Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006990.1 Corchorus capsularis cultivar CVL-1 contig07011, whole genome shotgun sequence
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: 144852
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:273 original size:7 final size:7
Alignment explanation
Indices: 261--286 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
251 ATTAATGACA
261 CCTTATC
1 CCTTATC
268 CCTTATC
1 CCTTATC
275 CCTTATC
1 CCTTATC
282 CCTTA
1 CCTTA
287 AATTACAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42
Consensus pattern (7 bp):
CCTTATC
Found at i:668 original size:2 final size:2
Alignment explanation
Indices: 656--684 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
646 AACTTATTAA
656 AT AT A- 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
685 TTAGATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8473 original size:17 final size:17
Alignment explanation
Indices: 8451--8488 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
8441 CAATCTTATC
8451 CATGCTTTAATTAGACT
1 CATGCTTTAATTAGACT
8468 CATGCTTTAATTAGACT
1 CATGCTTTAATTAGACT
8485 CATG
1 CATG
8489 GACATACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (17 bp):
CATGCTTTAATTAGACT
Found at i:14880 original size:27 final size:26
Alignment explanation
Indices: 14856--14907 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14846 CCAAAACATT
* *
14856 TTAATAAAAATCATTTATAAAAACAAC
1 TTAATAAAAAT-AGTAATAAAAACAAC
*
14883 TTATTAAAAATAGTAATAAAAACAA
1 TTAATAAAAATAGTAATAAAAACAA
14908 GTCCCTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (26 bp):
TTAATAAAAATAGTAATAAAAACAAC
Found at i:15491 original size:3 final size:3
Alignment explanation
Indices: 15483--15517 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15473 ATTCTCCCTT
15483 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15518 TATTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15547 original size:12 final size:12
Alignment explanation
Indices: 15481--15545 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
15471 TAATTCTCCC
15481 TTTTATTATTAT
1 TTTTATTATTAT
*
15493 TATTATTATTAT
1 TTTTATTATTAT
*
15505 TATTATTATTATT
1 TTTTATTATTA-T
*
15518 TATTTAATT-TAAT
1 T-TTT-ATTATTAT
15531 TTTT-TTATTAT
1 TTTTATTATTAT
15542 TTTT
1 TTTT
15546 TTAAAGAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
10 2 0.04
11 7 0.16
12 25 0.56
13 4 0.09
14 4 0.09
15 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:15697 original size:20 final size:20
Alignment explanation
Indices: 15672--15718 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
15662 GCTGGCCTCG
15672 CCTGCTGCGTAGGCCACGGC
1 CCTGCTGCGTAGGCCACGGC
15692 CCTGCTGCGTAGGCCACGGC
1 CCTGCTGCGTAGGCCACGGC
15712 CCTGCTG
1 CCTGCTG
15719 GCCCTGCCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.09, C:0.40, G:0.34, T:0.17
Consensus pattern (20 bp):
CCTGCTGCGTAGGCCACGGC
Found at i:21809 original size:26 final size:27
Alignment explanation
Indices: 21756--21815 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
21746 TAATGCACCC
* * *
21756 AAAACATTTTAATAAAAATCATTTATA
1 AAAACAATTTAATAAAAATCAGTAATA
*
21783 AAAACAATTTATTAAAAAT-AGTAATA
1 AAAACAATTTAATAAAAATCAGTAATA
21809 AAAACAA
1 AAAACAA
21816 GTCCCTCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (27 bp):
AAAACAATTTAATAAAAATCAGTAATA
Found at i:24105 original size:26 final size:27
Alignment explanation
Indices: 24055--24105 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
24045 AAGGTATAAT
* **
24055 AAAAACATGGAAAATTTTTTCACAAAA
1 AAAAACATGGAAAATTTCTAAACAAAA
24082 AAAAACATGGAAAA-TTCTAAACAA
1 AAAAACATGGAAAATTTCTAAACAA
24106 CCAGAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.59, C:0.12, G:0.08, T:0.22
Consensus pattern (27 bp):
AAAAACATGGAAAATTTCTAAACAAAA
Found at i:24716 original size:15 final size:15
Alignment explanation
Indices: 24696--24737 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 15
24686 ATAATATGGT
24696 AATTTTAACTATTGG
1 AATTTTAACTATTGG
24711 AATTTTATCACTATTGG
1 AATTTTA--ACTATTGG
24728 AATTTTAACT
1 AATTTTAACT
24738 TATTACTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.40
17 15 0.60
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (15 bp):
AATTTTAACTATTGG
Found at i:25168 original size:33 final size:33
Alignment explanation
Indices: 25126--25209 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
25116 TTTAGGGTCT
*
25126 GTGCCGCCCCAGGGGGGCGGCCTGAG-CACGGTA
1 GTGCCGCCCCAGGGGGGC-GACTGAGCCACGGTA
* *
25159 GTGCCGCCCCAGGGGGGCGACTTAGCCATGGTA
1 GTGCCGCCCCAGGGGGGCGACTGAGCCACGGTA
*
25192 GTGCCGCCCCAAGGGGGC
1 GTGCCGCCCCAGGGGGGC
25210 ACCATAGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 5 0.11
33 41 0.89
ACGTcount: A:0.13, C:0.33, G:0.43, T:0.11
Consensus pattern (33 bp):
GTGCCGCCCCAGGGGGGCGACTGAGCCACGGTA
Found at i:25218 original size:33 final size:33
Alignment explanation
Indices: 25126--25219 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
25116 TTTAGGGTCT
* * * *
25126 GTGCCGCCCCAGGGGGGCGGCCTGAG-CACGGTA
1 GTGCCGCCCCAAGGGGGCGACAT-AGCCATGGTA
* *
25159 GTGCCGCCCCAGGGGGGCGACTTAGCCATGGTA
1 GTGCCGCCCCAAGGGGGCGACATAGCCATGGTA
25192 GTGCCGCCCCAAGGGGGC-ACCATAGCCA
1 GTGCCGCCCCAAGGGGGCGA-CATAGCCA
25220 GGCCGCCCCC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 3 0.06
33 51 0.94
ACGTcount: A:0.16, C:0.34, G:0.39, T:0.11
Consensus pattern (33 bp):
GTGCCGCCCCAAGGGGGCGACATAGCCATGGTA
Found at i:29626 original size:22 final size:22
Alignment explanation
Indices: 29598--29673 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
29588 TCTTCAAGAA
29598 CTTGTTTTTGTTTTTTACAGCT
1 CTTGTTTTTGTTTTTTACAGCT
*
29620 CTTGTTTTCT-TACTTTT-CAAGGC-
1 CTTGTTTT-TGT-TTTTTAC-A-GCT
* *
29643 CTTGTCTTTGTTTTTCACAGCT
1 CTTGTTTTTGTTTTTTACAGCT
29665 CTTGTTTTT
1 CTTGTTTTT
29674 AACATGTGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
21 2 0.05
22 23 0.55
23 15 0.36
24 2 0.05
ACGTcount: A:0.09, C:0.18, G:0.13, T:0.59
Consensus pattern (22 bp):
CTTGTTTTTGTTTTTTACAGCT
Found at i:29741 original size:23 final size:23
Alignment explanation
Indices: 29698--29743 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
29688 TAATTTATGG
*
29698 GTTGAATCTGGTGCTTTAATTTT
1 GTTGAATCTGGTGCTTCAATTTT
29721 GTTGAATCTGGTG-TTGCAATTTT
1 GTTGAATCTGGTGCTT-CAATTTT
29744 TTTTGTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (23 bp):
GTTGAATCTGGTGCTTCAATTTT
Found at i:30673 original size:3 final size:3
Alignment explanation
Indices: 30665--30713 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
30655 GGAAGGAGAT
*
30665 GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GGA -AA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
*
30709 AAA GA
1 GAA GA
30714 TATTAAAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.85
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31358 original size:44 final size:45
Alignment explanation
Indices: 31309--31402 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
31299 TCTTAGCTTC
*
31309 ATTTAGTAATTTAATCAACATTGTTGCATTTACATGTCATGTC-T
1 ATTTAGTAATTTAATCAACATTGTTACATTTACATGTCATGTCTT
31353 ATTTAGTAATTTAATCAACATTGTTACATTTACATGTCATGTCTT
1 ATTTAGTAATTTAATCAACATTGTTACATTTACATGTCATGTCTT
31398 ATTTA
1 ATTTA
31403 TATTTCATGT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 42 0.88
45 6 0.12
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.47
Consensus pattern (45 bp):
ATTTAGTAATTTAATCAACATTGTTACATTTACATGTCATGTCTT
Found at i:33880 original size:51 final size:51
Alignment explanation
Indices: 33637--34013 Score: 344
Period size: 51 Copynumber: 7.4 Consensus size: 51
33627 AAGTTTAAGT
* *
33637 TTTTAAGTAATTTGTACATAAAGATTGAATTTTTAAGTAAAAGATTGAAT-
1 TTTTAAGTAATTTGTAAATAAAGATTGAATTTTTAATTAAAAGATTGAATC
* * * ** *
33687 TTTTAAAGTGATTTGTAAATAAA-AGTCGGATTTTTTTTTAGAAGA-TGAATC
1 TTTT-AAGTAATTTGTAAATAAAGA-TTGAATTTTTAATTAAAAGATTGAATC
* * * *
33738 TTTCAAGTAATTTGTAAATAGAGA-TGAATTTTTAATTGAAAGATT-AAGC
1 TTTTAAGTAATTTGTAAATAAAGATTGAATTTTTAATTAAAAGATTGAATC
* ** * *
33787 TTTTAAGTAATTTGTAAATAACGATTGAATTTATTAGGTGAAAGATTAAATC
1 TTTTAAGTAATTTGTAAATAAAGATTGAATTT-TTAATTAAAAGATTGAATC
* * *
33839 TTTTAAGTAATTTGTGAATAAAGATTGAATTTTTAATTGAAAGATT-AAGC
1 TTTTAAGTAATTTGTAAATAAAGATTGAATTTTTAATTAAAAGATTGAATC
* * *
33889 TTTTAAGTAAGTTTGTAAATAAA-AATGTAATCTTTGATTAAAAGATTGAA-C
1 TTTTAAGTAA-TTTGTAAATAAAGATTG-AATTTTTAATTAAAAGATTGAATC
* * *
33940 TTTTAAGTAATTTTTGGAAATAAAGATTAAATCTTTTAAATAAAAGA-TGAAATC
1 TTTTAAGTAA--TTTGTAAATAAAGATTGAAT-TTTTAATTAAAAGATTG-AATC
* *
33994 TTTGAA-TAATGTG-AAATAAA
1 TTTTAAGTAATTTGTAAATAAA
34014 AAATGAAATC
Statistics
Matches: 268, Mismatches: 43, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
49 37 0.14
50 57 0.21
51 99 0.37
52 51 0.19
53 18 0.07
54 6 0.02
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (51 bp):
TTTTAAGTAATTTGTAAATAAAGATTGAATTTTTAATTAAAAGATTGAATC
Found at i:34002 original size:20 final size:21
Alignment explanation
Indices: 33957--33996 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33947 TAATTTTTGG
*
33957 AAAT-AAAGATTAAATCTTTT
1 AAATAAAAGATGAAATCTTTT
33977 AAATAAAAGATGAAATCTTT
1 AAATAAAAGATGAAATCTTT
33997 GAATAATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
AAATAAAAGATGAAATCTTTT
Found at i:34017 original size:103 final size:102
Alignment explanation
Indices: 33637--34026 Score: 246
Period size: 101 Copynumber: 3.8 Consensus size: 102
33627 AAGTTTAAGT
* * * ** * * *
33637 TTTTAAGTAATTTGT-ACATAAAGATTGAATTTTTAAGTAAAAGATTGAATTTTTAAAGTGA-TT
1 TTTTAAGTAATTTGTGA-ATAAAGATTAAATTTTTAAATAAAAGA-TAAAGCTTTGAAGTAAGTG
* * * ** * *
33700 TGTAAATAAAAGTCG-GATTTTTTTTTAGAAGA-TGAATC
64 TGTAAATAAAAAT-GAAATCTTTGATTAAAAGATTAAATC
* * * * * * * * *
33738 TTTCAAGTAATTTGTAAATAGAGA-TGAATTTTTAATTGAAAGATTAAGCTTTTAAGTAA-TTTG
1 TTTTAAGTAATTTGTGAATAAAGATTAAATTTTTAAATAAAAGATAAAGCTTTGAAGTAAGTGTG
* * * * *
33801 TAAATAACGATTG-AAT-TTATTAGGTGAAAGATTAAATC
66 TAAATAA-AAATGAAATCTT-TGA-TTAAAAGATTAAATC
* * * * * *
33839 TTTTAAGTAATTTGTGAATAAAGATTGAATTTTTAATTGAAAGATTAAGCTTTTAAGTAAGTTTG
1 TTTTAAGTAATTTGTGAATAAAGATTAAATTTTTAAATAAAAGATAAAGCTTTGAAGTAAGTGTG
* *
33904 TAAATAAAAATGTAATCTTTGATTAAAAGATTGAA-C
66 TAAATAAAAATGAAATCTTTGATTAAAAGATTAAATC
* *
33940 TTTTAAGTAATTTTTGGAAATAAAGATTAAATCTTTTAAATAAAAGATGAAATCTTTGAA-TAA-
1 TTTTAAGTAATTTGT-G-AATAAAGATTAAAT-TTTTAAATAAAAGAT-AAAGCTTTGAAGTAAG
34003 TGTG-AAATAAAAAATGAAATCTTT
62 TGTGTAAAT-AAAAATGAAATCTTT
34027 AGAGCAGAAT
Statistics
Matches: 240, Mismatches: 35, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
98 2 0.01
99 27 0.11
100 24 0.10
101 61 0.25
102 54 0.22
103 46 0.19
104 18 0.08
105 8 0.03
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (102 bp):
TTTTAAGTAATTTGTGAATAAAGATTAAATTTTTAAATAAAAGATAAAGCTTTGAAGTAAGTGTG
TAAATAAAAATGAAATCTTTGATTAAAAGATTAAATC
Found at i:34554 original size:25 final size:25
Alignment explanation
Indices: 34525--34579 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
34515 TAATTCAGGG
34525 TAATTAAGTAAGTCAGTAATCAACA
1 TAATTAAGTAAGTCAGTAATCAACA
* *
34550 TAATTAAGTGAGTCAGTAATCAACT
1 TAATTAAGTAAGTCAGTAATCAACA
34575 TAATT
1 TAATT
34580 CAAGGTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (25 bp):
TAATTAAGTAAGTCAGTAATCAACA
Found at i:34554 original size:35 final size:35
Alignment explanation
Indices: 34497--35045 Score: 582
Period size: 35 Copynumber: 16.1 Consensus size: 35
34487 AGAAAAGGTG
*
34497 AGTAAGT-AGTAATAAACTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
34531 AGTAAGTCAGTAAT---C--AA--CA---TAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* *
34556 AGTGAGTCAGTAATCAACTTAATTCAAGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* * * * *
34591 AGTAATTCAGTTAGT-AACTTAGTTCAAGGAAATTA
1 AGTAAGTCAG-TAATCAACTTAATTCAGGGTAATTA
* *
34626 AGTAAGGCAG---T-AAGTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
*
34657 AGTGAGTCAGTAATCAACTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* * * *
34692 AGGAATTCAGTAATCAACTTAATTCAAGGCAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* *
34727 AGTGAGTTAGTAATCAACTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* *
34762 AGTAATTCAGTAATCAATTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* *
34797 AGCAAGTCAGTAATCGACTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
*
34832 AGTGAGTCAGTAATCAACTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
* * *
34867 AGT-AGTTCAATGAGT-AACTTAATTCAGGGTAATCA
1 AGTAAG-TCAGT-AATCAACTTAATTCAGGGTAATTA
* *
34902 AGTGAGTCGGTAATCAACTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
*
34937 AGTAAGTTAGTAATCAACTTTAATTCAGGGTAATTA
1 AGTAAGTCAGTAATCAAC-TTAATTCAGGGTAATTA
* * * * *
34973 AGTGAGTTAATGAGT-AACTTAATTCAGGGTAATTC
1 AGTAAGTCAGT-AATCAACTTAATTCAGGGTAATTA
*
35008 AGT-AGTTCAATAAGT-AACTTAATTCAGGGTAATTA
1 AGTAAG-TCAGTAA-TCAACTTAATTCAGGGTAATTA
35043 AGT
1 AGT
35046 TTAGTAAGAA
Statistics
Matches: 437, Mismatches: 54, Indels: 47
0.81 0.10 0.09
Matches are distributed among these distances:
25 19 0.04
28 3 0.01
30 4 0.01
31 25 0.06
32 3 0.01
34 15 0.03
35 330 0.76
36 36 0.08
37 2 0.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (35 bp):
AGTAAGTCAGTAATCAACTTAATTCAGGGTAATTA
Found at i:37344 original size:131 final size:131
Alignment explanation
Indices: 37195--37458 Score: 397
Period size: 131 Copynumber: 2.0 Consensus size: 131
37185 TTGTTTAAAC
*
37195 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATT-CTTACAACT
1 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATATAAT-TTCCTTACAACT
* * *
37259 ATTTTATTTTTACCATTTTACTATTTTAATTAAAAAAACTTATATATATTAGAATTTTT-AAATA
65 ATTTTATTTTTACCATATTACTAATTT-ATTAAAAAAACTTAGATATATTAGAATTTTTAAAATA
37323 TAT
129 TAT
* * * * *
37326 TTTTATAGTTTTATTCAACTAAAAACTCTATTTTTATTTGATTAAATATGATTTCCTTATACCTA
1 TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATATAATTTCCTTACAACTA
* *
37391 TTTTATTTTTACCATATTACTAATTTATTAAAAAAAGTTAGATATATTTGAATTTTTAAAATATA
66 TTTTATTTTTACCATATTACTAATTTATTAAAAAAACTTAGATATATTAGAATTTTTAAAATATA
37456 T
131 T
37457 TT
1 TT
37459 ATTAAATAAC
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 30 0.25
131 90 0.75
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (131 bp):
TTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATATAATTTCCTTACAACTA
TTTTATTTTTACCATATTACTAATTTATTAAAAAAACTTAGATATATTAGAATTTTTAAAATATA
T
Found at i:38830 original size:93 final size:93
Alignment explanation
Indices: 38718--38890 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
38708 TTGTTTAAAA
* *
38718 TTTTATAATTTTAGTCAACTAAAAACTCTT-TATTTATTTAATTAAATCTAATATCCTTATAACT
1 TTTTATAACTTTACTCAACTAAAAACT-TTATATTTATTTAATTAAATCTAATATCCTTATAACT
38782 ATTTTATTTCTACCATTTTATTGTTTTAC
65 ATTTTATTTCTACCATTTTATTGTTTTAC
* * * *
38811 TTTTATAACTTTACTCAACTAAAAACTTTATTTTTATTTGATTAAATGTAATATCCTTATACCTA
1 TTTTATAACTTTACTCAACTAAAAACTTTATATTTATTTAATTAAATCTAATATCCTTATAACTA
*
38876 TTTTATTTTTACCAT
66 TTTTATTTCTACCAT
38891 ATTACTAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.52
Consensus pattern (93 bp):
TTTTATAACTTTACTCAACTAAAAACTTTATATTTATTTAATTAAATCTAATATCCTTATAACTA
TTTTATTTCTACCATTTTATTGTTTTAC
Found at i:38914 original size:93 final size:93
Alignment explanation
Indices: 38727--38914 Score: 234
Period size: 93 Copynumber: 2.0 Consensus size: 93
38717 ATTTTATAAT
*
38727 TTTAGTCAACTAAAAACTCTTTATTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTC
1 TTTACTCAACTAAAAACTCTTTATTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTC
* * ** * ** *
38792 TACCATTTTATTGTTTTACTTTTATAAC
66 TACCATATTACTAATTTAATTAAAAAAC
* * * *
38820 TTTACTCAACTAAAAACT-TTATTTTTATTTGATTAAATGTAATATCCTTATACCTATTTTATTT
1 TTTACTCAACTAAAAACTCTT-TATTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTT
*
38884 TTACCATATTACTAATTTAATTAAAAAAC
65 CTACCATATTACTAATTTAATTAAAAAAC
38913 TT
1 TT
38915 AGATATATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
92 2 0.03
93 78 0.98
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (93 bp):
TTTACTCAACTAAAAACTCTTTATTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTC
TACCATATTACTAATTTAATTAAAAAAC
Found at i:41812 original size:13 final size:14
Alignment explanation
Indices: 41794--41822 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
41784 AAAAATCTAG
41794 TAAAAATTATCTTT
1 TAAAAATTATCTTT
41808 TAAAAATTATCTTT
1 TAAAAATTATCTTT
41822 T
1 T
41823 CCCTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAAATTATCTTT
Found at i:43383 original size:79 final size:79
Alignment explanation
Indices: 43295--43455 Score: 268
Period size: 79 Copynumber: 2.0 Consensus size: 79
43285 TTCACACCAG
*
43295 CTACAAACCGAAAACAAAGACAGCCCACACATACAAAAAGAAAGCACCAACCTAAACAAAACCAA
1 CTACAAACCGAAAACAAAGACAGCCCACACATACAAAAAGAAAGAACCAACCTAAACAAAACCAA
43360 ATCACACCAAGTGC
66 ATCACACCAAGTGC
* * * **
43374 CTACAAACCGAAAACAAAGACAGCCCACACATACAAAATGAAAGAACCAACCTAAGCTAAGTCAA
1 CTACAAACCGAAAACAAAGACAGCCCACACATACAAAAAGAAAGAACCAACCTAAACAAAACCAA
43439 ATCACACCAAGTGC
66 ATCACACCAAGTGC
43453 CTA
1 CTA
43456 ATAAAAGGCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.51, C:0.30, G:0.10, T:0.09
Consensus pattern (79 bp):
CTACAAACCGAAAACAAAGACAGCCCACACATACAAAAAGAAAGAACCAACCTAAACAAAACCAA
ATCACACCAAGTGC
Found at i:49928 original size:76 final size:76
Alignment explanation
Indices: 49840--49986 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 76
49830 TGTGATTAAT
* * * * * *
49840 TTTTTGGAGTGTG-TATTGTTAGTTTAATTTATTGTGATTAATATTTTTTTTCTTTCATTTTAAT
1 TTTTTGGAGTGTGATATTGGTACTTTAATTTATTATGATTAAAATTTATTTT-TTTCATTTTAAC
49904 AAGAAATTAAAG
65 AAGAAATTAAAG
* *
49916 TTTTTGTAGTGTGCATTATTGGTACTTTAATTTATTATGATTAAAATTTATTTTTTTCCTTTTAA
1 TTTTTGGAGTGTG-A-TATTGGTACTTTAATTTATTATGATTAAAATTTATTTTTTTCATTTTAA
49981 CAAGAA
64 CAAGAA
49987 TTTATTTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
76 12 0.20
78 15 0.25
79 33 0.55
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (76 bp):
TTTTTGGAGTGTGATATTGGTACTTTAATTTATTATGATTAAAATTTATTTTTTTCATTTTAACA
AGAAATTAAAG
Found at i:54330 original size:31 final size:31
Alignment explanation
Indices: 54261--54362 Score: 123
Period size: 31 Copynumber: 3.3 Consensus size: 31
54251 TCCTTTTGTG
* * * **
54261 CACGTGGCATGCCACGTGCCATTTTTTGAAA
1 CACGTGGCATGCCATGTGTCACTTTTTGGTA
*
54292 CATGTGGCATGCCATGTGTCACTTTTTGGTA
1 CACGTGGCATGCCATGTGTCACTTTTTGGTA
* *
54323 CACGTGGCGTGACATGTGTCACTTTTTGGTA
1 CACGTGGCATGCCATGTGTCACTTTTTGGTA
*
54354 CATGTGGCA
1 CACGTGGCA
54363 CGACTTTGGT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (31 bp):
CACGTGGCATGCCATGTGTCACTTTTTGGTA
Found at i:54381 original size:51 final size:51
Alignment explanation
Indices: 54316--54412 Score: 140
Period size: 51 Copynumber: 1.9 Consensus size: 51
54306 TGTGTCACTT
** *
54316 TTTGGTACACGTGGCGTGACATGTGTCACTTTTTGGTACATGTGGCACGAC
1 TTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGCACGAC
* * *
54367 TTTGGTATATGTGGCGTGTCACATGTCACTTTTTGGTACACGTGGC
1 TTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGC
54413 GTGCCACGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.36
Consensus pattern (51 bp):
TTTGGTACACGTGGCGTGACACATGTCACTTTTTGGTACACGTGGCACGAC
Found at i:57327 original size:11 final size:11
Alignment explanation
Indices: 57313--57350 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57303 ATTCATAACA
57313 AATTTATAATT
1 AATTTATAATT
57324 AATTTATAATT
1 AATTTATAATT
57335 -ATTTGATAATT
1 AATTT-ATAATT
*
57346 TATTT
1 AATTT
57351 TATATAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
AATTTATAATT
Found at i:63340 original size:17 final size:16
Alignment explanation
Indices: 63318--63352 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
63308 TATAAGTTAC
63318 TTATTTATTAAATTAAT
1 TTATTTATTAAA-TAAT
*
63335 TTATTTATTTAATAAT
1 TTATTTATTAAATAAT
63351 TT
1 TT
63353 CGGTTGAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTTATTAAATAAT
Found at i:64823 original size:15 final size:15
Alignment explanation
Indices: 64791--64831 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
64781 AGGACGTTAG
*
64791 TTTAATTA-TTAT-T
1 TTTAATTATTTCTAT
*
64804 TTTAATTTTTTCTAT
1 TTTAATTATTTCTAT
64819 TTTAATTATTTCT
1 TTTAATTATTTCT
64832 TAATTTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 7 0.30
14 3 0.13
15 13 0.57
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATTATTTCTAT
Found at i:65528 original size:23 final size:23
Alignment explanation
Indices: 65490--65556 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
65480 GCCTTAATCT
65490 ATCTT-TTC-TTTTTTTC-CTTC
1 ATCTTCTTCTTTTTTTTCTCTTC
*
65510 ATCTTCTTCTTTTTATTTCTTTTC
1 ATCTTCTTCTTTTT-TTTCTCTTC
*
65534 -TCTATCTTCTTTTCTTTCTCTTC
1 ATCT-TCTTCTTTTTTTTCTCTTC
65557 CAACCATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.13
21 3 0.08
22 4 0.10
23 15 0.38
24 12 0.31
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (23 bp):
ATCTTCTTCTTTTTTTTCTCTTC
Found at i:66492 original size:2 final size:2
Alignment explanation
Indices: 66485--66518 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
66475 ACACTGAGAA
66485 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
66519 TTTAATGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68363 original size:2 final size:2
Alignment explanation
Indices: 68356--68380 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68346 AATTTCTTCA
68356 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 A
68381 AATTTGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69573 original size:3 final size:3
Alignment explanation
Indices: 69567--69606 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
69557 ATTCCTCGAG
*
69567 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
69607 GATCATCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:69614 original size:3 final size:3
Alignment explanation
Indices: 69608--69633 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
69598 TATTATTATG
69608 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
69634 ATTAATAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:69831 original size:79 final size:80
Alignment explanation
Indices: 69714--69872 Score: 266
Period size: 80 Copynumber: 2.0 Consensus size: 80
69704 TTTATATTCT
* *
69714 TTGCATCAACCACACAATGGAATTAAAGTATTAG-TTTTTTCCTTTCTTCTAATGTCCTTCCTTG
1 TTGCATCAACCAAACAATGGAATTAAAGTATTAGTTTTTTTCATTTCTTCTAATGTCCTTCCTTG
69778 TTACTAAACATTAAA
66 TTACTAAACATTAAA
* * *
69793 TTGCATCTACCAAACAATGGAATTAAATTATTAGTTTTTTTCATTTCTTCTAATTTCCTTCCTTG
1 TTGCATCAACCAAACAATGGAATTAAAGTATTAGTTTTTTTCATTTCTTCTAATGTCCTTCCTTG
69858 TTACTAAACATTAAA
66 TTACTAAACATTAAA
69873 AAAAGGAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
79 31 0.42
80 43 0.58
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (80 bp):
TTGCATCAACCAAACAATGGAATTAAAGTATTAGTTTTTTTCATTTCTTCTAATGTCCTTCCTTG
TTACTAAACATTAAA
Found at i:77971 original size:30 final size:31
Alignment explanation
Indices: 77931--77996 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
77921 CAGTGACGGT
77931 AAGA-AAACGTTGAAAACATGCC-CAAAAAC
1 AAGATAAACGTTGAAAACATGCCACAAAAAC
* *
77960 ATGATAAACGTTGAAAACATGCCATAAAAAC
1 AAGATAAACGTTGAAAACATGCCACAAAAAC
77991 AAGATA
1 AAGATA
77997 CACATAAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 18 0.56
31 11 0.34
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.15
Consensus pattern (31 bp):
AAGATAAACGTTGAAAACATGCCACAAAAAC
Found at i:80256 original size:1 final size:1
Alignment explanation
Indices: 80252--80285 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
80242 CCAAAAACCT
* *
80252 AAAAAAAAAAAAAAAAAAAAAAAGAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
80286 TCGTCCAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:82587 original size:27 final size:27
Alignment explanation
Indices: 82557--82613 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
82547 GATCTCTTGG
82557 TCAAGAAGCTTTGATATATGAATATGT
1 TCAAGAAGCTTTGATATATGAATATGT
82584 TCAAGAAGCTTTGATATATGAATATGT
1 TCAAGAAGCTTTGATATATGAATATGT
82611 TCA
1 TCA
82614 TGAAAGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (27 bp):
TCAAGAAGCTTTGATATATGAATATGT
Found at i:85820 original size:56 final size:56
Alignment explanation
Indices: 85734--85846 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
85724 ATGTTTCAAA
*
85734 CATGAAAAGGTACCTTTCTATGAGAGATTGCATCTCTAATTAGAGACATGTCTATT
1 CATGAAAAGGTACCCTTCTATGAGAGATTGCATCTCTAATTAGAGACATGTCTATT
* * * *
85790 CATGAAAAGGTGCCCTTGTATGAGAGATTGCATCTTTAATTGGAGACATGTCTATT
1 CATGAAAAGGTACCCTTCTATGAGAGATTGCATCTCTAATTAGAGACATGTCTATT
85846 C
1 C
85847 GTTTAAAGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (56 bp):
CATGAAAAGGTACCCTTCTATGAGAGATTGCATCTCTAATTAGAGACATGTCTATT
Found at i:86350 original size:21 final size:21
Alignment explanation
Indices: 86311--86350 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
86301 CACCTCCATT
*
86311 CACAATTGCTCTGCTACTCTC
1 CACAATTGCTCTGCAACTCTC
86332 CACAACTTGCTCT-CAACTC
1 CACAA-TTGCTCTGCAACTC
86351 CACGACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.23, C:0.40, G:0.07, T:0.30
Consensus pattern (21 bp):
CACAATTGCTCTGCAACTCTC
Found at i:90703 original size:29 final size:31
Alignment explanation
Indices: 90645--90704 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
90635 ATATTAATAA
*
90645 TATATATAAATATAAAATATATATCATATAT
1 TATATATAAATATAAAATATATATAATATAT
90676 TATATATAAA-A-AAAATATATA-AATTATAT
1 TATATATAAATATAAAATATATATAA-TATAT
90705 AAAGATAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 1 0.04
29 15 0.56
30 1 0.04
31 10 0.37
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (31 bp):
TATATATAAATATAAAATATATATAATATAT
Found at i:90705 original size:31 final size:31
Alignment explanation
Indices: 90635--90706 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
90625 AAAATTATTA
90635 ATATTA-ATAATATATATAAATATAAAATAT
1 ATATTATATAATATATATAAATATAAAATAT
* *
90665 ATATCATATATTATATATAAA-A-AAAATAT
1 ATATTATATAATATATATAAATATAAAATAT
90694 ATAAATTATATAA
1 AT--ATTATATAA
90707 AGATAATCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 9 0.26
30 6 0.17
31 20 0.57
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (31 bp):
ATATTATATAATATATATAAATATAAAATAT
Found at i:93754 original size:20 final size:21
Alignment explanation
Indices: 93722--93770 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
93712 GTTATGCCAC
* *
93722 ATCAATAATCAATATTTATAAT
1 ATCAAT-ATCAATAATAATAAT
93744 AT-AATATCAATAATAATAAT
1 ATCAATATCAATAATAATAAT
93764 ATCAATA
1 ATCAATA
93771 ATCTCATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 15 0.62
21 7 0.29
22 2 0.08
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (21 bp):
ATCAATATCAATAATAATAAT
Found at i:93764 original size:15 final size:15
Alignment explanation
Indices: 93725--93772 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
93715 ATGCCACATC
**
93725 AATAATCAATATTTAT
1 AATAAT-AATATCAAT
93741 AAT-ATAATATCAAT
1 AATAATAATATCAAT
93755 AATAATAATATCAAT
1 AATAATAATATCAAT
93770 AAT
1 AAT
93773 CTCATTCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.34
15 16 0.55
16 3 0.10
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATAATATCAAT
Found at i:94379 original size:60 final size:60
Alignment explanation
Indices: 94286--94407 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
94276 ATTTATAGTC
94286 ATTTTGGTACTTGTATTTTTCTTTAAATCCAATAATTCATTGCACTTTGTATTGTTTGGT
1 ATTTTGGTACTTGTATTTTTCTTTAAATCCAATAATTCATTGCACTTTGTATTGTTTGGT
* *
94346 ATTTTGGTGCTTGTATTTTTCTTTAAATCCAATAGTTCATTGCACTTTGTATTGTTTGGT
1 ATTTTGGTACTTGTATTTTTCTTTAAATCCAATAATTCATTGCACTTTGTATTGTTTGGT
94406 AT
1 AT
94408 GTGTGTTTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.20, C:0.11, G:0.15, T:0.53
Consensus pattern (60 bp):
ATTTTGGTACTTGTATTTTTCTTTAAATCCAATAATTCATTGCACTTTGTATTGTTTGGT
Found at i:94508 original size:60 final size:60
Alignment explanation
Indices: 94437--94555 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
94427 TCAATTGAAT
94437 AAACAACACAATAATAATAATAGGTGCTTGTATTTTTCTTTAAACCCAATAGTTCATTGC
1 AAACAACACAATAATAATAATAGGTGCTTGTATTTTTCTTTAAACCCAATAGTTCATTGC
*
94497 AAACAACACAATAATAATAATAGGTGCTTGTATTTTTCTTTAAACCGAATAGTTCATTG
1 AAACAACACAATAATAATAATAGGTGCTTGTATTTTTCTTTAAACCCAATAGTTCATTG
94556 TATTTTTTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (60 bp):
AAACAACACAATAATAATAATAGGTGCTTGTATTTTTCTTTAAACCCAATAGTTCATTGC
Found at i:95183 original size:31 final size:31
Alignment explanation
Indices: 95148--95221 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
95138 GGCTTAGTGT
* *
95148 ATAATTTGCACCCTGAACTATAAGTGAATGG
1 ATAATTTGCACCCTGAACTATAAGCGAATGA
* *
95179 ATAATTTGCATCTTGAACTATAAGCGAATGA
1 ATAATTTGCACCCTGAACTATAAGCGAATGA
*
95210 ACAATTTGCACC
1 ATAATTTGCACC
95222 ATAAATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (31 bp):
ATAATTTGCACCCTGAACTATAAGCGAATGA
Found at i:95422 original size:30 final size:30
Alignment explanation
Indices: 95381--95453 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
95371 CGTTCAATTG
* * *
95381 GGTGCATATTGTCTATAAAT-TATAGTTTAT
1 GGTGCAAATTGTCTA-AAATCAAAAGTTTAT
*
95411 GGTGCAAATTGTCTAAAATCAAAATTTTAT
1 GGTGCAAATTGTCTAAAATCAAAAGTTTAT
*
95441 GATGCAAATTGTC
1 GGTGCAAATTGTC
95454 CATTCGTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.11
30 33 0.89
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (30 bp):
GGTGCAAATTGTCTAAAATCAAAAGTTTAT
Found at i:96302 original size:2 final size:2
Alignment explanation
Indices: 96295--96326 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
96285 ATCTATACCT
96295 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
96327 AAACCACTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97629 original size:20 final size:20
Alignment explanation
Indices: 97606--97643 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
97596 TCATTTTGAC
97606 TCCTTTCATTCC-ATTTTCTT
1 TCCTTT-ATTCCGATTTTCTT
97626 TCCTTTATTCCGATTTTC
1 TCCTTTATTCCGATTTTC
97644 CTTTAACGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.11, C:0.29, G:0.03, T:0.58
Consensus pattern (20 bp):
TCCTTTATTCCGATTTTCTT
Found at i:103073 original size:2 final size:2
Alignment explanation
Indices: 103066--103096 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
103056 ATACATTATT
103066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103097 TATTCCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:103859 original size:13 final size:13
Alignment explanation
Indices: 103841--103865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103831 TTGAAATTCC
103841 AAATAATATTTAT
1 AAATAATATTTAT
103854 AAATAATATTTA
1 AAATAATATTTA
103866 GAGCATTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATAATATTTAT
Found at i:104419 original size:17 final size:17
Alignment explanation
Indices: 104397--104432 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
104387 AACTAATTCT
104397 AATTATATAAAAAATAA
1 AATTATATAAAAAATAA
**
104414 AATTATATGTAAAATAA
1 AATTATATAAAAAATAA
104431 AA
1 AA
104433 AAAAAAAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
AATTATATAAAAAATAA
Found at i:111964 original size:93 final size:92
Alignment explanation
Indices: 111852--112019 Score: 282
Period size: 93 Copynumber: 1.8 Consensus size: 92
111842 TAATTTATTT
*
111852 AACTAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTTTACCATTT
1 AACTAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTTTACCATAT
*
111917 TACTATTTTACATTTATAGTTTTACTC
66 TACTAATTTACATTTATAGTTTTACTC
* * *
111944 AACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCTTTATACCTATTTTATTTTTACTATA
1 AACT-AAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTTTACCATA
112009 TTACTAATTTA
65 TTACTAATTTA
112020 ATTAAAAAGC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.35, C:0.13, G:0.01, T:0.52
Consensus pattern (92 bp):
AACTAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTATTTTATTTTTACCATAT
TACTAATTTACATTTATAGTTTTACTC
Found at i:113662 original size:31 final size:31
Alignment explanation
Indices: 113601--113663 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
113591 GAGTTTTGTA
* * *
113601 TAACTTTTGAAACGTCTATTGTACCTTTATT
1 TAACTTTTAAAACGCCTATTATACCTTTATT
113632 TAACTTTTAAAACGCCTATTATATCC-TTATT
1 TAACTTTTAAAACGCCTATTATA-CCTTTATT
113663 T
1 T
113664 TTCTAACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (31 bp):
TAACTTTTAAAACGCCTATTATACCTTTATT
Found at i:123487 original size:11 final size:10
Alignment explanation
Indices: 123469--123502 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
123459 AATTGTCTTC
123469 AAATCTTCAA
1 AAATCTTCAA
123479 AATATCTTCAA
1 AA-ATCTTCAA
123490 GAAATCTTCAA
1 -AAATCTTCAA
123501 AA
1 AA
123503 CACGAACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.18
11 16 0.73
12 2 0.09
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (10 bp):
AAATCTTCAA
Found at i:124409 original size:75 final size:75
Alignment explanation
Indices: 124286--124435 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
124276 AAAAGGATAA
124286 AATAGGTAAAGTATATAAAATTCATTACACCAATTAGGAAATATGTTAAACCTTACACTAGACCT
1 AATAGGTAAAGTATATAAAATTCATTACACCAATTAGGAAATATGTTAAACCTTACACTAGACCT
124351 AAGAGAATGT
66 AAGAGAATGT
*
124361 AATAGGTAAAGTGTATAAAATTCATTACACCAATTAGGAAATATGTTAAACCTTACACTAGACCT
1 AATAGGTAAAGTATATAAAATTCATTACACCAATTAGGAAATATGTTAAACCTTACACTAGACCT
124426 AAGAGAATGT
66 AAGAGAATGT
124436 TGTATCATTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (75 bp):
AATAGGTAAAGTATATAAAATTCATTACACCAATTAGGAAATATGTTAAACCTTACACTAGACCT
AAGAGAATGT
Found at i:125264 original size:2 final size:2
Alignment explanation
Indices: 125253--125281 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
125243 TATTCATCAT
125253 TA TA TA -A 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
125282 CACACACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:125592 original size:168 final size:163
Alignment explanation
Indices: 125299--125797 Score: 588
Period size: 167 Copynumber: 3.0 Consensus size: 163
125289 TACATATTAT
* * ** * * **
125299 TTGAATAAA-TATATGGAAATTACTAAAAGATCCCTACCCCGGATTAATGAGGAGCGAGAGAACT
1 TTGAATAAAGTA-GTGG-AATTAATAAAAGATCCC-ACCAAGGATTGATGATGAGTTAGAGAACT
* * * *
125363 AATTTTTTTCGTCTTTTCCCACTTGACCGATTACTTAAATGCCCTAACTTTTGATTCTTGAGGTG
63 AATTTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGG-G
* *
125428 ATTAAATAACTAGACTTTTTGGTCATTTCTTAATTGAC
127 ATTAAATAACTA-ACTTTTTTGTCATTTCTCAATTGAC
* * * * * **
125466 TTTAATAGAGTAGTGTAATTACTAAAAGATCCCTACCAA-GACTTGCTTTTGGAGTTAGAGAACT
1 TTGAATAAAGTAGTGGAATTAATAAAAGATCCC-ACCAAGGA-TTGATGAT-GAGTTAGAGAAC-
* *
125530 TATTTTTTTTTGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGAG
62 TAATTTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAG-G
* * *
125595 GATTAAATAAGTAATTTTTTTGTCATTTCTCAATGGAC
126 GATTAAATAACTAACTTTTTTGTCATTTCTCAATTGAC
* *
125633 TTGAATAAAGTAGTGGAATTAATAAAAGATCCCATCAAGGATTGATGATGAGTTAGAAAACTAAT
1 TTGAATAAAGTAGTGGAATTAATAAAAGATCCCACCAAGGATTGATGATGAGTTAGAGAACTAAT
* * * *
125698 CTTTTTCCTCTTTACCTACTTGGCAGATTACTTAAATGTCTTAACTTTTGATTCTTGAGGGGATT
66 TTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGA-GGGATT
125763 AAATAACTAAACTTTTTTGTCATTTCTCAATTGAC
130 AAATAACT-AACTTTTTTGTCATTTCTCAATTGAC
125798 AAATGACTCA
Statistics
Matches: 282, Mismatches: 42, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
164 68 0.24
165 38 0.13
166 33 0.12
167 71 0.25
168 71 0.25
169 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (163 bp):
TTGAATAAAGTAGTGGAATTAATAAAAGATCCCACCAAGGATTGATGATGAGTTAGAGAACTAAT
TTTTTTCGTCTTTTCCTACTTGGCAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGATTA
AATAACTAACTTTTTTGTCATTTCTCAATTGAC
Found at i:125978 original size:17 final size:17
Alignment explanation
Indices: 125958--125991 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
125948 TTTCCCGTCG
125958 ATTATTTTTTGAAAAAT
1 ATTATTTTTTGAAAAAT
125975 ATTATTTTTTGAAAAAT
1 ATTATTTTTTGAAAAAT
125992 CTGTAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTATTTTTTGAAAAAT
Found at i:128587 original size:36 final size:36
Alignment explanation
Indices: 128544--128616 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
128534 TTACAATCAA
* *
128544 ATAATTTCTCATATGCCCAAATATCTAATGGGAAAT
1 ATAATTTCTCATATGCCCAAATATCCAATGAGAAAT
128580 ATAATTTCTCATATGCCCAAATATCCAATGAGAAAT
1 ATAATTTCTCATATGCCCAAATATCCAATGAGAAAT
128616 A
1 A
128617 ACCAAATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.32
Consensus pattern (36 bp):
ATAATTTCTCATATGCCCAAATATCCAATGAGAAAT
Found at i:130192 original size:24 final size:24
Alignment explanation
Indices: 130164--130209 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
130154 TATCTTCTAG
130164 CATTATACTTCCCTGAGTCTTCAT
1 CATTATACTTCCCTGAGTCTTCAT
*
130188 CATTATACTTCCTTGAGTCTTC
1 CATTATACTTCCCTGAGTCTTC
130210 TTCCCTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.28, G:0.09, T:0.43
Consensus pattern (24 bp):
CATTATACTTCCCTGAGTCTTCAT
Found at i:131907 original size:106 final size:106
Alignment explanation
Indices: 131722--131933 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
131712 ATATTTCAAA
131722 AAAAACTCAAAGGCAAACTCCAAATAAAATAAAGATGGATAAAAACAATAAAAAAAGCATAACAC
1 AAAAACTCAAAGGCAAACTCCAAATAAAATAAAGATGGATAAAAACAATAAAAAAAGCATAACAC
131787 TCACTTCAAAACATGAGAAGCCATCAGTAATTCAGGCTCTC
66 TCACTTCAAAACATGAGAAGCCATCAGTAATTCAGGCTCTC
131828 AAAAACTCAAAGGCAAACTCCAAATAAAATAAAGATGGATAAAAACAATAAAAAAAGCATAACAC
1 AAAAACTCAAAGGCAAACTCCAAATAAAATAAAGATGGATAAAAACAATAAAAAAAGCATAACAC
131893 TCACTTCAAAACATGAGAAGCCATCAGTAATTCAGGCTCTC
66 TCACTTCAAAACATGAGAAGCCATCAGTAATTCAGGCTCTC
131934 CTCCCCAAAC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.17
Consensus pattern (106 bp):
AAAAACTCAAAGGCAAACTCCAAATAAAATAAAGATGGATAAAAACAATAAAAAAAGCATAACAC
TCACTTCAAAACATGAGAAGCCATCAGTAATTCAGGCTCTC
Found at i:133186 original size:76 final size:76
Alignment explanation
Indices: 133060--133242 Score: 303
Period size: 76 Copynumber: 2.4 Consensus size: 76
133050 TGATGAAGTT
* *
133060 AACAGTATTAACGAACTTGATGAAAGGAACCTCAAGCATTCAACTTTAACTCCGAATACTGAATT
1 AACAGTAATAACGAACTTGATGAAAGGAACCTCAAGCACTCAACTTTAACTCCGAATACTGAATT
133125 AAAACAAATTC
66 AAAACAAATTC
* *
133136 AACAGTAATAATGAACTTGATGAAAGGAACCTCAAGCACTCAACTTTAACTCCTAATACTGAATT
1 AACAGTAATAACGAACTTGATGAAAGGAACCTCAAGCACTCAACTTTAACTCCGAATACTGAATT
133201 AAAACAAATTC
66 AAAACAAATTC
* **
133212 AACAGTAATAACGAACATGACAAAAGGAACC
1 AACAGTAATAACGAACTTGATGAAAGGAACC
133243 CACCCATACT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 99 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (76 bp):
AACAGTAATAACGAACTTGATGAAAGGAACCTCAAGCACTCAACTTTAACTCCGAATACTGAATT
AAAACAAATTC
Found at i:138454 original size:6 final size:6
Alignment explanation
Indices: 138443--138481 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
138433 TTGACAATGT
*
138443 AACAAA AAC-AA AACAAA AACGAAA AAAAAA AACAAA AAC
1 AACAAA AACAAA AACAAA AAC-AAA AACAAA AACAAA AAC
138482 GATGCCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.66
7 5 0.17
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:138468 original size:19 final size:19
Alignment explanation
Indices: 138446--138483 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
138436 ACAATGTAAC
*
138446 AAAAACAAAACAAAAACGA
1 AAAAAAAAAACAAAAACGA
138465 AAAAAAAAAACAAAAACGA
1 AAAAAAAAAACAAAAACGA
138484 TGCCAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.13, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAACGA
Found at i:139088 original size:13 final size:13
Alignment explanation
Indices: 139056--139091 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
139046 GACCATGGTT
*
139056 TTTTCCAATTGGG
1 TTTTCCTATTGGG
139069 TTTTCCTATTGGG
1 TTTTCCTATTGGG
139082 TTTTCCTATT
1 TTTTCCTATT
139092 AGGGATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.56
Consensus pattern (13 bp):
TTTTCCTATTGGG
Found at i:143642 original size:109 final size:109
Alignment explanation
Indices: 143486--143780 Score: 466
Period size: 109 Copynumber: 2.7 Consensus size: 109
143476 TAAATTAAAA
** *
143486 TGGTAAAAATAAAAAAATTATATAAAATATT-GAATTTAATTAAATGAAAATAGAGTTTTTAGTA
1 TGGTAAAAATAAAGTAATTATA-AAGATATTAG-ATTTAATTAAATGAAAATAGAGTTTTTAGTA
143550 GAATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
64 GAATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
143596 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
1 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
*
143661 ATAAAATTGTATATTAGAAAAAATTTTAGTATATCCAAATTTTT
66 ATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
* *
143705 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTTAATTGAATAAAAATAGAGTTTCTA
1 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAA-TT-A---AATGAAAATAGAGTTTTTA
143770 GTAGAATAAAA
61 GTAGAATAAAA
143781 CTATAATAGT
Statistics
Matches: 173, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
109 121 0.70
110 23 0.13
111 1 0.01
114 28 0.16
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (109 bp):
TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
ATAAAATTGTATATTAGAAAAAATTTTAATATATCCAAATTTTT
Done.