):
TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGAAATACCCTCGACTTG
Found at i:34491497 original size:27 final size:27
Alignment explanation
Indices: 34491151--34491496 Score: 419
Period size: 27 Copynumber: 12.8 Consensus size: 27
34491141 ATTACCAAAG
*
34491151 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
34491178 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
34491205 TACTCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
34491232 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
34491259 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
34491286 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
34491313 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
34491340 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
34491367 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
34491394 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
34491421 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
34491448 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
34491475 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
34491497 TAAAATACCC
Statistics
Matches: 285, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
26 2 0.01
27 281 0.99
28 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:34491533 original size:81 final size:81
Alignment explanation
Indices: 34491209--34491540 Score: 215
Period size: 81 Copynumber: 4.1 Consensus size: 81
34491199 CCGTTTTACT
* * * * *** * *
34491209 CTCGATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTAT
1 CTCGATTTACAAAATTACCATTTTACCCTCGA-TTTACAAAATTACTAAAATACCCTTGATTTAC
* ***
34491273 AGAATTACCGTTTTACC
65 AAAATTACCGCAATACC
* * * ** *
34491290 C-CTAATTTACATAATTACCATTTTACCC-CAGATTTACATAATTATCGT--TTTACCCTCGATT
1 CTC-GATTTACAAAATTACCATTTTACCCTC-GATTTACAAAATTA-C-TAAAATACCCTTGATT
* ***
34491351 TACAGAATTACCGTTTTACC
62 TACAAAATTACCGCAATACC
* * * ***
34491371 CTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACA
1 CTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACA
* ***
34491436 AAATTACTGTTTTACC
66 AAATTACCGCAATACC
* ** * ***
34491452 CTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTG
1 CTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACA
34491517 AAATTACCGCAATACC
66 AAATTACCGCAATACC
*
34491533 CTCAATTT
1 CTCGATTT
34491541 GTAAAACTAC
Statistics
Matches: 210, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
79 1 0.00
80 3 0.01
81 201 0.96
82 4 0.02
83 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
CTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTACA
AAATTACCGCAATACC
Found at i:34492424 original size:25 final size:25
Alignment explanation
Indices: 34492395--34492442 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34492385 TTATAATATG
* * *
34492395 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34492420 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34492443 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34492511 original size:20 final size:20
Alignment explanation
Indices: 34492486--34492544 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
34492476 TAAATATGGT
34492486 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
34492506 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
34492526 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34492545 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34492673 original size:23 final size:24
Alignment explanation
Indices: 34492595--34492688 Score: 181
Period size: 24 Copynumber: 4.0 Consensus size: 24
34492585 GAGGAAGTGA
34492595 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34492619 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34492643 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
34492666 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
34492689 TTATGAGTTA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
23 23 0.33
24 47 0.67
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34492749 original size:55 final size:54
Alignment explanation
Indices: 34492643--34492749 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 54
34492633 CCCAGTTATC
*
34492643 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTTATGAGTT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTAGGCCCCAGTTA-TTATGAGTT
*
34492698 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTA-TATGA
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTAGGCC-CCAGTTATTATGA
34492750 TAAAGCAGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
55 26 0.55
56 11 0.23
57 10 0.21
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (54 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTAGGCCCCAGTTATTATGAGTT
Found at i:34492972 original size:31 final size:31
Alignment explanation
Indices: 34492937--34493031 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
34492927 CGTTTACAGT
34492937 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34492968 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
34492999 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34493030 AA
1 AA
34493032 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34496351 original size:40 final size:39
Alignment explanation
Indices: 34496260--34496411 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
34496250 ATAAGCATGT
* * * *
34496260 GCACAAATGCCTTCGGGTCTTAGCCCGGGTAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATG-CTA
**
34496300 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATGCTA
* * *
34496340 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-TGCTA
* * *
34496380 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
34496412 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 89 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATGCTA
Found at i:34500053 original size:42 final size:41
Alignment explanation
Indices: 34499965--34500073 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 41
34499955 TCGTTTCAAT
*
34499965 GCCATATCCCCGATATGGTCTTACATGAAATATCATATCGAC
1 GCCATAT-CCCGATATGGTCTTATATGAAATATCATATCGAC
* * *
34500007 GCCATGTCCTCGACATGGTCTTATATGAAATCA-CATA-CTGAG
1 GCCATATCC-CGATATGGTCTTATATGAAAT-ATCATATC-GAC
34500049 GCCATATCCCGGATATGGTCTTATA
1 GCCATATCCC-GATATGGTCTTATA
34500074 CGGAATCTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
41 4 0.07
42 52 0.91
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
GCCATATCCCGATATGGTCTTATATGAAATATCATATCGAC
Found at i:34501893 original size:18 final size:20
Alignment explanation
Indices: 34501870--34501911 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
34501860 AGTCTTTTTT
34501870 CCATA-TTTT-TTTTATCAA
1 CCATATTTTTGTTTTATCAA
34501888 CCATATTTTTGTTTTATCAA
1 CCATATTTTTGTTTTATCAA
34501908 CCAT
1 CCAT
34501912 TGCATTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 4 0.18
20 13 0.59
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.52
Consensus pattern (20 bp):
CCATATTTTTGTTTTATCAA
Found at i:34507589 original size:47 final size:49
Alignment explanation
Indices: 34507516--34507646 Score: 166
Period size: 47 Copynumber: 2.8 Consensus size: 49
34507506 ATTTGTATGC
*
34507516 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA-GACGA-GAG-T
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATG--GATGAGCT
* *
34507564 TAGTGTAAGA-CATTTCTGGGACATGGCATCGAC-TTGATGGATGAGCT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGGATGAGCT
*
34507611 T-GTGTAAGACCATGTCTGGGGCATGGCATCGGCATT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
34507647 ATACCCTATC
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.03
46 15 0.21
47 43 0.60
48 12 0.17
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGGATGAGCT
Found at i:34515265 original size:28 final size:29
Alignment explanation
Indices: 34515210--34515269 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
34515200 TAGTCCACAC
*
34515210 ATTTCATTTATTTTACATTTTAGTCCCTCA
1 ATTTCATTTATTTTACAATTTAGTCCCT-A
34515240 ATTT-ATTT-TTTTACAAATTTAG-CCCTA
1 ATTTCATTTATTTTAC-AATTTAGTCCCTA
34515267 ATT
1 ATT
34515270 ACTCAAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.14
28 10 0.36
29 10 0.36
30 4 0.14
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTTCATTTATTTTACAATTTAGTCCCTA
Found at i:34516073 original size:18 final size:18
Alignment explanation
Indices: 34516045--34516088 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34516035 AGTGAAATTT
34516045 ATATGAAAATCCCTGAAGG
1 ATAT-AAAATCCCTGAAGG
* *
34516064 ATTTAAAATCCTTGAAGG
1 ATATAAAATCCCTGAAGG
34516082 ATATAAA
1 ATATAAA
34516089 GTTTCTCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
ATATAAAATCCCTGAAGG
Found at i:34518065 original size:20 final size:19
Alignment explanation
Indices: 34518031--34518070 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
34518021 ATGTTTTTAT
34518031 AAATATTTTTTTAAT-ATA
1 AAATATTTTTTTAATCATA
34518049 AAATATTTTCATTTAATCATA
1 AAATATTTT--TTTAATCATA
34518070 A
1 A
34518071 TGTGAGTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATATTTTTTTAATCATA
Found at i:34521349 original size:27 final size:27
Alignment explanation
Indices: 34521319--34521449 Score: 190
Period size: 27 Copynumber: 4.8 Consensus size: 27
34521309 TAAATGATAG
*
34521319 AATGACTATTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
*
34521346 AATGATTGTTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
*
34521373 AATGACTGTTTTGCCCTTATATGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
*
34521400 AATGACTGGTTTGCCCTTATGTGGTAA
1 AATGACTGTTTTGCCCTTATGTGGTAA
* *
34521427 GATGACTGCTTTGCTCCTATATG
1 AATGACTGTTTTGC-CCT-TATG
34521450 CAGTATATAT
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 87 0.93
28 3 0.03
29 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (27 bp):
AATGACTGTTTTGCCCTTATGTGGTAA
Found at i:34525524 original size:29 final size:29
Alignment explanation
Indices: 34525492--34525623 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
34525482 ATAGTGAATC
34525492 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34525521 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
34525551 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
34525580 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
34525609 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34525624 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:34525633 original size:59 final size:59
Alignment explanation
Indices: 34525492--34525623 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
34525482 ATAGTGAATC
34525492 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
34525551 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
34525609 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34525624 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:34530446 original size:47 final size:49
Alignment explanation
Indices: 34530373--34530503 Score: 166
Period size: 47 Copynumber: 2.8 Consensus size: 49
34530363 ATTTGTATGC
*
34530373 TAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA-GACGA-GAG-T
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATG--GATGAGCT
* *
34530421 TAGTGTAAGA-CATTTCTGGGACATGGCATCGAC-TTGATGGATGAGCT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGGATGAGCT
*
34530468 T-GTGTAAGACCATGTCTGGGGCATGGCATCGGCATT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
34530504 ATACCCTATC
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.03
46 15 0.21
47 43 0.60
48 12 0.17
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (49 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGGATGAGCT
Found at i:34543410 original size:40 final size:40
Alignment explanation
Indices: 34543336--34543489 Score: 157
Period size: 40 Copynumber: 3.9 Consensus size: 40
34543326 CCGCACCAAG
* * * * * *
34543336 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
34543376 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
** * *
34543416 GCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
34543456 GTCC-TCGGGACTTAGCCCGGATATCACAATTTGC
1 G-CCTTCGGGTCTTAGCCCGGATATAACAACTTGC
34543490 TCATGCACAC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 91 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:34555985 original size:24 final size:25
Alignment explanation
Indices: 34555930--34555985 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
34555920 ACTTAACTCG
*
34555930 TATGAGCTTACCATTTTCTAGCTCA
1 TATGAGCTTACCATTTACTAGCTCA
* *
34555955 GAGGAGCTTACCATTTAC-AGCTCA
1 TATGAGCTTACCATTTACTAGCTCA
34555979 TATGAGC
1 TATGAGC
34555986 ATACATGTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (25 bp):
TATGAGCTTACCATTTACTAGCTCA
Found at i:34561282 original size:15 final size:15
Alignment explanation
Indices: 34561255--34561292 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34561245 AATGCTGATT
34561255 GTATGATAAAATCTTG
1 GTATGA-AAAATCTTG
34561271 GTATGAAAAATCTTG
1 GTATGAAAAATCTTG
*
34561286 GTCTGAA
1 GTATGAA
34561293 TGGTAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (15 bp):
GTATGAAAAATCTTG
Found at i:34563363 original size:21 final size:22
Alignment explanation
Indices: 34563339--34563392 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
34563329 GTGGCCCGAG
*
34563339 GGACACGA-CTGTATGACCCTA
1 GGACACGATCCGTATGACCCTA
*
34563360 GGACAC-ATCCGTGTGACCCTA
1 GGACACGATCCGTATGACCCTA
34563381 GGACACG-TCCGT
1 GGACACGATCCGT
34563393 GCTAGAGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (22 bp):
GGACACGATCCGTATGACCCTA
Found at i:34563393 original size:21 final size:21
Alignment explanation
Indices: 34563352--34563393 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34563342 CACGACTGTA
34563352 TGACCCTAGGACACATCCGTG
1 TGACCCTAGGACACATCCGTG
*
34563373 TGACCCTAGGACACGTCCGTG
1 TGACCCTAGGACACATCCGTG
34563394 CTAGAGGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (21 bp):
TGACCCTAGGACACATCCGTG
Found at i:34566037 original size:19 final size:19
Alignment explanation
Indices: 34565989--34566042 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
34565979 TAAAAATGTT
34565989 TTTTATTTCTATTTAATAA
1 TTTTATTTCTATTTAATAA
*
34566008 -TTTATCATCTA-TTAATAA
1 TTTTAT-TTCTATTTAATAA
34566026 TTTTGATTTCTAATTTA
1 TTTT-ATTTCT-ATTTA
34566043 GTCCTTAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 12 0.43
19 10 0.36
20 3 0.11
21 3 0.11
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTATTTCTATTTAATAA
Found at i:34567395 original size:33 final size:33
Alignment explanation
Indices: 34567358--34567428 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
34567348 CTCAGCCTTC
* **
34567358 ATCAG-AATCAATTGGGCCTAGCCCATTTTCAAA
1 ATCAGTAA-CAATTGGGCCTAGCCAATTAACAAA
*
34567391 ATCAGTAACAGTTGGGCCTAGCCAATTAACAAA
1 ATCAGTAACAATTGGGCCTAGCCAATTAACAAA
34567424 ATCAG
1 ATCAG
34567429 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (33 bp):
ATCAGTAACAATTGGGCCTAGCCAATTAACAAA
Found at i:34572518 original size:22 final size:22
Alignment explanation
Indices: 34572490--34572546 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
34572480 TACAGGGTTC
34572490 ACATGCCCATGTGGTCTGAAAG
1 ACATGCCCATGTGGTCTGAAAG
34572512 ACATGCCCATGTGGTCTGAAAG
1 ACATGCCCATGTGGTCTGAAAG
*
34572534 ACATGCCCGTGTG
1 ACATGCCCATGTG
34572547 ACCCTGGGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (22 bp):
ACATGCCCATGTGGTCTGAAAG
Found at i:34575024 original size:84 final size:84
Alignment explanation
Indices: 34574883--34575051 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
34574873 TCTGATTTTG
*
34574883 ATGAATGTTTTGAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTAAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
* *
34574948 AAGGTTATGTTTTACATTA
66 AAAGATATGTTTTACATTA
34574967 ATGAATGTTTTAAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
1 ATGAATGTTTTAAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
*
34575032 AAAGATATGTTTTAGATTA
66 AAAGATATGTTTTACATTA
34575051 A
1 A
34575052 CATGTTTTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (84 bp):
ATGAATGTTTTAAGTTATGCCATTGATGAATATTTGTGTTTTGTGATGTTTGATGATGAAATATT
AAAGATATGTTTTACATTA
Found at i:34578344 original size:47 final size:47
Alignment explanation
Indices: 34578181--34578540 Score: 231
Period size: 47 Copynumber: 7.7 Consensus size: 47
34578171 ATATATTGTA
* * * *
34578181 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATATTCGAG-GCC
* * *
34578231 GATGCATGTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATATTC-GAGGCC
* * * * *
34578275 GATGCGTGTCCCAAACACGTCTTACACTGGCTATCTTTTTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATATTCGAGGCC
* * * *
34578322 AATGCATGTCCCAGACATGTCTTACACTAGC-ACTCAT-CTCTG-TGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATATTC-GAGGCC
* * *
34578368 GATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGT--ATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATATTCGA-GGCC
* * * * * **
34578416 GATGCATGTCCCAGACATGTCTTACACTAGCCT-TCGT-CTGGATGTT
1 GATGCATGTCCCAGACATGTCTTACACT-GGCTATCATATTCGAGGCC
* * * *
34578462 GATGCCATGTCCCAGACATGATCTTACATTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACATG-TCTTACACTGGCTATCATATTCGAGGCC
* * *
34578510 GAAGCATGTCCCAGACATATCTTAGACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
34578541 GCACAAATCA
Statistics
Matches: 243, Mismatches: 47, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
44 29 0.12
45 4 0.02
46 42 0.17
47 97 0.40
48 50 0.21
49 17 0.07
50 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATATTCGAGGCC
Found at i:34578443 original size:94 final size:93
Alignment explanation
Indices: 34578181--34578533 Score: 355
Period size: 94 Copynumber: 3.8 Consensus size: 93
34578171 ATATATTGTA
* * *
34578181 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATA--TG-GCCGATGCATGTCCCAGA
*
34578246 CATGTCTTACACTAGCA--CAACTCT-TAGCC
63 CATGTCTTACACTAGCACTCATCTCTGT-GCC
* * * * * *
34578275 GATG-CGTGTCCCAAACA-CGTCTTACACTGGCTATC-TTTTTCGAGGCCAATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATAT---GGCCGATGCATGTCCCAGA
34578337 CATGTCTTACACTAGCACTCATCTCTGTGCC
63 CATGTCTTACACTAGCACTCATCTCTGTGCC
* *
34578368 GATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-TATGGCCGATGCATGTCCCAGACA
**
34578433 TGTCTTACACTAGC-CT--TCGTCTGGATGTT
65 TGTCTTACACTAGCACTCATC-TCT-G-TGCC
* * * * *
34578462 GATGCCATGTCCCAGACATGATCTTACATTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-ATATGGCCGATGCATGTCCCAGACA
*
34578527 TATCTTA
65 TGTCTTA
34578534 GACTGGCGCA
Statistics
Matches: 217, Mismatches: 28, Indels: 28
0.79 0.10 0.10
Matches are distributed among these distances:
91 37 0.17
92 20 0.09
93 27 0.12
94 112 0.52
95 18 0.08
96 1 0.00
97 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATATGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCATCTCTGTGCC
Found at i:34580809 original size:30 final size:30
Alignment explanation
Indices: 34580775--34580835 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34580765 TCCTTAACTC
34580775 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34580805 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34580835 A
1 A
34580836 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34584526 original size:26 final size:27
Alignment explanation
Indices: 34584475--34584526 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
34584465 AAATTAGCTA
**
34584475 AGAAATGCATGATGTGATGATTTTGTG
1 AGAAATGCATGATGTGATGAACTTGTG
*
34584502 AGAAATGTATG-TGTGATGAACTTGT
1 AGAAATGCATGATGTGATGAACTTGT
34584527 ATGAATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.37
Consensus pattern (27 bp):
AGAAATGCATGATGTGATGAACTTGTG
Found at i:34585286 original size:29 final size:29
Alignment explanation
Indices: 34585001--34585309 Score: 298
Period size: 29 Copynumber: 10.8 Consensus size: 29
34584991 GTATAAGTGA
*
34585001 GCCTTTGTGGCTATCTC--TAAAAGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
** * *
34585027 GCCTTTGCAGCGATCTCTGTTATATGGAA-
1 GCCTTTGTGGCTATCTCTGTTA-AAGGAAT
* *
34585056 GCCTTTTTGGCGATCTCTGTTAAATGGAA-
1 GCCTTTGTGGCTATCTCTGTTAAA-GGAAT
34585085 GCCTTTGTGGCTATCTCTGTTGAAAGG-AT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAAT
* ** * **
34585114 GTCTTTGTGTTTATCTTTGTTAAAAAAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
*
34585143 ACCTTTGTGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
**
34585172 GCCTTTGTGGCTATCTCAATTAAAAGG-AT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAAT
* *
34585201 TCCTTTGTGGCTATCCCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
*
34585230 GCC-TTGTGGCAAAT-TCTGTTAAAGGAAT
1 GCCTTTGTGGC-TATCTCTGTTAAAGGAAT
34585258 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAAT
* *
34585287 GTC-TTGTGGCAAAT-TCTGTTAAA
1 GCCTTTGTGGC-TATCTCTGTTAAA
34585310 AATGTGCTTT
Statistics
Matches: 233, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
26 14 0.06
28 53 0.23
29 158 0.68
30 8 0.03
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (29 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAAT
Found at i:34585304 original size:28 final size:28
Alignment explanation
Indices: 34585217--34585309 Score: 143
Period size: 28 Copynumber: 3.3 Consensus size: 28
34585207 GTGGCTATCC
34585217 CTGTTAAAGGAATGCCTTGTGGCAAATT
1 CTGTTAAAGGAATGCCTTGTGGCAAATT
*
34585245 CTGTTAAAGGAATGCCTTTGTGGC-TATCT
1 CTGTTAAAGGAATGCC-TTGTGGCAAAT-T
*
34585274 CTGTTAAAGGAATGTCTTGTGGCAAATT
1 CTGTTAAAGGAATGCCTTGTGGCAAATT
34585302 CTGTTAAA
1 CTGTTAAA
34585310 AATGTGCTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
28 34 0.58
29 25 0.42
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (28 bp):
CTGTTAAAGGAATGCCTTGTGGCAAATT
Found at i:34585322 original size:57 final size:57
Alignment explanation
Indices: 34585085--34585325 Score: 235
Period size: 57 Copynumber: 4.2 Consensus size: 57
34585075 TTAAATGGAA
* *** * *
34585085 GCCTTTGTGGCTATCTCTGTTGAAAGG-ATGTCTT-TGTGTTTATCTTTGTTAAAAAAAT
1 GCCTTTGTGGCTATCTCTGTT-AAAGGAATGCCTTGTG-GCAAATCTCTGTT-AAAAATT
* * **
34585143 ACCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTTGTGGC-TATCTCAATTAAAAGGATT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAATGCC-TTGTGGCAAATCTCTGTTAAAA--ATT
*
34585202 -CCTTTGTGGCTATCCCTGTTAAAGGAATGCCTTGTGGCAAAT-TCTGTTAAAGGAA-T
1 GCCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATCTCTGTTAAA--AATT
*
34585258 GCCTTTGTGGCTATCTCTGTTAAAGGAATGTCTTGTGGCAAAT-TCTGTTAAAAATGT
1 GCCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATCTCTGTTAAAAAT-T
*
34585315 GCTTTTGTGGC
1 GCCTTTGTGGC
34585326 ATAATCTGAA
Statistics
Matches: 158, Mismatches: 14, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
55 2 0.01
56 1 0.01
57 84 0.53
58 63 0.40
59 6 0.04
60 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.39
Consensus pattern (57 bp):
GCCTTTGTGGCTATCTCTGTTAAAGGAATGCCTTGTGGCAAATCTCTGTTAAAAATT
Found at i:34609123 original size:33 final size:33
Alignment explanation
Indices: 34609081--34609145 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
34609071 TGAGATTTTG
34609081 ATTGAAATGATAATATTTAAAAAATTAAAATCA
1 ATTGAAATGATAATATTTAAAAAATTAAAATCA
34609114 ATTGAAATGATAATATTTAAAAAATTAAAATC
1 ATTGAAATGATAATATTTAAAAAATTAAAATC
34609146 TTTATTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (33 bp):
ATTGAAATGATAATATTTAAAAAATTAAAATCA
Found at i:34617180 original size:28 final size:27
Alignment explanation
Indices: 34617128--34617180 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
34617118 CTATTCAGAA
* *
34617128 ATCAGTGTTAACTAGGCCTTAGCCCAT
1 ATCAGTATTAACTAGGCCATAGCCCAT
*
34617155 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTAGGCCATAGCCC
34617181 CTTACAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTAGGCCATAGCCCAT
Found at i:34617265 original size:60 final size:59
Alignment explanation
Indices: 34617142--34617276 Score: 157
Period size: 60 Copynumber: 2.2 Consensus size: 59
34617132 GTGTTAACTA
* *
34617142 GGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTATACTG
1 GGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTATACTG
* * *
34617203 GGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATATATTG
1 GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TATACTG
*
34617263 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
34617277 TAACACAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 51 0.78
61 8 0.12
62 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
GGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTATACTG
Found at i:34617312 original size:19 final size:20
Alignment explanation
Indices: 34617269--34617324 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
34617259 ATTGGGCCTT
34617269 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
34617289 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
34617308 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
34617325 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:34619480 original size:19 final size:18
Alignment explanation
Indices: 34619443--34619486 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
34619433 ATACATACAG
34619443 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
34619460 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
34619479 TACTAATT
1 TAATAATT
34619487 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:34623030 original size:48 final size:48
Alignment explanation
Indices: 34622959--34623390 Score: 654
Period size: 48 Copynumber: 9.0 Consensus size: 48
34622949 CAAGATAAAT
* *
34622959 AAATATATGTGTGATATGTATATGCGGTAAAGCCGAATGGCTAATATG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
**
34623007 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAGCGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
34623055 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCCAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
34623103 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
34623151 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
** * *
34623199 AAATAGTA--TAAGATATGTATATGTGGTAAAG-CGAATAGCTAATATG
1 AAATA-TATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
34623245 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
34623293 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * * *
34623341 AAATATGTATGAGATATGAATGTGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
34623389 AA
1 AA
34623391 TGTTGTAACA
Statistics
Matches: 350, Mismatches: 30, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
45 2 0.01
46 18 0.05
47 42 0.12
48 286 0.82
49 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:34623543 original size:37 final size:37
Alignment explanation
Indices: 34623437--34623543 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
34623427 AAATATATTT
*
34623437 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
34623474 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
34623511 CGGGTGAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
34623544 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:34634007 original size:23 final size:24
Alignment explanation
Indices: 34633932--34634013 Score: 114
Period size: 24 Copynumber: 3.4 Consensus size: 24
34633922 GAGAGCTGGC
* *
34633932 CAGTAAGCTCTTCAAGAGCTGATAA
1 CAGTAAGCTCTTC-TGAGCTGAAAA
34633957 CAGTAAGCTCTAT-TGAGCTGAAAA
1 CAGTAAGCTCT-TCTGAGCTGAAAA
34633981 CAGTAAGCTCTTCTGAGCT-AAAA
1 CAGTAAGCTCTTCTGAGCTGAAAA
34634004 CAGTAAGCTC
1 CAGTAAGCTC
34634014 ATACAAGCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
23 15 0.28
24 26 0.49
25 11 0.21
26 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (24 bp):
CAGTAAGCTCTTCTGAGCTGAAAA
Found at i:34634022 original size:23 final size:22
Alignment explanation
Indices: 34633932--34634023 Score: 76
Period size: 24 Copynumber: 3.9 Consensus size: 22
34633922 GAGAGCTGGC
* *
34633932 CAGTAAGCTCTTCAAGAGCTGATAA
1 CAGTAAGCTC-T-ACGAGCT-AAAA
*
34633957 CAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTA-CGAGCT-AAAA
*
34633981 CAGTAAGCTCTTCTGAGCTAAAA
1 CAGTAAGCTCTAC-GAGCTAAAA
*
34634004 CAGTAAGCTCATACAAGCTA
1 CAGTAAGCTC-TACGAGCTA
34634024 TGGTGAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
23 20 0.34
24 28 0.48
25 10 0.17
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (22 bp):
CAGTAAGCTCTACGAGCTAAAA
Found at i:34648354 original size:48 final size:48
Alignment explanation
Indices: 34648150--34648377 Score: 167
Period size: 50 Copynumber: 4.7 Consensus size: 48
34648140 GTGTAATGCC
* * * *
34648150 GATGTCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCA-AGT-C-
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCTAT-ATCGTGCT
* * * * *
34648197 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCAAAATCGAGGT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCTATATCGTGCT
** * * * * *
34648245 CGACCCCATGTTCCTAAACATGGTCTTACACTGGCTCTCATATATCCGTGCC
1 -GATGCCATG-TCCCAGACATGGTCTTACACTGACTATC-TATAT-CGTGCT
* *
34648297 GATGCCATGTCCCAGACATGGTATTACACTGACTCCTCTATA-CGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCTATATCGTGCT
* * * *
34648345 GATGCCATGTCTCAAACATGGTTTTACATTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC
34648378 ACATCTCGCA
Statistics
Matches: 144, Mismatches: 29, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 6 0.04
47 30 0.21
48 34 0.24
49 7 0.05
50 50 0.35
51 13 0.09
52 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCTATATCGTGCT
Found at i:34648417 original size:44 final size:45
Alignment explanation
Indices: 34648368--34648462 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 45
34648358 AAACATGGTT
* *
34648368 TTACATTGAC-ACATCTCGCA-GCCGATGCATGTCCC-AGAGATGTC
1 TTACATTGACTACATCTCG-AGGCCAATGCATG-CCCTAGACATGTC
* *
34648412 TTACATTGGCTTACATCTCGAGGCTAATGCATGCCCTAGACATGTC
1 TTACATTGAC-TACATCTCGAGGCCAATGCATGCCCTAGACATGTC
34648458 TTACA
1 TTACA
34648463 ATAGGTCTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
44 9 0.21
45 4 0.09
46 30 0.70
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (45 bp):
TTACATTGACTACATCTCGAGGCCAATGCATGCCCTAGACATGTC
Found at i:34648532 original size:48 final size:47
Alignment explanation
Indices: 34648146--34648558 Score: 198
Period size: 47 Copynumber: 8.7 Consensus size: 47
34648136 TAGGGTGTAA
* *
34648146 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTTATCCATCAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCT-CAT-AATG
* * * *
34648195 T--CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCAAAATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G
* * ** * *
34648241 AGGTCGACCCCATGTTCCTAAACATGGTCTTACACTGGCTCTCATATATCCG
1 -TGCCGATGCCATG-TCCCAGACATGGTCTTACACTGGCTCTCATA-AT--G
* * *
34648293 TGCCGATGCCATGTCCCAGACATGGTATTACACTGACTCCTC-TATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATA-ATG
* * * * * * * *
34648341 TGCTGATGCCATGTCTCAAACATGGTTTTACATTGACACATC-T--CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
* * * *
34648386 CAGCCGATG-CATGTCCCAGAGAT-GTCTTACATTGGCT-TACAT-CTCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G
* ** *
34648432 AGGCTAATG-CATG-CCCTAGACAT-GTCTTACAATAGGTCTCGTC-TCAA--
1 -TGCCGATGCCATGTCCC-AGACATGGTCTTACACT-GG-CTC-TCAT-AATG
*
34648479 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
*
34648526 TGGCCGATG-CATGTCCCAGACA-AGTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
34648559 AGCGCACAAA
Statistics
Matches: 286, Mismatches: 49, Indels: 61
0.72 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 14 0.05
45 22 0.08
46 53 0.19
47 58 0.20
48 58 0.20
49 10 0.03
50 53 0.19
51 14 0.05
52 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:34657106 original size:33 final size:33
Alignment explanation
Indices: 34657061--34657126 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34657051 CAAAAAATTA
*
34657061 TCAATACGTGGCCAAATGGTATTGATACTTTTT
1 TCAATACATGGCCAAATGGTATTGATACTTTTT
34657094 TCAATACATGGCCAAATGGTATTGATACTTTTT
1 TCAATACATGGCCAAATGGTATTGATACTTTTT
34657127 GGCCAGGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (33 bp):
TCAATACATGGCCAAATGGTATTGATACTTTTT
Found at i:34660313 original size:20 final size:20
Alignment explanation
Indices: 34660288--34660346 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
34660278 TAAATATGGT
34660288 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
34660308 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
34660328 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34660347 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34660328 original size:11 final size:11
Alignment explanation
Indices: 34660292--34660346 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34660282 TATGGTATGT
34660292 ATGATATGCAC
1 ATGATATGCAC
* *
34660303 ATGAAATG--T
1 ATGATATGCAC
34660312 ATGATATGCAC
1 ATGATATGCAC
*
34660323 ATGATATG--T
1 ATGATATGCAC
34660332 ATGATATGCAC
1 ATGATATGCAC
34660343 ATGA
1 ATGA
34660347 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34660427 original size:23 final size:24
Alignment explanation
Indices: 34660397--34660513 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
34660387 GAGGAAGTGA
*
34660397 AAAAGGGCTTATGCCCCA-TTATC
1 AAAAGGGCTTATGCCCCAGTTATT
34660420 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
34660443 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
34660467 GAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34660490 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34660514 ATGATAAAGC
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
23 56 0.67
24 19 0.23
25 8 0.10
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34660781 original size:30 final size:31
Alignment explanation
Indices: 34660705--34660798 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
34660695 CGTTTACAGT
34660705 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34660736 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
34660767 AAAGGCTT-GGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34660797 AA
1 AA
34660799 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 23 0.37
31 39 0.63
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34663375 original size:40 final size:39
Alignment explanation
Indices: 34663330--34663537 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
34663320 CGGAATACAA
*
34663330 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34663370 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
34663410 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
34663450 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
34663490 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
34663530 CCGGATAT
1 CCGGATAT
34663538 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34663470 original size:80 final size:80
Alignment explanation
Indices: 34663330--34663536 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
34663320 CGGAATACAA
* * *
34663330 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
34663394 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
34663410 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
34663474 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
34663490 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
34663537 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:34671415 original size:40 final size:40
Alignment explanation
Indices: 34671370--34671495 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
34671360 CGGAATACAA
* *
34671370 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
34671410 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
34671450 CTGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
34671490 CCGGAT
1 CCGGAT
34671496 GTGGTCACTA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:34679686 original size:20 final size:20
Alignment explanation
Indices: 34679661--34679719 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
34679651 TAAATATGGT
34679661 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
34679681 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
34679701 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34679720 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:34679701 original size:11 final size:11
Alignment explanation
Indices: 34679665--34679719 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34679655 TATGGTATGT
34679665 ATGATATGCAC
1 ATGATATGCAC
* *
34679676 ATGAAATG--T
1 ATGATATGCAC
34679685 ATGATATGCAC
1 ATGATATGCAC
*
34679696 ATGATATG--T
1 ATGATATGCAC
34679705 ATGATATGCAC
1 ATGATATGCAC
34679716 ATGA
1 ATGA
34679720 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34679797 original size:24 final size:24
Alignment explanation
Indices: 34679770--34679888 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
34679760 GAGGAAGTGA
*
34679770 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
34679794 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
34679817 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
34679841 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
34679865 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34679889 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34679839 original size:47 final size:48
Alignment explanation
Indices: 34679770--34679888 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
34679760 GAGGAAGTGA
34679770 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
34679817 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
34679865 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34679889 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:34680125 original size:30 final size:31
Alignment explanation
Indices: 34680080--34680142 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
34680070 CGTTTACAGT
34680080 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
34680111 AAAGGCTT-GGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34680141 AA
1 AA
34680143 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34681752 original size:20 final size:20
Alignment explanation
Indices: 34681710--34681758 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34681700 AACCCTCGTG
* **
34681710 GTATCGATATTTTTCCACGA
1 GTATCGATATTTTTACAAAA
*
34681730 GTATCGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
34681750 GTATCGATA
1 GTATCGATA
34681759 CCAAATTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:34686652 original size:18 final size:18
Alignment explanation
Indices: 34686606--34686652 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
34686596 TGGCCCATTG
* *
34686606 CAGTAACAATAAACAGTG
1 CAGTAACAGTAAACAGTA
*
34686624 CAGTAATAGTAAACAGTA
1 CAGTAACAGTAAACAGTA
34686642 CAGTAACAGTA
1 CAGTAACAGTA
34686653 TGCAAGTCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTA
Found at i:34687071 original size:27 final size:27
Alignment explanation
Indices: 34686999--34687058 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
34686989 CAACAAATAG
* *
34686999 GGGCAAAATAGTCATTTTACTATATAA
1 GGGCAAAATAGTCATTTTACCACATAA
34687026 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAATAGTCATTTTACCACATAA
34687053 GGGCAA
1 GGGCAA
34687059 GACAGTCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTTACCACATAA
Found at i:34687082 original size:27 final size:27
Alignment explanation
Indices: 34686999--34687071 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
34686989 CAACAAATAG
* * *
34686999 GGGCAAAATAGTCATTTTACTATATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
34687026 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
34687053 GGGCAAGACAGTCCTTTTA
1 GGGCAAAACAGTCATTTTA
34687072 TCAATTAAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:34687212 original size:18 final size:18
Alignment explanation
Indices: 34687189--34687228 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34687179 ATACTGTGCT
34687189 CCCATGTGGGCACACAC-G
1 CCCATGT-GGCACACACAG
*
34687207 CCCATGTGGCCCACACAG
1 CCCATGTGGCACACACAG
34687225 CCCA
1 CCCA
34687229 AAAACAGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.23, C:0.45, G:0.23, T:0.10
Consensus pattern (18 bp):
CCCATGTGGCACACACAG
Found at i:34697502 original size:40 final size:40
Alignment explanation
Indices: 34697443--34697669 Score: 175
Period size: 40 Copynumber: 5.7 Consensus size: 40
34697433 CAATTGAATG
* * * *
34697443 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACT
* * * * *
34697483 ATATCCGAGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACT
* ** * ***
34697523 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACT
* ** * ***
34697563 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACT
* * * * ***
34697603 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACT
*
34697643 CTATCCGGGCTAAGACCCGAAGGCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT
34697670 CGTGCATGTG
Statistics
Matches: 161, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 161 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTAACT
Found at i:34697675 original size:40 final size:40
Alignment explanation
Indices: 34697493--34697690 Score: 247
Period size: 40 Copynumber: 5.0 Consensus size: 40
34697483 ATATCCGAGT
* * *
34697493 TAAGACCCGAAGGCAATT-GTGCTAG-TGACTACATCCGGGC
1 TAAGACCCGAAGGC-ATTCGTGCAAGTTG-TTAAATCCGGGC
*
34697533 TAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
*
34697573 TAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
* * * **
34697613 TAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
* * *
34697653 TAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGG
34697691 TCGTATTTTG
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 137 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
Found at i:34697689 original size:80 final size:80
Alignment explanation
Indices: 34697443--34697690 Score: 261
Period size: 80 Copynumber: 3.1 Consensus size: 80
34697433 CAATTGAATG
* * ** * * *
34697443 ATATCCGGGCTAAGT-CCCGAAGACATTTATGCTGGTAATTATATCCGAGTTAAGACCCGAAGGC
1 ATATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
**
34697507 AATT-GTGC-TAGTGACT
65 -ATTCGTGCAT-GTGGTT
* * * * * *
34697523 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
*
34697588 TTCGTGCGA-GTTGTT
66 TTCGTGC-ATGTGGTT
* * *
34697603 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
34697668 TTCGTGCATGTGGTT
66 TTCGTGCATGTGGTT
34697683 ATATCCGG
1 ATATCCGG
34697691 TCGTATTTTG
Statistics
Matches: 139, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
79 4 0.03
80 135 0.97
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCATGTGGTT
Found at i:34716668 original size:43 final size:43
Alignment explanation
Indices: 34716550--34716676 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 43
34716540 AGGATTTTCG
* * *
34716550 TATTTGATTTCGTGTAAGACCACGTCTGGGA-TGTTGGCATCGA
1 TATTTGATTACGTGTAAGACCACATCTGGGACAG-TGGCATCGA
*
34716593 T-TTGAGATTTACGTGTAAGACC-CTATCTGGGACAGTGGCATCGA
1 TATT-TGA-TTACGTGTAAGACCAC-ATCTGGGACAGTGGCATCGA
* * *
34716637 TATTTGATTACATGTAAGACCACATCGGGGACATTGGCAT
1 TATTTGATTACGTGTAAGACCACATCTGGGACAGTGGCAT
34716677 TGTACAAGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.03
43 32 0.46
44 33 0.47
45 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TATTTGATTACGTGTAAGACCACATCTGGGACAGTGGCATCGA
Found at i:34721012 original size:24 final size:26
Alignment explanation
Indices: 34720975--34721034 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 26
34720965 CAGGGAATGC
* *
34720975 TATGTGGAGGAAATCAAGAAGAGGA-
1 TATGGGGAGAAAATCAAGAAGAGGAT
*
34721000 T-TGGGGAGAAAATCAAGGAGAGGAT
1 TATGGGGAGAAAATCAAGAAGAGGAT
34721025 TATGGGGAGA
1 TATGGGGAGA
34721035 TTTTAGAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 20 0.67
25 2 0.07
26 8 0.27
ACGTcount: A:0.40, C:0.03, G:0.40, T:0.17
Consensus pattern (26 bp):
TATGGGGAGAAAATCAAGAAGAGGAT
Found at i:34725770 original size:24 final size:24
Alignment explanation
Indices: 34725743--34725791 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
34725733 GAGCACAGTT
34725743 TTGTTCGTGAAAAAGAAAGATGGG
1 TTGTTCGTGAAAAAGAAAGATGGG
* *
34725767 TTGTTCGTGAAGAAGAAGGATGGG
1 TTGTTCGTGAAAAAGAAAGATGGG
34725791 T
1 T
34725792 CTATGTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (24 bp):
TTGTTCGTGAAAAAGAAAGATGGG
Found at i:34730066 original size:6 final size:6
Alignment explanation
Indices: 34730057--34730120 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
34730047 CATCTCGATC
* * * ** **
34730057 TCTTTT TCTTTT TCCTTC TCTTTT TCTGTT TCACTT TCTTTT TCAATT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
34730105 TCATTTT TCTTTT TCT
1 TC-TTTT TCTTTT TCT
34730121 CATTCTCTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
6 40 0.91
7 4 0.09
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (6 bp):
TCTTTT
Found at i:34730076 original size:24 final size:24
Alignment explanation
Indices: 34730013--34730076 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
34730003 TCTTTTTCAA
34730013 TTTTCTTTTT-CTTCTCACATTCT
1 TTTTCTTTTTCCTTCTCACATTCT
** * * *
34730036 TTTTCACTCTCCATCTC-GATCTCT
1 TTTTCTTTTTCCTTCTCACAT-TCT
34730060 TTTTCTTTTTCCTTCTC
1 TTTTCTTTTTCCTTCTC
34730077 TTTTTCTGTT
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTCTTTTTCCTTCTCACATTCT
Found at i:34730078 original size:18 final size:19
Alignment explanation
Indices: 34730055--34730120 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 19
34730045 TCCATCTCGA
*
34730055 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTGTTTCACT
34730073 TCTCTTTTTCTGTTTCACT
1 TCTCTTTTTCTGTTTCACT
** *
34730092 T-TCTTTTTCAATTTCATT
1 TCTCTTTTTCTGTTTCACT
*
34730110 TTTCTTTTTCT
1 TCTCTTTTTCT
34730121 CATTCTCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
18 30 0.73
19 11 0.27
ACGTcount: A:0.06, C:0.23, G:0.02, T:0.70
Consensus pattern (19 bp):
TCTCTTTTTCTGTTTCACT
Found at i:34730153 original size:21 final size:21
Alignment explanation
Indices: 34730105--34730163 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
34730095 TTTTTCAATT
**
34730105 TCATTTTTCTTT-TTCTCATTC
1 TCATTTTTCTTTCTT-TCACAC
*
34730126 TCTTTTTTCTTTCTTTCACAC
1 TCATTTTTCTTTCTTTCACAC
34730147 TCA-TTTTCTTTCATTTC
1 TCATTTTTCTTTC-TTTC
34730164 TTTTTCTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.28
21 21 0.66
22 2 0.06
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATTTTTCTTTCTTTCACAC
Found at i:34732772 original size:123 final size:123
Alignment explanation
Indices: 34732551--34732774 Score: 315
Period size: 123 Copynumber: 1.8 Consensus size: 123
34732541 GAATTATGTG
* * * * * * *
34732551 AAATGAAATATGGATGTGTATTGATTATTGATTAATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGAATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
34732616 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTGTGTTTGAGCCTTAGTAACGA
* *
34732674 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGAATGTGTGCATGAGCAATTGAATGATACCCGG
34732739 GCTAAGTCCCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTGGAAATTATAT
34732775 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 3 0.03
123 84 0.97
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGAATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTGTGTTTGAGCCTTAGTAACGA
Done.