Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 25 of 97
Found at i:10684449 original size:813 final size:801
Alignment explanation
Indices: 10682625--10685031 Score: 4097
Period size: 813 Copynumber: 3.0 Consensus size: 801
10682615 TTTCTCTTAC
* * * * *
10682625 CTTTCTAATAGTTCAAGAATTGCTTCAATTGAAGCTCTGTAGAGAAAGTTATGACTAAAATACCG
1 CTTTCCAATGGTTCAAGAATCGCTTCATTTGAAGCTCTGTAGAGAAAGTTATGACCAAAATACCG
* *
10682690 AAATATATAG-AGTGCAAGTCTGCACCATT-AAATTGCTCTCATTCTTTTACAAAAATTCTTTTT
66 AAATATAT-GCAGTGCAAGTCTGCACC-TTGAAATTGCTCTCTTTCTTTTACGAAAATTCTTTTT
*
10682753 TCAAACACCTACAAAAGTACGTACAAATAAATCAATAACATCCTATCTTAACCATATTAACACCA
129 TCAAACACCTA-AAAA--A-GCACAAATAAATCAATAACATCCTATCTTAACCATATTAACACCA
*
10682818 AATTAAACACAAAATTAACTAAGATTAGATTGACTCATCTAAAATAACTAATTTAAAATAATTAA
190 AATTAAACACAAAATTAACTAAGATTAGATTGACTCACCTAAAATAACTAATTTAAAATAATTAA
* *
10682883 ATAAAATTTTACTAATTTCTATGCATTACTACAAAAACTAAGCCAAATTATTATTAAAATTAAGC
255 ATAAAA-TCTACTAATTTCTATGCATTACTACAAAAACTAAGCCAAATTATTATCAAAATTAAGC
* *
10682948 TCAAATAACTCTATATTATAGAGTTATCATCATTGCATAATCATATCTAGATA-TTTTTATTGAA
319 TCAAATAACTCTATATTATAGAGTTATCAACATTGCATAATCATATCTAGATATTTTTTACTGAA
*
10683012 CCCTGTCTTGCACTTTATTTTTTCCCTAAATAGCCATTCAACCTTGTCATATGCCTGACTCATAT
384 CCCTGTCTTGCACTTTATTTTTTCCCTAAATAGCCATTCAACCTTGTCATATGCCTTACTCATAT
*
10683077 CAAGTTTCAACACAAAATTGCCAATTGAACCTTATCTCTTATTATGTAGAAAACGAATAATCTCA
449 CAAGTTTCAACACAAAATTGCCAATTGAACCCTATCTCTTATTATGTAGAAAACGAATAATCTCA
* * **
10683142 TGAGCCATTACTACAGTATAAAAAAAAAGCCTACCTAGGACAAAAGCGCTCTAGTTCTCTGAAAT
514 TGAGCCATTACTACATTATAAAAAATAAGCCTACCTAGGACAAAAGCATTCTAGTTCTCTGAAAT
10683207 AATCAAAGGCATAATTGTTTTCAACCTATTAGTCAAAACCTTAGATGTAATTTTGTAAAGCACAT
579 AATCAAAGGCATAATTGTTTTCAACCTATTAGTCAAAACCTTAGATGTAATTTTGTAAAGCACAT
*
10683272 TACATAGACTAATAGATCAAAACTGACTTACCTTTTTTAGCTAATCTGTCTTCAGAACAAGCTCT
644 TACATAGACTAATAGATCAAAACTGACTTACCTTTTTTGGCTAATCTGTCTTCAGAACAAGCTCT
*
10683337 ATATGGGTATGATTAATATCTGAATTATCTAGTTTGCCTTTTAAAAAATCAATCACCAATCGATG
709 ATATGGGTATGATTAATATCTGAATTATCTAGTTTTCCTTTTAAAAAATCAATCACCAATCGATG
*
10683402 TATGCAATCACCAATCGATGTATGCAATTACCCAATTTAT
774 TATGCAATTA-C---C--------CAATTACCCAATTTAT
* *
10683442 CTTTTCAATGGTTCAAGAATCGCTTCATTTGAAGCTCTGTAGAGAAAGTTATGATCAAAATACCG
1 CTTTCCAATGGTTCAAGAATCGCTTCATTTGAAGCTCTGTAGAGAAAGTTATGACCAAAATACCG
* * * *
10683507 AAATATATGCAGTGCAAGTCTACACCTTGAAATTGATCT-TCTTCTTTTACGGAAATTCTTTCTT
66 AAATATATGCAGTGCAAGTCTGCACCTTGAAATTGCTCTCT-TTCTTTTACGAAAATTCTTTTTT
* * *
10683571 CAAACACCTACAAAAGCACAAATAAAACAATAACATCCTATCTTAACCATATTAACACTAAATTA
130 CAAACACCTAAAAAAGCACAAATAAATCAATAACATCCTATCTTAACCATATTAACACCAAATTA
10683636 AACACAAAATTAACTAAGATTAGATTGACTCACCTAAAATAACTAATTTAAAATAATTAAATAAA
195 AACACAAAATTAACTAAGATTAGATTGACTCACCTAAAATAACTAATTTAAAATAATTAAATAAA
*
10683701 ATCTACTAATTTCTATGCATTGCTACAAAAACTAAGCCAAATTATTATCAAAATTAAGCTCAAAT
260 ATCTACTAATTTCTATGCATTACTACAAAAACTAAGCCAAATTATTATCAAAATTAAGCTCAAAT
10683766 AACTCTATATTATAGAGTTATCAACATTGCATAATCATATCTAGATATTTTTTACTGAACCCTGT
325 AACTCTATATTATAGAGTTATCAACATTGCATAATCATATCTAGATATTTTTTACTGAACCCTGT
* * *
10683831 ATTGCACTTTATTTTTCCCCTAAATAGCCATTCAACCTTATCATATGCCTTACTCATATCAAGTT
390 CTTGCACTTTATTTTTTCCCTAAATAGCCATTCAACCTTGTCATATGCCTTACTCATATCAAGTT
10683896 TCAACACAAAATTGCCAATTGAACCCTATCTCTTATTATGTAGAAAACGAATAATCTCATGAGCC
455 TCAACACAAAATTGCCAATTGAACCCTATCTCTTATTATGTAGAAAACGAATAATCTCATGAGCC
* *
10683961 ATTCCTACATTATCAAAAATAAGCCTACCTAGGACAAAAGCATTCTAGTTCTCTGAAATAATCAA
520 ATTACTACATTATAAAAAATAAGCCTACCTAGGACAAAAGCATTCTAGTTCTCTGAAATAATCAA
*
10684026 AGGCATAGTTGTTTTCAACCTATTAGTCAAAACCTTAGATGTAATTTTGTAAAGCACATTACATA
585 AGGCATAATTGTTTTCAACCTATTAGTCAAAACCTTAGATGTAATTTTGTAAAGCACATTACATA
* *
10684091 GACTAATAGAACAAAATTGACTTACCTTTTTTGGCTAATCTGTCTTCAGAACAAGCTCTATATGG
650 GACTAATAGATCAAAACTGACTTACCTTTTTTGGCTAATCTGTCTTCAGAACAAGCTCTATATGG
10684156 GTATGATTAATATCTGAATTATCTAGTTTTCCTTTTAAAAAATCAATCACCAATCGATGTATGCA
715 GTATGATTAATATCTGAATTATCTAGTTTTCCTTTTAAAAAATCAATCACCAATCGATGTATGCA
10684221 ATTACCCAATTACCCAATTTAT
780 ATTACCCAATTACCCAATTTAT
* *
10684243 CTTTCCAATGGTTCAAGAATCGCTTCATTTGGAGCTCTGTAGAGAAAGTTATGACCGAAATACCG
1 CTTTCCAATGGTTCAAGAATCGCTTCATTTGAAGCTCTGTAGAGAAAGTTATGACCAAAATACCG
10684308 AAATATATGCAGTGCAAGTCTGCACCTTGAAATTGCTCTCTTTCTTTTACGAAAATTCTTTTTTC
66 AAATATATGCAGTGCAAGTCTGCACCTTGAAATTGCTCTCTTTCTTTTACGAAAATTCTTTTTTC
10684373 AAACACCTAAAAAAGCACAAATAAATCAATAACATCCTATCTTAACCATATTAACACCAAATTAA
131 AAACACCTAAAAAAGCACAAATAAATCAATAACATCCTATCTTAACCATATTAACACCAAATTAA
10684438 ACACAAAATTAACTAAGATTAGATTGACTCACCTAAAATAACTAATTTAAAATAATTAAATAAAA
196 ACACAAAATTAACTAAGATTAGATTGACTCACCTAAAATAACTAATTTAAAATAATTAAATAAAA
*
10684503 TCTACTAATTTCTATGCATTACTACAAAAACTAAGCTAAATTATTATCAAAATTAAGCTCAAATA
261 TCTACTAATTTCTATGCATTACTACAAAAACTAAGCCAAATTATTATCAAAATTAAGCTCAAATA
10684568 ACTCTATATTATAGAGTTATCAACATTGCATAATCATATCTAGAT-TTTTTTACTGAACCCTGTC
326 ACTCTATATTATAGAGTTATCAACATTGCATAATCATATCTAGATATTTTTTACTGAACCCTGTC
10684632 TTGCACTTTATTTTTTCCCTAAATAGCCATTCAACCTTGTCATATGCCTTACTCATATCAAGTTT
391 TTGCACTTTATTTTTTCCCTAAATAGCCATTCAACCTTGTCATATGCCTTACTCATATCAAGTTT
** *
10684697 CAACGTAAAATTGCCAATTGAATCCTATCTCTTATTATGTAGAAAACGAATAATCTCATGAGCCA
456 CAACACAAAATTGCCAATTGAACCCTATCTCTTATTATGTAGAAAACGAATAATCTCATGAGCCA
*
10684762 TTACTACATTATAAAAAATAAGCCTACTTAGGACAAAAGCACTT-TAGTTCTCTGAAATAATCAA
521 TTACTACATTATAAAAAATAAGCCTACCTAGGACAAAAGCA-TTCTAGTTCTCTGAAATAATCAA
* *
10684826 AGGCATAATTGTTTTCAACCTATTAGTTAAAACCTTAGATGCAATTTTGTAAAGCACATTACATA
585 AGGCATAATTGTTTTCAACCTATTAGTCAAAACCTTAGATGTAATTTTGTAAAGCACATTACATA
*
10684891 GACTAATAGATCAAAACTGACTTACCTTTTTTGGCTAATCTGTCTTCAAAACAAGCTCTATATGG
650 GACTAATAGATCAAAACTGACTTACCTTTTTTGGCTAATCTGTCTTCAGAACAAGCTCTATATGG
* * * *
10684956 GTATGATTAATATATGAATTATCTAGTTTTCTTTTTAAAAAATCAATCCCCAATAGATGTATGCA
715 GTATGATTAATATCTGAATTATCTAGTTTTCCTTTTAAAAAATCAATCACCAATCGATGTATGCA
10685021 ATTACCCAATT
780 ATTACCCAATT
10685032 TATCCTAATA
Statistics
Matches: 1512, Mismatches: 72, Indels: 29
0.94 0.04 0.02
Matches are distributed among these distances:
800 397 0.26
801 373 0.25
802 1 0.00
809 1 0.00
812 108 0.07
813 505 0.33
814 1 0.00
816 6 0.00
817 120 0.08
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (801 bp):
CTTTCCAATGGTTCAAGAATCGCTTCATTTGAAGCTCTGTAGAGAAAGTTATGACCAAAATACCG
AAATATATGCAGTGCAAGTCTGCACCTTGAAATTGCTCTCTTTCTTTTACGAAAATTCTTTTTTC
AAACACCTAAAAAAGCACAAATAAATCAATAACATCCTATCTTAACCATATTAACACCAAATTAA
ACACAAAATTAACTAAGATTAGATTGACTCACCTAAAATAACTAATTTAAAATAATTAAATAAAA
TCTACTAATTTCTATGCATTACTACAAAAACTAAGCCAAATTATTATCAAAATTAAGCTCAAATA
ACTCTATATTATAGAGTTATCAACATTGCATAATCATATCTAGATATTTTTTACTGAACCCTGTC
TTGCACTTTATTTTTTCCCTAAATAGCCATTCAACCTTGTCATATGCCTTACTCATATCAAGTTT
CAACACAAAATTGCCAATTGAACCCTATCTCTTATTATGTAGAAAACGAATAATCTCATGAGCCA
TTACTACATTATAAAAAATAAGCCTACCTAGGACAAAAGCATTCTAGTTCTCTGAAATAATCAAA
GGCATAATTGTTTTCAACCTATTAGTCAAAACCTTAGATGTAATTTTGTAAAGCACATTACATAG
ACTAATAGATCAAAACTGACTTACCTTTTTTGGCTAATCTGTCTTCAGAACAAGCTCTATATGGG
TATGATTAATATCTGAATTATCTAGTTTTCCTTTTAAAAAATCAATCACCAATCGATGTATGCAA
TTACCCAATTACCCAATTTAT
Found at i:10690194 original size:2 final size:2
Alignment explanation
Indices: 10690187--10690276 Score: 96
Period size: 2 Copynumber: 45.0 Consensus size: 2
10690177 TATTAATAGG
* **
10690187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT -T ANN NN
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
10690228 NT AGT AT AT -T AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10690271 AT AT AT
1 AT AT AT
10690277 TACGTTTGGA
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.04
2 71 0.91
3 4 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10690856 original size:15 final size:15
Alignment explanation
Indices: 10690822--10690856 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10690812 AATTACTATT
*
10690822 ATATATATACTTTTA
1 ATATATATACTTTAA
*
10690837 GTATATATACTTTAA
1 ATATATATACTTTAA
10690852 ATATA
1 ATATA
10690857 AATATATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATATACTTTAA
Found at i:10691113 original size:35 final size:34
Alignment explanation
Indices: 10691050--10691126 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
10691040 ACTTGTAATG
* * * *
10691050 TTTAAGTTGTTGTTTGAATATTTGTTTTT-AGTTA
1 TTTAAGTTGATATTTCAATATTTCTTTTTGA-TTA
10691084 TTTAAGTTGATATTTCAGATATTTCTTTTTGATTA
1 TTTAAGTTGATATTTCA-ATATTTCTTTTTGATTA
10691119 TTTAAGTT
1 TTTAAGTT
10691127 TAAATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 14 0.38
35 22 0.59
36 1 0.03
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (34 bp):
TTTAAGTTGATATTTCAATATTTCTTTTTGATTA
Found at i:10708785 original size:17 final size:17
Alignment explanation
Indices: 10708763--10708798 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10708753 AAATATGAAT
10708763 TTATAAAATAAATGGAA
1 TTATAAAATAAATGGAA
*
10708780 TTATAAAATAAATTGAA
1 TTATAAAATAAATGGAA
10708797 TT
1 TT
10708799 TTTTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
TTATAAAATAAATGGAA
Found at i:10718351 original size:22 final size:20
Alignment explanation
Indices: 10718319--10718371 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 20
10718309 TACATAAAAC
10718319 ATAAAAAAAT-AATAAATAAA
1 ATAAAAAAATAAAT-AATAAA
10718339 ATAAATAATAATAAATAATAAA
1 ATAAA-AA-AATAAATAATAAA
10718361 ATAAAAAAATA
1 ATAAAAAAATA
10718372 CCATGACATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.30
21 4 0.13
22 14 0.47
23 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
ATAAAAAAATAAATAATAAA
Found at i:10718707 original size:19 final size:19
Alignment explanation
Indices: 10718666--10718706 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10718656 TACATGACAT
*
10718666 AAAATAAATAGAAAAATGA
1 AAAATAAATAGAAAAATAA
*
10718685 AAAATAAATA-AATAATAA
1 AAAATAAATAGAAAAATAA
10718703 AAAA
1 AAAA
10718707 AATCTAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAATAAATAGAAAAATAA
Found at i:10718900 original size:8 final size:8
Alignment explanation
Indices: 10718887--10718947 Score: 81
Period size: 8 Copynumber: 7.9 Consensus size: 8
10718877 CTCACGAAAA
10718887 AATATAAT
1 AATATAAT
10718895 AATATAAT
1 AATATAAT
10718903 AATATAAT
1 AATATAAT
*
10718911 AATATAAA
1 AATATAAT
*
10718919 AAAATAAT
1 AATATAAT
*
10718927 AA-ATAAA
1 AATATAAT
10718934 AATATAA-
1 AATATAAT
10718941 AATATAA
1 AATATAA
10718948 AATTTTTGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
7 13 0.27
8 35 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AATATAAT
Found at i:10718906 original size:16 final size:16
Alignment explanation
Indices: 10718884--10718949 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
10718874 TTGCTCACGA
10718884 AAAAATATAATAATAT
1 AAAAATATAATAATAT
*
10718900 AATAATATAATAATAT
1 AAAAATATAATAATAT
*
10718916 AAAAAAATAATAA-AT
1 AAAAATATAATAATAT
10718931 AAAAATATAA-AATAT
1 AAAAATATAATAATAT
10718946 AAAA
1 AAAA
10718950 TTTTTGTCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
14 2 0.04
15 17 0.38
16 26 0.58
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATATAATAATAT
Found at i:10719091 original size:28 final size:28
Alignment explanation
Indices: 10719024--10719135 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 28
10719014 AGTAACTTAG
*
10719024 AATAAAAAATGTAAAGTATGAAAAAATAAT
1 AATAAAAAA--TAAAATATGAAAAAATAAT
* * *
10719054 AATTAGAAATAAAATA-GAAAAATATGAT
1 AATAAAAAATAAAATATGAAAAA-ATAAT
*
10719082 AATAAAAAATGAAATA--AAATAAA-AAT
1 AATAAAAAATAAAATATGAAA-AAATAAT
10719108 AATAAAATAATAATAATAAATGAAAAAA
1 AATAAAA-AATAA-AAT--ATGAAAAAA
10719136 AAAGATAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
26 9 0.14
27 14 0.22
28 28 0.43
30 8 0.12
31 3 0.05
32 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (28 bp):
AATAAAAAATAAAATATGAAAAAATAAT
Found at i:10719113 original size:14 final size:14
Alignment explanation
Indices: 10719094--10719127 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10719084 TAAAAAATGA
10719094 AATAAAATAAAAAT
1 AATAAAATAAAAAT
*
10719108 AATAAAATAATAAT
1 AATAAAATAAAAAT
10719122 AATAAA
1 AATAAA
10719128 TGAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:10719129 original size:37 final size:33
Alignment explanation
Indices: 10719048--10719137 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 33
10719038 AGTATGAAAA
* * *
10719048 AATAATAATTAGAAATAAAATAGAAAAATATGAT
1 AATAATAAAT-GAAATAAAATAAAAAAATATAAT
*
10719082 AATAAAAAATGAAATAAAATAAAAATAATAAAATAAT
1 AATAATAAATGAAATAAAATAAAAA-AAT---ATAAT
*
10719119 AATAATAAATGAAAAAAAA
1 AATAATAAATGAAATAAAA
10719138 AGATAATTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
33 14 0.30
34 11 0.24
37 21 0.46
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (33 bp):
AATAATAAATGAAATAAAATAAAAAAATATAAT
Found at i:10731114 original size:38 final size:38
Alignment explanation
Indices: 10731051--10731405 Score: 378
Period size: 38 Copynumber: 9.3 Consensus size: 38
10731041 NNNNNNNNNN
*
10731051 GGAGTTCA-TTTTAAAAGTTTCGTTGCCTCAATTTTGA
1 GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
*
10731088 GGAGTTCATTTTTAAAAGTCTT-GTTGCCTCAGCTTTGA
1 GGAGTTCATTTTTAAAAGT-TTCGTTGCCTCAGTTTTGA
* * *
10731126 GGAGTTTATTTTAAAAAAAAAGTCTCGTTGCCTCAGTTTTGA
1 GGAGTTCATTTT----TAAAAGTTTCGTTGCCTCAGTTTTGA
* * * * *
10731168 GGAGTTCATTTTAAAAAGTCTCGTTACCTCAGCTTTGG
1 GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
* * * *
10731206 GGAGTTTTATTTTTTAAAGTTTCATTGCCTCAATTTTGA
1 GGAG-TTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
* * *
10731245 GGAGTTCATTTTTAAAAGTTTCGGTGCCTCAGCTTTAA
1 GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
* ** * *
10731283 GGAGTTCATTTTT-CAAGTTTTATTGCCTCAATTTTGG
1 GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
*
10731320 GGAGTTCATTTTTTAAAGTTTCAG-TGCCTCAGTTTTGA
1 GGAGTTCATTTTTAAAAGTTTC-GTTGCCTCAGTTTTGA
* * *
10731358 GGAGTTCATTTTT-CAAGTTTCATTGCCTCAATTTTGA
1 GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
10731395 GGAGTTCATTT
1 GGAGTTCATTT
10731406 AAAAAAAAAA
Statistics
Matches: 265, Mismatches: 42, Indels: 22
0.81 0.13 0.07
Matches are distributed among these distances:
37 68 0.26
38 133 0.50
39 31 0.12
41 1 0.00
42 32 0.12
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.43
Consensus pattern (38 bp):
GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGTTTTGA
Found at i:10731338 original size:75 final size:75
Alignment explanation
Indices: 10731051--10731405 Score: 433
Period size: 75 Copynumber: 4.6 Consensus size: 75
10731041 NNNNNNNNNN
* * *
10731051 GGAGTTCATTTTAAAAGTTTCGTTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTCTT-GTTGC
1 GGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGT-TTCGGTGC
10731115 CTCAGCTTTGA
65 CTCAGCTTTGA
* * * * * * *
10731126 GGAGTTTATTTTAAAAAAAAAGTCTCGTTGCCTCAGTTTTGAGGAGTTCATTTTAAAAAGTCTCG
1 GGAGTTCATTTT-----TAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTTTCG
* * *
10731191 TTACCTCAGCTTTGG
61 GTGCCTCAGCTTTGA
*
10731206 GGAGTTTTATTTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTTTCGGTG
1 GGAG-TTCA-TTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTTTCGGTG
*
10731271 CCTCAGCTTTAA
64 CCTCAGCTTTGA
* * * * *
10731283 GGAGTTCATTTTTCAAGTTTTATTGCCTCAATTTTGGGGAGTTCATTTTTTAAAGTTTCAGTGCC
1 GGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTTTCGGTGCC
*
10731348 TCAGTTTTGA
66 TCAGCTTTGA
*
10731358 GGAGTTCATTTTTCAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTT
1 GGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTT
10731406 AAAAAAAAAA
Statistics
Matches: 245, Mismatches: 27, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
75 117 0.48
76 3 0.01
77 57 0.23
79 1 0.00
80 59 0.24
81 4 0.02
82 4 0.02
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.43
Consensus pattern (75 bp):
GGAGTTCATTTTTAAAGTTTCATTGCCTCAATTTTGAGGAGTTCATTTTTAAAAGTTTCGGTGCC
TCAGCTTTGA
Found at i:10731441 original size:83 final size:83
Alignment explanation
Indices: 10731334--10731497 Score: 238
Period size: 83 Copynumber: 2.0 Consensus size: 83
10731324 TTCATTTTTT
* ** * *
10731334 AAAGTTTCAGTGCCTCAGTTTTGAGGAGTTCATTTTTCAAGTTTCATTGCCTCAATTTTGAGGAG
1 AAAGTTTCAGTACCTCAACTTTGAGGAGTTCATTTTTCAAGTTTCATTACCTCAATTTTGAAGAG
10731399 TTCATTTAAAAAAAAAAA
66 TTCATTTAAAAAAAAAAA
* ** *
10731417 AAAGTTTCGGTACCTCAACTTTGAGGAGTTCATTTTTCAAGTTTTGTTATCTCAATTTTGAAGAG
1 AAAGTTTCAGTACCTCAACTTTGAGGAGTTCATTTTTCAAGTTTCATTACCTCAATTTTGAAGAG
*
10731482 TTTATTTAAAAAAAAA
66 TTCATTTAAAAAAAAA
10731498 TTAAAATTCT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (83 bp):
AAAGTTTCAGTACCTCAACTTTGAGGAGTTCATTTTTCAAGTTTCATTACCTCAATTTTGAAGAG
TTCATTTAAAAAAAAAAA
Found at i:10732966 original size:15 final size:15
Alignment explanation
Indices: 10732937--10732975 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10732927 ATGTATATAC
*
10732937 ATAAAACAT-AAAAA
1 ATAAAAAATAAAAAA
*
10732951 ATAATAAATAAAAAA
1 ATAAAAAATAAAAAA
10732966 ATAAAAAATA
1 ATAAAAAATA
10732976 CCGTGACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAAAATAAAAAA
Found at i:10732971 original size:7 final size:7
Alignment explanation
Indices: 10732937--10732975 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
10732927 ATGTATATAC
*
10732937 ATAAAAC
1 ATAAAAA
10732944 ATAAAAA
1 ATAAAAA
*
10732951 ATAATAA
1 ATAAAAA
10732958 ATAAAAAA
1 AT-AAAAA
10732966 ATAAAAA
1 ATAAAAA
10732973 ATA
1 ATA
10732976 CCGTGACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (7 bp):
ATAAAAA
Found at i:10733187 original size:13 final size:13
Alignment explanation
Indices: 10733169--10733231 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
10733159 AAAGTTATTC
10733169 AATAAAAATAATA
1 AATAAAAATAATA
*
10733182 AATAAATAACAATA
1 AATAAA-AATAATA
* *
10733196 GATAAAAA-AA-G
1 AATAAAAATAATA
*
10733207 GATAAAAATAATA
1 AATAAAAATAATA
10733220 AATAAAAATAAT
1 AATAAAAATAAT
10733232 TCAAATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
11 8 0.19
12 4 0.10
13 19 0.45
14 11 0.26
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (13 bp):
AATAAAAATAATA
Found at i:10733211 original size:21 final size:21
Alignment explanation
Indices: 10733170--10733226 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
10733160 AAGTTATTCA
10733170 ATAAAAATAATAAAT--AA--
1 ATAAAAATAATAAATAAAAGG
*
10733187 ATAACAATAGATAAA-AAAAGG
1 ATAAAAATA-ATAAATAAAAGG
10733208 ATAAAAATAATAAATAAAA
1 ATAAAAATAATAAATAAAA
10733227 ATAATTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 2 0.06
20 5 0.16
21 12 0.38
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
ATAAAAATAATAAATAAAAGG
Found at i:10733324 original size:19 final size:19
Alignment explanation
Indices: 10733284--10733326 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10733274 ACATGACATT
*
10733284 AAATAAATAGAAAAATGAA
1 AAATAAATAGAAAAATAAA
*
10733303 AAATAAATAAATAATAATAAA
1 AAATAAATAGA-AA-AATAAA
10733324 AAA
1 AAA
10733327 ATCTAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (19 bp):
AAATAAATAGAAAAATAAA
Found at i:10733665 original size:28 final size:27
Alignment explanation
Indices: 10733606--10733725 Score: 91
Period size: 28 Copynumber: 4.1 Consensus size: 27
10733596 AGTAACTTAG
*
10733606 AATAAAAAATGTAAAGTATGAAAAAATAAT
1 AATAAAAAA--TAAAATA-GAAAAAATAAT
* * *
10733636 AATTAGAAATAAAATAGAAAAATATGAT
1 AATAAAAAATAAAATAGAAAAA-ATAAT
10733664 AATAAAAAATAAAATA-AAATAAA-AAT
1 AATAAAAAATAAAATAGAAA-AAATAAT
10733690 AATAAAATAATAATAATAAATGAAAAAATAGAT
1 AATAAAA-AATAA-AAT--A-GAAAAAATA-AT
10733723 AAT
1 AAT
10733726 TGCATTAGCA
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
26 9 0.12
27 15 0.21
28 29 0.40
30 8 0.11
31 3 0.04
32 4 0.05
33 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (27 bp):
AATAAAAAATAAAATAGAAAAAATAAT
Found at i:10733695 original size:14 final size:14
Alignment explanation
Indices: 10733626--10733709 Score: 81
Period size: 14 Copynumber: 6.2 Consensus size: 14
10733616 GTAAAGTATG
10733626 AAAA-AATAATAATT
1 AAAATAATAATAA-T
10733640 AGAAATAA-AATAGA-
1 A-AAATAATAATA-AT
*
10733654 AAAAT-ATGATAAT
1 AAAATAATAATAAT
10733667 AAAA-AATAA-AAT
1 AAAATAATAATAAT
*
10733679 AAAATAAAAATAAT
1 AAAATAATAATAAT
10733693 AAAATAATAATAAT
1 AAAATAATAATAAT
10733707 AAA
1 AAA
10733710 TGAAAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
12 9 0.16
13 18 0.31
14 21 0.36
15 7 0.12
16 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:10733701 original size:3 final size:3
Alignment explanation
Indices: 10733662--10733708 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
10733652 GAAAAATATG
*
10733662 ATA ATA A-A A-A ATA A-A ATA A-A ATA AAA ATA ATA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10733705 ATA A
1 ATA A
10733709 ATGAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 10 0.26
3 28 0.74
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (3 bp):
ATA
Found at i:10733701 original size:11 final size:11
Alignment explanation
Indices: 10733628--10733705 Score: 53
Period size: 11 Copynumber: 7.2 Consensus size: 11
10733618 AAAGTATGAA
10733628 AAAATAATAATT
1 AAAATAATAA-T
10733640 AGAAATAA-AAT
1 A-AAATAATAAT
10733651 AGAAA-AATATGAT
1 A-AAATAATA--AT
10733664 AATAA-AA-AAT
1 AA-AATAATAAT
10733674 AAAATAA-AAT
1 AAAATAATAAT
10733684 -AAA-AATAAT
1 AAAATAATAAT
10733693 AAAATAATAAT
1 AAAATAATAAT
10733704 AA
1 AA
10733706 TAAATGAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 19
0.75 0.00 0.25
Matches are distributed among these distances:
8 2 0.04
9 8 0.14
10 14 0.25
11 15 0.26
12 5 0.09
13 13 0.23
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:10733716 original size:20 final size:19
Alignment explanation
Indices: 10733646--10733716 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 19
10733636 AATTAGAAAT
10733646 AAAATAGAAAAATATGATAATA
1 AAAAT-GAAAAATA--ATAATA
10733668 AAAA--ATAAAATAA-AATA
1 AAAATGA-AAAATAATAATA
*
10733685 AAAATAATAAAATAATAATA
1 AAAATGA-AAAATAATAATA
10733705 ATAAATGAAAAA
1 A-AAATGAAAAA
10733717 ATAGATAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
17 8 0.19
18 1 0.02
19 10 0.23
20 15 0.35
21 5 0.12
22 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAATGAAAAATAATAATA
Found at i:10735617 original size:2 final size:2
Alignment explanation
Indices: 10735610--10735660 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
10735600 NGAGATTTAC
10735610 TA TA TA TA TA TA TA T- TA TA TA T- TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10735648 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
10735661 TTTCTATCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:10735638 original size:17 final size:17
Alignment explanation
Indices: 10735610--10735661 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
10735600 NGAGATTTAC
10735610 TATATA-TA-TATATAT
1 TATATATTATTATATAT
10735625 TATATATTATTATATAT
1 TATATATTATTATATAT
10735642 TATATATATATATATATAT
1 TATATAT-TAT-TATATAT
10735661 T
1 T
10735662 TTCTATCACG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.18
16 2 0.06
17 14 0.42
18 3 0.09
19 8 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATTATTATATAT
Found at i:10752398 original size:26 final size:26
Alignment explanation
Indices: 10752368--10752433 Score: 107
Period size: 26 Copynumber: 2.5 Consensus size: 26
10752358 CTAAAAATTT
*
10752368 CCATTTTGTCCCC-AGGTGGCAAATGA
1 CCATTTTG-CCCCTAGATGGCAAATGA
10752394 CCATTTTGCCCCTAGATGGCAAATGA
1 CCATTTTGCCCCTAGATGGCAAATGA
10752420 CCATTTTGCCCCTA
1 CCATTTTGCCCCTA
10752434 ACCGGTCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 4 0.11
26 34 0.89
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (26 bp):
CCATTTTGCCCCTAGATGGCAAATGA
Found at i:10755923 original size:14 final size:15
Alignment explanation
Indices: 10755900--10755929 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10755890 TCTATATTCC
10755900 TTTTATTCTTTTCAT
1 TTTTATTCTTTTCAT
10755915 TTTTA-TCTTTTCAT
1 TTTTATTCTTTTCAT
10755929 T
1 T
10755930 ATTCATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTCTTTTCAT
Found at i:10755963 original size:28 final size:27
Alignment explanation
Indices: 10755929--10756030 Score: 98
Period size: 28 Copynumber: 3.7 Consensus size: 27
10755919 ATCTTTTCAT
*
10755929 TATTCATTCACTTTTGGTGGGTTGAAAG
1 TATTCATTCACTTTTGGTAGGTT-AAAG
*
10755957 TATTCATTTA-TTTGTGGTAGGTTAAAAG
1 TATTCATTCACTTT-TGGTAGGTT-AAAG
* *
10755985 TATTCATTTACTTGTGGTAGGTTACAAG
1 TATTCATTCACTTTTGGTAGGTTA-AAG
* * *
10756013 TATCCATCCCCTTTTGGT
1 TATTCATTCACTTTTGGT
10756031 GGGTGATCCA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
27 4 0.06
28 56 0.90
29 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.44
Consensus pattern (27 bp):
TATTCATTCACTTTTGGTAGGTTAAAG
Found at i:10756148 original size:26 final size:24
Alignment explanation
Indices: 10756119--10756209 Score: 94
Period size: 26 Copynumber: 3.6 Consensus size: 24
10756109 CCACTTTTGA
10756119 TGGTAAAATTATCTATCCATTTCTAG
1 TGGTAAAATTATCTATCCA-TTCT-G
**
10756145 TGGTAAAATTATTCT-TAGATTCTG
1 TGGTAAAATTA-TCTATCCATTCTG
*
10756169 ATGATAAAATTATCTATCCACTTCTGG
1 -TGGTAAAATTATCTATCCA-TTCT-G
10756196 TGGTAAAATTATCT
1 TGGTAAAATTATCT
10756210 TTAATTAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
24 4 0.07
25 16 0.30
26 30 0.56
27 4 0.07
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (24 bp):
TGGTAAAATTATCTATCCATTCTG
Found at i:10757412 original size:31 final size:31
Alignment explanation
Indices: 10757377--10757435 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
10757367 GTCATTATAC
10757377 TTTTATTTTGAGCCAAATAAACCCTTATATT
1 TTTTATTTTGAGCCAAATAAACCCTTATATT
* * *
10757408 TTTTATTTTGAGTCTAATAAGCCCTTAT
1 TTTTATTTTGAGCCAAATAAACCCTTAT
10757436 GACTAATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (31 bp):
TTTTATTTTGAGCCAAATAAACCCTTATATT
Found at i:10758290 original size:17 final size:17
Alignment explanation
Indices: 10758232--10758319 Score: 52
Period size: 17 Copynumber: 4.9 Consensus size: 17
10758222 GAGCCTTCCT
*
10758232 TTTTTTTTTTTCTTCTTACA
1 TTTTTATTTTT-TT-TTA-A
* * *
10758252 TTTTTCTTTTTCTTTGA
1 TTTTTATTTTTTTTTAA
*
10758269 GTTTTATTTTTTTTTAA
1 TTTTTATTTTTTTTTAA
** *
10758286 TTTTTAAGATTATTTTAA
1 TTTTT-ATTTTTTTTTAA
10758304 -TTTTATTTTATTTTTA
1 TTTTTATTTT-TTTTTA
10758320 GCTTTCAAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
16 3 0.06
17 27 0.52
18 11 0.21
19 1 0.02
20 10 0.19
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTATTTTTTTTTAA
Found at i:10761041 original size:28 final size:28
Alignment explanation
Indices: 10760997--10761153 Score: 149
Period size: 28 Copynumber: 5.7 Consensus size: 28
10760987 AAAAAATCGC
*
10760997 GTTG-AAAATATAGTTGTTATACGTCAT
1 GTTGAAAAATATAGTTGTTACACGTCAT
* * * *
10761024 CTTGAAAAATTTAATTGTTACACGTTAT
1 GTTGAAAAATATAGTTGTTACACGTCAT
* * * *
10761052 GTTGAAAAAAATAGTTATTACATGTCAC
1 GTTGAAAAATATAGTTGTTACACGTCAT
* * *
10761080 GTTG-AAGATTTAATTGTTACACGTCAT
1 GTTGAAAAATATAGTTGTTACACGTCAT
* * * *
10761107 GTTG-AAGATTTAGTTGTTATATGTCAT
1 GTTGAAAAATATAGTTGTTACACGTCAT
10761134 GTTGAAAAATATAGTTGTTA
1 GTTGAAAAATATAGTTGTTA
10761154 TATGCTATAT
Statistics
Matches: 103, Mismatches: 25, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
27 47 0.46
28 56 0.54
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (28 bp):
GTTGAAAAATATAGTTGTTACACGTCAT
Found at i:10761152 original size:55 final size:55
Alignment explanation
Indices: 10760997--10761208 Score: 182
Period size: 55 Copynumber: 3.9 Consensus size: 55
10760987 AAAAAATCGC
* *
10760997 GTTGAAAATATAGTTGTTATACGTCATCTTGAAAAATTTAATTGTTACACGTTAT
1 GTTGAAAATATAGTTGTTATACGTCATGTTGAAAAATTTAATTGTTACACGTCAT
* * * * * *
10761052 GTTGAAAAAAATAGTTATTACATGTCACGTTG-AAGATTTAATTGTTACACGTCAT
1 GTTG-AAAATATAGTTGTTATACGTCATGTTGAAAAATTTAATTGTTACACGTCAT
* * * * * * *
10761107 GTTGAAGATTTAGTTGTTATATGTCATGTTGAAAAATATAGTTGTTATATG-CTAT
1 GTTGAAAATATAGTTGTTATACGTCATGTTGAAAAATTTAATTGTTACACGTC-AT
* * * * * *
10761162 ATTGAAGAT-T--TAGTTATACGCCATGTTGAAAAATTTAGTTATTACAC
1 GTTGAAAATATAGTTGTTATACGTCATGTTGAAAAATTTAATTGTTACAC
10761209 ACTATGATGA
Statistics
Matches: 127, Mismatches: 27, Indels: 9
0.78 0.17 0.06
Matches are distributed among these distances:
52 30 0.24
54 23 0.18
55 53 0.42
56 21 0.17
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (55 bp):
GTTGAAAATATAGTTGTTATACGTCATGTTGAAAAATTTAATTGTTACACGTCAT
Found at i:10761167 original size:82 final size:83
Alignment explanation
Indices: 10761010--10761208 Score: 201
Period size: 82 Copynumber: 2.4 Consensus size: 83
10761000 GAAAATATAG
* *
10761010 TTGTTATACGTCATCTTGAAAAATTTAATTGTTACACGTTATGTTGAAAAAAATAGTTATTACAT
1 TTGTTACACGTCATCTTGAAAAATTTAATTGTTACACGTCATGTTGAAAAAAATAGTTATTACAT
*
10761075 GTCACGTTGAAGATTTAA
66 GTCACATTGAAGATTTAA
* * * * * * * *
10761093 TTGTTACACGTCATGTTG-AAGATTTAGTTGTTATATGTCATGTTGAAAAATATAGTTGTTATAT
1 TTGTTACACGTCATCTTGAAAAATTTAATTGTTACACGTCATGTTGAAAAAAATAGTTATTACAT
*
10761157 G-CTATATTGAAGATTT-A
66 GTC-ACATTGAAGATTTAA
* * * * *
10761174 --GTTATACGCCATGTTGAAAAATTTAGTTATTACAC
1 TTGTTACACGTCATCTTGAAAAATTTAATTGTTACAC
10761209 ACTATGATGA
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
79 14 0.15
80 14 0.15
81 2 0.02
82 50 0.52
83 16 0.17
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (83 bp):
TTGTTACACGTCATCTTGAAAAATTTAATTGTTACACGTCATGTTGAAAAAAATAGTTATTACAT
GTCACATTGAAGATTTAA
Found at i:10761406 original size:30 final size:28
Alignment explanation
Indices: 10761370--10761432 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
10761360 TACCTTAGCC
*
10761370 CTTAATTCTAACGAATTGAAACTTTTGGCT
1 CTTAATTCTAAC-AATTGAAACGTTTGG-T
* **
10761400 CTTAATTGTTGCAATTGAAACGTTTGGT
1 CTTAATTCTAACAATTGAAACGTTTGGT
10761428 CTTAA
1 CTTAA
10761433 ATGGACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.21
29 14 0.48
30 9 0.31
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (28 bp):
CTTAATTCTAACAATTGAAACGTTTGGT
Found at i:10763796 original size:72 final size:72
Alignment explanation
Indices: 10763679--10763821 Score: 216
Period size: 72 Copynumber: 2.0 Consensus size: 72
10763669 TTTTTGTACA
10763679 TGATTACCATAAGCTATTCCTGAGCTGCTTGCTGTCTCCTCCATGGATGCATCATTAAACATGGA
1 TGATTACCATAAGCTATTCCTGAGCTGCTTGCTGTCTCCTCCATGGATGCATCATTAAACATGGA
10763744 TTGTTCT
66 TTGTTCT
** * * * *
10763751 TGATTACCATAAGCTATTTTTGAGCTGCTTATCTTTC-CCTCCATGGTTGCATCTTTAAACATGG
1 TGATTACCATAAGCTATTCCTGAGCTGCTT-GCTGTCTCCTCCATGGATGCATCATTAAACATGG
10763815 ATTGTTC
65 ATTGTTC
10763822 CAACGTTCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 60 0.94
73 4 0.06
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (72 bp):
TGATTACCATAAGCTATTCCTGAGCTGCTTGCTGTCTCCTCCATGGATGCATCATTAAACATGGA
TTGTTCT
Found at i:10764245 original size:57 final size:57
Alignment explanation
Indices: 10764154--10764266 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
10764144 AGTGGAAAGG
10764154 TGGAGACACAACCTCCAATAACATGAAATAGAAAACTACCACTAACAATAAAATAGA
1 TGGAGACACAACCTCCAATAACATGAAATAGAAAACTACCACTAACAATAAAATAGA
* *
10764211 TGGAGACACAACCTCCAACT-ACATGAAATGGAAAACTACCACTAACACTAAAATAG
1 TGGAGACACAACCTCCAA-TAACATGAAATAGAAAACTACCACTAACAATAAAATAG
10764267 GAACCACAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 52 0.98
58 1 0.02
ACGTcount: A:0.50, C:0.23, G:0.12, T:0.16
Consensus pattern (57 bp):
TGGAGACACAACCTCCAATAACATGAAATAGAAAACTACCACTAACAATAAAATAGA
Found at i:10766615 original size:2 final size:2
Alignment explanation
Indices: 10766610--10766636 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10766600 CTCTCTCTCT
10766610 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
10766637 GGTGGTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10785963 original size:2 final size:2
Alignment explanation
Indices: 10785956--10785985 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10785946 GTGAAAACTA
10785956 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10785986 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10786303 original size:15 final size:15
Alignment explanation
Indices: 10786278--10786314 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
10786268 ATTCATTTAA
10786278 AAAGAAAAAAACAAAG
1 AAAGAAAAAAA-AAAG
10786294 AAAGAAAAAAAAAAG
1 AAAGAAAAAAAAAAG
10786309 AAAGAA
1 AAAGAA
10786315 GAAANNNNNN
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:10786306 original size:19 final size:18
Alignment explanation
Indices: 10786282--10786318 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10786272 ATTTAAAAAG
10786282 AAAAAAACAAAGAAAGAAA
1 AAAAAAACAAAG-AAGAAA
*
10786301 AAAAAAAGAAAGAAGAAA
1 AAAAAAACAAAGAAGAAA
10786319 NNNNNNNNNN
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAGAAGAAA
Found at i:10794065 original size:10 final size:10
Alignment explanation
Indices: 10794047--10794085 Score: 69
Period size: 10 Copynumber: 3.9 Consensus size: 10
10794037 TTTATTTGAG
10794047 GAATTATGAT
1 GAATTATGAT
*
10794057 GAATAATGAT
1 GAATTATGAT
10794067 GAATTATGAT
1 GAATTATGAT
10794077 GAATTATGA
1 GAATTATGA
10794086 GCCTAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (10 bp):
GAATTATGAT
Found at i:10798818 original size:17 final size:17
Alignment explanation
Indices: 10798778--10798828 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
10798768 ACTATATTAT
*
10798778 ATATATACTAATACTTTTA
1 ATATATA-T-ATACTTTAA
*
10798797 GTATATATATACTTTAA
1 ATATATATATACTTTAA
*
10798814 ATATAAATATA-TTTA
1 ATATATATATACTTTA
10798829 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 1 0.04
19 6 0.21
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATATATATACTTTAA
Found at i:10799180 original size:18 final size:19
Alignment explanation
Indices: 10799151--10799191 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10799141 TATAATTATT
10799151 TAATTAATTAATAAAATTA
1 TAATTAATTAATAAAATTA
* *
10799170 TAATT-ATTAATTAAATTG
1 TAATTAATTAATAAAATTA
10799188 TAAT
1 TAAT
10799192 ATCTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATTAATTAATAAAATTA
Found at i:10799285 original size:16 final size:16
Alignment explanation
Indices: 10799266--10799299 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10799256 GTATATACAC
10799266 TATA-ATAC-TTATAA
1 TATATATACTTTATAA
10799280 TATATATACTTTATAA
1 TATATATACTTTATAA
10799296 TATA
1 TATA
10799300 AAACTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 4 0.22
16 10 0.56
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATACTTTATAA
Found at i:10800121 original size:89 final size:89
Alignment explanation
Indices: 10799970--10800246 Score: 374
Period size: 89 Copynumber: 3.1 Consensus size: 89
10799960 CTCTCAACCC
* * * *
10799970 CTTCCTTTTCCAATCGGCGACACAAGCCCGAAACCCCAACTCTCTCTAGAACCGGCGGCACAGAA
1 CTTCCTTTTCCAACCGGCGACACAAGCCCGAAGCCCTAACTCTCTCTAGAACCGGCGGCACAGGA
*
10800035 ACTCAGATCTTCTCTCTCTCGCTT
66 ACCCAGATCTTCTCTCTCTCGCTT
* * *
10800059 CTTCCTTTTCCAACCGACGACACAAGCCCGAAGCCCTAACTCTCTCTAGAACTGACGGCACAGGA
1 CTTCCTTTTCCAACCGGCGACACAAGCCCGAAGCCCTAACTCTCTCTAGAACCGGCGGCACAGGA
* *
10800124 ACCCACATCTTGTCTCTCTCGCTT
66 ACCCAGATCTTCTCTCTCTCGCTT
** * * * * * *
10800148 CTTTTTTTTCCAGCCGGTGACACAAGCCTGATGCCCTAGCTCTCTCTAGAACCGGCGACACAGGA
1 CTTCCTTTTCCAACCGGCGACACAAGCCCGAAGCCCTAACTCTCTCTAGAACCGGCGGCACAGGA
10800213 ACCCAGATCTTCTCTTTCTCTCGCTT
66 ACCCAGATCTTCTC--TCTCTCGCTT
10800239 CTTCCTTT
1 CTTCCTTT
10800247 CACCAGCGTC
Statistics
Matches: 161, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
89 145 0.90
91 16 0.10
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.27
Consensus pattern (89 bp):
CTTCCTTTTCCAACCGGCGACACAAGCCCGAAGCCCTAACTCTCTCTAGAACCGGCGGCACAGGA
ACCCAGATCTTCTCTCTCTCGCTT
Found at i:10810013 original size:277 final size:276
Alignment explanation
Indices: 10809518--10810071 Score: 1083
Period size: 277 Copynumber: 2.0 Consensus size: 276
10809508 CAATGATATT
10809518 AGATTCTTAGGCATCTTTGGGACATAGGCCATACCACCCAAAGAGCGCACAACCCCATCAAACAT
1 AGATTCTTAGGCATCTTTGGGACATAGGCCATACCACCCAAAGAGCGCACAACCCCATCAAACAT
10809583 TTTGATTTTCACCACTCCAAGACCCATGACCTTCACTATTGACTTATCACCCAAAGTCAAATTCC
66 TTTGATTTTCACCACTCCAAGACCCATGACCTTCACTATTGACTTATCACCCAAAGTCAAATTCC
10809648 CAGCCACCCCTTCTTGAAGTAAATCAAAACAATCCTTTTGATAACATATGTGAGTAGCAGAAGCA
131 CAGCCACCCCTTCTTGAAGTAAATCAAAACAATCCTTTTGATAACATATGTGAGTAGCAGAAGCA
10809713 GAATCTAAATACCAATCAGAATTTGCATCCATATTTTCTGAAATTGTAAGGACATCACAATCATC
196 GAATCTAAATACCAATCAGAATTTGCATCCATATTTTCTGAAATTGTAAGGACATCACAATCATC
10809778 ACCTTTAGCAACGAAA
261 ACCTTTAGCAACGAAA
10809794 ANGATTCTTAGGCATCTTTGGGACATAGGCCATACCACCCAAAGAGCGCACAACCCCATCAAACA
1 A-GATTCTTAGGCATCTTTGGGACATAGGCCATACCACCCAAAGAGCGCACAACCCCATCAAACA
10809859 TTTTTGATTTTCACCACTCCAAGACCCATGACCTTCACTATTGACTTATCACCCAAAGTCAAATT
65 -TTTTGATTTTCACCACTCCAAGACCCATGACCTTCACTATTGACTTATCACCCAAAGTCAAATT
10809924 CCCAGCCACCCCTTCTTG-AGTAAATCAAAACAATCCTTTTGATAACATATGTGAGTAGCAGAAG
129 CCCAGCCACCCCTTCTTGAAGTAAATCAAAACAATCCTTTTGATAACATATGTGAGTAGCAGAAG
10809988 CAGAATCTAAATACCAATCAGAATTTGCATCCATATTTTCTGAAATTGTAAGGACATCACAATCA
194 CAGAATCTAAATACCAATCAGAATTTGCATCCATATTTTCTGAAATTGTAAGGACATCACAATCA
10810053 TCACCTTTAGCAACGAAA
259 TCACCTTTAGCAACGAAA
10810071 A
1 A
10810072 CACACTCACC
Statistics
Matches: 276, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
276 1 0.00
277 193 0.70
278 82 0.30
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (276 bp):
AGATTCTTAGGCATCTTTGGGACATAGGCCATACCACCCAAAGAGCGCACAACCCCATCAAACAT
TTTGATTTTCACCACTCCAAGACCCATGACCTTCACTATTGACTTATCACCCAAAGTCAAATTCC
CAGCCACCCCTTCTTGAAGTAAATCAAAACAATCCTTTTGATAACATATGTGAGTAGCAGAAGCA
GAATCTAAATACCAATCAGAATTTGCATCCATATTTTCTGAAATTGTAAGGACATCACAATCATC
ACCTTTAGCAACGAAA
Found at i:10814976 original size:36 final size:37
Alignment explanation
Indices: 10814929--10815000 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
10814919 TGAATTAAAA
10814929 TTCAATACAATTCCTTTTT-TAGA-TTAAGCATAACCT
1 TTCAATACAATTCCTTTTTAT-GATTTAAGCATAACCT
10814965 TTCAATACAATTCCTTTTTATGATTTAAGCATAACC
1 TTCAATACAATTCCTTTTTATGATTTAAGCATAACC
10815001 ATTCTACCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 21 0.62
37 13 0.38
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (37 bp):
TTCAATACAATTCCTTTTTATGATTTAAGCATAACCT
Found at i:10815529 original size:20 final size:20
Alignment explanation
Indices: 10815504--10815541 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10815494 TTCTATTGAA
10815504 AATGTATCGATACATTTGCT
1 AATGTATCGATACATTTGCT
* *
10815524 AATGTATTGATACTTTTG
1 AATGTATCGATACATTTG
10815542 AGACAGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
AATGTATCGATACATTTGCT
Found at i:10815568 original size:60 final size:61
Alignment explanation
Indices: 10815492--10815616 Score: 189
Period size: 60 Copynumber: 2.1 Consensus size: 61
10815482 AAGGTTTGGC
* * **
10815492 CATTCTATTGAAAATGTATCGATACATTTGCT-AATGTATTGATACTTTTGAGACAGCAAG
1 CATTCAATTGAAAATGTATCGATACATTTGATAAATGTATCAATACTTTTGAGACAGCAAG
* *
10815552 CATTCAATTGAAAATGTATCGATACATTTGATAAATGTATCAATACTTTTGAGGCAGTAAG
1 CATTCAATTGAAAATGTATCGATACATTTGATAAATGTATCAATACTTTTGAGACAGCAAG
10815613 CATT
1 CATT
10815617 TTGTTGCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 30 0.52
61 28 0.48
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (61 bp):
CATTCAATTGAAAATGTATCGATACATTTGATAAATGTATCAATACTTTTGAGACAGCAAG
Found at i:10823285 original size:41 final size:41
Alignment explanation
Indices: 10823227--10823312 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
10823217 TTACGAGTAT
10823227 CTTTTTAACTAGCTGGGCATTTGGAAAATCTTTTCCTTAGG
1 CTTTTTAACTAGCTGGGCATTTGGAAAATCTTTTCCTTAGG
*
10823268 CTTTTTAACTAGTTGGGCATTTGGAAAATCTTTTCCTTAGG
1 CTTTTTAACTAGCTGGGCATTTGGAAAATCTTTTCCTTAGG
10823309 CTTT
1 CTTT
10823313 CTATCCTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (41 bp):
CTTTTTAACTAGCTGGGCATTTGGAAAATCTTTTCCTTAGG
Found at i:10824860 original size:40 final size:40
Alignment explanation
Indices: 10824771--10824846 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
10824761 ACATTGCTAA
10824771 TGTATTGATACTTTTGAGGCAGCAAGCATTCTATTGAAAC
1 TGTATTGATACTTTTGAGGCAGCAAGCATTCTATTGAAAC
* * *
10824811 TGTATTGATACTTTTGAGGTAGTAAGCATTTTATTG
1 TGTATTGATACTTTTGAGGCAGCAAGCATTCTATTG
10824847 CTTTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.41
Consensus pattern (40 bp):
TGTATTGATACTTTTGAGGCAGCAAGCATTCTATTGAAAC
Found at i:10827867 original size:60 final size:61
Alignment explanation
Indices: 10827800--10827913 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 61
10827790 CATTTTGAGC
**
10827800 ATTTTAGAGT-AGTTTTTGATACATGAAG-AAAACTTGT-GAGTATTTTGAGCATTTTTAAAT
1 ATTTTAGAGTGA-TTTTTGATACATGAAGAAAAACTT-TCGAACATTTTGAGCATTTTTAAAT
*
10827860 ATTTTAGAGTGATTTTTGATATATGAAGAAAAACTTTCGAACATTTTGAGCATT
1 ATTTTAGAGTGATTTTTGATACATGAAGAAAAACTTTCGAACATTTTGAGCATT
10827914 CATATTTGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
60 26 0.54
61 22 0.46
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (61 bp):
ATTTTAGAGTGATTTTTGATACATGAAGAAAAACTTTCGAACATTTTGAGCATTTTTAAAT
Found at i:10828088 original size:26 final size:26
Alignment explanation
Indices: 10828050--10828313 Score: 261
Period size: 26 Copynumber: 10.7 Consensus size: 26
10828040 ACTGAATTTG
*
10828050 GGCATTACGTGACT-GATTTTTGATAA
1 GGCATTGCGTGACTAG-TTTTTGATAA
* * *
10828076 GGCATTGCTTGACTAGCTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* **
10828102 GGCATTGCATGACT-GAATTTG----
1 GGCATTGCGTGACTAGTTTTTGATAA
10828123 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
** *
10828149 GGTTTTGCGTGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
10828175 GGCATTGCGTGACTAG---TTGAT-A
1 GGCATTGCGTGACTAGTTTTTGATAA
* **
10828197 GGCATTGCATGACTA-ACTTTG----
1 GGCATTGCGTGACTAGTTTTTGATAA
10828218 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
10828244 GGCATTGCGTGACTAGTTTTTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
* *
10828270 GGCATTGCATGACTAGTTTCTGATAA
1 GGCATTGCGTGACTAGTTTTTGATAA
**
10828296 GGCATTGAATGACTAGTT
1 GGCATTGCGTGACTAGTT
10828314 GATAGACATT
Statistics
Matches: 200, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
21 27 0.14
22 24 0.12
23 4 0.02
24 3 0.01
25 4 0.02
26 137 0.69
27 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (26 bp):
GGCATTGCGTGACTAGTTTTTGATAA
Found at i:10828115 original size:73 final size:73
Alignment explanation
Indices: 10828028--10828331 Score: 261
Period size: 73 Copynumber: 4.2 Consensus size: 73
10828018 GACTAGTTTT
*
10828028 AGGCATTGCGTGACTGAATTTGGGCATTACGTGACT-GATTTTTGATAAGGCATTGCTTGACTAG
1 AGGCATTGCGTGACTGAATTTGGGCATTACGTGACTAG-TTTTTGATAAGGCATTGCGTGACTAG
10828092 CTTCTGATA
65 CTTCTGATA
* * ** *
10828101 AGGCATTGCATGACTGAATTTGGGCATTGCGTGACTAGTTTTTGATAAGGTTTTGCGTGACTAGT
1 AGGCATTGCGTGACTGAATTTGGGCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGC
10828166 TTCTGATA
66 TTCTGATA
* * * * **
10828174 AGGCATTGCGTGACT-AGTTGATAGGCATTGCATGACTA-ACTTTG----GGCATTGCGTGACTA
1 AGGCATTGCGTGACTGAATT--TGGGCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGACTA
* *
10828233 GTTTTTGATA
64 GCTTCTGATA
** * * * **
10828243 AGGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAGTTTCTGATAAGGCATTGAATGA
1 AGGCATTGCGTGACT-GAATTTG----GGCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGA
10828308 CTAG--T-TGAT-
61 CTAGCTTCTGATA
*
10828317 AGACATTGCGTGACT
1 AGGCATTGCGTGACT
10828332 TAGGCATTGC
Statistics
Matches: 193, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
69 38 0.20
71 2 0.01
72 3 0.02
73 98 0.51
74 33 0.17
75 4 0.02
76 1 0.01
78 14 0.07
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.36
Consensus pattern (73 bp):
AGGCATTGCGTGACTGAATTTGGGCATTACGTGACTAGTTTTTGATAAGGCATTGCGTGACTAGC
TTCTGATA
Found at i:10828226 original size:95 final size:97
Alignment explanation
Indices: 10828050--10828310 Score: 386
Period size: 95 Copynumber: 2.7 Consensus size: 97
10828040 ACTGAATTTG
* *
10828050 GGCATTACGTGACT-GATTTTTGATAAGGCATTGCTTGACTAGCTTCTGATAAGGCATTGCATGA
1 GGCATTGCGTGACTAG-TTTTTGATAAGGCATTGCATGACTAG-TTCTGATAAGGCATTGCATGA
10828114 CTGAATTTGGGCATTGCGTGACTAGTTTTTGATAA
64 CT-AATTTGGGCATTGCGTGACTAGTTTTTGATAA
** * *
10828149 GGTTTTGCGTGACTAGTTTCTGATAAGGCATTGCGTGACTAG-T-TGAT-AGGCATTGCATGACT
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAGTTCTGATAAGGCATTGCATGACT
10828211 AACTTTGGGCATTGCGTGACTAGTTTTTGATAA
66 AA-TTTGGGCATTGCGTGACTAGTTTTTGATAA
*
10828244 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAGTTTCTGATAAGGCATTGAATGAC
1 GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAG-TTCTGATAAGGCATTGCATGAC
10828309 TA
65 TA
10828311 GTTGATAGAC
Statistics
Matches: 146, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
94 2 0.01
95 83 0.57
96 4 0.03
97 2 0.01
98 4 0.03
99 50 0.34
100 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (97 bp):
GGCATTGCGTGACTAGTTTTTGATAAGGCATTGCATGACTAGTTCTGATAAGGCATTGCATGACT
AATTTGGGCATTGCGTGACTAGTTTTTGATAA
Found at i:10828399 original size:21 final size:21
Alignment explanation
Indices: 10828365--10828420 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
10828355 ACGTAATGTA
* * *
10828365 TAAAAACTAGTCACGTAATGCC
1 TAAAAACCAATCACG-AATGAC
10828387 T-AAAACCAATCACGAATGAC
1 TAAAAACCAATCACGAATGAC
*
10828407 TAAAAACTAATCAC
1 TAAAAACCAATCAC
10828421 AAGGTGATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.21
21 22 0.76
22 1 0.03
ACGTcount: A:0.48, C:0.23, G:0.09, T:0.20
Consensus pattern (21 bp):
TAAAAACCAATCACGAATGAC
Found at i:10831304 original size:12 final size:12
Alignment explanation
Indices: 10831287--10831312 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10831277 ACATGTACCG
10831287 TATTATAAAATA
1 TATTATAAAATA
10831299 TATTATAAAATA
1 TATTATAAAATA
10831311 TA
1 TA
10831313 CTAATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATTATAAAATA
Found at i:10836513 original size:15 final size:15
Alignment explanation
Indices: 10836470--10836528 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
10836460 AAAGATACAT
*
10836470 AAAAGAAAGATGAAAG
1 AAAAGAAA-ATAAAAG
*
10836486 ACAAAG-TAATAAAATG
1 A-AAAGAAAATAAAA-G
10836502 AAAA-AAAATAAAAG
1 AAAAGAAAATAAAAG
10836516 AAAAGAAAATAAA
1 AAAAGAAAATAAA
10836529 TCAATAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.14
15 23 0.64
16 4 0.11
17 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.14, T:0.10
Consensus pattern (15 bp):
AAAAGAAAATAAAAG
Found at i:10836748 original size:52 final size:50
Alignment explanation
Indices: 10836666--10837060 Score: 357
Period size: 52 Copynumber: 7.7 Consensus size: 50
10836656 CCTTTTAAAA
* * * * * *
10836666 CTCCACAA-TTTAAAAACAATTTGAACAATAAACCATTCCTCATCCGAAG
1 CTCCAAAACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
** * * *
10836715 CTCCAAAACTTTTAAGAAT-AATTTTGAAAAATAAATGATTCTTTATCCGAGG
1 CTCCAAAAC-TTTAA-AATCAA-TTTGAAAAATAAACAACTCCTCATCCGAGG
* * *
10836767 CTCCACAACTTTAAAATCAATTTGAAGAATAAACTACTCCTCATCCGAGG
1 CTCCAAAACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * * *
10836817 TTCCATAACTTTAAAATCAATTTGAAAAACAAACAACTCCTAATTCGAGG
1 CTCCAAAACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * *
10836867 CAT-AAACAACTTTTAAAATGAATTTGAAGAATAAACAACTCCTCATCCGAGG
1 C-TCCAA-AAC-TTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * * *
10836919 CTCCACAAGTTTAAAAATCAATTTGAAAAACAAACAACTCTTTATCCGAGG
1 CTCCAAAACTTT-AAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * *
10836970 CAT-AAACAACTTTTAAGAATCAATTTGAAGAATAATCAACTCCTCATCCGAGG
1 C-TCCAA-AAC-TTTAA-AATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * *
10837023 CTTCACAACTTTAAAAATCAATTTGAAAAATAAGCAAC
1 CTCCAAAACTTT-AAAATCAATTTGAAAAATAAACAAC
10837061 ATCTAGGTAT
Statistics
Matches: 280, Mismatches: 50, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
49 7 0.03
50 74 0.26
51 80 0.29
52 83 0.30
53 36 0.13
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (50 bp):
CTCCAAAACTTTAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
Found at i:10836882 original size:102 final size:103
Alignment explanation
Indices: 10836674--10837052 Score: 496
Period size: 102 Copynumber: 3.7 Consensus size: 103
10836664 AACTCCACAA
* * * * * * *
10836674 TTTAAAAACAATTTGAACAATAAACCATTCCTCATCCGAAGCTCCAAAACTTTTAAGAAT-AATT
1 TTTAAAATCAATTTGAAGAATAAACAACTCCTCATCCGAGGCTCCACAAC-TTTAAAAATCAA-T
* ** * **
10836738 TTGAAAAATAAATGATTCTTTATCCGAGGC-TCCACAAC-
64 TTGAAAAACAAACAACTCTTTATCCGAGGCATAAACAACT
* * *
10836776 TTTAAAATCAATTTGAAGAATAAACTACTCCTCATCCGAGGTTCCATAACTTT-AAAATCAATTT
1 TTTAAAATCAATTTGAAGAATAAACAACTCCTCATCCGAGGCTCCACAACTTTAAAAATCAATTT
* * *
10836840 GAAAAACAAACAACTCCTAATTCGAGGCATAAACAACT
66 GAAAAACAAACAACTCTTTATCCGAGGCATAAACAACT
* *
10836878 TTTAAAATGAATTTGAAGAATAAACAACTCCTCATCCGAGGCTCCACAAGTTTAAAAATCAATTT
1 TTTAAAATCAATTTGAAGAATAAACAACTCCTCATCCGAGGCTCCACAACTTTAAAAATCAATTT
10836943 GAAAAACAAACAACTCTTTATCCGAGGCATAAACAACT
66 GAAAAACAAACAACTCTTTATCCGAGGCATAAACAACT
* *
10836981 TTTAAGAATCAATTTGAAGAATAATCAACTCCTCATCCGAGGCTTCACAACTTTAAAAATCAATT
1 TTTAA-AATCAATTTGAAGAATAAACAACTCCTCATCCGAGGCTCCACAACTTTAAAAATCAATT
10837046 TGAAAAA
65 TGAAAAA
10837053 TAAGCAACAT
Statistics
Matches: 243, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
100 28 0.12
101 11 0.05
102 91 0.37
103 51 0.21
104 62 0.26
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (103 bp):
TTTAAAATCAATTTGAAGAATAAACAACTCCTCATCCGAGGCTCCACAACTTTAAAAATCAATTT
GAAAAACAAACAACTCTTTATCCGAGGCATAAACAACT
Found at i:10836954 original size:51 final size:51
Alignment explanation
Indices: 10836666--10837060 Score: 404
Period size: 51 Copynumber: 7.7 Consensus size: 51
10836656 CCTTTTAAAA
* * * *
10836666 CTCCACAA-TTTAAAAA-CAATTTGAACAATAAACCATTCCTCATCCGAAG
1 CTCCACAACTTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * ** * * *
10836715 CTCCAAAACTTTTAAGAAT-AATTTTGAAAAATAAATGATTCTTTATCCGAGG
1 CTCCACAAC-TTTAAAAATCAA-TTTGAAAAATAAACAACTCCTCATCCGAGG
* *
10836767 CTCCACAACTTT-AAAATCAATTTGAAGAATAAACTACTCCTCATCCGAGG
1 CTCCACAACTTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * * *
10836817 TTCCATAACTTT-AAAATCAATTTGAAAAACAAACAACTCCTAATTCGAGG
1 CTCCACAACTTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
** * * *
10836867 CATAAACAACTTTTAAAATGAATTTGAAGAATAAACAACTCCTCATCCGAGG
1 C-TCCACAACTTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* * * *
10836919 CTCCACAAGTTTAAAAATCAATTTGAAAAACAAACAACTCTTTATCCGAGG
1 CTCCACAACTTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
** * * *
10836970 CATAAACAACTTTTAAGAATCAATTTGAAGAATAATCAACTCCTCATCCGAGG
1 C-TCCACAAC-TTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
* *
10837023 CTTCACAACTTTAAAAATCAATTTGAAAAATAAGCAAC
1 CTCCACAACTTTAAAAATCAATTTGAAAAATAAACAAC
10837061 ATCTAGGTAT
Statistics
Matches: 282, Mismatches: 55, Indels: 16
0.80 0.16 0.05
Matches are distributed among these distances:
49 7 0.02
50 71 0.25
51 90 0.32
52 77 0.27
53 37 0.13
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (51 bp):
CTCCACAACTTTAAAAATCAATTTGAAAAATAAACAACTCCTCATCCGAGG
Found at i:10844396 original size:5 final size:5
Alignment explanation
Indices: 10844374--10844416 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
10844364 AAGACAAAGT
*
10844374 AATAA AATGA AA-AA AATAA AATAA AATAA AAT-A AAT-A AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA A
10844417 TAACAAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 11 0.32
5 23 0.68
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:10844398 original size:19 final size:18
Alignment explanation
Indices: 10844374--10844416 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
10844364 AAGACAAAGT
10844374 AATAAAATGAAAA-AAATAA
1 AATAAAAT-AAAATAAAT-A
10844393 AATAAAATAAAATAAATA
1 AATAAAATAAAATAAATA
10844411 AATAAA
1 AATAAA
10844417 TAACAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AATAAAATAAAATAAATA
Found at i:10844409 original size:14 final size:15
Alignment explanation
Indices: 10844374--10844416 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10844364 AAGACAAAGT
*
10844374 AATAAAATGAAA-AA
1 AATAAAATAAAATAA
10844388 AATAAAATAAAATAA
1 AATAAAATAAAATAA
10844403 AAT-AAAT-AAATAA
1 AATAAAATAAAATAA
10844416 A
1 A
10844417 TAACAAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 7 0.26
14 15 0.56
15 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAAATAAAATAA
Found at i:10859327 original size:24 final size:25
Alignment explanation
Indices: 10859286--10859333 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
10859276 GTACTTTTAT
10859286 TTTAAATTAAATAGATTTTAATGAG
1 TTTAAATTAAATAGATTTTAATGAG
*
10859311 TTTAGATT-AATAGATTTTAATGA
1 TTTAAATTAAATAGATTTTAATGA
10859334 TTATTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (25 bp):
TTTAAATTAAATAGATTTTAATGAG
Found at i:10861685 original size:2 final size:2
Alignment explanation
Indices: 10861673--10861712 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10861663 TTATTAAAAT
*
10861673 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10861713 AGGTGTCACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10863729 original size:24 final size:23
Alignment explanation
Indices: 10863673--10863729 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 23
10863663 TAAAAGTATT
10863673 AAAATCCTAATAAAAATAAGAAA
1 AAAATCCTAATAAAAATAAGAAA
*
10863696 AAAATCCTAAT-AGAATAAAGAAA
1 AAAATCCTAATAAAAAT-AAGAAA
10863719 ATAAATCCTAA
1 A-AAATCCTAA
10863730 ATCAACTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 4 0.13
23 18 0.58
24 9 0.29
ACGTcount: A:0.65, C:0.11, G:0.05, T:0.19
Consensus pattern (23 bp):
AAAATCCTAATAAAAATAAGAAA
Found at i:10865014 original size:92 final size:91
Alignment explanation
Indices: 10864849--10865045 Score: 360
Period size: 92 Copynumber: 2.2 Consensus size: 91
10864839 CTTCTATTAA
*
10864849 AGAAATAA-TTCTTTGATTCGAACAATCAAAAGCAATATGCCCAAATCCTTGGTATTTGAAGCAC
1 AGAAGTAATTTCTTTGATTCGAACAATCAAAAGCAATATGCCCAAATCCTTGGTATTTGAAGCAC
10864913 TTTTTGTTGACATTAGAAGCATGAGT
66 TTTTTGTTGACATTAGAAGCATGAGT
10864939 AGAAGTAATNTTCTTTGATTCGAACAATCAAAAGCAATATGCCCAAATCCTTGGTATTTGAAGCA
1 AGAAGTAAT-TTCTTTGATTCGAACAATCAAAAGCAATATGCCCAAATCCTTGGTATTTGAAGCA
10865004 CTTTTTGTTGACATTAGAAGCATGAGT
65 CTTTTTGTTGACATTAGAAGCATGAGT
*
10865031 AGAAGTAATCTCTTT
1 AGAAGTAATTTCTTT
10865046 ATCATTACTA
Statistics
Matches: 103, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
90 7 0.07
91 5 0.05
92 91 0.88
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (91 bp):
AGAAGTAATTTCTTTGATTCGAACAATCAAAAGCAATATGCCCAAATCCTTGGTATTTGAAGCAC
TTTTTGTTGACATTAGAAGCATGAGT
Found at i:10872248 original size:18 final size:18
Alignment explanation
Indices: 10872217--10872257 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10872207 CTTTTGGATA
* *
10872217 TGCTATGACGCATGATTT
1 TGCTAGGACACATGATTT
10872235 TGCTAGGACACATGATTT
1 TGCTAGGACACATGATTT
10872253 TGCTA
1 TGCTA
10872258 AGACCTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (18 bp):
TGCTAGGACACATGATTT
Found at i:10874030 original size:42 final size:43
Alignment explanation
Indices: 10873971--10874063 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 43
10873961 TTTTGTGTGA
* *
10873971 TGATGATGACCCAACTATGTGCGTGTGGG-AGTGCACATGAGT
1 TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCACATGAGC
10874013 TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCACATGAGC
1 TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCACATGAGC
10874056 TGATGATG
1 TGATGATG
10874064 GTGGGATGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 28 0.58
43 20 0.42
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (43 bp):
TGATGATGACCCAACTATGTGCGAGTGGGAAGTGCACATGAGC
Found at i:10878238 original size:11 final size:11
Alignment explanation
Indices: 10878224--10878253 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10878214 AATAATATTT
10878224 TATTAATAAAA
1 TATTAATAAAA
*
10878235 TATTAGTAAAA
1 TATTAATAAAA
10878246 TATTAATA
1 TATTAATA
10878254 TTTTATTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:10880142 original size:36 final size:35
Alignment explanation
Indices: 10880096--10880239 Score: 136
Period size: 36 Copynumber: 4.1 Consensus size: 35
10880086 GTGTACACGC
10880096 TGATGATATATGCCATGTGCGATGTGGGAGTGCACA
1 TGATGATAT-TGCCATGTGCGATGTGGGAGTGCACA
10880132 TGATGATATATGCCATGTGC-AGTGTGGGAGTGCACA
1 TGATGATAT-TGCCATGTGCGA-TGTGGGAGTGCACA
* * *
10880168 T--T-ATACTTGCCATGTGCTG-TGTAGAAGTGCATA
1 TGATGATA-TTGCCATGTGC-GATGTGGGAGTGCACA
* * * *
10880201 TGAGGATATTAGCTATATGCGGTGTGGGAGTGCACA
1 TGATGATATT-GCCATGTGCGATGTGGGAGTGCACA
10880237 TGA
1 TGA
10880240 GCTGAGTTGA
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
33 25 0.28
34 2 0.02
35 4 0.04
36 59 0.66
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (35 bp):
TGATGATATTGCCATGTGCGATGTGGGAGTGCACA
Found at i:10880209 original size:69 final size:69
Alignment explanation
Indices: 10880106--10880237 Score: 169
Period size: 69 Copynumber: 1.9 Consensus size: 69
10880096 TGATGATATA
* * * *
10880106 TGCCATGTGCGATGTGGGAGTGCACATGATGATA-TATGCCATGTGCAGTGTGGGAGTGCACATT
1 TGCCATGTGCGATGTAGAAGTGCACATGAGGATATTA-GCCATATGCAGTGTGGGAGTGCACATT
10880170 ATACT
65 ATACT
* * *
10880175 TGCCATGTGCTG-TGTAGAAGTGCATATGAGGATATTAGCTATATGCGGTGTGGGAGTGCACAT
1 TGCCATGTGC-GATGTAGAAGTGCACATGAGGATATTAGCCATATGCAGTGTGGGAGTGCACAT
10880238 GAGCTGAGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
69 51 0.94
70 3 0.06
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (69 bp):
TGCCATGTGCGATGTAGAAGTGCACATGAGGATATTAGCCATATGCAGTGTGGGAGTGCACATTA
TACT
Found at i:10880240 original size:36 final size:36
Alignment explanation
Indices: 10880072--10880240 Score: 125
Period size: 36 Copynumber: 4.7 Consensus size: 36
10880062 GTGATGGTGG
* * *
10880072 TGTGCGGTGTGGAAGTGTACACGCTGATGATA-TATGCCA
1 TGTGCGGTGTGGGAGTG--CAC-ATGAGGATATTA-GCCA
* *
10880111 TGTGCGATGTGGGAGTGCACATGATGATA-TATGCCA
1 TGTGCGGTGTGGGAGTGCACATGAGGATATTA-GCCA
* *
10880147 TGTGCAGTGTGGGAGTGCACAT---TATACTT-GCCA
1 TGTGCGGTGTGGGAGTGCACATGAGGATA-TTAGCCA
* * * * *
10880180 TGTGCTGTGTAGAAGTGCATATGAGGATATTAGCTA
1 TGTGCGGTGTGGGAGTGCACATGAGGATATTAGCCA
*
10880216 TATGCGGTGTGGGAGTGCACATGAG
1 TGTGCGGTGTGGGAGTGCACATGAG
10880241 CTGAGTTGAG
Statistics
Matches: 107, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
33 25 0.23
35 3 0.03
36 61 0.57
37 3 0.03
39 15 0.14
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.29
Consensus pattern (36 bp):
TGTGCGGTGTGGGAGTGCACATGAGGATATTAGCCA
Found at i:10883138 original size:31 final size:31
Alignment explanation
Indices: 10883093--10883261 Score: 189
Period size: 31 Copynumber: 5.5 Consensus size: 31
10883083 TATTTTTTCT
*
10883093 ATGGAGATATAACCTTATATTACCTTTTACA
1 ATGGAGGTATAACCTTATATTACCTTTTACA
* * *
10883124 ATGGTGGTATAACCTTACACTACCTTTTACA
1 ATGGAGGTATAACCTTATATTACCTTTTACA
*
10883155 ATGGAGGTATAACCTTATATTACCTTTTGCA
1 ATGGAGGTATAACCTTATATTACCTTTTACA
** * *
10883186 ATTAAGGTATAATCGTT-CATTACCTTTTACA
1 ATGGAGGTATAA-CCTTATATTACCTTTTACA
* * * *
10883217 ATGGAGGTGTAACCACT-TACTACCTTTTGCA
1 ATGGAGGTATAACC-TTATATTACCTTTTACA
10883248 ATGGAGGTATAACC
1 ATGGAGGTATAACC
10883262 ATACAACAGT
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
30 1 0.01
31 110 0.96
32 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (31 bp):
ATGGAGGTATAACCTTATATTACCTTTTACA
Found at i:10883169 original size:62 final size:62
Alignment explanation
Indices: 10883093--10883266 Score: 217
Period size: 62 Copynumber: 2.8 Consensus size: 62
10883083 TATTTTTTCT
* * *
10883093 ATGGAGATATAACCTTATATTACCTTTTACAATGGTGGTATAACCTTACACTACCTTTTACA
1 ATGGAGGTATAACCTTATATTACCTTTTGCAATGGAGGTATAACCTTACACTACCTTTTACA
** * *
10883155 ATGGAGGTATAACCTTATATTACCTTTTGCAATTAAGGTATAATCGTT-CATTACCTTTTACA
1 ATGGAGGTATAACCTTATATTACCTTTTGCAATGGAGGTATAA-CCTTACACTACCTTTTACA
* * * *
10883217 ATGGAGGTGTAACCACT-TACTACCTTTTGCAATGGAGGTATAACCATACA
1 ATGGAGGTATAACC-TTATATTACCTTTTGCAATGGAGGTATAACCTTACA
10883267 ACAGTGCATT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
61 2 0.02
62 89 0.94
63 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (62 bp):
ATGGAGGTATAACCTTATATTACCTTTTGCAATGGAGGTATAACCTTACACTACCTTTTACA
Found at i:10891032 original size:18 final size:17
Alignment explanation
Indices: 10891004--10891042 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
10890994 GAACTTAAGG
* *
10891004 AAGAGGAAGAATAAGAC
1 AAGAGGAAGAAAAAGAA
10891021 AAGAGTGAAGAAAAAGAA
1 AAGAG-GAAGAAAAAGAA
10891039 AAGA
1 AAGA
10891043 AGAAAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.05
Consensus pattern (17 bp):
AAGAGGAAGAAAAAGAA
Found at i:10897483 original size:18 final size:18
Alignment explanation
Indices: 10897443--10897485 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10897433 TGGAGAACAT
10897443 AATAGAAAGCTTAGAGGA
1 AATAGAAAGCTTAGAGGA
* *
10897461 AATAGGAAGCTTAGGGGA
1 AATAGAAAGCTTAGAGGA
*
10897479 GATAGAA
1 AATAGAA
10897486 GGTAGGAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.33, T:0.16
Consensus pattern (18 bp):
AATAGAAAGCTTAGAGGA
Found at i:10900246 original size:31 final size:29
Alignment explanation
Indices: 10900224--10900296 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
10900214 TTTTCTTGAA
10900224 GAGGTATAACCTTTTTCTACCTTTTTATG
1 GAGGTATAACCTTTTTCTACCTTTTTATG
*** *
10900253 GAGGTATAACCTTACACTACCTTTTACAATG
1 GAGGTATAACCTTTTTCTACCTTTT--TATG
10900284 GAGGTATAACCTT
1 GAGGTATAACCTT
10900297 ACACCACCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 22 0.58
31 16 0.42
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (29 bp):
GAGGTATAACCTTTTTCTACCTTTTTATG
Found at i:10900297 original size:31 final size:31
Alignment explanation
Indices: 10900224--10900325 Score: 127
Period size: 31 Copynumber: 3.4 Consensus size: 31
10900214 TTTTCTTGAA
*** *
10900224 GAGGTATAACCTTTTTCTACCTTTT--TATG
1 GAGGTATAACCTTACACTACCTTTTACAATG
10900253 GAGGTATAACCTTACACTACCTTTTACAATG
1 GAGGTATAACCTTACACTACCTTTTACAATG
* *
10900284 GAGGTATAACCTTACACCACCTTTCACAATG
1 GAGGTATAACCTTACACTACCTTTTACAATG
*
10900315 GAGTTATAACC
1 GAGGTATAACC
10900326 ACTCATTACT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 22 0.34
31 42 0.66
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (31 bp):
GAGGTATAACCTTACACTACCTTTTACAATG
Found at i:10900800 original size:24 final size:23
Alignment explanation
Indices: 10900751--10900796 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10900741 TATCCCAAGA
*
10900751 CTTTCTATTTTATGAGAATTGAT
1 CTTTCCATTTTATGAGAATTGAT
10900774 CTTTCCATTTT-TGAGATATTGAT
1 CTTTCCATTTTATGAGA-ATTGAT
10900797 TCTTCTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (23 bp):
CTTTCCATTTTATGAGAATTGAT
Found at i:10900871 original size:73 final size:72
Alignment explanation
Indices: 10900751--10900997 Score: 269
Period size: 73 Copynumber: 3.4 Consensus size: 72
10900741 TATCCCAAGA
* ** * *
10900751 CTTTCTATTTTATGAGAATTGATCTTTCCATTTTTGAGATATTGATTCTTCTTGTCTCACTTAAA
1 CTTTCTATTTTTTGAGAATCAATCTTTCCATTATTGAGATATCGATTCTTCTTGTCTCACTTAAA
*
10900816 CTATAGAG
66 GT-TAGAG
* * *
10900824 CTTTCTATTTTTTGAGAATCAACCTTTCCATTATAGAGATATCGATTCTTCTTGTCTCACTTCAA
1 CTTTCTATTTTTTGAGAATCAATCTTTCCATTATTGAGATATCGATTCTTCTTGTCTCACTTAAA
10900889 GTTTAGAG
66 G-TTAGAG
* ** *** * * * *
10900897 CTTTCTATTTTTTAAGAATTGATCTTTGTGTTCTTGAGATATCGATTCTTCTTATCCCACTTTAA
1 CTTTCTATTTTTTGAGAATCAATCTTTCCATTATTGAGATATCGATTCTTCTTGTCTCACTTAAA
*
10900962 GTTAGTAA
66 GTTAG-AG
*
10900970 CTTTCTGATTTCTTGAGAATCAATCTTT
1 CTTTCT-ATTTTTTGAGAATCAATCTTT
10900998 GCTTCTCCAA
Statistics
Matches: 145, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
72 4 0.03
73 123 0.85
74 18 0.12
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (72 bp):
CTTTCTATTTTTTGAGAATCAATCTTTCCATTATTGAGATATCGATTCTTCTTGTCTCACTTAAA
GTTAGAG
Found at i:10901015 original size:146 final size:146
Alignment explanation
Indices: 10900751--10901017 Score: 322
Period size: 146 Copynumber: 1.8 Consensus size: 146
10900741 TATCCCAAGA
* * * * *
10900751 CTTTCTATTTTATGAGAATTGATCTTTCCATTTTTGAGATATTGATTCTTCTTGTCTCACTTAAA
1 CTTTCTATTTTATAAGAATTGATCTTTCCATTCTTGAGATATCGATTCTTCTTATCCCACTTAAA
* * * * *
10900816 CTATAGAGCTTTCTATTTTTTGAGAATCAACCTTTCCATTATAGAGATATCGATTCTTCTTGTCT
66 CTATAGAACTTTCTATTTCTTGAGAATCAACCTTTCCATTATACAAACATCGATTCTTCTTGTCT
10900881 CACTTCAAGTTTAGAG
131 CACTTCAAGTTTAGAG
* *** *
10900897 CTTTCTATTTTTTAAGAATTGATCTTTGTGTTCTTGAGATATCGATTCTTCTTATCCCACTTTAA
1 CTTTCTATTTTATAAGAATTGATCTTTCCATTCTTGAGATATCGATTCTTCTTATCCCACTTAAA
* * * * *
10900962 GT-TAGTAACTTTCTGATTTCTTGAGAATCAATCTTTGC-TTCTCCAAACATCGATTC
66 CTATAG-AACTTTCT-ATTTCTTGAGAATCAACCTTTCCATTATACAAACATCGATTC
10901018 CTTTTTCACA
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
145 3 0.03
146 76 0.77
147 20 0.20
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.46
Consensus pattern (146 bp):
CTTTCTATTTTATAAGAATTGATCTTTCCATTCTTGAGATATCGATTCTTCTTATCCCACTTAAA
CTATAGAACTTTCTATTTCTTGAGAATCAACCTTTCCATTATACAAACATCGATTCTTCTTGTCT
CACTTCAAGTTTAGAG
Found at i:10902240 original size:42 final size:43
Alignment explanation
Indices: 10902175--10902265 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
10902165 GACCAGATAG
** * *
10902175 AGATAAACATCTTATTAAGTTATCTTATCTAAGCTT-AACTT-A
1 AGATAAACATCTTACCAAATTATCTTATCCAAGCTTCAA-TTGA
10902217 AGATAAACATCTTACCAAATTATCTTATCCAAGCTTCAATTGA
1 AGATAAACATCTTACCAAATTATCTTATCCAAGCTTCAATTGA
10902260 AGATAA
1 AGATAA
10902266 GATTTTCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 34 0.79
43 9 0.21
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (43 bp):
AGATAAACATCTTACCAAATTATCTTATCCAAGCTTCAATTGA
Found at i:10903522 original size:16 final size:16
Alignment explanation
Indices: 10903492--10903524 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10903482 TTTCAACTCA
10903492 ATTTGAGTCATATTTG
1 ATTTGAGTCATATTTG
10903508 ATTTCGAGTCA-ATTTG
1 ATTT-GAGTCATATTTG
10903524 A
1 A
10903525 ATCAAGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (16 bp):
ATTTGAGTCATATTTG
Found at i:10906333 original size:2 final size:2
Alignment explanation
Indices: 10906326--10906362 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10906316 TCATTGGAAA
10906326 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10906363 TATCCAGGCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10912973 original size:15 final size:15
Alignment explanation
Indices: 10912939--10912973 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10912929 AATTATTATT
*
10912939 ATATATATACTTTTA
1 ATATATATACTTTAA
*
10912954 GTATATATACTTTAA
1 ATATATATACTTTAA
10912969 ATATA
1 ATATA
10912974 AATATATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATATACTTTAA
Found at i:10916102 original size:22 final size:22
Alignment explanation
Indices: 10916076--10916117 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10916066 AACTTAAACT
**
10916076 CTTTATTTTGTTTTTAAAAAGA
1 CTTTATTTTGAATTTAAAAAGA
10916098 CTTTATTTTGAATTTAAAAA
1 CTTTATTTTGAATTTAAAAA
10916118 TTGATTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
CTTTATTTTGAATTTAAAAAGA
Found at i:10919970 original size:25 final size:25
Alignment explanation
Indices: 10919917--10919986 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
10919907 TTAGTGTTAC
* *
10919917 ATTTAAGCAGTTTAA-TTTTAAAAG
1 ATTTAAGCAGTTCAATTTTTAAAAA
*
10919941 GTTTAAGCAGTTCAATTTTTAAAAA
1 ATTTAAGCAGTTCAATTTTTAAAAA
* *
10919966 ATTTAAGTAGCTCAATTTTTA
1 ATTTAAGCAGTTCAATTTTTA
10919987 TAAGAAAGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 13 0.33
25 26 0.67
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (25 bp):
ATTTAAGCAGTTCAATTTTTAAAAA
Found at i:10920599 original size:20 final size:20
Alignment explanation
Indices: 10920556--10920599 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10920546 ATTCTGTTGG
* * *
10920556 TAATTGATGAATTTCATTGG
1 TAATTGATGAATTCCATCGA
10920576 TAATTGATGAATTCCATCGA
1 TAATTGATGAATTCCATCGA
10920596 TAAT
1 TAAT
10920600 AACTGAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (20 bp):
TAATTGATGAATTCCATCGA
Found at i:10921298 original size:2 final size:2
Alignment explanation
Indices: 10921293--10921327 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10921283 TATATATTGA
10921293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10921328 ATAACATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10921384 original size:2 final size:2
Alignment explanation
Indices: 10921377--10921422 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
10921367 NNNNNNNNNC
*
10921377 AT AT AT AT -T GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10921418 AT AT A
1 AT AT A
10921423 AACATACATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10926709 original size:116 final size:115
Alignment explanation
Indices: 10926574--10926859 Score: 385
Period size: 116 Copynumber: 2.5 Consensus size: 115
10926564 TAAACCTTAA
*
10926574 TAATTAATTTAAATATTTTTTAAATTAAATAATATTAATAATTTAATTAATTGCCTAATAACTAA
1 TAATTAATTTAAATATTTTTTAAATTAAATAATATTAATAATTTAATTAATTGCCTAATAAATAA
* *
10926639 AACA-TTGTTCAATTCAAGTAGTCAAATTGTTTAATTAATTGAATGAAACCT
66 AACATTTGTTCAATTCAAGTAGTCAAA-T-TATAATTAATTGAATAAAACCT
* * *
10926690 TAATTAATTTAAATATTTTTTAAATTAAATAATATTACTAATTTAATTAATTACTTAATAAATAA
1 TAATTAATTTAAATATTTTTTAAATTAAATAATATTAATAATTTAATTAATTGCCTAATAAATAA
* * * * * *
10926755 GACATTTTTTCAATTCGAGTAGTTAAATTATAATTAATTTAATAAAACTT
66 AACATTTGTTCAATTCAAGTAGTCAAATTATAATTAATTGAATAAAACCT
* * * * *
10926805 TAATTAATTTAAATATTTCTTGAATTTTACTAATTTTAATAATTTAATTAATTGC
1 TAATTAATTTAAATATTT-TTTAAATTAAATAATATTAATAATTTAATTAATTGC
10926860 TTATTTAACT
Statistics
Matches: 149, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
115 36 0.24
116 94 0.63
117 19 0.13
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (115 bp):
TAATTAATTTAAATATTTTTTAAATTAAATAATATTAATAATTTAATTAATTGCCTAATAAATAA
AACATTTGTTCAATTCAAGTAGTCAAATTATAATTAATTGAATAAAACCT
Found at i:10927842 original size:60 final size:60
Alignment explanation
Indices: 10927777--10927894 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
10927767 CAGCAAATTG
* *
10927777 GTCGATAAACTTACTAA-CTTTTTAAATTGGATTACCGA-CAGAATGTTCATCAATAATTTA
1 GTCGATAAACTTAC-AATCTTTTTAAATTAGATTACCGATCA-AATGTTCATCAACAATTTA
* *
10927837 GTCGATAAACTTACAATCTTTTTAAATTAGATTACTGATCAAATTTTCATCAACAATT
1 GTCGATAAACTTACAATCTTTTTAAATTAGATTACCGATCAAATGTTCATCAACAATT
10927895 CGGTCGACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
59 2 0.04
60 48 0.92
61 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (60 bp):
GTCGATAAACTTACAATCTTTTTAAATTAGATTACCGATCAAATGTTCATCAACAATTTA
Found at i:10927901 original size:60 final size:58
Alignment explanation
Indices: 10927758--10927901 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 58
10927748 ATGTCAATGG
* *
10927758 AAATTTT-ATCAGCAAATTGGTCGATAAACTTACTAACTTTTTAAATTGGATTACCGAC
1 AAATTTTCATCAAC-AATTGGTCGATAAACTTACTAACTTTTTAAATTAGATTACCGAC
* * * *
10927816 AGAATGTTCATCAATAATTTAGTCGATAAACTTAC-AATCTTTTTAAATTAGATTACTGATC
1 A-AATTTTCATCAACAA-TTGGTCGATAAACTTACTAA-CTTTTTAAATTAGATTACCGA-C
10927877 AAATTTTCATCAACAATTCGGTCGA
1 AAATTTTCATCAACAATT-GGTCGA
10927902 CAATTTGACA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
58 1 0.01
59 11 0.15
60 57 0.80
61 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (58 bp):
AAATTTTCATCAACAATTGGTCGATAAACTTACTAACTTTTTAAATTAGATTACCGAC
Found at i:10932589 original size:36 final size:36
Alignment explanation
Indices: 10932532--10932603 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
10932522 TGTATTTTCA
*
10932532 AAATAAAAAGTTATGTCTTTTCATATGAAAAGTTGT
1 AAATAAAAAGTTATGTCTTTTCACATGAAAAGTTGT
* *
10932568 AAATGAAAAGTTATGTTTTTTCACATGAAAAGTTGT
1 AAATAAAAAGTTATGTCTTTTCACATGAAAAGTTGT
10932604 GACTATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (36 bp):
AAATAAAAAGTTATGTCTTTTCACATGAAAAGTTGT
Found at i:10932703 original size:19 final size:20
Alignment explanation
Indices: 10932679--10932721 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
10932669 ATTGTATGTG
*
10932679 GTTTTTATGTGAAAAGTTA-
1 GTTTTTATGTAAAAAGTTAT
10932698 GTTTTTATGTAAAAAGTTAT
1 GTTTTTATGTAAAAAGTTAT
10932718 GTTT
1 GTTT
10932722 CATGGTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTTTTATGTAAAAAGTTAT
Found at i:10937222 original size:59 final size:59
Alignment explanation
Indices: 10937134--10937256 Score: 219
Period size: 59 Copynumber: 2.1 Consensus size: 59
10937124 TATTTTAAGG
10937134 TTTTTTCCCAAACAAGATTATACTAATTATGATAAAAATTACTCCTTCTACTATGGGTT
1 TTTTTTCCCAAACAAGATTATACTAATTATGATAAAAATTACTCCTTCTACTATGGGTT
* * *
10937193 TTTTTTCCCGAACAAGATTATACTAATTATGATAAAAATTACTTCTTCTATTATGGGTT
1 TTTTTTCCCAAACAAGATTATACTAATTATGATAAAAATTACTCCTTCTACTATGGGTT
10937252 TTTTT
1 TTTTT
10937257 CCCTTTAACT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.45
Consensus pattern (59 bp):
TTTTTTCCCAAACAAGATTATACTAATTATGATAAAAATTACTCCTTCTACTATGGGTT
Found at i:10938019 original size:13 final size:13
Alignment explanation
Indices: 10938001--10938027 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10937991 TGCATACATA
10938001 AAAAAATAAAAAT
1 AAAAAATAAAAAT
10938014 AAAAAATAAAAAT
1 AAAAAATAAAAAT
10938027 A
1 A
10938028 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:10940245 original size:17 final size:18
Alignment explanation
Indices: 10940207--10940251 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
10940197 TTTATAAAAA
10940207 TTTTAATTTTTTTAACATT
1 TTTTAA-TTTTTTAACATT
10940226 TTTTAATTTTTTAGA-A-T
1 TTTTAATTTTTTA-ACATT
10940243 TTTTAATTT
1 TTTTAATTT
10940252 GTCCCTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.40
18 8 0.32
19 7 0.28
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTTTAACATT
Found at i:10943442 original size:17 final size:17
Alignment explanation
Indices: 10943420--10943452 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10943410 TTTTTTCTTC
10943420 TTTGTTAAATATTAAAT
1 TTTGTTAAATATTAAAT
10943437 TTTGTTAAATATTAAA
1 TTTGTTAAATATTAAA
10943453 ATGAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTGTTAAATATTAAAT
Found at i:10956781 original size:166 final size:166
Alignment explanation
Indices: 10956443--10956781 Score: 407
Period size: 167 Copynumber: 2.0 Consensus size: 166
10956433 CATAAATTTT
10956443 TTTATGATCAAAATTTGTAAAATTTGACTTCAAAATATGCAAATTAAGTAGACATTCAACTTAGA
1 TTTATGATCAAAATTTGTAAAATTTGAC-TCAAAATATGCAAATTAAGTAGACATTCAACTTAGA
** * * *
10956508 ACGAAGAAAGTAATAATTAATCATTTTAAATGACTTTTACGAATTCATTGAATTTGATTTTTGGA
65 ACGAAGAAAACAATAATTAATAATTTTAAATGACTTTTAAGAATTCATTAAATTTGATTTTT-G-
*
10956573 AAAAATTAAAAATAGAATTTAAATTATTTGTTTACCAAA
128 AAAAATTAAAAATACAATTTAAATTATTTGTTTACCAAA
* * * * * * * *
10956612 TTTATGATTAAAGTTTGTTAAATTTGAC-CAAATTTTGCAAATT-AGCTAGATATT-AGTCTTCG
1 TTTATGATCAAAATTTGTAAAATTTGACTCAAAATATGCAAATTAAG-TAGACATTCA-ACTTAG
* * *
10956674 AATGAAGAAAACAATTATTAATAATTTTAAATGATTTTTCAAGAATTCATTAAATTTGATTTTT-
64 AACGAAGAAAACAATAATTAATAATTTTAAATGACTTTT-AAGAATTCATTAAATTTGATTTTTG
** *
10956738 TTAAATTAAAAAGTACAATTTAAATTATTTGTTTGCCAAA
128 AAAAATTAAAAA-TACAATTTAAATTATTTGTTTACCAAA
10956778 TTTA
1 TTTA
10956782 AACACAAGTG
Statistics
Matches: 146, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
165 10 0.07
166 32 0.22
167 57 0.39
168 22 0.15
169 25 0.17
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (166 bp):
TTTATGATCAAAATTTGTAAAATTTGACTCAAAATATGCAAATTAAGTAGACATTCAACTTAGAA
CGAAGAAAACAATAATTAATAATTTTAAATGACTTTTAAGAATTCATTAAATTTGATTTTTGAAA
AATTAAAAATACAATTTAAATTATTTGTTTACCAAA
Found at i:10963083 original size:60 final size:60
Alignment explanation
Indices: 10963017--10963204 Score: 223
Period size: 59 Copynumber: 3.2 Consensus size: 60
10963007 AAAATATTTA
10963017 TTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACATGATTAC
1 TTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACATGATTAC
* * *
10963077 TTA-TTT--TAATTTA--CAAAATATTAATAATCTATAT-TTCATTTAAANT-TAAAAAT-ATTT
1 TTATTTTAATAATTTATTAAAAATATTAATAA---AT-TGTT-ATTTAAA-TGTTAACATGA-TT
10963134 A-
59 AC
10963135 TTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACATGATTAC
1 TTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACATGATTAC
10963195 TTATTTTAAT
1 TTATTTTAAT
10963205 TTACAAAATA
Statistics
Matches: 106, Mismatches: 6, Indels: 32
0.74 0.04 0.22
Matches are distributed among these distances:
55 13 0.12
57 7 0.07
58 9 0.08
59 38 0.36
60 19 0.18
61 7 0.07
63 13 0.12
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (60 bp):
TTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACATGATTAC
Found at i:10963133 original size:118 final size:117
Alignment explanation
Indices: 10962998--10963238 Score: 473
Period size: 118 Copynumber: 2.1 Consensus size: 117
10962988 AGATTTAATT
10962998 TTTAAATTAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAAT
1 TTTAAATTAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAAT
10963063 GTTAACATGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCA
66 GTTAACATGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCA
10963115 TTTAAANTTAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAA
1 TTTAAA-TTAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAA
10963180 TGTTAACATGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCA
65 TGTTAACATGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCA
10963233 TTTAAA
1 TTTAAA
10963239 CTATTAATCA
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 6 0.05
118 117 0.95
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (117 bp):
TTTAAATTAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAAT
GTTAACATGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCA
Found at i:10963294 original size:118 final size:118
Alignment explanation
Indices: 10963005--10963269 Score: 365
Period size: 118 Copynumber: 2.3 Consensus size: 118
10962995 ATTTTTAAAT
* * * * *
10963005 TAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACA
1 TAAAAATAATTATTATATTAAAAATTAATTAAAAATATTAATAAATTCTTATTTAAATGTTAACA
**
10963070 TGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCATTTAAANT
66 TGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCATTTAAAAC
* * * * *
10963123 TAAAAATATTTATTATTTTAATAATTTATTAAAAATATTAATAAATTGTTATTTAAATGTTAACA
1 TAAAAATAATTATTATATTAAAAATTAATTAAAAATATTAATAAATTCTTATTTAAATGTTAACA
10963188 TGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCATTT-AAAC
66 TGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCATTTAAAAC
**
10963240 TATTAATCAATTA-TA-ATTAAAACATTAATT
1 TAAAAAT-AATTATTATATTAAAA-ATTAATT
10963270 TTATTATTTT
Statistics
Matches: 137, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
116 5 0.04
117 15 0.11
118 117 0.85
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (118 bp):
TAAAAATAATTATTATATTAAAAATTAATTAAAAATATTAATAAATTCTTATTTAAATGTTAACA
TGATTACTTATTTTAATTTACAAAATATTAATAATCTATATTTCATTTAAAAC
Found at i:10966277 original size:2 final size:2
Alignment explanation
Indices: 10966270--10966328 Score: 102
Period size: 2 Copynumber: 29.5 Consensus size: 2
10966260 TCATGTAGAG
10966270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10966312 AT AT A- AGT AT AT AT AT A
1 AT AT AT A-T AT AT AT AT A
10966329 ATTTTGATGT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 53 0.96
3 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10970350 original size:19 final size:19
Alignment explanation
Indices: 10970326--10970379 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
10970316 CCATTTGACT
10970326 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10970345 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
10970364 TATTGGAGTATGATTT
1 TATTGGAGTATGATTT
10970380 AAGGTTTAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:10972927 original size:15 final size:16
Alignment explanation
Indices: 10972907--10972945 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
10972897 CAGAGATTTT
10972907 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
10972922 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
10972938 G-TTTTAAA
1 GATTTTAAA
10972946 ATTATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:10980743 original size:58 final size:58
Alignment explanation
Indices: 10980666--10980809 Score: 166
Period size: 58 Copynumber: 2.5 Consensus size: 58
10980656 GACATTAAAA
** * *
10980666 AGTTGAATGACATGGTGAAACACGACATGAGTTGATTAACGTGACGAAACACTG-CATG
1 AGTTGAATGATGTGATGAAACACGACATGAGTTGAATAACGTGACGAAACAC-GACATG
* * * *
10980724 AGTTGAATGATGTGATGAAACACGACATTAGTTGAATGATGTGACGTAACACGACATG
1 AGTTGAATGATGTGATGAAACACGACATGAGTTGAATAACGTGACGAAACACGACATG
* *
10980782 AGTTGAA-CATCGTAATGAAACACGACAT
1 AGTTGAATGAT-GTGATGAAACACGACAT
10980810 TGAATGTCAA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 3 0.04
58 71 0.96
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (58 bp):
AGTTGAATGATGTGATGAAACACGACATGAGTTGAATAACGTGACGAAACACGACATG
Found at i:10980803 original size:29 final size:29
Alignment explanation
Indices: 10980666--10980809 Score: 148
Period size: 29 Copynumber: 5.0 Consensus size: 29
10980656 GACATTAAAA
** *
10980666 AGTTGAATGACATGGTGAAACACGACATG
1 AGTTGAATGATGTGATGAAACACGACATG
* * * *
10980695 AGTTGATTAACGTGACGAAACACTG-CATG
1 AGTTGAATGATGTGATGAAACAC-GACATG
*
10980724 AGTTGAATGATGTGATGAAACACGACATT
1 AGTTGAATGATGTGATGAAACACGACATG
* *
10980753 AGTTGAATGATGTGACGTAACACGACATG
1 AGTTGAATGATGTGATGAAACACGACATG
* *
10980782 AGTTGAA-CATCGTAATGAAACACGACAT
1 AGTTGAATGAT-GTGATGAAACACGACAT
10980810 TGAATGTCAA
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.03
29 91 0.96
30 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGTTGAATGATGTGATGAAACACGACATG
Found at i:10987549 original size:20 final size:20
Alignment explanation
Indices: 10987524--10987561 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10987514 AGTTAGTAAA
10987524 ACTTTAATT-AGTTAAAGCCT
1 ACTTTAATTGA-TTAAAGCCT
10987544 ACTTTAATTGATTAAAGC
1 ACTTTAATTGATTAAAGC
10987562 ACTTGTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ACTTTAATTGATTAAAGCCT
Found at i:10989966 original size:16 final size:16
Alignment explanation
Indices: 10989945--10989975 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10989935 GCGAGACTAA
10989945 TACCACCATCCCTGCT
1 TACCACCATCCCTGCT
*
10989961 TACCACCATCTCTGC
1 TACCACCATCCCTGC
10989976 AGGTACACAA
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:0.19, C:0.48, G:0.06, T:0.26
Consensus pattern (16 bp):
TACCACCATCCCTGCT
Found at i:10991545 original size:12 final size:12
Alignment explanation
Indices: 10991512--10991546 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10991502 ATTTATCTAC
*
10991512 ATATATATATAT
1 ATATATATAAAT
10991524 ATATATATAAAT
1 ATATATATAAAT
*
10991536 ATTTATATAAA
1 ATATATATAAA
10991547 CTTGTATCTC
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATATATAAAT
Found at i:10996778 original size:63 final size:63
Alignment explanation
Indices: 10996706--10996828 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
10996696 TTATTATAAA
* * * *
10996706 AAAACAGAATGCTCCAAAGGTGAA-AAGAATCGACTTCTCAAAAATGCACTAATCGATTCTTAG
1 AAAACAGAATGCTCCAAAAG-CAAGAAGAATCGACTTATCAAAAATCCACTAATCGATTCTTAG
* * * *
10996769 AAAATAGAATGCTTCAAAAGCAAGAAGAATTGACTTATCAAGAATCCACTAATCGATTCT
1 AAAACAGAATGCTCCAAAAGCAAGAAGAATCGACTTATCAAAAATCCACTAATCGATTCT
10996829 CAAACTCTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (63 bp):
AAAACAGAATGCTCCAAAAGCAAGAAGAATCGACTTATCAAAAATCCACTAATCGATTCTTAG
Found at i:10997222 original size:37 final size:34
Alignment explanation
Indices: 10997178--10997264 Score: 86
Period size: 34 Copynumber: 2.5 Consensus size: 34
10997168 TTTAAGGTTG
10997178 AAGTATAACCTATACAATGGTACTTTTTCACAAGCTT
1 AAGTATAACCTATACAAT--TACTTTTTCA-AAGCTT
* * *
10997215 AAGTATAACTCT-TACACTTGCTTTTTCAAGGCTT
1 AAGTATAAC-CTATACAATTACTTTTTCAAAGCTT
* *
10997249 AAGTAGAATCTATACA
1 AAGTATAACCTATACA
10997265 CTTGCATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
33 2 0.05
34 16 0.37
35 9 0.21
37 14 0.33
38 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (34 bp):
AAGTATAACCTATACAATTACTTTTTCAAAGCTT
Found at i:10997253 original size:34 final size:34
Alignment explanation
Indices: 10997200--10997290 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
10997190 TACAATGGTA
* *
10997200 CTTTTTCACAAGCTTAAGTATAACTCT-TACACTTG
1 CTTTTTCA-AGGCTTAAGTAGAA-TCTATACACTTG
10997235 CTTTTTCAAGGCTTAAGTAGAATCTATACACTTG
1 CTTTTTCAAGGCTTAAGTAGAATCTATACACTTG
* * *
10997269 CATTTTCAAGGATTAAGCAGAA
1 CTTTTTCAAGGCTTAAGTAGAA
10997291 CTTTTCTACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 3 0.06
34 39 0.78
35 8 0.16
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (34 bp):
CTTTTTCAAGGCTTAAGTAGAATCTATACACTTG
Found at i:10997378 original size:41 final size:41
Alignment explanation
Indices: 10997332--10997429 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
10997322 CATCTCAACA
*
10997332 CTACCTTTTCAAGGGTTAAGGTATAACCACTCCAAAGCACT
1 CTACCTTTTCAAGGGTTAAGGTATAACCAATCCAAAGCACT
10997373 CTACCTTTTCAAGGGTTAAGGTATAACCAATCCAAAGCACT
1 CTACCTTTTCAAGGGTTAAGGTATAACCAATCCAAAGCACT
10997414 CTACCTTTTCAAGGGT
1 CTACCTTTTCAAGGGT
10997430 AAAATATAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (41 bp):
CTACCTTTTCAAGGGTTAAGGTATAACCAATCCAAAGCACT
Done.