Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 128 of 255
Found at i:40967676 original size:22 final size:22
Alignment explanation
Indices: 40967648--40967723 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
40967638 AGGTGTGTAT
40967648 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
40967670 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
40967695 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
40967717 ATGTGAT
1 ATGTGAT
40967724 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:40967709 original size:47 final size:47
Alignment explanation
Indices: 40967640--40968033 Score: 644
Period size: 47 Copynumber: 8.4 Consensus size: 47
40967630 GGTGTACAAG
* * *
40967640 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
40967687 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
40967734 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
40967781 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
40967828 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
40967875 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
40967922 GTGTGTATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
40967969 GTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
40968016 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
40968034 TCCCGAAGGG
Statistics
Matches: 326, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 326 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:40967864 original size:22 final size:22
Alignment explanation
Indices: 40967836--40967911 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
40967826 AAGTGTATAT
40967836 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
40967858 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
40967882 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
40967905 ATGTGAT
1 ATGTGAT
40967912 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:40967894 original size:141 final size:141
Alignment explanation
Indices: 40967640--40968033 Score: 725
Period size: 141 Copynumber: 2.8 Consensus size: 141
40967630 GGTGTACAAG
*
40967640 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* *
40967705 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
40967770 TGAATGTGAAA
131 TGAATGTGAAA
40967781 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
40967846 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
40967911 TGAATGTGAAA
131 TGAATGTGAAA
* *
40967922 GTGTGTATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATATGAGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* *
40967987 GCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
40968034 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 246 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (141 bp):
GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGA
TGAATGTGAAA
Found at i:40970278 original size:119 final size:112
Alignment explanation
Indices: 40970158--40970368 Score: 271
Period size: 115 Copynumber: 1.8 Consensus size: 112
40970148 ATGTTGATAT
*
40970158 TTTAAG-TTATATTTGCATGAAATATTATTGTATATATATTATGTAATTTATATTGTTATATTCA
1 TTTAAGATTATATTTGCATGAAATATTA----ATATATATTATGTAATTTATATCGTTAT-TT-A
* * *
40970222 TTATTTTCTATGTTGTATTTTGCATGAAATGTTAATGTATGTACATTTATGTTA
60 TCATTTTCTATATTATA-TTTGCATGAAATGTTAATGTATGTACATTTATGTTA
* * * *
40970276 TTTATGATTATATTTGCATGAAATGTTAATGTATATTATGTAATTTATGTCGTTATTTATCATTT
1 TTTAAGATTATATTTGCATGAAATATTAATATATATTATGTAATTTATATCGTTATTTATCATTT
*
40970341 TCTATATTATATTTGCATGAAGTGTTAA
66 TCTATATTATATTTGCATGAAATGTTAA
40970369 AATATGTATC
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
112 16 0.19
113 15 0.18
114 2 0.02
115 25 0.30
118 5 0.06
119 20 0.24
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (112 bp):
TTTAAGATTATATTTGCATGAAATATTAATATATATTATGTAATTTATATCGTTATTTATCATTT
TCTATATTATATTTGCATGAAATGTTAATGTATGTACATTTATGTTA
Found at i:40981701 original size:53 final size:53
Alignment explanation
Indices: 40981643--40981750 Score: 191
Period size: 53 Copynumber: 2.0 Consensus size: 53
40981633 GGATGGAAGA
*
40981643 GTAAAGACGT-TCGAAATAGGATTCATTTTCATAAACATTTTTCATTATAATAT
1 GTAAAGACGTCT-GAAATAGGATTCATTTTCATAAACATTTTTCATCATAATAT
40981696 GTAAAGACGTCTGAAATAGGATTCATTTTCATAAACATTTTTCATCATAATAT
1 GTAAAGACGTCTGAAATAGGATTCATTTTCATAAACATTTTTCATCATAATAT
40981749 GT
1 GT
40981751 CTATTTAGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 52 0.98
54 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (53 bp):
GTAAAGACGTCTGAAATAGGATTCATTTTCATAAACATTTTTCATCATAATAT
Found at i:40981943 original size:45 final size:42
Alignment explanation
Indices: 40981894--40982815 Score: 173
Period size: 45 Copynumber: 20.6 Consensus size: 42
40981884 GACAGGGAGT
40981894 AGATCAAGGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGC
1 AGATCAA-GATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * * *
40981939 AGATCGAAGAT-GACAGATTTGGCGTCTCTATATTAGA-CGGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACATC--GAAGC
* * * *
40981984 AGATCGAGGATAGTAGATCTGACATTCGTGTGTTTATATTGAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * * * *
40982029 AGATCTA-ATATGACAGATTTTG-CGTCTCTGTATTAGATAGGGAGT
1 AGATCAAGATA-G-CAGA-TCTGACAT-TCTGTTTTACAT-CGAAGC
40982074 AGATCGAAGATAGCAGATCTGACATTCATGTGTTTACATCGAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * * *
40982119 AGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTAGATAGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACAT-CGAAGC
*
40982164 AGATCAAAGATAGCAGATCTGACATTCGTGTATTTACATCGAAGA
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * *
40982209 AGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTAGA-CGGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACATC--GAAGC
* *
40982254 AGATCGAAGATAGCAGATCTGACATTC-G-TATA-GT-GAAGC
1 AGATC-AAGATAGCAGATCTGACATTCTGTTTTACATCGAAGC
* * * * * *
40982293 AGATCGAAGATTATG--GATTTGGCGTCTCTGTATTAGACA-GGGAGC
1 AGATC-AAGA-TA-GCAGATCTGACAT-TCTGT-TT-TACATCGAAGC
*
40982338 AGATCGAAGATAGCAGATCTGACATTCGTGTGTTTATATCGAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * * *
40982383 AGATCGAAGAT-GATAGATTTGGCGTCTCTGTATTAGA-CGGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACATC--GAAGC
* * * *
40982428 GGATCGAAGATAGCAGATCTGACATTCGGGCGTTTACATCAAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TG-TTTTACATCGAAGC
* *** * * *
40982473 AGATCGAAGAT-GACAGATTTGGTGTCTCTGTATTAGA-CGGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACATC--GAAGC
*
40982518 GGATCGAAGATAGCAGATCTGACATTCGTGTATTTACATCGAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * * *
40982563 AGATCGAAGAT-GACAGATTTGGCGTCTCTATATTAGA-CGGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACATC--GAAGC
* * * *
40982608 AAATCGTAGATAGCAGATCTGGCATTCGGGTGTTTACATCGAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * *
40982653 AGATCGAAGAT-GACAGATTTGGA-GTCTCTGTATTAGA-CGGGGAGC
1 AGATC-AAGATAG-CAGATCT-GACAT-TCTGTTTTACATC--GAAGC
* * *
40982698 AGATCGAAGTTAGTAGATCTAACATTCGTGTGTTTACATCGAAGC
1 AGATC-AAGATAGCAGATCTGACATTC-TGT-TTTACATCGAAGC
* * * * * * *
40982743 AGATCGAAGAT-GACAGATTTGGCGTCTCTGTATTAGATGGGGAGC
1 AGATC-AAGATAG-CAGATCTGACAT-TCTGTTTTACAT-CGAAGC
*
40982788 AGATCGAAGATAGCAGATTTGACATTCT
1 AGATC-AAGATAGCAGATCTGACATTCT
40982816 TGAGTTACAG
Statistics
Matches: 631, Mismatches: 164, Indels: 165
0.66 0.17 0.17
Matches are distributed among these distances:
39 21 0.03
40 4 0.01
41 2 0.00
42 2 0.00
43 12 0.02
44 78 0.12
45 441 0.70
46 64 0.10
47 7 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (42 bp):
AGATCAAGATAGCAGATCTGACATTCTGTTTTACATCGAAGC
Found at i:40982002 original size:90 final size:90
Alignment explanation
Indices: 40981857--40982814 Score: 1444
Period size: 90 Copynumber: 10.7 Consensus size: 90
40981847 GTAGATCACC
* * *
40981857 GATGACAGATTTGGCGTCTCTATATTAGACAGGGAGTAGATC-AAGGATAGCAGATCTGACATTC
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA-GATAGCAGATCTGACATTC
40981921 GTGTGTTTACATCGAAGCAGATCGAA
65 GTGTGTTTACATCGAAGCAGATCGAA
* * *
40981947 GATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGATCGAGGATAGTAGATCTGACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
* * *
40982012 TGTGTTTATATTGAAGCAGATCTAA
66 TGTGTTTACATCGAAGCAGATCGAA
* * ** * *
40982037 TATGACAGATTTTGCGTCTCTGTATTAGATAGGGAGTAGATCGAAGATAGCAGATCTGACATTCA
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
40982102 TGTGTTTACATCGAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
** *
40982127 GATGACAGATTTGGCGTCTCTGTATTAGATAGGGAGCAGATCAAAGATAGCAGATCTGACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
* *
40982192 TGTATTTACATCGAAGAAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
40982217 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTC-
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
* *
40982281 ---GTATA-GT-GAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
* ** *
40982301 GATTATGGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
*
40982366 TGTGTTTATATCGAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
* *
40982391 GATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCGGATCGAAGATAGCAGATCTGACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
* * *
40982456 GGCGTTTACATCAAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
* *
40982481 GATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGCGGATCGAAGATAGCAGATCTGACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
*
40982546 TGTATTTACATCGAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
* * * *
40982571 GATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCGTAGATAGCAGATCTGGCATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
*
40982636 GGTGTTTACATCGAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
* * * *
40982661 GATGACAGATTTGGAGTCTCTGTATTAGACGGGGAGCAGATCGAAGTTAGTAGATCTAACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
40982726 TGTGTTTACATCGAAGCAGATCGAA
66 TGTGTTTACATCGAAGCAGATCGAA
* *
40982751 GATGACAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAGCAGATTTGACATTC
1 GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTC
40982815 TTGAGTTACA
Statistics
Matches: 785, Mismatches: 76, Indels: 14
0.90 0.09 0.02
Matches are distributed among these distances:
84 72 0.09
85 1 0.00
86 3 0.00
88 4 0.01
89 1 0.00
90 703 0.90
91 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (90 bp):
GATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
TGTGTTTACATCGAAGCAGATCGAA
Found at i:40982693 original size:444 final size:447
Alignment explanation
Indices: 40981857--40982814 Score: 1447
Period size: 444 Copynumber: 2.1 Consensus size: 447
40981847 GTAGATCACC
* *
40981857 GATGACAGATTTGGCGTCTCTATATTAGACAGGGAGTAGATC-AAGGATAGCAGATCTGACATTC
1 GATGACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAA-GATAGCAGATCTGACATTC
40981921 GTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAG
65 GTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAG
* * * * * ** * * *
40981986 ATCGAGGATAGTAGATCTGACATTCGTGTGTTTATATTGAAGCAGATCTAATATGACAGATTTTG
130 ATCGAAGATAGCAGATCTGACATTCGGGCGTTTACATCAAAGCAGATCGAAGATGACAGATTTGG
* * *
40982051 CGTCTCTGTATTAGATAGGGAGTAGATCGAAGATAGCAGATCTGACATTCATGTGTTTACATCGA
195 CGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTATTTACATCGA
* * *
40982116 AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGATAGGGAGCAGATCAAAGATAGCAGA
260 AGCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACAGGGAGCAAATCAAAGATAGCAGA
* *
40982181 TCTGACATTCGTGTATTTACATCGAAGAAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGA
325 TCTGACATTCGGGTATTTACATCGAAGAAGATCGAAGATGACAGATTTGGAGTCTCTGTATTAGA
* *
40982246 CGGGGAGCAGATCGAAGATAGCAGATCTGACATTC-GTATA-GT-GAAGCAGATCGAA
390 CGGGGAGCAGATCGAAGATAGCAGATCTAACATTCGGTATACATCGAAGCAGATCGAA
* **
40982301 GATTATGGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
1 GATGACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
* * * *
40982366 TGTGTTTATATCGAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGGGGAGCGGA
66 TGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGA
*
40982431 TCGAAGATAGCAGATCTGACATTCGGGCGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGT
131 TCGAAGATAGCAGATCTGACATTCGGGCGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGC
* * *
40982496 GTCTCTGTATTAGACGGGGAGCGGATCGAAGATAGCAGATCTGACATTCGTGTATTTACATCGAA
196 GTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTATTTACATCGAA
* **
40982561 GCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAAATCGTAGATAGCAGAT
261 GCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACAGGGAGCAAATCAAAGATAGCAGAT
* * *
40982626 CTGGCATTCGGGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGAGTCTCTGTATTAGAC
326 CTGACATTCGGGTATTTACATCGAAGAAGATCGAAGATGACAGATTTGGAGTCTCTGTATTAGAC
* * *
40982691 GGGGAGCAGATCGAAGTTAGTAGATCTAACATTCGTGTGTTTACATCGAAGCAGATCGAA
391 GGGGAGCAGATCGAAGATAGCAGATCTAACATTC--G-GTATACATCGAAGCAGATCGAA
** *
40982751 GATGACAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAGCAGATTTGACATTC
1 GATGACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTC
40982815 TTGAGTTACA
Statistics
Matches: 459, Mismatches: 48, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
444 381 0.83
445 2 0.00
448 4 0.01
449 1 0.00
450 71 0.15
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (447 bp):
GATGACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCG
TGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACGGGGAGCAGA
TCGAAGATAGCAGATCTGACATTCGGGCGTTTACATCAAAGCAGATCGAAGATGACAGATTTGGC
GTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTATTTACATCGAA
GCAGATCGAAGATGACAGATTTGGCGTCTCTATATTAGACAGGGAGCAAATCAAAGATAGCAGAT
CTGACATTCGGGTATTTACATCGAAGAAGATCGAAGATGACAGATTTGGAGTCTCTGTATTAGAC
GGGGAGCAGATCGAAGATAGCAGATCTAACATTCGGTATACATCGAAGCAGATCGAA
Found at i:40983984 original size:13 final size:14
Alignment explanation
Indices: 40983958--40983987 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
40983948 TTTATTATTT
40983958 ATATATTGTTTTAA
1 ATATATTGTTTTAA
40983972 ATATATT-TTTTAA
1 ATATATTGTTTTAA
40983985 ATA
1 ATA
40983988 CCTCATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
ATATATTGTTTTAA
Found at i:40986865 original size:79 final size:81
Alignment explanation
Indices: 40986723--40986905 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
40986713 TACTCGTTCA
* * * *
40986723 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
40986787 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
40986803 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
40986865 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
40986882 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
40986906 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:40986905 original size:40 final size:40
Alignment explanation
Indices: 40986702--40986905 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
40986692 CGGAATTTAA
** *
40986702 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
40986742 CCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40986782 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
40986821 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
40986861 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
40986901 CCGGA
1 CCGGA
40986906 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 94 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:40989632 original size:67 final size:67
Alignment explanation
Indices: 40989520--40989650 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 67
40989510 CCTTGCTAGT
* *
40989520 GAGGTAGTTGTCTGAGGTATATCATCGTTTACATAAACATCAGAAC-AGTTCAAAGACATCACGT
1 GAGGTAGTTGTCTGAGGTATATCATCGTTTACACAAACATCAGAACGA-CTCAAAGACATCACGT
40989584 AGG
65 AGG
*
40989587 GAGGTAGTTGTGTGAGGTATATCATCGTTTACACAAA-AGGT-AGAACGACTCAAAGACATCACG
1 GAGGTAGTTGTCTGAGGTATATCATCGTTTACACAAACA--TCAGAACGACTCAAAGACATCACG
40989650 T
64 T
40989651 CTACTGGTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
66 1 0.02
67 55 0.95
68 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (67 bp):
GAGGTAGTTGTCTGAGGTATATCATCGTTTACACAAACATCAGAACGACTCAAAGACATCACGTA
GG
Found at i:40992307 original size:40 final size:40
Alignment explanation
Indices: 40992252--40992548 Score: 359
Period size: 40 Copynumber: 7.5 Consensus size: 40
40992242 CGGATGATAA
* * *
40992252 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
** * *
40992292 CCGGGCTAAGTCCCGAAGGCATTTGTTTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40992332 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40992372 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40992412 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
40992452 CCGGGATAAGACCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
40992492 CCAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
40992531 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
40992549 TACTTGGCTT
Statistics
Matches: 226, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 15 0.07
39 15 0.07
40 196 0.87
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40994262 original size:24 final size:25
Alignment explanation
Indices: 40994235--40994289 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
40994225 AAATTATTCA
40994235 ATTTATTTTATTT-TAGATATAAAT
1 ATTTATTTTATTTATAGATATAAAT
* ** *
40994259 ATTT-GTTTATTTATATTTATATAT
1 ATTTATTTTATTTATAGATATAAAT
40994283 ATTTATT
1 ATTTATT
40994290 CGCTAACATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 7 0.29
24 16 0.67
25 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
ATTTATTTTATTTATAGATATAAAT
Found at i:41002880 original size:7 final size:7
Alignment explanation
Indices: 41002868--41002892 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41002858 TGAGAGCATT
41002868 GATATGA
1 GATATGA
41002875 GATATGA
1 GATATGA
41002882 GATATGA
1 GATATGA
41002889 GATA
1 GATA
41002893 GTAGTGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:41005932 original size:26 final size:26
Alignment explanation
Indices: 41005896--41005945 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
41005886 ATTAGAAAAG
41005896 TTAACTTGTATATAATTTGAGGACTA
1 TTAACTTGTATATAATTTGAGGACTA
*
41005922 TTAACTTGTATATAATTTGGGGAC
1 TTAACTTGTATATAATTTGAGGAC
41005946 CATAACCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (26 bp):
TTAACTTGTATATAATTTGAGGACTA
Found at i:41012970 original size:46 final size:46
Alignment explanation
Indices: 41012920--41013095 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
41012910 TGATTGAGCA
41012920 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41012966 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41013011 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41013059 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41013096 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41013076 original size:93 final size:93
Alignment explanation
Indices: 41012917--41013088 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
41012907 GGATGATTGA
* *
41012917 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
41012982 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41013010 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
41013074 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
41013089 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41020535 original size:46 final size:46
Alignment explanation
Indices: 41020485--41020660 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
41020475 TGATTGAGCA
41020485 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41020531 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41020576 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41020624 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41020661 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41020641 original size:93 final size:93
Alignment explanation
Indices: 41020482--41020653 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
41020472 GGATGATTGA
*
41020482 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
41020547 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41020575 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
41020639 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
41020654 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41023185 original size:49 final size:47
Alignment explanation
Indices: 41023074--41023250 Score: 162
Period size: 49 Copynumber: 3.7 Consensus size: 47
41023064 CGAGATGTAT
* * * *
41023074 CAGTGTAAGACCATGTTTGGGACATGGGATCGGCACGGATATGTGA-GAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTC-G--ATG-GATGAGC
* * * * *
41023124 TAGTGTAA-ACCATGTCTGGGACATGGCGTTGACCTCGATTTTGAT-AGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGA--TGGATGAGC
* *
41023172 CAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGGATGAGC
*
41023219 CAGTGTAAGACCATGTGTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
41023251 GCATTATACC
Statistics
Matches: 104, Mismatches: 17, Indels: 15
0.76 0.12 0.11
Matches are distributed among these distances:
46 4 0.04
47 34 0.33
48 15 0.14
49 42 0.40
50 9 0.09
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGGATGAGC
Found at i:41023232 original size:145 final size:138
Alignment explanation
Indices: 41022890--41023253 Score: 376
Period size: 140 Copynumber: 2.6 Consensus size: 138
41022880 ATTTGTGTGC
* * *
41022890 CAGTGTAAGACATTTCTGGGACATGCATCAGCCAC-ATTATGAGAGCCAGTGTAAGACCATGTCT
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT--GAGCCAGTGTAAGACCATGTCT
* ** *
41022954 GGGACGTGGCATCGGCATTGAGATGAGAGCTAATATAAAACATGTCTGGGACATGCATTGGCCTC
63 GGGACATGGCATCGGCACGGAGATGAGAGCTAATATAAAACATGTCTGGGACATGCATTGACCTC
41023019 GAGATGGAAGT
128 GAGATGGAAGT
* * * *
41023030 CAGTGTGAGATATGTCTGGGACATGCATCAGCTACGAGATGTA-TCAGTGTAAGACCATGTTTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATG-AGCCAGTGTAAGACCATGTCTGG
* * * * * *
41023094 GACATGGGATCGGCACGGATATGTGAGAGCTAGTGTAAACCATGTCTGGGACATGGCGTTGACCT
65 GACATGGCATCGGCACGGAGA--TGAGAGCTAATATAAAACATGTCTGGGACAT-GCATTGACCT
** *
41023159 CGATTTTGATAGT
127 CGAGATGGA-AGT
* *
41023172 CAGTGTAAGACCATGTTTGGGACATGGCATC-GACT-TGATGGATGAGCCAGTGTAAGACCATGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CTACGA--GATGAGCCAGTGTAAGACCATGT
*
41023235 GTGGGACATGGCATCGGCA
61 CTGGGACATGGCATCGGCA
41023254 TTATACCCTA
Statistics
Matches: 185, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
138 36 0.19
139 1 0.01
140 61 0.33
141 15 0.08
142 12 0.06
143 15 0.08
144 8 0.04
145 37 0.20
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCACGGAGATGAGAGCTAATATAAAACATGTCTGGGACATGCATTGACCTCGAG
ATGGAAGT
Found at i:41028312 original size:16 final size:15
Alignment explanation
Indices: 41028274--41028321 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
41028264 ATATATATAT
*
41028274 ATATATATATTACAA
1 ATATAAATATTACAA
*
41028289 TTAT-AATATTACATA
1 ATATAAATATTACA-A
*
41028304 ATATAAATATTATAA
1 ATATAAATATTACAA
41028319 ATA
1 ATA
41028322 ATTATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 8 0.30
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAAATATTACAA
Found at i:41033779 original size:22 final size:21
Alignment explanation
Indices: 41033729--41033779 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
41033719 ATTAAAATTT
41033729 TATAAAT-TAAAAAATAATAA
1 TATAAATATAAAAAATAATAA
* *
41033749 TA-ATTATATTAAAAATAAATAA
1 TATA-AATATAAAAAAT-AATAA
41033771 TATAAATAT
1 TATAAATAT
41033780 CATTATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 7 0.29
22 11 0.46
23 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAAATATAAAAAATAATAA
Found at i:41038990 original size:38 final size:37
Alignment explanation
Indices: 41038932--41039011 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
41038922 AAGAAGGAGT
41038932 TAAAAAACTAAAATGGTTTTTTGTATGAATTTCGTTA
1 TAAAAAACTAAAATGGTTTTTTGTATGAATTTCGTTA
41038969 TAAAAAACTAAAATGGTTTTTTGTATGAATTTCGTTA
1 TAAAAAACTAAAATGGTTTTTTGTATGAATTTCGTTA
*
41039006 TCAAAA
1 TAAAAA
41039012 CCCATTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (37 bp):
TAAAAAACTAAAATGGTTTTTTGTATGAATTTCGTTA
Found at i:41043878 original size:39 final size:40
Alignment explanation
Indices: 41043668--41043898 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
41043658 GGATATAACT
* ** *
41043668 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
41043708 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
41043748 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
41043788 ATTCGCACAAATGCCTTCGGGACTTATCTCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
41043828 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
41043867 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
41043899 TTTTCATCCA
Statistics
Matches: 171, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 34 0.20
40 135 0.79
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:41048897 original size:25 final size:25
Alignment explanation
Indices: 41048863--41048939 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
41048853 TGATTATGGG
*
41048863 AGTCTGCTAGCCAAGTTGCAAGCTA
1 AGTCTGCTAGCCAAGTTGCAAGTTA
41048888 AGTCTGCTAGCCAAGTTGCAAGTTA
1 AGTCTGCTAGCCAAGTTGCAAGTTA
41048913 AGTCTGCTAGCCAAGTTGCAAGTTA
1 AGTCTGCTAGCCAAGTTGCAAGTTA
41048938 AG
1 AG
41048940 CCGACTAAGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (25 bp):
AGTCTGCTAGCCAAGTTGCAAGTTA
Found at i:41052840 original size:56 final size:56
Alignment explanation
Indices: 41052754--41052918 Score: 242
Period size: 56 Copynumber: 2.9 Consensus size: 56
41052744 CATGGGATCG
*
41052754 ATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCA
* *
41052810 ATATATGTGCGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCG
1 ATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCA
* * ***
41052866 ATATATGTGTGCGAGTAAGACCCTGTCTGGGACAG-TGGCATCGATATGTGATT
1 ATATATGTGTGCGAGTAAGACCATGTTTAATAC-GTTGGCATCGATATGTGATT
41052919 ACATGTAAGA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
56 98 0.99
57 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCCA
Found at i:41053223 original size:15 final size:15
Alignment explanation
Indices: 41053203--41053234 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
41053193 TATTAAGGTT
41053203 TGATTAATGAGTATA
1 TGATTAATGAGTATA
41053218 TGATTAATGAGTATA
1 TGATTAATGAGTATA
41053233 TG
1 TG
41053235 TAAACAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (15 bp):
TGATTAATGAGTATA
Found at i:41056107 original size:16 final size:17
Alignment explanation
Indices: 41056078--41056109 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41056068 AAGGTCACTT
41056078 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
41056095 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
41056110 GCTAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:41058703 original size:23 final size:23
Alignment explanation
Indices: 41058677--41058746 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
41058667 CGAATTTGAC
41058677 TTTTGAGGAGGAGCCAGTTCAGA
1 TTTTGAGGAGGAGCCAGTTCAGA
* * ** *
41058700 TTTT-A-GACGCGATA-TT-AAA
1 TTTTGAGGAGGAGCCAGTTCAGA
41058719 GTTTTGAGGAGGAGCCAGTTCAGA
1 -TTTTGAGGAGGAGCCAGTTCAGA
41058743 TTTT
1 TTTT
41058747 AGACGCGATA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 6 0.19
22 6 0.19
23 10 0.31
24 2 0.06
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (23 bp):
TTTTGAGGAGGAGCCAGTTCAGA
Found at i:41058725 original size:43 final size:43
Alignment explanation
Indices: 41058677--41058758 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
41058667 CGAATTTGAC
41058677 TTTTGAGGAGGAGCCAGTTCAGATTTTAGACGCGATATTAAAG
1 TTTTGAGGAGGAGCCAGTTCAGATTTTAGACGCGATATTAAAG
41058720 TTTTGAGGAGGAGCCAGTTCAGATTTTAGACGCGATATT
1 TTTTGAGGAGGAGCCAGTTCAGATTTTAGACGCGATATT
41058759 GTTCATACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (43 bp):
TTTTGAGGAGGAGCCAGTTCAGATTTTAGACGCGATATTAAAG
Found at i:41059855 original size:17 final size:17
Alignment explanation
Indices: 41059833--41059877 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
41059823 GCCACACGGG
41059833 CGTGTGGTCACCCATGT
1 CGTGTGGTCACCCATGT
* *
41059850 CGTGTGGCCACCTATGT
1 CGTGTGGTCACCCATGT
41059867 CGTGTGGTCAC
1 CGTGTGGTCAC
41059878 ACACAGCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.11, C:0.29, G:0.31, T:0.29
Consensus pattern (17 bp):
CGTGTGGTCACCCATGT
Found at i:41060482 original size:13 final size:12
Alignment explanation
Indices: 41060463--41060501 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
41060453 AGGATTATGA
41060463 TTATCTGATCTG
1 TTATCTGATCTG
41060475 TATATCTGACTCTG
1 T-TATCTGA-TCTG
41060489 TTATCTGAATCTG
1 TTATCTG-ATCTG
41060502 AAATGGGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 17 0.71
14 6 0.25
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (12 bp):
TTATCTGATCTG
Found at i:41063484 original size:58 final size:60
Alignment explanation
Indices: 41063366--41063491 Score: 150
Period size: 58 Copynumber: 2.1 Consensus size: 60
41063356 TTCCACTTTA
* * * *
41063366 GGGCCTGAACTTTTTTTTGGTCCATGTTAAGCCCTGAACTTGGTAATTGTTCCCACATTG
1 GGGCCTGAACTTTTTTTTGGTCCAAGTTAAGCACTGAACTTGGCAATTGTTCACACATTG
* * * **
41063426 GGGCTTGAAC-TTTTTTT-GTCCAAGTTAATCACTGAGCTTGGCAATTGTTCACGTATT-
1 GGGCCTGAACTTTTTTTTGGTCCAAGTTAAGCACTGAACTTGGCAATTGTTCACACATTG
41063483 GGGCCTGAA
1 GGGCCTGAA
41063492 ATTTAGGGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
57 8 0.14
58 32 0.57
59 7 0.12
60 9 0.16
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (60 bp):
GGGCCTGAACTTTTTTTTGGTCCAAGTTAAGCACTGAACTTGGCAATTGTTCACACATTG
Found at i:41073196 original size:48 final size:46
Alignment explanation
Indices: 41073124--41073442 Score: 271
Period size: 48 Copynumber: 6.7 Consensus size: 46
41073114 TATGTGTGCT
*
41073124 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGACATGAGAGCC
1 AGTGTAAGACCATGT-TAGGACATGGCATCGGC-ATGACATGAGAGCC
* * * * **
41073172 AGTGTAAGACTATGTTTGGAACATGGCATCAGCAATGTCATGAGAGTT
1 AGTGTAAGACCATGTTAGG-ACATGGCATCGGC-ATGACATGAGAGCC
* * * *
41073220 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGT-TAGGACATGGCATCGGCA-TGACATGAGAGCC
* * * *
41073268 AGTGTAAGACCATGTCTGGGACATGACATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACCATGT-TAGGACATGGCATCGG-CATGA-CATGAGAGCC
* * *
41073316 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGT-TAGGACATGGCATCGGCA-TGACATGAGAGCC
* * * * *
41073364 AGTGTAAAACCATGTCTAGGACATGGCATCGACCTTGACAAGTGAGCC
1 AGTGTAAGACCATGT-TAGGACATGGCATCG-GCATGACATGAGAGCC
* **
41073412 AGTATAAGACCATGTTCAAAACATGGCATCG
1 AGTGTAAGACCATGTT-AGGACATGGCATCG
41073443 ACAATTCACC
Statistics
Matches: 224, Mismatches: 38, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
47 8 0.04
48 209 0.93
49 7 0.03
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTTAGGACATGGCATCGGCATGACATGAGAGCC
Found at i:41073292 original size:96 final size:96
Alignment explanation
Indices: 41073121--41073393 Score: 354
Period size: 96 Copynumber: 2.8 Consensus size: 96
41073111 TGATATGTGT
* * *
41073121 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TATGACATGAGAGCCAGTGTAAGACTAT
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCAT-TGACATGAGAGCTAGTGTAAGACCAT
* *
41073185 GTTTGGAACATGGCATCAG-CA-ATGTCATGAGA
65 GTCTGGGACATGGCATCAGCCACAT-T-ATGAGA
* * * *
41073217 GTTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACATGAGAGCTAGTGTAAGACCATG
* *
41073282 TCTGGGACATGACATCGGCCACATTATGAGA
66 TCTGGGACATGGCATCAGCCACATTATGAGA
* * * *
41073313 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAAACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACATGAGAGCTAGTGTAAGACCATG
*
41073378 TCTAGGACATGGCATC
66 TCTGGGACATGGCATC
41073394 GACCTTGACA
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
96 148 0.96
97 4 0.03
98 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACATGAGAGCTAGTGTAAGACCATG
TCTGGGACATGGCATCAGCCACATTATGAGA
Found at i:41073376 original size:144 final size:144
Alignment explanation
Indices: 41073111--41073426 Score: 411
Period size: 144 Copynumber: 2.2 Consensus size: 144
41073101 GACATTTGGG
* * * *
41073111 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGACATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATCACATGAGAGCCAGTG
* * * * * *
41073176 TAAGACTATGTTTGGAACATGGCATCAGCAATGTCATGAGAGTTAGTGTAAGACCATGTCTAGGA
66 TAAGACCATGTTAGGAACATGGCATCAGCAATGACACGAGAGCTAGTGTAAAACCATGTCTAGGA
*
41073241 CATGGCATCGGCAT
131 CATGGCATCGACAT
* *
41073255 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCA-CATTATGAGAGCCAGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATCA-CATGAGAGCCAGT
* * *
41073319 GTAAGACCATGTCTAGG-ACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAAACCATGTCTAG
65 GTAAGACCATGT-TAGGAACATGGCATCAGCAATGACACGAGAGCTAGTGTAAAACCATGTCTAG
*
41073383 GACATGGCATCGACCT
129 GACATGGCATCGACAT
* * * *
41073399 TGACAAGTGAGCCAGTATAAGACCATGT
1 TGATATGTGAGCTAGTGTAAGACCATGT
41073427 TCAAAACATG
Statistics
Matches: 149, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
143 1 0.01
144 145 0.97
145 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (144 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCCATCACATGAGAGCCAGTG
TAAGACCATGTTAGGAACATGGCATCAGCAATGACACGAGAGCTAGTGTAAAACCATGTCTAGGA
CATGGCATCGACAT
Found at i:41073394 original size:96 final size:96
Alignment explanation
Indices: 41073124--41073426 Score: 344
Period size: 96 Copynumber: 3.2 Consensus size: 96
41073114 TATGTGTGCT
* * *
41073124 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TATGACATGAGAGCCAGTGTAAGACTATGT-
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAT-TGACATGAGAGCTAGTGTAAGACCATGTC
* * **
41073187 TTGGAACATGGCATCAGCAATGTCATGAGAGTT
65 TAGG-ACATGGCATCGGCAATGTCATGAGAGCC
* * *
41073220 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACATGAGAGCTAGTGTAAGACCATGTCT
* *
41073285 GGGACATGACATCGGCCACAT-T-ATGAGAGCC
66 AGGACATGGCATCGG-CA-ATGTCATGAGAGCC
* * *
41073316 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAAACCATGTCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACATGAGAGCTAGTGTAAGACCATGTCT
* ** * * *
41073381 AGGACATGGCATCGACCTTGACAAGTGAGCC
66 AGGACATGGCATCGGCAATGTCATGAGAGCC
*
41073412 AGTATAAGACCATGT
1 AGTGTAAGACCATGT
41073427 TCAAAACATG
Statistics
Matches: 176, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
94 1 0.01
95 1 0.01
96 165 0.94
97 7 0.04
98 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACATGAGAGCTAGTGTAAGACCATGTCT
AGGACATGGCATCGGCAATGTCATGAGAGCC
Found at i:41075033 original size:6 final size:6
Alignment explanation
Indices: 41075015--41075110 Score: 90
Period size: 6 Copynumber: 15.8 Consensus size: 6
41075005 AAGAAACATT
* *
41075015 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGGG A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-GA ATCAGA ATCAGA
* * *
41075063 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
41075111 GTAACCGAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
5 5 0.07
6 62 0.84
7 6 0.08
8 1 0.01
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:41075090 original size:31 final size:31
Alignment explanation
Indices: 41075024--41075122 Score: 146
Period size: 31 Copynumber: 3.2 Consensus size: 31
41075014 TATCAGAACT
* * *
41075024 AGAATCAGAATCAGAATCAGAATTAGG-GAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
41075054 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
*
41075085 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
*
41075116 CGAATCA
1 AGAATCA
41075123 AAAATTAGAA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 25 0.40
31 38 0.60
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:41075312 original size:27 final size:26
Alignment explanation
Indices: 41075270--41075371 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
41075260 GCTCAGTTAT
* * *
41075270 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
41075297 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
41075323 CAAATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
41075351 CAGATAATGTAGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
41075372 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.80
28 7 0.11
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:41075558 original size:22 final size:23
Alignment explanation
Indices: 41075530--41075591 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
41075520 GCAAATACGT
*
41075530 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCATAATGCAGG
* *
41075552 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAATGCAGG
*
41075574 TTGACACAAAGCCATAAT
1 TTGGCACAAAGCCATAAT
41075592 TAGAAGGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TTGGCACAAAGCCATAATGCAGG
Found at i:41076076 original size:27 final size:27
Alignment explanation
Indices: 41076021--41076188 Score: 157
Period size: 27 Copynumber: 6.3 Consensus size: 27
41076011 GGGGCAAAAT
* * *
41076021 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGAGGTATTTC
*
41076047 GGTAATTCCACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* *
41076074 GGTAATTCTACCCTAAAGGGGTA-TTC
1 GGTAATTCTACCCTACAGAGGTATTTC
* * *
41076100 TGGTAATTCTACCTTATAGGGGTATTT-
1 -GGTAATTCTACCCTACAGAGGTATTTC
*
41076127 GAGTAATTCTACCCTACAGGGGTATTTC
1 G-GTAATTCTACCCTACAGAGGTATTTC
* *
41076155 GAG-ATTTCTACTCTACA-AGGGTATTTC
1 G-GTAATTCTACCCTACAGA-GGTATTTC
41076182 GGTAATT
1 GGTAATT
41076189 TTGTAAATCG
Statistics
Matches: 120, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
26 19 0.16
27 96 0.80
28 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGAGGTATTTC
Found at i:41076239 original size:27 final size:27
Alignment explanation
Indices: 41076209--41076729 Score: 612
Period size: 27 Copynumber: 19.3 Consensus size: 27
41076199 AGGGTAAAAC
* * * *
41076209 GGTAATTCTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** * *
41076236 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
** * ***
41076263 AATAATTTTATAGGTCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* **
41076290 AGTAATTTTACAAA-TTAGGGATATTTT
1 GGTAATTTTACAAACCAAGGG-TATTTT
* *
41076317 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
41076344 GATAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
41076371 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
41076398 GGTAATTTTATAAACAAAAGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
41076425 AGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
41076452 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
41076479 GGTAATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
41076506 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
41076533 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
41076560 GGTAATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
41076587 AGTAACTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
41076614 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** *
41076641 GGTAATTTTACAAATTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* * *
41076668 GGTGATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
41076695 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
41076722 GGTAATTT
1 GGTAATTT
41076730 GGTAAACTAA
Statistics
Matches: 419, Mismatches: 73, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.01
27 411 0.98
28 4 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAACCAAGGGTATTTT
Found at i:41076295 original size:81 final size:81
Alignment explanation
Indices: 41076209--41076729 Score: 677
Period size: 81 Copynumber: 6.4 Consensus size: 81
41076199 AGGGTAAAAC
* * * * * * * * *
41076209 GGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTA
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAA-ACAAAGGGTATTTTAGTAATTTTA
* ***
41076273 TAGGTCAAGGGTATTTT
65 CAAACCAAGGGTATTTT
* ** * * *
41076290 AGTAATTTTACAAATTAGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTT-GATAATTTTA
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAG-TAATTTTA
41076354 CAAACCAAGGGTATTTT
65 CAAACCAAGGGTATTTT
* *
41076371 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTAC
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTAC
41076436 AAACCAAGGGTATTTT
66 AAACCAAGGGTATTTT
* *
41076452 GGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTAC
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTAC
*
41076517 AAACCAGGGGTATTTT
66 AAACCAAGGGTATTTT
* *
41076533 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAACTTTAC
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTAC
*
41076598 AAACCAGGGGTATTTT
66 AAACCAAGGGTATTTT
* * ** * * * *
41076614 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGTGATTTTAT
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTAC
*
41076679 AAACCAATGGTATTTT
66 AAACCAAGGGTATTTT
*
41076695 AGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
41076730 GGTAAACTAA
Statistics
Matches: 393, Mismatches: 44, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
80 1 0.00
81 391 0.99
82 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTAC
AAACCAAGGGTATTTT
Found at i:41078687 original size:6 final size:6
Alignment explanation
Indices: 41078669--41078765 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
41078659 AAGAAACATT
* *
41078669 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
41078718 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
41078766 GTAACCGAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:41078714 original size:31 final size:31
Alignment explanation
Indices: 41078678--41078788 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
41078668 TATCAGAACT
* * * *
41078678 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
41078709 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
41078740 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
41078771 CGAATCTAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
41078789 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 63 0.85
32 11 0.15
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:41078967 original size:27 final size:27
Alignment explanation
Indices: 41078925--41078999 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
41078915 GCTCAGTTAT
* * * *
41078925 CAGATATTGTGACAGAGTCACTAGATA
1 CAGATATTGTGGCAGAGCCACCAGAAA
41078952 CAGATATTGTGGCAGAGCCACCAGAAA
1 CAGATATTGTGGCAGAGCCACCAGAAA
* *
41078979 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
41079000 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:41079704 original size:27 final size:27
Alignment explanation
Indices: 41079648--41079814 Score: 137
Period size: 27 Copynumber: 6.2 Consensus size: 27
41079638 GGGCAAAATG
* * * *
41079648 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGAGGTATTTCA
*
41079674 GTAATTCCACCCTACAGAGGTATTTCA
1 GTAATTCTACCCTACAGAGGTATTTCA
* * *
41079701 GTAATTCTACCCTAAAGGGGTA-TTCTG
1 GTAATTCTACCCTACAGAGGTATTTC-A
* * * *
41079728 GTAATTCTACCTTATAGGGGTATTTGA
1 GTAATTCTACCCTACAGAGGTATTTCA
41079755 GTAATTCTACCCTACATG-GGTATTTCGA
1 GTAATTCTACCCTACA-GAGGTATTTC-A
* *
41079783 G-ATTTCTACCCTACA-AGGGTATTTCG
1 GTAATTCTACCCTACAGA-GGTATTTCA
41079809 GTAATT
1 GTAATT
41079815 TTGTAAATCG
Statistics
Matches: 114, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
26 17 0.15
27 92 0.81
28 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGAGGTATTTCA
Found at i:41079732 original size:54 final size:55
Alignment explanation
Indices: 41079665--41079814 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 55
41079655 TACCCCACAA
41079665 GGTA-TCTCGGTAATTCCACCCTACAGAGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTCTCGGTAATTCCACCCTACAGAGGTATTTCAGTAATTCTACCCTAAAGG
* * * * * * *
41079719 GGTATTCT-GGTAATTCTACCTTATAGGGGTATTTGAGTAATTCTACCCTACATG
1 GGTATTCTCGGTAATTCCACCCTACAGAGGTATTTCAGTAATTCTACCCTAAAGG
* * *
41079773 GGTATT-TCGAG-ATTTCTACCCTACA-AGGGTATTTCGGTAATT
1 GGTATTCTCG-GTAATTCCACCCTACAGA-GGTATTTCAGTAATT
41079815 TTGTAAATCG
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.01
54 74 0.94
55 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (55 bp):
GGTATTCTCGGTAATTCCACCCTACAGAGGTATTTCAGTAATTCTACCCTAAAGG
Found at i:41079865 original size:27 final size:26
Alignment explanation
Indices: 41079796--41079868 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
41079786 TTCTACCCTA
*
41079796 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTT-GGTAATTCTGTAAAT
* ***
41079823 CGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGT-ATTTGGTAATTCTGTAAAT
41079850 CAAGGGTACTTTGGTAATT
1 CAAGGGTA-TTTGGTAATT
41079869 TTACAAGTCG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.34
Consensus pattern (26 bp):
CAAGGGTATTTGGTAATTCTGTAAAT
Found at i:41079882 original size:27 final size:26
Alignment explanation
Indices: 41079850--41080269 Score: 392
Period size: 27 Copynumber: 15.6 Consensus size: 26
41079840 TTCTGTAAAT
* *
41079850 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAA-A
* *** **
41079877 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACA-AA
* ** * *
41079904 CGAGGGTATTTCAGTAATTTCATAAA
1 CAAGGGTATTTTGGTAATTTTACAAA
**
41079930 TTAGGGATATTTTGGTAATTTTACAAA
1 CAAGGG-TATTTTGGTAATTTTACAAA
* *
41079957 CTAGGGGTATTTTGATAATTTTACAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
41079984 CCAAGGGTATTTTGGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
41080011 CTAGGGGTATTTTGGTAATTTTATAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
* *
41080038 CAAAAGGTATTTTAGTAATTTTACAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
*
41080065 CCAGGGGTATTTTGGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
41080092 CCAGGGGTATTTTGGTAATTTTATAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
41080119 CAAAAGGTA-TTTAGTAATTTTACAAA
1 C-AAGGGTATTTTGGTAATTTTACAAA
* *
41080145 CCAGGGGTATTTTGGTAATTTTATAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
41080172 CCAAGGGTATTTTGGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* * *
41080199 CCAGGGGTATTTTGGTGATTTTATAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
*
41080226 CCAAGGGTATTTTAGTAATTTTACAAA
1 -CAAGGGTATTTTGGTAATTTTACAAA
* *
41080253 CCAGGGGTTTTTTGGTA
1 -CAAGGGTATTTTGGTA
41080270 GTTTGGTAAA
Statistics
Matches: 330, Mismatches: 54, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
26 26 0.08
27 299 0.91
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (26 bp):
CAAGGGTATTTTGGTAATTTTACAAA
Found at i:41079991 original size:81 final size:81
Alignment explanation
Indices: 41079853--41080269 Score: 471
Period size: 81 Copynumber: 5.2 Consensus size: 81
41079843 TGTAAATCAA
* * * ** *** * **
41079853 GGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAA-ACAAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTG
* * *
41079917 GTAATTTCATAAATTAG
65 GTAATTTTACAAACTAG
* *
41079934 GGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
41079999 TAATTTTACAAACTAG
66 TAATTTTACAAACTAG
* ** *
41080015 GGGTATTTTGGTAATTTTATAAACAAAAGGTATTTT-AGTAATTTTACAAACCAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGA-TAATTTTACAAACCAAGGGTATTTTG
*
41080079 GTAATTTTACAAACCAG
65 GTAATTTTACAAACTAG
* ** * *
41080096 GGGTATTTTGGTAATTTTATAAACAAAAGGTATTTAG-TAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
* * *
41080160 TAATTTTATAAACCAA
66 TAATTTTACAAACTAG
* * * * *
41080176 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
*
41080241 TAATTTTACAAACCAG
66 TAATTTTACAAACTAG
*
41080257 GGGTTTTTTGGTA
1 GGGTATTTTGGTA
41080270 GTTTGGTAAA
Statistics
Matches: 295, Mismatches: 37, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 76 0.26
81 219 0.74
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGG
TAATTTTACAAACTAG
Found at i:41080280 original size:27 final size:27
Alignment explanation
Indices: 41079907--41080269 Score: 440
Period size: 27 Copynumber: 13.5 Consensus size: 27
41079897 TACAGGTCGA
** * **
41079907 GGGTATTTCAGTAATTTCATAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
41079934 GGATATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
41079961 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
41079988 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
41080015 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
41080042 AGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
*
41080069 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
41080096 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* * *
41080123 AGGTA-TTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
*
41080149 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
*
41080176 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
41080203 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAG
* *
41080230 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAG
*
41080257 GGGTTTTTTGGTA
1 GGGTATTTTGGTA
41080270 GTTTGGTAAA
Statistics
Matches: 289, Mismatches: 46, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
26 21 0.07
27 268 0.93
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAG
Found at i:41083449 original size:37 final size:37
Alignment explanation
Indices: 41083399--41083472 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
41083389 GATCGATGTC
*
41083399 GTTGTGATTAGCCAAATG-TAT-TGGCTTATAATGATTT
1 GTTGTGATTAGCC--ATGAGATGTGGCTTATAATGATTT
41083436 GTTGT-ATGTAGCCATGAGATGTGGCTTATAATGATTT
1 GTTGTGAT-TAGCCATGAGATGTGGCTTATAATGATTT
41083473 TGGCTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
35 3 0.09
36 4 0.12
37 26 0.79
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGTGATTAGCCATGAGATGTGGCTTATAATGATTT
Found at i:41090678 original size:76 final size:78
Alignment explanation
Indices: 41090598--41090748 Score: 189
Period size: 76 Copynumber: 2.0 Consensus size: 78
41090588 ATATGTTGGA
* ** * * * * *
41090598 ATTATATCCGGGTTAAATCCTGCAGGCTTCGTGTTGGTAATATATCCG-GGTTAAA-TCCTGTAG
1 ATTATATCCGAGTTAAATCCCACAGGCCTAGTGCTGGTAATACATCCGAGGTTAAAGTCCCGTAG
41090661 GCTTCGTGCTGGT
66 GCTTCGTGCTGGT
* * *
41090674 ATTATATCCGAGTTAAATCCCACAGGCCTAGTGCTGGTATTACATCTGAGTTTAAAGTCCCGTAG
1 ATTATATCCGAGTTAAATCCCACAGGCCTAGTGCTGGTAATACATCCGAGGTTAAAGTCCCGTAG
41090739 GCTTCGTGCT
66 GCTTCGTGCT
41090749 TGTGTTATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
76 39 0.63
77 6 0.10
78 17 0.27
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (78 bp):
ATTATATCCGAGTTAAATCCCACAGGCCTAGTGCTGGTAATACATCCGAGGTTAAAGTCCCGTAG
GCTTCGTGCTGGT
Found at i:41090708 original size:38 final size:38
Alignment explanation
Indices: 41090598--41090748 Score: 167
Period size: 38 Copynumber: 3.9 Consensus size: 38
41090588 ATATGTTGGA
* * *
41090598 ATTATATCCGGGTTAAATCCTGCAGGCTTCGTGTTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* * * *
41090636 AATATATCCGGGTTAAATCCTGTAGGCTTCGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
41090674 ATTATATCCGAGTTAAATCCCACAGGCCTAGTGCTGGT
1 ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
* * *
41090712 ATTACATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 ATTATATCCGAG-TTAAA-TCCCGCAGGCTTCGTGCT
41090749 TGTGTTATGT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 76 0.80
39 5 0.05
40 14 0.15
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (38 bp):
ATTATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:41092370 original size:43 final size:43
Alignment explanation
Indices: 41092322--41092574 Score: 389
Period size: 43 Copynumber: 5.9 Consensus size: 43
41092312 GCATGAAACT
*
41092322 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
41092365 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * * * *
41092408 CGGTGATGAGTATTCGAGCCTTTGTGCCTAGTAGGCTTCATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
41092451 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
41092494 CGGTGATGTGTATTCGGGCCTTCATGCCTAGCAGGCTCCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
** *
41092537 CAATGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
41092575 AATGTTGGTG
Statistics
Matches: 192, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 192 1.00
ACGTcount: A:0.12, C:0.23, G:0.33, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:41097014 original size:38 final size:38
Alignment explanation
Indices: 41096953--41097141 Score: 220
Period size: 38 Copynumber: 4.9 Consensus size: 38
41096943 ATTTGATGTG
* *
41096953 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGAATTA
*
41096993 TATCCGGGTTAAATCCCGCAGGCTTCGTGTTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
*
41097031 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
41097069 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
41097107 TATCTGAGTTTAAAATCCCGTAGGCTTCGTGCTGG
1 TATCCG-GGTT-AAATCCCGCAGGCTTCGTGCTGG
41097142 TGTTATGTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.02
38 92 0.70
39 10 0.08
40 28 0.21
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:41101847 original size:28 final size:28
Alignment explanation
Indices: 41101805--41101862 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
41101795 CACACAGGCT
41101805 AGGACACGGGCGTGT-CATGGCCGTGTGA
1 AGGACACGGGCGTGTCCA-GGCCGTGTGA
*
41101833 AGGACACGGGTGTGTGCCAGGCCGTGTGA
1 AGGACACGGGCGTGT-CCAGGCCGTGTGA
41101862 A
1 A
41101863 AACCCTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 11 0.41
30 2 0.07
ACGTcount: A:0.19, C:0.21, G:0.43, T:0.17
Consensus pattern (28 bp):
AGGACACGGGCGTGTCCAGGCCGTGTGA
Found at i:41109045 original size:21 final size:23
Alignment explanation
Indices: 41108998--41109043 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
41108988 TACCAATCAA
*
41108998 TTCACAACATATAGCATACATTT
1 TTCACAACATAAAGCATACATTT
*
41109021 TTCA-AACATAAAGCATTCATTT
1 TTCACAACATAAAGCATACATTT
41109043 T
1 T
41109044 CATAAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (23 bp):
TTCACAACATAAAGCATACATTT
Found at i:41110480 original size:28 final size:28
Alignment explanation
Indices: 41110439--41110493 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
41110429 ATGCCATTGA
* *
41110439 ATACTCAATGTCTCGTACACTAAGTGCT
1 ATACTCAATATCTCGCACACTAAGTGCT
*
41110467 ATACTCAATATCTCGCACACTAGGTGC
1 ATACTCAATATCTCGCACACTAAGTGC
41110494 CGTACATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCT
Found at i:41115071 original size:34 final size:34
Alignment explanation
Indices: 41115027--41115106 Score: 124
Period size: 34 Copynumber: 2.4 Consensus size: 34
41115017 CTATGTTAAT
* *
41115027 GGGCTTAGGCCCAGACTGCTACTATTACTGAAAC
1 GGGCTAAGGCCCAGACTGCTACTATTACTAAAAC
* *
41115061 GGGCTCAGGCCCAGACTGCTACTATTACTAAAAT
1 GGGCTAAGGCCCAGACTGCTACTATTACTAAAAC
41115095 GGGCTAAGGCCC
1 GGGCTAAGGCCC
41115107 TAACTATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (34 bp):
GGGCTAAGGCCCAGACTGCTACTATTACTAAAAC
Found at i:41117002 original size:39 final size:40
Alignment explanation
Indices: 41116907--41117129 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
41116897 TTGAATGATG
*
41116907 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
41116945 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
41116986 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
41117025 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
41117064 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
41117103 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
41117130 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:41117043 original size:78 final size:80
Alignment explanation
Indices: 41116907--41117129 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
41116897 TTGAATGATG
* * * * *
41116907 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
41116969 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
* *
41116986 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCTGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
41117047 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* *
41117064 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
41117129 G
66 G
41117130 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 46 0.37
79 55 0.44
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:41117152 original size:79 final size:79
Alignment explanation
Indices: 41116959--41117162 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
41116949 GGACTAAGAT
** * * *
41116959 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
* *
41117022 AATTCTGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
41117037 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
41117101 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
41117117 CCGAAGGCATTTGAACGAG-GAGCTATATCC-AGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGAGTTAAGTCCCGAAGG
41117163 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 45 0.42
80 25 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:41121412 original size:39 final size:39
Alignment explanation
Indices: 41121295--41121556 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
41121285 GCTCCTCGTT
* *
41121295 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
41121335 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
41121375 CAAATGCCTTCGGGCTTAGCCCGGAATTAATATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
41121414 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
41121453 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
41121492 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
41121533 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
41121557 CATCATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:41129888 original size:46 final size:45
Alignment explanation
Indices: 41129832--41130100 Score: 213
Period size: 46 Copynumber: 5.8 Consensus size: 45
41129822 TATTTGGGCA
41129832 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
41129878 TCGGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
41129925 TCCTAGCTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
41129971 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
41130018 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-AG
* * * *
41130064 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41130101 GCGGGTTACA
Statistics
Matches: 172, Mismatches: 37, Indels: 28
0.73 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 5 0.03
45 2 0.01
46 94 0.55
47 59 0.34
48 2 0.01
49 6 0.03
50 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:41129953 original size:47 final size:47
Alignment explanation
Indices: 41129884--41130046 Score: 181
Period size: 47 Copynumber: 3.5 Consensus size: 47
41129874 AATGTCGGAA
41129884 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCTAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCTAG
* **** * * * *
41129931 CTCGTTGAGTTGAGTCTGAGTTC-ACTTCTG-GA-T-GCGAATGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-CCT-AG
*
41129977 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCTAG
41130024 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
41130047 ACTTATGGAT
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 26 0.29
47 49 0.54
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCTAG
Found at i:41129987 original size:93 final size:93
Alignment explanation
Indices: 41129828--41130092 Score: 422
Period size: 93 Copynumber: 2.8 Consensus size: 93
41129818 AGGATATTTG
* *
41129828 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
41129893 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
41129921 GGCATCCTAGCTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
41129986 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
** * * *
41130014 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
41130079 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
41130093 ACTTATGGGC
Statistics
Matches: 157, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:41132443 original size:13 final size:13
Alignment explanation
Indices: 41132425--41132452 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
41132415 ACTGTCCTAG
41132425 TTAGAGAAGAAAA
1 TTAGAGAAGAAAA
41132438 TTAGAGAAGAAAA
1 TTAGAGAAGAAAA
41132451 TT
1 TT
41132453 CTCTTTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (13 bp):
TTAGAGAAGAAAA
Found at i:41136130 original size:39 final size:40
Alignment explanation
Indices: 41136016--41136200 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
41136006 GCTACTCATT
*
41136016 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41136056 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
41136096 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41136135 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
41136176 CAAA-GCGTTCGGGACTTACCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41136201 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41136187 original size:79 final size:80
Alignment explanation
Indices: 41136016--41136200 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
41136006 GCTACTCATT
* * *
41136016 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTACCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
41136080 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
41136097 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTACCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
41136160 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
41136176 CAAAGCGTTCGGGACTTACCCCGGA
1 CAAAGCCTTCGGGACTTACCCCGGA
41136201 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTACCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:41138891 original size:46 final size:46
Alignment explanation
Indices: 41138838--41139103 Score: 226
Period size: 46 Copynumber: 5.7 Consensus size: 46
41138828 TTGGGCATCC
41138838 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * * *
41138884 GAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCAT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAAAT-GTC-T
* * *
41138929 CCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 -GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
* * * *
41138977 AAACTCGTTAAGTTGAGTCCGA-TT---TTGA-GAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTT-ATG-GATGCAA--ATG--TCT
* * * *
41139024 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
*
41139070 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41139104 GCAGGTTACA
Statistics
Matches: 175, Mismatches: 25, Indels: 40
0.73 0.10 0.17
Matches are distributed among these distances:
42 4 0.02
43 14 0.08
44 3 0.02
45 5 0.03
46 80 0.46
47 45 0.26
48 4 0.02
49 3 0.02
50 13 0.07
51 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
Found at i:41138943 original size:93 final size:93
Alignment explanation
Indices: 41138831--41139095 Score: 424
Period size: 93 Copynumber: 2.8 Consensus size: 93
41138821 TAGGATATTG
* *
41138831 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGA
1 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
41138895 GTTGAGTCCGAGTTCGAGAGATGTAACTA
65 GTTGAGTCCGAGTTCGAGAGATGTAACTA
* *
41138924 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTAAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
* *
41138989 TTGAGTCCGATTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
** * *
41139017 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
41139082 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
41139096 ACTTATGGGC
Statistics
Matches: 157, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 2 0.01
93 155 0.99
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:41138956 original size:47 final size:47
Alignment explanation
Indices: 41138887--41139049 Score: 172
Period size: 47 Copynumber: 3.5 Consensus size: 47
41138877 AATGTCTGAA
41138887 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCAAG
*** * * *
41138934 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCAAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCAAG
* * * **
41138980 CTCGTTAAGTTGAGTCCGATTTTGAGAGATGTAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCAAG
41139027 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
41139050 ACTTATGGAT
Statistics
Matches: 89, Mismatches: 20, Indels: 14
0.72 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 29 0.33
47 50 0.56
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCAAG
Found at i:41142081 original size:28 final size:28
Alignment explanation
Indices: 41142040--41142093 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
41142030 ATGCCGTTGA
*
41142040 ATACTCAATGTCTCACACACTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
41142068 ATACTCAATATCTCACACACTAAGTG
1 ATACTCAATATCTCACACACTAAGTG
41142094 ACTTACATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.30, G:0.09, T:0.26
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:41150959 original size:28 final size:28
Alignment explanation
Indices: 41150926--41151004 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
41150916 GAATCATTCG
*
41150926 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
41150954 ATATTTCGCACACTAAGTGCCATTCTTA
1 ATATTTCGCACACTAAGTGCCATTCTCA
** *
41150982 ATATTTCATACACTGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
41151005 ATTTGATTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:41154733 original size:39 final size:39
Alignment explanation
Indices: 41154678--41154821 Score: 252
Period size: 39 Copynumber: 3.7 Consensus size: 39
41154668 CCAACATAAT
* *
41154678 TGCCTTCGGGACTTAGCCCAGATATAACACCAGCATGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
* *
41154717 TGCCTTCGGGATTTAGCCCGGTTATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
41154756 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
41154795 TGCCTTCGGGACTTAGCCCGGATATAA
1 TGCCTTCGGGACTTAGCCCGGATATAA
41154822 ATCTCACACA
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
Found at i:41168020 original size:27 final size:27
Alignment explanation
Indices: 41167990--41168051 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
41167980 ACCCTCGGTT
*
41167990 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
*
41168017 TGTAAAATTACCGAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
*
41168044 GGTAAAAT
1 TGTAAAAT
41168052 AACTGTGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGTAG
Found at i:41172131 original size:46 final size:45
Alignment explanation
Indices: 41171985--41172196 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 45
41171975 TGTGAGCTAC
* * *
41171985 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA-TGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GAGT-A-AGGCAG
* * *
41172031 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-TGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAGTAAG-GC-AG
* * *
41172079 AGTAAGACATGTCTGGGATATGCATCAGCCTCGAGACGTAAGGCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-GTAAGGCAG
* **
41172125 TGTAAGACATGTCTGGGACATGCATCGG-CTACGAGA-TATGTTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGAGTAAGGCAG
*
41172169 TGTAAAACCATGTCTGGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACAT-GCATC
41172197 AGCACAAACA
Statistics
Matches: 137, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 58 0.42
47 30 0.22
48 21 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGTAAGGCAG
Found at i:41172196 original size:92 final size:94
Alignment explanation
Indices: 41172028--41172250 Score: 237
Period size: 92 Copynumber: 2.4 Consensus size: 94
41172018 TTATGAGAGC
* *
41172028 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGTGCTAGAGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAGAGTAAAACATGTCT
*
41172093 GGGATATGCATCAGCCTCGAGACGTAAGG
66 GGGACATGCATCAGCCTCGAGACGTAAGG
* *
41172122 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGAT-A-TGTTAGTGTAAAACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGAGTGCTAGAGTAAAA-CATGT
* *
41172182 CTGGGACATGGCATCAG-CAC-AAACATGCT-AGAG
64 CTGGGACAT-GCATCAGCCTCGAGAC--G-TAAG-G
* *
41172215 CTTGTGTAAGACCATGTCTGGGATATGGCATCGGCA
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
41172251 CCTTACCCCA
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
90 13 0.12
91 17 0.16
92 23 0.21
93 17 0.16
94 18 0.17
95 13 0.12
96 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAGTGCTAGAGTAAAACATGTCT
GGGACATGCATCAGCCTCGAGACGTAAGG
Found at i:41175697 original size:19 final size:19
Alignment explanation
Indices: 41175661--41175696 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
41175651 TTATTTTTGA
41175661 AATAATATAAAATATTTTC
1 AATAATATAAAATATTTTC
41175680 AATAA-ATAAAATATTTT
1 AATAATATAAAATATTTT
41175697 TGTGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATATAAAATATTTTC
Found at i:41176246 original size:18 final size:17
Alignment explanation
Indices: 41176211--41176243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41176201 TATTTTTGTA
41176211 AAACAATATTTATAAAC
1 AAACAATATTTATAAAC
41176228 AAACATATATTT-TAAA
1 AAACA-ATATTTATAAA
41176244 ACATTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAACAATATTTATAAAC
Found at i:41178280 original size:27 final size:27
Alignment explanation
Indices: 41178250--41178731 Score: 551
Period size: 27 Copynumber: 17.9 Consensus size: 27
41178240 GTACTCTCGA
41178250 TTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAGAATTACCGTTTTACCCTCAG
*
41178277 TTTACAGAATTACTGTTTTACCCTC-G
1 TTTACAGAATTACCGTTTTACCCTCAG
* *
41178303 ATTTATAGAATTACTGTTTTACCCTC-G
1 -TTTACAGAATTACCGTTTTACCCTCAG
*
41178330 ATTT-CTAAAATTACCGTTTTACCCTCAG
1 -TTTAC-AGAATTACCGTTTTACCCTCAG
*
41178358 TTTACAGAATTACCGTTTTACCCT-TG
1 TTTACAGAATTACCGTTTTACCCTCAG
41178384 ATTTACAGAATTACCGTTTTACCCTCAG
1 -TTTACAGAATTACCGTTTTACCCTCAG
** *
41178412 TTTACAGAATTACTATTTTACCCTCAA
1 TTTACAGAATTACCGTTTTACCCTCAG
* *
41178439 TTTATAGAATTACCGTTTTACCCTCGAT
1 TTTACAGAATTACCGTTTTACCCTC-AG
*
41178467 TTGTA-A-AATTACCGTTTTACCCTCAA
1 TT-TACAGAATTACCGTTTTACCCTCAG
* *
41178493 TTTATAGAATTACTGTTTTACCCTCAG
1 TTTACAGAATTACCGTTTTACCCTCAG
* **
41178520 GTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACCGTTTTACCCTCAG
41178546 ATTTACAGAATTACCGTTTTACCCTCAG
1 -TTTACAGAATTACCGTTTTACCCTCAG
*
41178574 TTTACAGAATTACTGTTTTACCCTC-G
1 TTTACAGAATTACCGTTTTACCCTCAG
*
41178600 ATTTACAGAATTACCGTTTTACCCTCGAT
1 -TTTACAGAATTACCGTTTTACCCTC-AG
*
41178629 TTGTA-A-AATTA-CGTTTTACCCT-TG
1 TT-TACAGAATTACCGTTTTACCCTCAG
*
41178653 ATTTACAGAATTACTAG-TTTACCCTCAG
1 -TTTACAGAATTAC-CGTTTTACCCTCAG
* *
41178681 TTTACAAAATTATCGTTTTACCCTC-G
1 TTTACAGAATTACCGTTTTACCCTCAG
41178707 ATTTACAGAATTACCGTTTTACCCT
1 -TTTACAGAATTACCGTTTTACCCT
41178732 TAATTGTGAA
Statistics
Matches: 395, Mismatches: 36, Indels: 48
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.01
25 5 0.01
26 26 0.07
27 345 0.87
28 13 0.03
29 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCAG
Found at i:41178288 original size:54 final size:54
Alignment explanation
Indices: 41178250--41178731 Score: 631
Period size: 54 Copynumber: 8.9 Consensus size: 54
41178240 GTACTCTCGA
*
41178250 TTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTC-G
1 TTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCAG
* * *
41178303 ATTTATAGAATTACTGTTTTACCCTCGATTT-CTAAAATTACCGTTTTACCCTCAG
1 -TTTACAGAATTACCGTTTTACCCTCGATTTAC-AGAATTACCGTTTTACCCTCAG
*
41178358 TTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** * * *
41178412 TTTACAGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGAT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
* * *
41178467 TTGTA-A-AATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCAG
1 TT-TACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* **
41178520 GTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
41178574 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
* *
41178629 TTGTA-A-AATTA-CGTTTTACCCTTGATTTACAGAATTACTAG-TTTACCCTCAG
1 TT-TACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC-CGTTTTACCCTCAG
* *
41178681 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
41178732 TAATTGTGAA
Statistics
Matches: 380, Mismatches: 33, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
51 2 0.01
52 6 0.02
53 44 0.12
54 313 0.82
55 11 0.03
56 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (54 bp):
TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:41178342 original size:81 final size:80
Alignment explanation
Indices: 41178249--41178731 Score: 659
Period size: 81 Copynumber: 6.0 Consensus size: 80
41178239 AGTACTCTCG
* * *
41178249 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAAT
*
41178314 TACTGTTTTACCCTC
66 TACCGTTTTACCCTC
* * *
41178329 GATTT-CTAAAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTTGATTTACAGA
1 -ATTTAC-AGAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGA
41178393 ATTACCGTTTTACCCTC
64 ATTACCGTTTTACCCTC
* * * ** *
41178410 AGTTTACAGAATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAA
1 A-TTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
41178475 TTACCGTTTTACCCTC
65 TTACCGTTTTACCCTC
* * **
41178491 AATTTATAGAATTACTGTTTTACCCTCAGGTTACAGAATTACTATTTTACCCTCGATTTACAGAA
1 -ATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
41178556 TTACCGTTTTACCCTC
65 TTACCGTTTTACCCTC
** *
41178572 AGTTTACAGAATTACTGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAA
1 A-TTTACAGAATTACTGTTTTACCCTCAG-TTTACAGAATTACCGTTTTACCCTCGATTTACAGA
*
41178636 ATTA-CGTTTTACCCTTG
64 ATTACCGTTTTACCC-TC
* *
41178653 ATTTACAGAATTACTAG-TTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAA
1 ATTTACAGAATTACT-GTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
41178717 TTACCGTTTTACCCT
65 TTACCGTTTTACCCT
41178732 TAATTGTGAA
Statistics
Matches: 355, Mismatches: 37, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
80 72 0.20
81 281 0.79
82 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (80 bp):
ATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAAT
TACCGTTTTACCCTC
Found at i:41178846 original size:81 final size:81
Alignment explanation
Indices: 41178749--41178934 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 81
41178739 GAAATTACTG
* * *
41178749 AAATACCCCTATAGGGTAGAATT-TCTGAAATACCCTTATAGGGTAGAATTACTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTATC-GAAATACCCTTATAGGGTAGAAATACTGAAATACCCCT
41178813 ATAGGATAGAATTACCA
65 ATAGGATAGAATTACCA
* *
41178830 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTATAGGGTAGAAATACTGAAATACCCCTA
* *
41178895 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * * *
41178911 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
41178935 CCATTTTTCC
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 91 0.98
82 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTATAGGGTAGAAATACTGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:41178927 original size:27 final size:27
Alignment explanation
Indices: 41178741--41178936 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
41178731 TTAATTGTGA
* * *
41178741 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41178768 AATTTCTGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41178795 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
41178822 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
41178849 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41178876 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
41178903 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
41178930 AATTACC
1 AATTACC
41178937 ATTTTTCCCC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:41179850 original size:27 final size:27
Alignment explanation
Indices: 41179812--41179864 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
41179802 TCACATATGA
*
41179812 GAAATTCTACCCTATAGGGGTATTTCG
1 GAAATTCTACCCTACAGGGGTATTTCG
41179839 GAAATTCTACCCTACAGGGGTATTTC
1 GAAATTCTACCCTACAGGGGTATTTC
41179865 AGTAATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (27 bp):
GAAATTCTACCCTACAGGGGTATTTCG
Found at i:41179871 original size:27 final size:27
Alignment explanation
Indices: 41179811--41179871 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
41179801 CTCACATATG
*
41179811 AGAAATTCTACCCTATAGGGGTATTTC
1 AGAAATTCTACCCTACAGGGGTATTTC
*
41179838 GGAAATTCTACCCTACAGGGGTATTTC
1 AGAAATTCTACCCTACAGGGGTATTTC
*
41179865 AGTAATT
1 AGAAATT
41179872 TCACAATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (27 bp):
AGAAATTCTACCCTACAGGGGTATTTC
Found at i:41179906 original size:27 final size:27
Alignment explanation
Indices: 41179876--41180368 Score: 595
Period size: 27 Copynumber: 18.3 Consensus size: 27
41179866 GTAATTTCAC
* * * *
41179876 AATCAAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
41179903 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
41179930 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
41179957 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
41179984 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
41180011 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
41180038 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
41180065 AATCGAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
41180091 AACCTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
41180119 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
41180146 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
41180173 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
41180200 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
41180227 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
41180254 AA-CTGAGGGTAAAACGGTAATTTTAG-A
1 AATC-GAGGGTAAAACGGTAATTCT-GTA
*
41180281 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
41180308 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
41180335 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
41180362 AATCGAG
1 AATCGAG
41180369 AGTACTTTGG
Statistics
Matches: 404, Mismatches: 48, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.02
27 388 0.96
28 9 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:41180383 original size:81 final size:81
Alignment explanation
Indices: 41179876--41180368 Score: 661
Period size: 81 Copynumber: 6.1 Consensus size: 81
41179866 GTAATTTCAC
* * * * *
41179876 AATCAAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
41179941 AACCAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* * *
41179957 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAA-TCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACT-GAGGGT
*
41180021 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * ** * *
41180038 AA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAACCTAAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
*
41180102 AAAACGGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * * * *
41180119 AATCGAGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTATAAATTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
41180184 AAATAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* *
41180200 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
* *
41180264 AAAACGGTAATTTTAG-A
65 AAAACAGTAATTCT-GTA
*
41180281 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
41180346 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
41180362 AATCGAG
1 AATCGAG
41180369 AGTACTTTGG
Statistics
Matches: 358, Mismatches: 46, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
80 4 0.01
81 350 0.98
82 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTGTA
Found at i:41184675 original size:29 final size:29
Alignment explanation
Indices: 41184642--41184715 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
41184632 GTTGTGAGAT
* *
41184642 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
41184671 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
41184700 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41184716 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:41190704 original size:40 final size:40
Alignment explanation
Indices: 41190667--41190891 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
41190657 GCTACTCGTT
*
41190667 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
41190707 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
41190747 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * ** * *
41190787 CAAATTCCTTC-GGATCTTAGTCCGGATTTAGTAAATCGTA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* ** * * * *
41190827 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* *
41190867 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
41190892 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 19 0.11
40 146 0.87
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:41190771 original size:80 final size:80
Alignment explanation
Indices: 41190667--41190891 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 80
41190657 GCTACTCGTT
* * *
41190667 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
41190732 ATTTAGTAACTCGCA
66 ATTTAGTAAATCGCA
* * *
41190747 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATTCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCC
*
41190810 GGATTTAGTAAATCGTA
64 GGATTTAGTAAATCGCA
* * * * *
41190827 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
41190890 GA
65 GA
41190892 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 22 0.18
80 100 0.81
81 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAAATCGCA
Found at i:41198616 original size:40 final size:40
Alignment explanation
Indices: 41198572--41198744 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
41198562 GCTACTTGTT
*
41198572 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
41198612 CAAATGCCTTTGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* **
41198652 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTTCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
41198692 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
41198732 CAAATGCCTTCGG
1 CAAATGCCTTCGG
41198745 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 113 0.95
41 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:41198745 original size:40 final size:39
Alignment explanation
Indices: 41198572--41198785 Score: 225
Period size: 40 Copynumber: 5.4 Consensus size: 39
41198562 GCTACTTGTT
*
41198572 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
41198612 CAAATGCCTTTGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTAACTCGCA
* **
41198652 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTTCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* *
41198692 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41198732 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AACTCGCA
41198773 CAAA-GCCTTCGGA
1 CAAATGCCTTCGGA
41198786 TCTTTTCTTT
Statistics
Matches: 153, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.88
41 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41202728 original size:29 final size:29
Alignment explanation
Indices: 41202695--41202768 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
41202685 GTTGTGAGAT
* *
41202695 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
41202724 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
41202753 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41202769 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:41205239 original size:21 final size:21
Alignment explanation
Indices: 41205208--41205268 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
41205198 CTCATGAAAC
*
41205208 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
41205228 AGGGCAACACGCCCTTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
41205249 AGGGCAACACGCCCTTGTGG
1 AGGGCAACACGCCCGTGTGG
41205269 TCATTATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.21, C:0.28, G:0.36, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:41232196 original size:29 final size:29
Alignment explanation
Indices: 41232149--41232227 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
41232139 CTTAATAATC
* *
41232149 AACCACGCACACATAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
41232179 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
41232208 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41232228 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:41236335 original size:27 final size:28
Alignment explanation
Indices: 41236300--41236479 Score: 135
Period size: 27 Copynumber: 6.6 Consensus size: 28
41236290 CCTCAGTTTA
** *
41236300 TAAAATTACCT-AAATACCCTTGGA-TTA
1 TAAAATTA-CTAAAATACCCTCCGATTTG
*
41236327 TAAAATTACTGAAATACCCT-CGATTTG
1 TAAAATTACTAAAATACCCTCCGATTTG
41236354 TAAAATTACTAAAATA-CCTCCGATTTG
1 TAAAATTACTAAAATACCCTCCGATTTG
** * *
41236381 TAAAATTACCGAACTACCCT-CGGTTTG
1 TAAAATTACTAAAATACCCTCCGATTTG
* *
41236408 TAAAATTA-TCGAACTACCC-CCAGA-TTG
1 TAAAATTACT-AAAATACCCTCC-GATTTG
* * *
41236435 TAAAATTATTGAAATACCCTCAG-TTTG
1 TAAAATTACTAAAATACCCTCCGATTTG
**
41236462 TAAAATTACCGAAATACC
1 TAAAATTACTAAAATACC
41236480 TTTGTAGTGT
Statistics
Matches: 130, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.05
27 117 0.90
28 6 0.05
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (28 bp):
TAAAATTACTAAAATACCCTCCGATTTG
Found at i:41236436 original size:81 final size:81
Alignment explanation
Indices: 41236290--41236479 Score: 233
Period size: 81 Copynumber: 2.3 Consensus size: 81
41236280 GTTGTTAAGA
* * * *
41236290 CCTCAGTTTATAAAATTACCTAAATACCCTTGGATTATAAAATTACTGAAATACCCTCGATTTGT
1 CCTCAGTTTGTAAAATTACCGAAATACCCTCGGATTATAAAATTACTGAAATACCCCCGATTTGT
41236355 AAAATTACTAAAATA-
66 AAAATTACTAAAATAC
* * * * *
41236370 CCTCCGATTTGTAAAATTACCGAACTACCCTCGGTTTGTAAAATTA-TCGAACTACCCCCAGA-T
1 CCTCAG-TTTGTAAAATTACCGAAATACCCTCGGATTATAAAATTACT-GAAATACCCCC-GATT
* *
41236433 TGTAAAATTATTGAAATAC
63 TGTAAAATTACTAAAATAC
41236452 CCTCAGTTTGTAAAATTACCGAAATACC
1 CCTCAGTTTGTAAAATTACCGAAATACC
41236480 TTTGTAGTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 6 0.06
81 80 0.86
82 7 0.08
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (81 bp):
CCTCAGTTTGTAAAATTACCGAAATACCCTCGGATTATAAAATTACTGAAATACCCCCGATTTGT
AAAATTACTAAAATAC
Found at i:41236497 original size:54 final size:53
Alignment explanation
Indices: 41236290--41236479 Score: 204
Period size: 54 Copynumber: 3.5 Consensus size: 53
41236280 GTTGTTAAGA
* * * *
41236290 CCTCAGTTTATAAAATTACCTAAATACCCTTGGATTATAAAATTACTGAAATAC
1 CCTCAGTTTGTAAAATTACCGAAATACCCCT-GATTGTAAAATTACTGAAATAC
** * *
41236344 CCTC-GATTTGTAAAATTACTAAAATACCTCC-GATTTGTAAAATTACCGAACTAC
1 CCTCAG-TTTGTAAAATTACCGAAATACC-CCTGA-TTGTAAAATTACTGAAATAC
* * * * *
41236398 CCTCGGTTTGTAAAATTATCGAACTACCCCCAGATTGTAAAATTATTGAAATAC
1 CCTCAGTTTGTAAAATTACCGAAATA-CCCCTGATTGTAAAATTACTGAAATAC
41236452 CCTCAGTTTGTAAAATTACCGAAATACC
1 CCTCAGTTTGTAAAATTACCGAAATACC
41236480 TTTGTAGTGT
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
53 5 0.04
54 102 0.90
55 6 0.05
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (53 bp):
CCTCAGTTTGTAAAATTACCGAAATACCCCTGATTGTAAAATTACTGAAATAC
Found at i:41236897 original size:22 final size:22
Alignment explanation
Indices: 41236849--41236908 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
41236839 GTAATCTGAT
41236849 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * * *
41236871 AATGGCTCTGTGCCATCTTGAC
1 TATGGCTCTGTGCCAACCTAAA
*
41236893 TATGGCTTTGTGCCAA
1 TATGGCTCTGTGCCAA
41236909 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:41242095 original size:43 final size:43
Alignment explanation
Indices: 41242032--41242119 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
41242022 ATCATGGAGA
* * * *
41242032 ATAAATTTGATCGTCGATAAAAGGTTTTATCACTTTGAGCAAG
1 ATAAATTTGATCGTCAATAAAAGGATCTATCACTCTGAGCAAG
* *
41242075 ATAAATTTGATTGTTAATAAAAGGATCTATCACTCTGAGCAAG
1 ATAAATTTGATCGTCAATAAAAGGATCTATCACTCTGAGCAAG
41242118 AT
1 AT
41242120 CATGCTGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (43 bp):
ATAAATTTGATCGTCAATAAAAGGATCTATCACTCTGAGCAAG
Found at i:41243708 original size:91 final size:91
Alignment explanation
Indices: 41243553--41243736 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
41243543 ATCACAAGGA
41243553 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
1 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
41243618 CAATTTAGAGAATCGTATTTCAAAGC
66 CAATTTAGAGAATCGTATTTCAAAGC
41243644 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
1 AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
41243709 CAATTTAGAGAATCGTATTTCAAAGC
66 CAATTTAGAGAATCGTATTTCAAAGC
41243735 AA
1 AA
41243737 CCATTATTAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (91 bp):
AATCAATGCAACAATTAATAAGATATATTAAATAAAATCACATAAATCAATCATAATTTAGATAA
CAATTTAGAGAATCGTATTTCAAAGC
Found at i:41256709 original size:48 final size:48
Alignment explanation
Indices: 41256647--41257099 Score: 762
Period size: 48 Copynumber: 9.4 Consensus size: 48
41256637 TATATATGTG
41256647 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
41256695 TGTGGTAAAGCCGAATGGATAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
41256743 AGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
41256791 AGTGCTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
41256839 AGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
41256887 TGCGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * * * *
41256935 TGTGGTAAACCCGAATGGCTAGTGTCAACTATGTATGAGATATGCATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
41256983 CGTGGTAAAGCCGAATGGCTAATGCGAAATATGCATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
41257031 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
41257079 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
41257100 GTGATTCGGC
Statistics
Matches: 381, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 381 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:41257321 original size:37 final size:37
Alignment explanation
Indices: 41257271--41257369 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
41257261 ATATATTCCG
41257271 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
41257308 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
*
41257345 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
41257370 GGACTATTCG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:41262227 original size:48 final size:50
Alignment explanation
Indices: 41262104--41262283 Score: 210
Period size: 48 Copynumber: 3.6 Consensus size: 50
41262094 GAAGCTATCT
* * * * *
41262104 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCT
1 GGTACGCATAGTAGCC-ACACTTAGTACTACACACGTGATC-ACAGTTTTCA
* *
41262153 GGTA-GACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCA
1 GGTACG-CATAGTAGCC-ACACTTAGTACTACACACGTGATCACAGTTTTCA
41262204 GGTACGCATAGTAG-C-CACTTAGTACTACACACGTGATCACAGTTTTCA
1 GGTACGCATAGTAGCCACACTTAGTACTACACACGTGATCACAGTTTTCA
41262252 GGTACGCATAGTAGCCTACACTTAGTACTACA
1 GGTACGCATAGTAGCC-ACACTTAGTACTACA
41262284 GATGCGACCT
Statistics
Matches: 117, Mismatches: 6, Indels: 14
0.85 0.04 0.10
Matches are distributed among these distances:
48 52 0.44
49 36 0.31
50 1 0.01
51 27 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (50 bp):
GGTACGCATAGTAGCCACACTTAGTACTACACACGTGATCACAGTTTTCA
Found at i:41294258 original size:15 final size:15
Alignment explanation
Indices: 41294238--41294269 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
41294228 TAACCTTAGT
*
41294238 TAAAAAATATTATAC
1 TAAAAAAAATTATAC
41294253 TAAAAAAAATTATAC
1 TAAAAAAAATTATAC
41294268 TA
1 TA
41294270 TCGCATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAAAATTATAC
Found at i:41299293 original size:13 final size:13
Alignment explanation
Indices: 41299275--41299299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41299265 TGTGGGTGCA
41299275 CACGACCGTGTCG
1 CACGACCGTGTCG
41299288 CACGACCGTGTC
1 CACGACCGTGTC
41299300 TAGCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:41305671 original size:43 final size:43
Alignment explanation
Indices: 41305507--41305674 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
41305497 GCTGGTATTA
* *
41305507 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
* * * *
41305550 TATTAGGGCCTTTGTGCCTAGCAGGCTTAGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
*
41305593 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
*
41305636 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGA
41305675 AATGATATGT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
Found at i:41306058 original size:45 final size:42
Alignment explanation
Indices: 41305991--41306098 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
41305981 TTGACTTGAT
* *
41305991 TATTCGGGCCTTTGAGCTTAGCAAACTATAATACCGGTGGGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
** *
41306036 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
41306078 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
41306099 ACAGGCGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:41318471 original size:51 final size:51
Alignment explanation
Indices: 41318395--41318498 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
41318385 TTTAGCTCAA
41318395 ATTTTGCTAAACATTTTCCCTAATCTACTACTATATAAACCCATTACCACT
1 ATTTTGCTAAACATTTTCCCTAATCTACTACTATATAAACCCATTACCACT
41318446 ATTTTGCTAAACATTTTCCCTAATCTACTACTATATAAACCCATTACCACT
1 ATTTTGCTAAACATTTTCCCTAATCTACTACTATATAAACCCATTACCACT
41318497 AT
1 AT
41318499 CATATTTTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (51 bp):
ATTTTGCTAAACATTTTCCCTAATCTACTACTATATAAACCCATTACCACT
Found at i:41322653 original size:43 final size:43
Alignment explanation
Indices: 41322600--41322719 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
41322590 TTTATGTGGG
41322600 AAAACGCCACTATAA-AACATGACCTTTAGCGGCGCTTCTCATA
1 AAAACGCCACTA-AAGAACATGACCTTTAGCGGCGCTTCTCATA
* ** *
41322643 AAAATGCCACTAAAGAACATGACCTTTAGCGGTACTTCCCATA
1 AAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATA
****
41322686 AAAACATTGCTAAAGAACATGACCTTTAGCGGCG
1 AAAACGCCACTAAAGAACATGACCTTTAGCGGCG
41322720 TTTTTCCCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.03
43 63 0.97
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
AAAACGCCACTAAAGAACATGACCTTTAGCGGCGCTTCTCATA
Found at i:41322742 original size:43 final size:43
Alignment explanation
Indices: 41322615--41322766 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 43
41322605 GCCACTATAA
* * ** *
41322615 AACATGACCTTTAGCGGCGCTTCTCATAAAAATGCCACTAAAG
1 AACATGACCTTTAGCGGCGTTTTTCCCAAAAATGCTACTAAAG
** * *
41322658 AACATGACCTTTAGC-G-GTACTTCCCATAAAA-ACATTGCTAAAG
1 AACATGACCTTTAGCGGCGTTTTTCCCA-AAAATGC--TACTAAAG
*
41322701 AACATGACCTTTAGCGGCGTTTTTCCCACAAATGCTACTAAA-
1 AACATGACCTTTAGCGGCGTTTTTCCCAAAAATGCTACTAAAG
* * *
41322743 AACATGATCTTTAGCTGTGTTTTT
1 AACATGACCTTTAGCGGCGTTTTT
41322767 AGTAAAAGCA
Statistics
Matches: 86, Mismatches: 17, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
41 5 0.06
42 26 0.30
43 42 0.49
44 4 0.05
45 9 0.10
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (43 bp):
AACATGACCTTTAGCGGCGTTTTTCCCAAAAATGCTACTAAAG
Found at i:41322809 original size:43 final size:43
Alignment explanation
Indices: 41322762--41322879 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
41322752 TTTAGCTGTG
*
41322762 TTTTTA-GTAAAAGCACCACTAAAGGTCATGTTCTTT-AGCGGCA
1 TTTTTATG-AAAAGCACCACTAAAGGTCATGTT-TTTCAACGGCA
** *
41322805 TTTTTATGGGAAGCGCCACTAAAGGTCATGTTTTTCAACGGCA
1 TTTTTATGAAAAGCACCACTAAAGGTCATGTTTTTCAACGGCA
* *** *
41322848 TTTTTATGAGAAGTGGCACTAAAGGTGATGTT
1 TTTTTATGAAAAGCACCACTAAAGGTCATGTT
41322880 ATTTAGCAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
42 3 0.05
43 61 0.94
44 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (43 bp):
TTTTTATGAAAAGCACCACTAAAGGTCATGTTTTTCAACGGCA
Done.