Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 37 of 199
Found at i:11410898 original size:24 final size:24
Alignment explanation
Indices: 11410857--11410904 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11410847 AATTATTTTT
**
11410857 TAAAAAAAATTAGTTTCACAAAAA
1 TAAAAAAAATTAACTTCACAAAAA
* *
11410881 TAAAAAATATTAACTTCAGAAAAA
1 TAAAAAAAATTAACTTCACAAAAA
11410905 AATAATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (24 bp):
TAAAAAAAATTAACTTCACAAAAA
Found at i:11413149 original size:9 final size:9
Alignment explanation
Indices: 11413135--11413174 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
11413125 TTTGTTTAAA
11413135 AATTAACCG
1 AATTAACCG
11413144 AATTAACCG
1 AATTAACCG
*
11413153 AATTATCCG
1 AATTAACCG
*
11413162 AATTAACCA
1 AATTAACCG
11413171 AATT
1 AATT
11413175 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:11414539 original size:39 final size:39
Alignment explanation
Indices: 11414495--11414572 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
11414485 AAATCTAGTT
11414495 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
1 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
11414534 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
1 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
11414573 ATCGAGCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (39 bp):
GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
Found at i:11418815 original size:14 final size:13
Alignment explanation
Indices: 11418796--11418831 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
11418786 ATATCATAAG
11418796 TTTTATATTATTA
1 TTTTATATTATTA
*
11418809 TTGTTATATTTTTA
1 TT-TTATATTATTA
11418823 TTTTATATT
1 TTTTATATT
11418832 TACTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:11432430 original size:18 final size:18
Alignment explanation
Indices: 11432407--11432442 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11432397 CATCATTTCA
11432407 GGACCAAAACCAGTTAAC
1 GGACCAAAACCAGTTAAC
11432425 GGACCAAAACCAGTTAAC
1 GGACCAAAACCAGTTAAC
11432443 TCTTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (18 bp):
GGACCAAAACCAGTTAAC
Found at i:11439501 original size:67 final size:67
Alignment explanation
Indices: 11439390--11439524 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 67
11439380 AGTGGCCGAT
* * * * *
11439390 TATTAAAGGGCTTTAATTGAGATTAATAGTATGTTTGTTCGCCAGTAAAATATTTTCTAGAAAAT
1 TATTAAAGAGCTTTAATTGAGATTAAGAGTACGATTGTTCGCCAGTAAAATATTTTCCAGAAAAT
11439455 AA
66 AA
* * * * *
11439457 TATTAAAGAGCTTTAATTGAGATTAAGGGTCCGATTGTTTGCCAGTAAAATGTTTTCCGGAAAAT
1 TATTAAAGAGCTTTAATTGAGATTAAGAGTACGATTGTTCGCCAGTAAAATATTTTCCAGAAAAT
11439522 AA
66 AA
11439524 T
1 T
11439525 TTATGGAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.37
Consensus pattern (67 bp):
TATTAAAGAGCTTTAATTGAGATTAAGAGTACGATTGTTCGCCAGTAAAATATTTTCCAGAAAAT
AA
Found at i:11439553 original size:34 final size:33
Alignment explanation
Indices: 11439509--11439573 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
11439499 CAGTAAAATG
11439509 TTTTCCGGAAAATAATTTA-TGGAAAATGATTTAC
1 TTTTCCGGAAAATAATTTACT-GAAAAT-ATTTAC
* *
11439543 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTCCGGAAAATAATTTACTGAAAATATTT
11439574 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.82
35 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (33 bp):
TTTTCCGGAAAATAATTTACTGAAAATATTTAC
Found at i:11439634 original size:32 final size:31
Alignment explanation
Indices: 11439554--11439642 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 31
11439544 TTTCTGGAAA
*
11439554 ATGATTTACTGAAAATATTTTCTGGTGTTTGG
1 ATGATTT-CTGAAAATATTTTCTGGTATTTGG
**
11439586 ATGAATTTCTGTAAAATATTTTCTTTTATTTGG
1 ATG-ATTTCTG-AAAATATTTTCTGGTATTTGG
11439619 CA-GATTTCCTGAAAATATTTTCTG
1 -ATGATTT-CTGAAAATATTTTCTG
11439643 AGAAAGCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
32 22 0.45
33 26 0.53
34 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (31 bp):
ATGATTTCTGAAAATATTTTCTGGTATTTGG
Found at i:11439679 original size:16 final size:18
Alignment explanation
Indices: 11439654--11439696 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
11439644 GAAAGCTATT
11439654 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
11439672 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
11439690 TTTATAT
1 TTTATAT
11439697 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:11439701 original size:16 final size:16
Alignment explanation
Indices: 11439658--11439701 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 16
11439648 GCTATTTTTA
*
11439658 TATATATTAATAAATT
1 TATATTTTAATAAATT
11439674 TATATATATTAATAAATT
1 TATAT-T-TTAATAAATT
11439692 TATATTTTAA
1 TATATTTTAA
11439702 ATTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 15 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTTTAATAAATT
Found at i:11448010 original size:22 final size:22
Alignment explanation
Indices: 11447982--11448023 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11447972 ATATAAATAC
11447982 AACTT-AATCATGAACGAGCTCG
1 AACTTAAAT-ATGAACGAGCTCG
*
11448004 AACTTAAATATGAATGAGCT
1 AACTTAAATATGAACGAGCT
11448024 TAATCAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (22 bp):
AACTTAAATATGAACGAGCTCG
Found at i:11450853 original size:127 final size:126
Alignment explanation
Indices: 11450624--11450863 Score: 301
Period size: 127 Copynumber: 1.9 Consensus size: 126
11450614 TTATTTTAAT
* *
11450624 TTTAAAAGGATATTCGGTTATTTAGGTCAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
1 TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
* * *
11450689 TTTCTCGAATTTTCTAAATATAGAATATTGCCTTTATTTTTGAAATTTTATACGTTTGGAAA
66 TTTCTCGAATTTCCTAAATATAGAATATTGCCATTA-TTTTAAAATTTTATACGTTTGGAAA
** * *
11450751 TTTAAAAGGATATTTTGCTATTCAGGTTTAACGAG-AAAATCG-AGACCCAGTAAGTTAGGGTAC
1 TTTAAAAGGATATTCGGCTATTCAGG-TCAACGAGAAAAATCGAAG-CCCAGTAAGTTAGGGCAC
*
11450814 GA-TTCTTCGAATTTCCTAAA-ATGCGAGATATTG-CATTATTTTAAAATTTT
64 GATTTC-TCGAATTTCCTAAATAT-AGA-ATATTGCCATTATTTTAAAATTTT
11450864 CTTTTTGAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
126 18 0.18
127 67 0.68
128 13 0.13
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (126 bp):
TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
TTTCTCGAATTTCCTAAATATAGAATATTGCCATTATTTTAAAATTTTATACGTTTGGAAA
Found at i:11452901 original size:44 final size:43
Alignment explanation
Indices: 11452853--11453805 Score: 453
Period size: 44 Copynumber: 22.6 Consensus size: 43
11452843 GTTTTAATCC
* *
11452853 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTACAACTT-AGGGAGATAAGATTGGTTTCTTTCGTCT
** * * *
11452897 GCTCCACTACTGCTTAGGGAGATAAGACTGG---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGATTGGTTTCTTTCG-TCT
* ** * ** *
11452937 GCTCCATTACTGCTTAGGGAGATAAGATCT-GTGGT-TTTAATCC
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGT-TTCTTTCGTCT
* *
11452980 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTACAACTT-AGGGAGATAAGATTGGTTTCTTTCGTCT
** * * *
11453024 GCTCCACTACTGCTTAGGGAGATAAGACTGG---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGATTGGTTTCTTTCG-TCT
* **
11453064 GCTCCATTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
* ** * *
11453108 ACTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGT-GAT-T
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
** *
11453147 GCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
** * *
11453191 GCTCCACTACTGCTTAGGGAGATAAGA----CTTCATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGATTGGTTTC-TTTCG-TCT
** *
11453231 GCTCCACTACTGCTTAGGGAGATAAGTTCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
* ** * *
11453275 GCTCTACTACTGCTTAGGGAGATAAGACTT-G----ATGCGATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
** *
11453315 GCTCCACTACTGCTTAAGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
** * *
11453359 GCTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
** * *
11453399 GCTCCACTACTGCTTAGGGAGATAAGATCTAGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
** * * *
11453443 GCTCCACTACTGCTTAGGGAGATAAGACCT-G---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
* ** *
11453483 ACTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
** * * *
11453527 GCTCCACTACTGCTTAGGGAGATAAGACCT-G---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
* * * *
11453567 ACTCCACTACTACTCAGGGAGATAAGATTTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCGTCT
** * * *
11453611 GCTCCACTACTGCTTAGAGAGATAAGACTT-G---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
** *
11453651 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
** * *
11453695 GCTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGT-GATCT
1 GCTCCACTACAACTTAGGGAGATAAGA-TTGGTTTCTTTCG-TCT
** *
11453735 GCTCCACTACTGGC-TAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTAC-AACTTAGGGAGATAAGAT-TGGTTTCTTTCGTCT
*
11453779 GCTCCACTACTACTTAGGGAGATAAGA
1 GCTCCACTACAACTTAGGGAGATAAGA
11453806 CTGTTGGCTT
Statistics
Matches: 734, Mismatches: 94, Indels: 162
0.74 0.09 0.16
Matches are distributed among these distances:
38 1 0.00
39 46 0.06
40 283 0.39
41 12 0.02
43 56 0.08
44 319 0.43
45 17 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (43 bp):
GCTCCACTACAACTTAGGGAGATAAGATTGGTTTCTTTCGTCT
Found at i:11453116 original size:84 final size:84
Alignment explanation
Indices: 11452894--11453807 Score: 1403
Period size: 84 Copynumber: 10.9 Consensus size: 84
11452884 GTTTCTTTCG
* * *
11452894 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GATCTGCTCCATTACTGCTTAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAG
* * *
11452954 GGAGATAAGATCTGTGGTTTTAA
65 GGAGATAAGA-CT-T-GATGTGA
* * ** *
11452977 TCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTCTTTCGTCTGCTCCACTACTGCTTAG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAG
*
11453041 GGAGATAAGACTGGATGTGA
65 GGAGATAAGACTTGATGTGA
* *
11453061 TCTGCTCCATTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTACTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
11453126 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
*
11453145 T-TGCTCCACTACTGCTTAGAGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
*
11453209 GAGATAAGACTTCATGTGA
66 GAGATAAGACTTGATGTGA
* *
11453228 TCTGCTCCACTACTGCTTAGGGAGATAAGTTCTGGTTTCTTTCGTCTGCTCTACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
*
11453293 GAGATAAGACTTGATGCGA
66 GAGATAAGACTTGATGTGA
*
11453312 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
11453377 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
* *
11453396 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAGTTTCTTTTGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
*
11453461 GAGATAAGACCTGATGTGA
66 GAGATAAGACTTGATGTGA
* *
11453480 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
*
11453545 GAGATAAGACCTGATGTGA
66 GAGATAAGACTTGATGTGA
* * * * * *
11453564 TCTACTCCACTACTACTCAGGGAGATAAGATTTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
11453629 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
*
11453648 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
11453713 GAGATAAGACTTGATGTGA
66 GAGATAAGACTTGATGTGA
* *
11453732 TCTGCTCCACTACTGGC-TAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTACTTAG
1 TCTGCTCCACTACT-GCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAG
11453796 GGAGATAAGACT
65 GGAGATAAGACT
11453808 GTTGGCTTCA
Statistics
Matches: 772, Mismatches: 50, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
83 105 0.14
84 631 0.82
85 2 0.00
86 2 0.00
87 31 0.04
88 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (84 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
GAGATAAGACTTGATGTGA
Found at i:11454072 original size:88 final size:90
Alignment explanation
Indices: 11453953--11454178 Score: 268
Period size: 88 Copynumber: 2.6 Consensus size: 90
11453943 AAGACTGGCT
* * * *
11453953 TCTTCGATCTACTTCG-TCGTCAGTACAGGAAGGCAAGATCTGCAATGTC-T-GACCTGCTCCAC
1 TCTTCGATCTGCTTCGCT-GTCAATACAGGAAGGCAAGATCTGCAATGTCTTCAACCAGCTCCAC
* *
11454015 TACAACCGAGGGAGGCAAGGCTTGTA
65 CACAACCGAGAGAGGCAAGGCTTGTA
* *
11454041 TCTTTGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCT--ATTGTCTTCAACCAGCTCCACC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCAATGTCTTCAACCAGCTCCACC
* *
11454104 ACAACCGAGAGAGGCAAGGTTTGTG
66 ACAACCGAGAGAGGCAAGGCTTGTA
* * * *
11454129 TCTTCGACCTGCTTCACTGTCAATATAGGAACGCAAGATCTGC--TGTCTTC
1 TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCAATGTCTTC
11454179 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
86 5 0.04
87 1 0.01
88 111 0.94
89 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (90 bp):
TCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCAATGTCTTCAACCAGCTCCACC
ACAACCGAGAGAGGCAAGGCTTGTA
Found at i:11466790 original size:30 final size:31
Alignment explanation
Indices: 11466754--11466813 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11466744 TAAAATAGTG
*
11466754 ACTAAACTATTTAAAA-AATTTATTTAAGTT
1 ACTAAACTATTCAAAAGAATTTATTTAAGTT
**
11466784 ACTAAACTATTCAAAAGTTTTTATTTAAGT
1 ACTAAACTATTCAAAAGAATTTATTTAAGT
11466814 CACTGGACCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (31 bp):
ACTAAACTATTCAAAAGAATTTATTTAAGTT
Found at i:11476120 original size:37 final size:37
Alignment explanation
Indices: 11476077--11476165 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
11476067 ATCATAAATA
*
11476077 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
11476114 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
11476151 AATGAACTAATCAAT
1 AATAAACTAATCAAT
11476166 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:11476245 original size:33 final size:33
Alignment explanation
Indices: 11476208--11476283 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
11476198 TTAAAACTTG
*
11476208 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
11476241 AATTATACATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
11476274 AATTATACAT
1 AATTATACAT
11476284 GCTTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:11477497 original size:92 final size:89
Alignment explanation
Indices: 11477340--11477611 Score: 289
Period size: 92 Copynumber: 3.0 Consensus size: 89
11477330 TTGATTTTAG
* * *
11477340 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTA-TAAGAATTTTATGAAATTATA-ATAATTATTAAATTAT
*
11477405 ATTTAATATTAATTATTTTAAATTGTA
63 ATTTAATATTAATTATTTTAAATTATA
11477432 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATAATAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTAT-AAGAATTTTATGAAA-TT-ATAATAATTATTAAATTAT
*
11477497 ATGTAATAATT-ATTATTTTAAATTATA
63 ATTTAAT-ATTAATTATTTTAAATTATA
* * * * * * * * *
11477524 CAAATTCATAAAATATAATTTATTAGTTATAATTATT-TTAAATTAT-ATATTTTAATTAAAATA
1 TAAATTCATATAAGAAAATTTATTA-TAAGAATT-TTATGAAATTATAATA-ATT-ATTAAATTA
*
11477587 TATTTAATATTAATTATTTCAAATT
62 TATTTAATATTAATTATTTTAAATT
11477612 TTCATTTATA
Statistics
Matches: 155, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
89 3 0.02
90 8 0.05
91 52 0.34
92 83 0.54
93 9 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (89 bp):
TAAATTCATATAAGAAAATTTATTATAAGAATTTTATGAAATTATAATAATTATTAAATTATATT
TAATATTAATTATTTTAAATTATA
Found at i:11477511 original size:24 final size:25
Alignment explanation
Indices: 11477476--11477523 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
11477466 TTATGAAATT
11477476 TAATAATAATTA-TTAAATTATATG
1 TAATAATAATTATTTAAATTATATG
*
11477500 TAATAATTATTATTTTAAATTATA
1 TAATAATAATTA-TTTAAATTATA
11477524 CAAATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TAATAATAATTATTTAAATTATATG
Found at i:11477709 original size:16 final size:16
Alignment explanation
Indices: 11477688--11477729 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11477678 TTATTAAATT
*
11477688 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11477704 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11477719 AT-TATGTTTAA
1 ATATAT-TTTAA
11477730 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11477714 original size:15 final size:15
Alignment explanation
Indices: 11477679--11477720 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11477669 TTAAGAATTT
*
11477679 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11477693 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11477707 TATTTAATAATAAT
1 TATTTAATTATAAT
11477721 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11477857 original size:156 final size:157
Alignment explanation
Indices: 11477663--11477978 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
11477653 ATAAGAATAT
*
11477663 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
11477728 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGACTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11477793 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
11477820 TAATTATTAAGAA-TTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
11477884 AAATATGACTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGACTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11477949 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
11477976 TAA
1 TAA
11477979 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 140 0.92
157 13 0.08
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGACTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:11478121 original size:45 final size:44
Alignment explanation
Indices: 11478030--11478121 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 44
11478020 ACCTCTATTC
* * *
11478030 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
*** *
11478074 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTAATCCAATA
11478119 CAT
1 CAT
11478122 CTCTAATCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTAATCCAATA
Found at i:11478125 original size:16 final size:16
Alignment explanation
Indices: 11478101--11478136 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
11478091 GATTTGCTAT
11478101 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11478117 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
11478133 TACA
1 TACA
11478137 GCGAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11481224 original size:21 final size:21
Alignment explanation
Indices: 11481199--11481242 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11481189 GGATTGAAAG
11481199 GAACATGCAGGATGGTGTCGA
1 GAACATGCAGGATGGTGTCGA
11481220 GAACATGCAGGATGGTGTCGA
1 GAACATGCAGGATGGTGTCGA
11481241 GA
1 GA
11481243 TCCGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.39, T:0.18
Consensus pattern (21 bp):
GAACATGCAGGATGGTGTCGA
Found at i:11491042 original size:16 final size:16
Alignment explanation
Indices: 11491006--11491044 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
11490996 TCAGTTATTT
11491006 AAATA-TTATTTTTTA
1 AAATATTTATTTTTTA
**
11491021 TTATATTTATTTTTTA
1 AAATATTTATTTTTTA
11491037 AAATATTT
1 AAATATTT
11491045 TATATATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AAATATTTATTTTTTA
Found at i:11491256 original size:12 final size:12
Alignment explanation
Indices: 11491241--11491265 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11491231 ACTTTTTAAG
11491241 AGCGCTTCTTCT
1 AGCGCTTCTTCT
11491253 AGCGCTTCTTCT
1 AGCGCTTCTTCT
11491265 A
1 A
11491266 AAAGCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.12, C:0.32, G:0.16, T:0.40
Consensus pattern (12 bp):
AGCGCTTCTTCT
Found at i:11492634 original size:13 final size:13
Alignment explanation
Indices: 11492618--11492656 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11492608 TTAAGTAAAA
11492618 ATATTATATTATT
1 ATATTATATTATT
11492631 ATA-TA-A-TATT
1 ATATTATATTATT
11492641 ATATTATATTATT
1 ATATTATATTATT
11492654 ATA
1 ATA
11492657 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.30
11 3 0.13
12 3 0.13
13 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTATATTATT
Found at i:11496248 original size:285 final size:285
Alignment explanation
Indices: 11495738--11496312 Score: 1123
Period size: 285 Copynumber: 2.0 Consensus size: 285
11495728 TAGAACATTT
*
11495738 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTTAGAGATATATGTCTGCTT
1 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCAGAGATATATGTCTGCTT
11495803 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
66 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
11495868 GTTGTTCCTCAACAGTCAGAGGCCAGAACTCTAGCTCAAGCTTATGTTGTGCGGACTCGTGAGGA
131 GTTGTTCCTCAACAGTCAGAGGCCAGAACTCTAGCTCAAGCTTATGTTGTGCGGACTCGTGAGGA
11495933 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
196 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
11495998 TAGATCCGGGATCTTCACATTCATA
261 TAGATCCGGGATCTTCACATTCATA
*
11496023 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCATAGATATATGTCTGCTT
1 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCAGAGATATATGTCTGCTT
11496088 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
66 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
*
11496153 GTTGTTCCTCAACAGTCAGAGGCCAGAACTCTAGCTCAAGCTTATGTTGTGTGGACTCGTGAGGA
131 GTTGTTCCTCAACAGTCAGAGGCCAGAACTCTAGCTCAAGCTTATGTTGTGCGGACTCGTGAGGA
11496218 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
196 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
11496283 TAGATCCGGGATCTTCACATTCATA
261 TAGATCCGGGATCTTCACATTCATA
11496308 TGTTA
1 TGTTA
11496313 ATACTAAATT
Statistics
Matches: 287, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 287 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (285 bp):
TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCAGAGATATATGTCTGCTT
CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
GTTGTTCCTCAACAGTCAGAGGCCAGAACTCTAGCTCAAGCTTATGTTGTGCGGACTCGTGAGGA
TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
TAGATCCGGGATCTTCACATTCATA
Found at i:11499959 original size:20 final size:19
Alignment explanation
Indices: 11499915--11499959 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11499905 ACAAATAACT
*
11499915 AAAAAGAAAAAAGAAATAG
1 AAAAAGAAAAAAGAAACAG
11499934 AAAAAGAAAGAAAGAAACAG
1 AAAAAGAAA-AAAGAAACAG
*
11499954 AGAAAG
1 AAAAAG
11499960 CCAAACGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAACAG
Found at i:11500915 original size:41 final size:39
Alignment explanation
Indices: 11500870--11500978 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 39
11500860 CTTTGAGTCA
* **
11500870 ATGAGACACTGGGTGTCAAGTTATTACTTCGGATATATTCG
1 ATGAGACACTGGGTGTCAA-TTATTACTTCAG-TATAGCCG
* * *
11500911 ATGAGGCACTGGGTGCCAA-T-TTACTTCAGTTTAGCCG
1 ATGAGACACTGGGTGTCAATTATTACTTCAGTATAGCCG
*
11500948 ATGAGACACTGGGTGTCAATTTACTACTTCA
1 ATGAGACACTGGGTGTCAA-TTATTACTTCA
11500979 AATTATCTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 22 0.39
38 8 0.14
39 2 0.04
40 7 0.12
41 17 0.30
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAATTATTACTTCAGTATAGCCG
Found at i:11503473 original size:25 final size:25
Alignment explanation
Indices: 11503444--11503526 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
11503434 AAAAATCTGG
11503444 GCACTCAACAACATTAGAATCAACT
1 GCACTCAACAACATTAGAATCAACT
* * **
11503469 GCACTGAAC-GC-TTGAAGCAAAAAATCT
1 GCACTCAACAACATT--AG-AATCAA-CT
11503496 GGGCACTCAACAACATTAGAATCAACT
1 --GCACTCAACAACATTAGAATCAACT
11503523 GCAC
1 GCAC
11503527 CGAGAAGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
23 2 0.05
24 1 0.02
25 14 0.33
26 4 0.10
27 4 0.10
28 4 0.10
29 10 0.24
30 1 0.02
31 2 0.05
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (25 bp):
GCACTCAACAACATTAGAATCAACT
Found at i:11504926 original size:23 final size:23
Alignment explanation
Indices: 11504900--11504998 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
11504890 ATAAGTGCCA
11504900 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11504923 CACTGTTATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11504946 CACTGAAATGTAGCAGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11504969 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11504992 CACTGAT
1 CACTGAT
11504999 CAATAACACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11509747 original size:12 final size:12
Alignment explanation
Indices: 11509729--11509763 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
11509719 CGGATGGCAT
11509729 AAGCTCTCGCTG
1 AAGCTCTCGCTG
*
11509741 GAGCTCTCGCTG
1 AAGCTCTCGCTG
11509753 AAGCTCTCGCT
1 AAGCTCTCGCT
11509764 TCAGATCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.26
Consensus pattern (12 bp):
AAGCTCTCGCTG
Found at i:11510632 original size:45 final size:45
Alignment explanation
Indices: 11510568--11510658 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
11510558 TGGAGTACAA
*
11510568 GATAATTCATCCAACACTCTGATGGTATTATCAAGCCAGAACTCT
1 GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTCT
11510613 GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTCT
1 GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTCT
11510658 G
1 G
11510659 CTCTTTCAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (45 bp):
GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTCT
Found at i:11512347 original size:23 final size:23
Alignment explanation
Indices: 11512321--11512419 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
11512311 ATAAGTGCCA
11512321 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11512344 CACTGTTATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
11512367 CACTGAAATGTAGCAGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11512390 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
11512413 CACTGAT
1 CACTGAT
11512420 CAATAACACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11522660 original size:30 final size:31
Alignment explanation
Indices: 11522626--11522689 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
11522616 ACAACCCAGT
11522626 TGACTTAAA-AAAAGCTTTTGAATAGTTAAG
1 TGACTTAAATAAAAGCTTTTGAATAGTTAAG
* * *
11522656 TGACTTAAATATAATCTTTTGAATAGTTTAG
1 TGACTTAAATAAAAGCTTTTGAATAGTTAAG
11522687 TGA
1 TGA
11522690 TAATTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAGCTTTTGAATAGTTAAG
Found at i:11536737 original size:31 final size:30
Alignment explanation
Indices: 11536670--11536756 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 30
11536660 GTGTAGTCTG
* *
11536670 ATACATGAAA-TTTGATTTGGTGCAATTAT
1 ATACATGAAACTTTGATTTGGTTCAAATAT
* * *
11536699 ACACATGAAACTTTGGTTGTGGTTCAAATGT
1 ATACATGAAACTTTGATT-TGGTTCAAATAT
11536730 ATACATGAAACTTTGATTATGGTTCAA
1 ATACATGAAACTTTGATT-TGGTTCAA
11536757 TCATACACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.19
30 6 0.12
31 33 0.69
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (30 bp):
ATACATGAAACTTTGATTTGGTTCAAATAT
Found at i:11538032 original size:18 final size:19
Alignment explanation
Indices: 11538009--11538052 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
11537999 CATTTGAACA
*
11538009 AAAATTAAAGTTTA-ATAC
1 AAAATTAAAATTTATATAC
*
11538027 AAAATTAAAATTTATATAT
1 AAAATTAAAATTTATATAC
11538046 AAAATTA
1 AAAATTA
11538053 CATTACACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAATTAAAATTTATATAC
Found at i:11538596 original size:16 final size:16
Alignment explanation
Indices: 11538575--11538631 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
11538565 TTTGATTCGC
*
11538575 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
11538591 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
11538607 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
11538623 TGTAATGGA
1 TGTAATGGA
11538632 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:11538898 original size:18 final size:17
Alignment explanation
Indices: 11538877--11538911 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11538867 TTATTATTAA
*
11538877 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11538895 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11538912 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11539047 original size:154 final size:156
Alignment explanation
Indices: 11538764--11539077 Score: 560
Period size: 154 Copynumber: 2.0 Consensus size: 156
11538754 TAGAATACCC
*
11538764 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATCTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
11538829 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
11538894 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
11538921 TTAGCATAAATCTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATCTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
11538984 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
11539049 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
11539075 TTA
1 TTA
11539078 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 92 0.61
155 1 0.01
157 59 0.39
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (156 bp):
TTAGCAGAAATCTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:11539048 original size:16 final size:16
Alignment explanation
Indices: 11539011--11539052 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11539001 TTAATCATAT
*
11539011 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
11539027 TT-AAATATATTATAA
1 TTAAAATATATTATAA
11539042 TTAAAATATAT
1 TTAAAATATAT
11539053 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:11539059 original size:14 final size:15
Alignment explanation
Indices: 11539020--11539061 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11539010 TTTAAACATA
*
11539020 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11539035 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11539049 A-TATAATTTAATA
1 ATTATAATTAAATA
11539062 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11539150 original size:120 final size:121
Alignment explanation
Indices: 11539009--11539305 Score: 462
Period size: 120 Copynumber: 2.5 Consensus size: 121
11538999 ATTTAATCAT
*
11539009 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
11539073 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
11539131 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
11539194 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
11539250 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
11539306 TAAAATTATT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
119 24 0.15
120 130 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:11539179 original size:14 final size:15
Alignment explanation
Indices: 11539130--11539181 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11539120 GTAAAATATA
11539130 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
11539145 TATTAAATATATTAT
1 AATTAAATATATTAT
11539160 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
11539173 AATTTAATA
1 AATTAAATA
11539182 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:11539196 original size:44 final size:43
Alignment explanation
Indices: 11539107--11539197 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
11539097 CTCAAATCAT
* * *
11539107 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
11539150 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
11539194 AATA
1 AATA
11539198 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:11539232 original size:59 final size:59
Alignment explanation
Indices: 11539049--11539232 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
11539039 TAATTAAAAT
11539049 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
11539108 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
11539168 T-
58 TA
* *
11539169 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
11539228 ATATA
1 ATATA
11539233 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:11539286 original size:15 final size:15
Alignment explanation
Indices: 11539266--11539304 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
11539256 AATAATTAAT
11539266 ATTAAATATGATTTA
1 ATTAAATATGATTTA
11539281 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
11539298 ATAAAAT
1 ATTAAAT
11539305 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:11539291 original size:17 final size:17
Alignment explanation
Indices: 11539271--11539304 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11539261 TTAATATTAA
*
11539271 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
11539288 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
11539305 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:11539447 original size:93 final size:92
Alignment explanation
Indices: 11539337--11539531 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
11539327 GATTATAGTT
* * *
11539337 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
11539400 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
11539430 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
11539495 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
11539522 TATGAATTTA
1 TATGAATTTA
11539532 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:11546599 original size:11 final size:11
Alignment explanation
Indices: 11546525--11546598 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 11
11546515 AAATAAATGA
11546525 AAGAAAAAGA-
1 AAGAAAAAGAG
11546535 ATAG-AAAA-AG
1 A-AGAAAAAGAG
11546545 AAGAACAAAGTAG
1 AAGAA-AAAG-AG
*
11546558 AACGAAATAGAG
1 AA-GAAAAAGAG
11546570 AAGAAAAAGAG
1 AAGAAAAAGAG
11546581 AAAGAAAAAG-G
1 -AAGAAAAAGAG
11546592 -AGAAAAA
1 AAGAAAAA
11546599 ATTAGGGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
9 10 0.19
10 7 0.13
11 14 0.26
12 13 0.24
13 7 0.13
14 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.23, T:0.04
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:11548311 original size:25 final size:24
Alignment explanation
Indices: 11548264--11548311 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11548254 GAGAAATAAT
* * *
11548264 TTTTAGTTAAACTCTGTTTATTTG
1 TTTTAGTCAAACACTGTTAATTTG
11548288 TTTTAGTCAAACACTGATTAATTT
1 TTTTAGTCAAACACTG-TTAATTT
11548312 AGATTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTTAGTCAAACACTGTTAATTTG
Found at i:11555229 original size:9 final size:9
Alignment explanation
Indices: 11555198--11555222 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11555188 ATAATATTTT
11555198 ATTTTAATA
1 ATTTTAATA
11555207 ATTTTAATA
1 ATTTTAATA
11555216 ATTTTAA
1 ATTTTAA
11555223 ACATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTAATA
Found at i:11555536 original size:31 final size:31
Alignment explanation
Indices: 11555476--11555538 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
11555466 TACAAAAAAT
** *
11555476 ATTTTCCATAAAACTTTTTTTTTTGAAACAA
1 ATTTTCCATAAAACTTTTTCATGTGAAACAA
11555507 ATTTTCCATAAAACTTTTTACATGT-AAACAA
1 ATTTTCCATAAAACTTTTT-CATGTGAAACAA
11555538 A
1 A
11555539 CGGACCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (31 bp):
ATTTTCCATAAAACTTTTTCATGTGAAACAA
Found at i:11557398 original size:21 final size:20
Alignment explanation
Indices: 11557370--11557409 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11557360 CACTTCACAA
*
11557370 TCATGTCATACATCATCATC
1 TCATGTCAAACATCATCATC
11557390 TCATAGTCAAACATCATCAT
1 TCAT-GTCAAACATCATCAT
11557410 AAAGTCCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (20 bp):
TCATGTCAAACATCATCATC
Found at i:11559454 original size:10 final size:10
Alignment explanation
Indices: 11559410--11559477 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
11559400 AAAAAGTATT
* *
11559410 TTTTAAATAT
1 TTTTAAAAAA
*
11559420 TTTTAAAATA
1 TTTTAAAAAA
11559430 TTTT--AAAA
1 TTTTAAAAAA
*
11559438 -TTAAAAAAA
1 TTTTAAAAAA
11559447 TTTTAAAAAGTA
1 TTTTAAAAA--A
11559459 TTTTAAAAATA
1 TTTTAAAAA-A
11559470 TTTTAAAA
1 TTTTAAAA
11559478 TTAAAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
7 2 0.04
8 3 0.06
9 4 0.09
10 18 0.38
11 10 0.21
12 10 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:11559461 original size:12 final size:11
Alignment explanation
Indices: 11559400--11559477 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
11559390 TTAAAAATTA
11559400 AAAAAGTATTTT
1 AAAAA-TATTTT
**
11559412 TTAAATATTTT
1 AAAAATATTTT
*
11559423 TAAAATATTTT
1 AAAAATATTTT
11559434 --AAA-A--TT
1 AAAAATATTTT
*
11559440 AAAAAAATTTT
1 AAAAATATTTT
11559451 AAAAAGTATTTT
1 AAAAA-TATTTT
11559463 AAAAATATTTT
1 AAAAATATTTT
11559474 AAAA
1 AAAA
11559478 TTAAAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.04
8 4 0.07
9 4 0.07
11 33 0.59
12 13 0.23
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11559512 original size:43 final size:42
Alignment explanation
Indices: 11559417--11559530 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 42
11559407 ATTTTTTAAA
* ***
11559417 TATTTTTAAAATATTTTAAAATT-AAAAA-AATTTTAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAATAATAAAAAAAAG
11559457 TATTTTAAAAATATTTTAAAATTAAAAAATAATAAAAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAATAAT-AAAAAAAAG
11559500 TATTTTAAAAATATTTTAAAATTAAAAAATA
1 TATTTTAAAAATATTTTAAAATTAAAAAATA
11559531 TCAGGCCGGG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
40 22 0.33
41 5 0.07
42 3 0.04
43 37 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (42 bp):
TATTTTAAAAATATTTTAAAATTAAAAAATAATAAAAAAAAG
Found at i:11560486 original size:25 final size:27
Alignment explanation
Indices: 11560458--11560516 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
11560448 GTATATGAAT
*
11560458 TGAAATCAA-CTATTGGAA-TGAGAT-G
1 TGAAAT-AATCTAATGGAATTGAGATAG
11560483 TGAAA-AATCTAATGGAATTGAGATAG
1 TGAAATAATCTAATGGAATTGAGATAG
11560509 TGAAATAA
1 TGAAATAA
11560517 GGTATGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 8 0.28
25 11 0.38
26 6 0.21
27 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (27 bp):
TGAAATAATCTAATGGAATTGAGATAG
Found at i:11563117 original size:48 final size:42
Alignment explanation
Indices: 11563008--11563113 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
11562998 ATAGCCAGCT
* *
11563008 ATGGTCTTACACGAATCTCGTATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
11563050 ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
11563092 ATGGTCTTACACGTAATCTCAT
1 ATGGTCTTACACG-AATCTCAT
11563114 CTCAGTATCC
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 53 0.87
43 8 0.13
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
Found at i:11563587 original size:28 final size:28
Alignment explanation
Indices: 11563556--11563609 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
11563546 CCATAACGAC
*
11563556 CCAC-ATTTTTCATTCATTCACAATTTTA
1 CCACAATTTATCATTC-TTCACAATTTTA
*
11563584 CCACAATTTATCATTCTTCTCAATTT
1 CCACAATTTATCATTCTTCACAATTT
11563610 AGTCCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (28 bp):
CCACAATTTATCATTCTTCACAATTTTA
Found at i:11565337 original size:15 final size:17
Alignment explanation
Indices: 11565317--11565357 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11565307 TGGTTGTGTT
11565317 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
11565332 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
11565349 TATATATAT
1 TATATATAT
11565358 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:11565648 original size:41 final size:41
Alignment explanation
Indices: 11565593--11565802 Score: 339
Period size: 41 Copynumber: 5.1 Consensus size: 41
11565583 ATTGGTGAAT
* **
11565593 TGAATCAGGTTATAAATCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11565634 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* * * *
11565675 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGTCGGTGATT
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
11565716 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
11565757 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11565798 CGAAT
1 TGAAT
11565803 ATGATGAATT
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 156 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
Found at i:11566054 original size:37 final size:37
Alignment explanation
Indices: 11566013--11566091 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
11566003 TAGGTGGATA
*
11566013 TATATTTGTATGCATTCGGCATAGATAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
* * *
11566050 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
*
11566087 AATAT
1 TATAT
11566092 GTGCTTTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGATAGATATAAGTG
Found at i:11573263 original size:15 final size:17
Alignment explanation
Indices: 11573243--11573283 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11573233 TGGTTGTGTT
11573243 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
11573258 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
11573275 TATATATAT
1 TATATATAT
11573284 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:11573572 original size:41 final size:41
Alignment explanation
Indices: 11573517--11573726 Score: 357
Period size: 41 Copynumber: 5.1 Consensus size: 41
11573507 ATTGGTGAAT
* *
11573517 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11573558 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* *
11573599 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11573640 TGAACCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
11573681 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11573722 CGAAT
1 TGAAT
11573727 ATGATGAATT
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 158 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
Found at i:11573951 original size:31 final size:34
Alignment explanation
Indices: 11573915--11574024 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 34
11573905 GCATATTTAG
11573915 GCATTCGGCATAGGTGGATATA-TAT-T-TGTAT
1 GCATTCGGCATAGGTGGATATAGTATATATGTAT
* *
11573946 GCATTCGGCATAGATAGATATAAGTGTATATATGTAT
1 GCATTCGGCATAGGTGGATAT-A--GTATATATGTAT
*
11573983 GCATTCGGCATAGGTGGGTATAAGTGA-ATATG--T
1 GCATTCGGCATAGGTGGATAT-AGT-ATATATGTAT
11574016 GCATTCGGC
1 GCATTCGGC
11574025 CTTTATAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 19 0.28
32 1 0.01
33 10 0.15
35 10 0.15
36 2 0.03
37 25 0.37
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (34 bp):
GCATTCGGCATAGGTGGATATAGTATATATGTAT
Found at i:11573976 original size:37 final size:37
Alignment explanation
Indices: 11573935--11574024 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
11573925 TAGGTGGATA
*
11573935 TATATTTGTATGCATTCGGCATAGATAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
* * *
11573972 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
11574009 -A-ATATG--TGCATTCGGC
1 TATATATGTATGCATTCGGC
11574025 CTTTATAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 10 0.20
35 5 0.10
36 1 0.02
37 33 0.67
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGATAGATATAAGTG
Found at i:11584923 original size:30 final size:30
Alignment explanation
Indices: 11584882--11584946 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
11584872 TAGCAAAAAA
11584882 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
* *
11584912 CTCTTAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
11584942 CTCTC
1 CTCTC
11584947 TTTAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.03, T:0.40
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:11586986 original size:41 final size:41
Alignment explanation
Indices: 11586929--11587010 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
11586919 CATGCGAAAC
11586929 GTAAATAGACGTTGTTTCAACATTAAACGGTTAGCTAGAGA
1 GTAAATAGACGTTGTTTCAACATTAAACGGTTAGCTAGAGA
11586970 GTAAATAGACGTTGTTTCAACATTAAACGGTTAGCTAGAGA
1 GTAAATAGACGTTGTTTCAACATTAAACGGTTAGCTAGAGA
11587011 CTTAGTCGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (41 bp):
GTAAATAGACGTTGTTTCAACATTAAACGGTTAGCTAGAGA
Found at i:11591031 original size:43 final size:43
Alignment explanation
Indices: 11590979--11591083 Score: 149
Period size: 43 Copynumber: 2.4 Consensus size: 43
11590969 ACATGTAATC
* *
11590979 ACAAATCGATGCCACTGTCCTAGACAAGGT-CTTACACGAAAAT
1 ACAAGTCGATGCCAATGTCCTAGACAAGGTAC-TACACGAAAAT
**
11591022 ACAAGTCGATGCCAATGTCCTAGACGTGGTACTACACGAAAAT
1 ACAAGTCGATGCCAATGTCCTAGACAAGGTACTACACGAAAAT
*
11591065 ACAAGTCGATGTCAATGTC
1 ACAAGTCGATGCCAATGTC
11591084 TCAAACGTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 55 0.98
44 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (43 bp):
ACAAGTCGATGCCAATGTCCTAGACAAGGTACTACACGAAAAT
Found at i:11591092 original size:43 final size:42
Alignment explanation
Indices: 11590979--11591105 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 42
11590969 ACATGTAATC
* * * **
11590979 ACAAATCGATGCCACTGTCCTAGACAAGGTCTTACACGAAAAT
1 ACAAGTCGATGCCAATGTCCTAAACGTGGTC-TACACGAAAAT
*
11591022 ACAAGTCGATGCCAATGTCCTAGACGTGGTACTACACGAAAAT
1 ACAAGTCGATGCCAATGTCCTAAACGTGGT-CTACACGAAAAT
* *
11591065 ACAAGTCGATGTCAATGT-CTCAAACGTGGTCTTCACGAAAA
1 ACAAGTCGATGCCAATGTCCT-AAACGTGGTCTACACGAAAA
11591106 CACTTATCAG
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 12 0.16
43 62 0.83
44 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
ACAAGTCGATGCCAATGTCCTAAACGTGGTCTACACGAAAAT
Found at i:11592933 original size:11 final size:11
Alignment explanation
Indices: 11592917--11592941 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11592907 CATTTAATAA
11592917 ATTATTTTTAT
1 ATTATTTTTAT
11592928 ATTATTTTTAT
1 ATTATTTTTAT
11592939 ATT
1 ATT
11592942 GTAAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:11596182 original size:186 final size:186
Alignment explanation
Indices: 11595856--11596209 Score: 532
Period size: 186 Copynumber: 1.9 Consensus size: 186
11595846 GCCAAACATG
* *
11595856 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
11595921 TGCTTGAAGCATTTTTGACACTACTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAAT
66 TGCTTGAAGCATTTTTGACACTACTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTCAAGAAAT
* *
11595986 ACTGTAGAAAAAAAACGTCCACGTGTGAGATTTTTTCATCAATTTGTTCAGAAGAT
131 ACTATAGAAAAAAAACGTCCACGTGGGAGATTTTTTCATCAATTTGTTCAGAAGAT
*
11596042 AACTACTGTAGAAAAAGAGAGTCTACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATC
* * * *
11596106 CTGCTTGAAGCGTTTTTGACACTATTTCTTTAGAACCGTATTCTCAAAATTAGTTTTT-AAGGAA
65 CTGCTTGAAGCATTTTTGACACTACTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTCAA-GAA
* * * *
11596170 CTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA
129 ATACTATAGAAAAAAAACGTCCACGTGGGAGATTTTTTCA
11596210 GTTTTTTGCT
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
185 3 0.02
186 147 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (186 bp):
AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTACTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTCAAGAAAT
ACTATAGAAAAAAAACGTCCACGTGGGAGATTTTTTCATCAATTTGTTCAGAAGAT
Found at i:11596266 original size:125 final size:125
Alignment explanation
Indices: 11596042--11596308 Score: 383
Period size: 125 Copynumber: 2.1 Consensus size: 125
11596032 TTCAGAAGAT
*
11596042 AACTACTGTAGAAAAAGAGAGTCTACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAT-AATTTTGCTGACAGTGCATCC
* * * *
11596107 TGCTTGAAGCGTTTTTGACACTATTTCTTTAGAACCGTATTCTCAAAATTAGTTTTTAAGG
65 TGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCGTATTCTCAAAATTAGTTTTTAAGG
* * * * *
11596168 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-TTTTTGCTGATAGTGCATCC
1 AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCA-TAATTTTGCTGACAGTGCATCC
* * *
11596232 TGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCGTCTTCTCAAAATTATTTTTTTAGG
65 TGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCGTATTCTCAAAATTAGTTTTTAAGG
*
11596293 AACTACTGTAAAAAAA
1 AACTACTGTAGAAAAA
11596309 AACCAAAATC
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
125 86 0.69
126 38 0.30
127 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCATAATTTTGCTGACAGTGCATCCT
GCTTGAAGCGTTTTGGACACAATTTATTAAGAACCGTATTCTCAAAATTAGTTTTTAAGG
Found at i:11596419 original size:34 final size:33
Alignment explanation
Indices: 11596369--11596485 Score: 123
Period size: 34 Copynumber: 3.5 Consensus size: 33
11596359 CACAATATTA
11596369 TTTTAAAAAGAACTAAACCCAAATTTAATTAATT
1 TTTTAAAAA-AACTAAACCCAAATTTAATTAATT
*
11596403 TTCTTAAAAAAACTAAACCCAAATTTATTTAATT
1 TT-TTAAAAAAACTAAACCCAAATTTAATTAATT
** *
11596437 TATTT-AAAACTCTAAA--CTAATTTAATTAATT
1 T-TTTAAAAAAACTAAACCCAAATTTAATTAATT
*
11596468 TTTAAAAAGAACACTAAA
1 TTTTAAAA-AA-ACTAAA
11596486 TTTTGATTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
30 2 0.03
31 17 0.24
32 1 0.01
33 14 0.20
34 28 0.40
35 8 0.11
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.37
Consensus pattern (33 bp):
TTTTAAAAAAACTAAACCCAAATTTAATTAATT
Found at i:11596559 original size:15 final size:15
Alignment explanation
Indices: 11596539--11596573 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11596529 TTATTTTAAC
* *
11596539 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
11596554 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
11596569 AAAAC
1 AAAAC
11596574 TTAGGGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:11597389 original size:17 final size:18
Alignment explanation
Indices: 11597369--11597402 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11597359 ATTATTTTTA
11597369 AAAAAACTTTA-AAAATT
1 AAAAAACTTTATAAAATT
*
11597386 AAAAAAGTTTATAAAAT
1 AAAAAACTTTATAAAAT
11597403 ATTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAACTTTATAAAATT
Found at i:11599509 original size:20 final size:20
Alignment explanation
Indices: 11599472--11599508 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11599462 TTCACTTTTA
*
11599472 AATTTTTTATAATATTTTGT
1 AATTTTTAATAATATTTTGT
11599492 AATTTTTAAT-ATATTTT
1 AATTTTTAATAATATTTT
11599509 TTAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
AATTTTTAATAATATTTTGT
Found at i:11602318 original size:30 final size:32
Alignment explanation
Indices: 11602259--11602318 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
11602249 GAATATTAGA
* * *
11602259 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
11602291 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
11602319 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:11602368 original size:26 final size:25
Alignment explanation
Indices: 11602325--11602412 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
11602315 TATAATAAAT
*
11602325 AAAAGAAACAAAAAGAAATAGAAAGA
1 AAAAGAAA-GAAAAGAAATAGAAAGA
* * **
11602351 AACAGAATAGAAACGAAATAGGGAGA
1 AAAAGAA-AGAAAAGAAATAGAAAGA
* *
11602377 AAAAGAAAGAAAAGAAAAAGGGAA-A
1 AAAAGAAAGAAAAGAAATA-GAAAGA
11602402 AAAAGAAAGAA
1 AAAAGAAAGAA
11602413 GAAATTAGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 22 0.43
26 28 0.55
27 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (25 bp):
AAAAGAAAGAAAAGAAATAGAAAGA
Found at i:11602392 original size:15 final size:14
Alignment explanation
Indices: 11602374--11602416 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
11602364 CGAAATAGGG
11602374 AGAAAAAGAAAGAAA
1 AGAAAAAGAAA-AAA
11602389 AGAAAAAGGGAAAAAA
1 AGAAAAA--GAAAAAA
11602405 AGAAAGAAGAAA
1 AGAAA-AAGAAA
11602417 TTAGGGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.44
16 8 0.32
17 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAAA
Found at i:11602393 original size:25 final size:25
Alignment explanation
Indices: 11602325--11602412 Score: 95
Period size: 25 Copynumber: 3.4 Consensus size: 25
11602315 TATAATAAAT
* **
11602325 AAAAGAAACAAAAAGAAATAGAAAGA
1 AAAAGAAA-GAAAAGAAATAGGGAGA
* *
11602351 AACAGAATAGAAACGAAATAGGGAGA
1 AAAAGAA-AGAAAAGAAATAGGGAGA
* *
11602377 AAAAGAAAGAAAAGAAAAAGGGAAA
1 AAAAGAAAGAAAAGAAATAGGGAGA
11602402 AAAAGAAAGAA
1 AAAAGAAAGAA
11602413 GAAATTAGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
25 26 0.50
26 25 0.48
27 1 0.02
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (25 bp):
AAAAGAAAGAAAAGAAATAGGGAGA
Found at i:11603132 original size:11 final size:11
Alignment explanation
Indices: 11603116--11603140 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11603106 TGAATTGGTA
11603116 TATATATTGAT
1 TATATATTGAT
11603127 TATATATTGAT
1 TATATATTGAT
11603138 TAT
1 TAT
11603141 TTGAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATATTGAT
Found at i:11603572 original size:20 final size:20
Alignment explanation
Indices: 11603547--11603586 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11603537 TTGAATATGG
11603547 TATGGAAAAAGCAATTGCAT
1 TATGGAAAAAGCAATTGCAT
*
11603567 TATGGATAAAGCAATTGCAT
1 TATGGAAAAAGCAATTGCAT
11603587 AAATGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (20 bp):
TATGGAAAAAGCAATTGCAT
Found at i:11604662 original size:58 final size:58
Alignment explanation
Indices: 11604568--11604706 Score: 181
Period size: 58 Copynumber: 2.4 Consensus size: 58
11604558 GGTGTTACAC
* * * * *
11604568 GTAAGACCATGGATGAAAGATGTCATAGTAGCAAGGTA-AATGGTATAATGTATATGGT
1 GTAAGACCATGGATGAAAGACGTCATAGCAGCAAGGTATAAT-GAATAAGGTATACGGT
* *
11604626 GTAAGACCATGGATGAAAGACGTCATGGCAGTAAGGTATAATGAATAAGGTATACGGT
1 GTAAGACCATGGATGAAAGACGTCATAGCAGCAAGGTATAATGAATAAGGTATACGGT
* *
11604684 GTAAGACTATAGATGAAAGACGT
1 GTAAGACCATGGATGAAAGACGT
11604707 TATGACGACC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 68 0.96
59 3 0.04
ACGTcount: A:0.39, C:0.09, G:0.28, T:0.24
Consensus pattern (58 bp):
GTAAGACCATGGATGAAAGACGTCATAGCAGCAAGGTATAATGAATAAGGTATACGGT
Found at i:11610050 original size:30 final size:30
Alignment explanation
Indices: 11610016--11610077 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
11610006 GTAAAAAGGG
11610016 AAATTTTTTATCCTGGGAATTTCGTGTTGT
1 AAATTTTTTATCCTGGGAATTTCGTGTTGT
11610046 AAATTTTTTATCCTGGGAATTTCGTGTTGT
1 AAATTTTTTATCCTGGGAATTTCGTGTTGT
11610076 AA
1 AA
11610078 GGGTGCAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (30 bp):
AAATTTTTTATCCTGGGAATTTCGTGTTGT
Found at i:11612262 original size:17 final size:18
Alignment explanation
Indices: 11612236--11612274 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11612226 GCTTATATAA
* *
11612236 GAAATTTTTTTA-CTGTT
1 GAAATCTTTTTAGCGGTT
11612253 GAAATCTTTTTAGCGGTT
1 GAAATCTTTTTAGCGGTT
11612271 GAAA
1 GAAA
11612275 AAGCTACCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (18 bp):
GAAATCTTTTTAGCGGTT
Found at i:11616387 original size:33 final size:33
Alignment explanation
Indices: 11616319--11616387 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
11616309 TGTTAACGGT
*
11616319 TAAATTTATTAAGTTTTTGCCATTTCTAAAGTC
1 TAAATTTATTAAGTTTTTGCCATTTCTAAAATC
*
11616352 TAAATTTATTAAGTTTTTGCTA-TTCTTAAAATC
1 TAAATTTATTAAGTTTTTGCCATTTC-TAAAATC
11616385 TAA
1 TAA
11616388 TGTGACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 30 0.91
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.49
Consensus pattern (33 bp):
TAAATTTATTAAGTTTTTGCCATTTCTAAAATC
Found at i:11617141 original size:13 final size:14
Alignment explanation
Indices: 11617118--11617148 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11617108 GAATATAGTC
11617118 TCTATACTTTTATT
1 TCTATACTTTTATT
11617132 TCTA-ACTTTTATT
1 TCTATACTTTTATT
11617145 TCTA
1 TCTA
11617149 GGAATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTATACTTTTATT
Found at i:11628776 original size:33 final size:33
Alignment explanation
Indices: 11628728--11628818 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 33
11628718 ATTTTACTGC
* * *
11628728 TATTTTTACTGTTTTGTTGTTGTTTCTCCTATTT
1 TATTGTTAGTGTTTTGTTGTTGTTT-TACTATTT
* ** *
11628762 TATTGTT-GTGTTTTGTTATCATTTTATTATTT
1 TATTGTTAGTGTTTTGTTGTTGTTTTACTATTT
* *
11628794 TATTGTTATTATTTTGTTGTTGTTT
1 TATTGTTAGTGTTTTGTTGTTGTTT
11628819 GAATATTGTA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
32 13 0.30
33 25 0.57
34 6 0.14
ACGTcount: A:0.12, C:0.05, G:0.13, T:0.69
Consensus pattern (33 bp):
TATTGTTAGTGTTTTGTTGTTGTTTTACTATTT
Found at i:11628804 original size:14 final size:14
Alignment explanation
Indices: 11628785--11628814 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11628775 TGTTATCATT
11628785 TTATTATTTTATTG
1 TTATTATTTTATTG
*
11628799 TTATTATTTTGTTG
1 TTATTATTTTATTG
11628813 TT
1 TT
11628815 GTTTGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (14 bp):
TTATTATTTTATTG
Found at i:11629488 original size:31 final size:31
Alignment explanation
Indices: 11629445--11629505 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
11629435 ATCATTAAAT
* *
11629445 TATTTAAAAATTTTCATTCAAGTTATTGAAC
1 TATTCAAAAATTTTAATTCAAGTTATTGAAC
*
11629476 TATTCAAAAATTTTAATTTAAGTTATTGAA
1 TATTCAAAAATTTTAATTCAAGTTATTGAA
11629506 ATGTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (31 bp):
TATTCAAAAATTTTAATTCAAGTTATTGAAC
Found at i:11637171 original size:19 final size:19
Alignment explanation
Indices: 11637141--11637178 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
11637131 ACATGACAAA
11637141 AATAAAATTTTAAT-TTTT
1 AATAAAATTTTAATATTTT
11637159 AATAAATATTTTAATATTTT
1 AATAAA-ATTTTAATATTTT
11637179 GTTACATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATAAAATTTTAATATTTT
Found at i:11647295 original size:18 final size:17
Alignment explanation
Indices: 11647253--11647285 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11647243 AACCAGATAC
11647253 TATTTA-AT-TATTTTT
1 TATTTATATATATTTTT
11647268 TATTTATATATATTTTT
1 TATTTATATATATTTTT
11647285 T
1 T
11647286 GTTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTATATATATTTTT
Found at i:11647836 original size:21 final size:20
Alignment explanation
Indices: 11647797--11647850 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
11647787 TAAGTTCTGT
* *
11647797 GGATATTTAGGGGTAATTTGG
1 GGATATTTA-GAGTGATTTGG
*
11647818 GGATATTTTAGAGTGATTTTG
1 GGATA-TTTAGAGTGATTTGG
*
11647839 GGCTATTTAGAG
1 GGATATTTAGAG
11647851 GACGACATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 17 0.61
22 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (20 bp):
GGATATTTAGAGTGATTTGG
Found at i:11660668 original size:26 final size:26
Alignment explanation
Indices: 11660638--11660689 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
11660628 AGAATACTTG
11660638 AACCTCAACTTTTGCTAGACTTGTGT
1 AACCTCAACTTTTGCTAGACTTGTGT
* *
11660664 AACCTTAACTTTTGCTGGACTTGTGT
1 AACCTCAACTTTTGCTAGACTTGTGT
11660690 GCACTTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (26 bp):
AACCTCAACTTTTGCTAGACTTGTGT
Found at i:11662837 original size:27 final size:28
Alignment explanation
Indices: 11662783--11662837 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
11662773 ACACTTTCAA
* *
11662783 TTTTGACATGGATTAAATTTCCCTATTT
1 TTTTGACAGGGATTAAATTTCCCAATTT
* *
11662811 TTTTGA-AGGGATTAATTTTCTCAATTT
1 TTTTGACAGGGATTAAATTTCCCAATTT
11662838 CAGTCGATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTGACAGGGATTAAATTTCCCAATTT
Found at i:11673585 original size:4 final size:4
Alignment explanation
Indices: 11673578--11673607 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
11673568 AATTCAACAC
*
11673578 CATA CATA TATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
11673608 AATGGTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
CATA
Found at i:11674171 original size:31 final size:31
Alignment explanation
Indices: 11674111--11674178 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
11674101 TTACAATTTG
* *
11674111 ATCACTGAACTCCTTGAAACTTTTCATTTAA
1 ATCACTGAACTACTTAAAACTTTTCATTTAA
* * * *
11674142 GTCACTGAACTATTTAAAAGTTTTTATTTAA
1 ATCACTGAACTACTTAAAACTTTTCATTTAA
11674173 ATCACT
1 ATCACT
11674179 AGGTTGTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (31 bp):
ATCACTGAACTACTTAAAACTTTTCATTTAA
Found at i:11683247 original size:2 final size:2
Alignment explanation
Indices: 11683240--11683291 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
11683230 ATCGATTTTC
11683240 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11683282 CT CT CT CT CT
1 CT CT CT CT CT
11683292 TTTCTTCTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11684199 original size:31 final size:31
Alignment explanation
Indices: 11684164--11684228 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
11684154 AATGGCCTAA
11684164 TGACTTAAACAAAAAGT-TTCAAATAGTTCAG
1 TGACTTAAACAAAAAGTCTT-AAATAGTTCAG
** *
11684195 TGACTTAAATGAAAAGTCTTGAATAGTTCAG
1 TGACTTAAACAAAAAGTCTTAAATAGTTCAG
11684226 TGA
1 TGA
11684229 TCATTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (31 bp):
TGACTTAAACAAAAAGTCTTAAATAGTTCAG
Found at i:11686154 original size:41 final size:40
Alignment explanation
Indices: 11686067--11686153 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
11686057 AAACAAAGAA
* *
11686067 GAAAAAGGAAAACTAAAAAATTGCCTATGAATTTAAGCTT
1 GAAAAAAGAAAACCAAAAAATTGCCTATGAATTTAAGCTT
*
11686107 GAAAAAAGAAAACCCAAAAATTAG-CTATGAATTTAAGCTT
1 GAAAAAAGAAAACCAAAAAATT-GCCTATGAATTTAAGCTT
11686147 GAAAAAA
1 GAAAAAA
11686154 ACTGAAATCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 42 0.98
41 1 0.02
ACGTcount: A:0.54, C:0.10, G:0.14, T:0.22
Consensus pattern (40 bp):
GAAAAAAGAAAACCAAAAAATTGCCTATGAATTTAAGCTT
Found at i:11686410 original size:16 final size:16
Alignment explanation
Indices: 11686389--11686419 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11686379 GGCTAGGATA
11686389 GGAAAAAGAAAAAGAG
1 GGAAAAAGAAAAAGAG
*
11686405 GGAAAATGAAAAAGA
1 GGAAAAAGAAAAAGA
11686420 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (16 bp):
GGAAAAAGAAAAAGAG
Found at i:11698751 original size:86 final size:87
Alignment explanation
Indices: 11698603--11698768 Score: 289
Period size: 86 Copynumber: 1.9 Consensus size: 87
11698593 TTATCCTTTG
*
11698603 GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTTTCATGATCTGTGCATAGTCA
1 GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTCTCATGATCTGTGCATAGTCA
11698668 TTTCTAG-AAATTTTCTTTTTT
66 TTTCTAGAAAATTTTCTTTTTT
* * *
11698689 GGTTGATTTAGTTTGCTGTTAGAGACATGTAAAGGTGACGACTTCTCATGATCTTTGGATAGTCA
1 GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTCTCATGATCTGTGCATAGTCA
11698754 TTTCTAGAAAATTTT
66 TTTCTAGAAAATTTT
11698769 TGGGGTCGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 68 0.91
87 7 0.09
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (87 bp):
GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTCTCATGATCTGTGCATAGTCA
TTTCTAGAAAATTTTCTTTTTT
Found at i:11703253 original size:22 final size:22
Alignment explanation
Indices: 11703225--11703270 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11703215 ATTAAATTTT
11703225 AAATTTGTAAAGAGTAGAGACC
1 AAATTTGTAAAGAGTAGAGACC
11703247 AAATTTGTAAAGAGTAGAGACC
1 AAATTTGTAAAGAGTAGAGACC
11703269 AA
1 AA
11703271 TGTCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.22
Consensus pattern (22 bp):
AAATTTGTAAAGAGTAGAGACC
Found at i:11713256 original size:51 final size:51
Alignment explanation
Indices: 11713180--11713282 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
11713170 AGTCCTCCTG
11713180 CGTTCACAACGGTGCTGACCTTTGGATAAGAAGGAAGGTTAAAGATACCAT
1 CGTTCACAACGGTGCTGACCTTTGGATAAGAAGGAAGGTTAAAGATACCAT
11713231 CGTTCACAACGGTGCTGACCTTTGGATAAGAAGGAAGGTTAAAGATACCAT
1 CGTTCACAACGGTGCTGACCTTTGGATAAGAAGGAAGGTTAAAGATACCAT
11713282 C
1 C
11713283 TACATGGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (51 bp):
CGTTCACAACGGTGCTGACCTTTGGATAAGAAGGAAGGTTAAAGATACCAT
Found at i:11715442 original size:29 final size:29
Alignment explanation
Indices: 11715409--11715467 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
11715399 TCGAGGGAAA
11715409 GTACGCAATGCACGACGAGAGGTGCAAAT
1 GTACGCAATGCACGACGAGAGGTGCAAAT
*
11715438 GTACGCAATGCGCGACGAGAGGTGCAAAT
1 GTACGCAATGCACGACGAGAGGTGCAAAT
11715467 G
1 G
11715468 GAAAATCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.34, T:0.14
Consensus pattern (29 bp):
GTACGCAATGCACGACGAGAGGTGCAAAT
Found at i:11718380 original size:21 final size:21
Alignment explanation
Indices: 11718327--11718386 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
11718317 TATAATAGTT
11718327 TAATATAACATATATATTACAG
1 TAATATAA-ATATATATTACAG
*
11718349 TTAACAT-AATATATATTACA-
1 -TAATATAAATATATATTACAG
11718369 TACATATAAATATGATAT
1 TA-ATATAAATAT-ATAT
11718387 GACCGTCCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 17 0.53
22 5 0.16
23 5 0.16
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (21 bp):
TAATATAAATATATATTACAG
Found at i:11719212 original size:138 final size:138
Alignment explanation
Indices: 11718963--11719377 Score: 794
Period size: 138 Copynumber: 3.0 Consensus size: 138
11718953 ATAACTCCCT
*
11718963 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCATTTGCACCATCGTGTTTCCCTACAGCTC
1 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGTGTTTCCCTACAGCTC
11719028 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
66 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
11719093 TGAGATCA
131 TGAGATCA
11719101 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGTGTTTCCCTACAGCTC
1 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGTGTTTCCCTACAGCTC
*
11719166 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCTCTATTGAATAACCTGGTAGCCTT
66 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
11719231 TGAGATCA
131 TGAGATCA
*
11719239 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
1 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGTGTTTCCCTACAGCTC
11719304 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
66 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
*
11719369 TGGGATCA
131 TGAGATCA
11719377 C
1 C
11719378 ACACACCATA
Statistics
Matches: 272, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 272 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (138 bp):
CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGTGTTTCCCTACAGCTC
GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
TGAGATCA
Found at i:11723053 original size:18 final size:17
Alignment explanation
Indices: 11723020--11723058 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11723010 TTGTATAAAT
11723020 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
11723038 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
11723055 TGTG
1 TGTG
11723059 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:11723311 original size:23 final size:23
Alignment explanation
Indices: 11723284--11723381 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
11723274 AGTGTTATTG
11723284 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
11723307 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
11723330 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11723352 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11723375 ATCAGTG
1 ATCAGTG
11723382 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:11723350 original size:45 final size:45
Alignment explanation
Indices: 11723286--11723374 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
11723276 TGTTATTGAT
* *
11723286 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
11723331 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
11723375 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:11730423 original size:18 final size:17
Alignment explanation
Indices: 11730390--11730428 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11730380 TTGTATAAAT
11730390 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
11730408 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
11730425 TGTG
1 TGTG
11730429 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:11730681 original size:23 final size:23
Alignment explanation
Indices: 11730655--11730773 Score: 170
Period size: 23 Copynumber: 5.3 Consensus size: 23
11730645 GTGTTATTGA
11730655 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
11730678 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
11730700 CCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
11730722 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
11730745 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
11730768 TCAGTG
1 TCAGTG
11730774 TGGCACTTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
22 42 0.47
23 48 0.53
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:11730707 original size:22 final size:22
Alignment explanation
Indices: 11730656--11730766 Score: 168
Period size: 22 Copynumber: 5.0 Consensus size: 22
11730646 TGTTATTGAT
*
11730656 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
11730679 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
*
11730701 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
*
11730723 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACAT-C
11730746 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
11730767 ATCAGTGTGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
22 43 0.52
23 40 0.48
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:11733778 original size:16 final size:16
Alignment explanation
Indices: 11733757--11733788 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11733747 TAATGTGTTT
11733757 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
11733773 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
11733789 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:11733970 original size:45 final size:45
Alignment explanation
Indices: 11733902--11734165 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
11733892 AAGAGGTGGA
** * * *
11733902 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
11733947 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
11733992 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
11734037 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
11734082 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* * * *
11734127 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
11734166 CCATGGCCGA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Done.