Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 19 of 222
Found at i:6028646 original size:11 final size:11
Alignment explanation
Indices: 6028630--6028664 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6028620 CCGGATTCCC
6028630 CTCCCTTCTCT
1 CTCCCTTCTCT
6028641 CTCCCTTCTCT
1 CTCCCTTCTCT
6028652 CTTCCC-TCTCT
1 C-TCCCTTCTCT
6028663 CT
1 CT
6028665 TTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:6029186 original size:23 final size:23
Alignment explanation
Indices: 6029142--6029187 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6029132 TATATACCAT
*
6029142 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
6029165 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
6029188 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:6029453 original size:19 final size:19
Alignment explanation
Indices: 6029418--6029454 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6029408 ATATATTACC
**
6029418 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
6029437 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
6029455 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:6041479 original size:44 final size:44
Alignment explanation
Indices: 6041388--6042039 Score: 598
Period size: 44 Copynumber: 14.9 Consensus size: 44
6041378 ATAGGTCCTA
* *
6041388 TCTTCCTATATTGGTAGGAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
6041431 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGGTAGCAGATC-TA
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
*
6041475 TCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
6041518 TCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
6041563 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
*
6041607 TCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
6041650 TCTTCCCATATTGGTGGCGAAGTAGAT-GCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
6041694 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
*
6041738 TCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
6041781 TCTTCCCATATTGGTGGCGAAGTAGAT-GCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
* * * * **
6041825 TCTTCATGTATTGG-CGTGAAGTAGATC-AAGGTAGCAGATCCGG
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
* *
6041868 TCTTCCTATATTGGTAGGAAGTGGAT-GACGAT-GCAGATCTTG
1 TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
6041910 TCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGCAGATCTTG
* * *
6041955 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATTA-CAGATCTTG
1 TCTTCCTATATTGGTAG-GAAGTAGATCGAAGA-TAGCAGATCTTG
* * * *
6041999 CCTTCCTGTATTTGGCAGCGAAG-AGATCGAAGATGGCAGAT
1 TCTTCCTATA-TTGGTAG-GAAGTAGATCGAAGATAGCAGAT
6042040 TTTACCTCCC
Statistics
Matches: 487, Mismatches: 100, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
42 29 0.06
43 161 0.33
44 223 0.46
45 69 0.14
46 5 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (44 bp):
TCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:6041531 original size:87 final size:89
Alignment explanation
Indices: 6041388--6042039 Score: 613
Period size: 87 Copynumber: 7.4 Consensus size: 89
6041378 ATAGGTCCTA
* * *
6041388 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAA
* *
6041452 GTAGATCGAAGGTAGCAGATC-TA
66 GTAGATCGAAGATAGCAGATCTTG
* *
6041475 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAA
* * *
6041539 GTAGATTGCAGAAAGCAGATCTTG
66 GTAGATCGAAGATAGCAGATCTTG
* * * * * * * *
6041563 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAG-GA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGA
*
6041626 AGTGGATCGAAGAT-GCAGATCTTG
65 AGTAGATCGAAGATAGCAGATCTTG
* * * * * *
6041650 TCTTCCCATATTGGTGGCGAAGTAGATGCAGAA-A-GCAGATCTTGTCTTCATGTATTGG-CGTG
1 TCTTCCTATATTGGTAGCGAAGTAGAT-C-GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCG
* * *
6041712 AAGTAGATCGAAGGTAGCAGATCCTA
64 AAGTAGATCGAAGATAGCAGATCTTG
* *
6041738 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAA
* *
6041802 GTAGAT-GCAGAAAGCAGATCTTG
66 GTAGATCGAAGATAGCAGATCTTG
* * * * * ** *
6041825 TCTTCATGTATTGG-CGTGAAGTAGATC-AAGGTAGCAGATCCGGTCTTCCTATATTGGTAG-GA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGA
* *
6041887 AGTGGAT-GACGAT-GCAGATCTTG
65 AGTAGATCGAAGATAGCAGATCTTG
* * * * * * * * *
6041910 TCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG-CGTGA
1 TCTTCCTATATTGGTAGCGAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGA
6041974 AGTAGATCGAAGATTA-CAGATCTTG
65 AGTAGATCGAAGA-TAGCAGATCTTG
* * *
6041999 CCTTCCTGTATTTGGCAGCGAAG-AGATCGAAGATGGCAGAT
1 TCTTCCTATA-TTGGTAGCGAAGTAGATCGAAGAT-GCAGAT
6042040 TTTACCTCCC
Statistics
Matches: 460, Mismatches: 83, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
85 23 0.05
86 31 0.07
87 251 0.55
88 87 0.19
89 56 0.12
90 12 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (89 bp):
TCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAA
GTAGATCGAAGATAGCAGATCTTG
Found at i:6041705 original size:131 final size:131
Alignment explanation
Indices: 6041388--6041985 Score: 983
Period size: 131 Copynumber: 4.6 Consensus size: 131
6041378 ATAGGTCCTA
* * * *** * *
6041388 TCTTCCTATATTGGTAG-GAAGTGGAT-CA-AAGATGCAGATCTTGTCTTCCCATATTGGTGGCG
1 TCTTCCCATATTGGTGGCGAAGTAGATGCAGAA-A-GCAGATCTTGTCTTCATGTATTGG-CGTG
6041450 AAGTAGATCGAAGGTAGCAGAT-CTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGAT
63 AAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGAT
6041514 CTTG
128 CTTG
6041518 TCTTCCCATATTGGTGGCGAAGTAGATTGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
1 TCTTCCCATATTGGTGGCGAAGTAGA-TGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
6041583 GTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
65 GTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCT
6041648 TG
130 TG
6041650 TCTTCCCATATTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TCTTCCCATATTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
6041715 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
66 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
6041780 G
131 G
6041781 TCTTCCCATATTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
1 TCTTCCCATATTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
** *
6041846 TAGATC-AAGGTAGCAGATCCGGTCTTCCTATATTGGTAGGAAGTGGAT-GACGATGCAGATCTT
66 TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
6041909 G
131 G
* * *
6041910 TCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAA
1 TCTTCCCATATTGGTGGCGAAGTAGAT-GCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
6041975 GTAGATCGAAG
65 GTAGATCGAAG
6041986 ATTACAGATC
Statistics
Matches: 447, Mismatches: 14, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
129 41 0.09
130 97 0.22
131 210 0.47
132 94 0.21
133 3 0.01
134 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (131 bp):
TCTTCCCATATTGGTGGCGAAGTAGATGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
TAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTT
G
Found at i:6043110 original size:11 final size:11
Alignment explanation
Indices: 6043094--6043127 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6043084 CCGGATTCCC
6043094 CTCCCTTCTCT
1 CTCCCTTCTCT
6043105 CTCCCTTCTCT
1 CTCCCTTCTCT
*
6043116 CTTCC-TCTCT
1 CTCCCTTCTCT
6043126 CT
1 CT
6043128 TTTTTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 7 0.32
11 15 0.68
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:6043651 original size:23 final size:23
Alignment explanation
Indices: 6043607--6043652 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6043597 ATATTACCAT
*
6043607 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
*
6043630 TATTTTTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
6043653 CCTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:6043919 original size:19 final size:19
Alignment explanation
Indices: 6043884--6043920 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6043874 ATATATTACC
**
6043884 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
6043903 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
6043921 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:6046318 original size:30 final size:30
Alignment explanation
Indices: 6046279--6046366 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
6046269 GGTGGAGGCT
* *
6046279 TTGGTAAAGGTGGTGGATATGGTGGTGGGA
1 TTGGCAAAGGTGGTGGATATGGTGGTGGAA
* * *
6046309 TTGGCAAAGGAGGAGG-TGTTGGTGGTGGAA
1 TTGGCAAAGGTGGTGGAT-ATGGTGGTGGAA
* * *
6046339 TTGGGAAAGGTGGTGGATACGGAGGTGG
1 TTGGCAAAGGTGGTGGATATGGTGGTGG
6046367 CATAGGAAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.96
31 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.25
Consensus pattern (30 bp):
TTGGCAAAGGTGGTGGATATGGTGGTGGAA
Found at i:6046570 original size:156 final size:156
Alignment explanation
Indices: 6046299--6046588 Score: 467
Period size: 156 Copynumber: 1.9 Consensus size: 156
6046289 TGGTGGATAT
* *
6046299 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTGGGAAAGGTGGTGGATACGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTCGGAAAGGTGGAGGATACGGAGG
* * *
6046364 TGGCATAGGAAAGGGCGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTG
66 TGGCATAGGAAAGGGCGGTGGGATTGGCAAAGGAGGAGGTGATGGAGGTGGAATCGGAAAGGGAG
6046429 GAGGATACGGAGGTGGCATAGGAAAA
131 GAGGATACGGAGGTGGCATAGGAAAA
6046455 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAA-TCGGAAAGGGTGGAGGATACGGAG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTCGGAAA-GGTGGAGGATACGGAG
* * * *
6046519 GTGGCATCGGAAAGGGTGGTGGGATTGGCAAAGGAGGAGGAT-ATGGAGGTGGAATTGGTAAGGG
65 GTGGCATAGGAAAGGGCGGTGGGATTGGCAAAGGAGGAGG-TGATGGAGGTGGAATCGGAAAGGG
6046583 AGGAGG
129 AGGAGG
6046589 CCATGGAATT
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
155 6 0.05
156 116 0.94
157 1 0.01
ACGTcount: A:0.26, C:0.05, G:0.51, T:0.18
Consensus pattern (156 bp):
GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTCGGAAAGGTGGAGGATACGGAGG
TGGCATAGGAAAGGGCGGTGGGATTGGCAAAGGAGGAGGTGATGGAGGTGGAATCGGAAAGGGAG
GAGGATACGGAGGTGGCATAGGAAAA
Found at i:6046588 original size:78 final size:78
Alignment explanation
Indices: 6046299--6046558 Score: 459
Period size: 78 Copynumber: 3.3 Consensus size: 78
6046289 TGGTGGATAT
* *
6046299 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATTGGGAAA-GGTGGTGGATACGGAG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAA-TCGGAAAGGGTGGAGGATACGGAG
6046363 GTGGCATAGGAAAG
65 GTGGCATAGGAAAG
*
6046377 GGCGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
*
6046442 TGGCATAGGAAAA
66 TGGCATAGGAAAG
6046455 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
*
6046520 TGGCATCGGAAAG
66 TGGCATAGGAAAG
6046533 GGTGGTGGGATTGGCAAAGGAGGAGG
1 GGTGGTGGGATTGGCAAAGGAGGAGG
6046559 ATATGGAGGT
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
77 6 0.03
78 168 0.97
ACGTcount: A:0.25, C:0.05, G:0.52, T:0.18
Consensus pattern (78 bp):
GGTGGTGGGATTGGCAAAGGAGGAGGTGTTGGTGGTGGAATCGGAAAGGGTGGAGGATACGGAGG
TGGCATAGGAAAG
Found at i:6046618 original size:36 final size:30
Alignment explanation
Indices: 6046533--6046618 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 30
6046523 CATCGGAAAG
*
6046533 GGTGGTGGGATTGGCAAAGGAGGAGGATAT
1 GGTGGTGGGATTGGCAAGGGAGGAGGATAT
* * *
6046563 GGAGGTGGAATTGGTAAGGGAGGAGGCCATGGAATT
1 GGTGGTGGGATTGGCAAGGGAGGAGG--AT---A-T
6046599 GGTGGTGGGATTGGCAAGGG
1 GGTGGTGGGATTGGCAAGGG
6046619 TGGTGGAGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
30 22 0.51
32 2 0.05
35 1 0.02
36 18 0.42
ACGTcount: A:0.24, C:0.05, G:0.51, T:0.20
Consensus pattern (30 bp):
GGTGGTGGGATTGGCAAGGGAGGAGGATAT
Found at i:6046650 original size:18 final size:18
Alignment explanation
Indices: 6046629--6046669 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6046619 TGGTGGAGTC
*
6046629 GGTGGAGGAATTGGAAAG
1 GGTGGAGGAATTGGAAAA
* *
6046647 GGTGGCGGGATTGGAAAA
1 GGTGGAGGAATTGGAAAA
6046665 GGTGG
1 GGTGG
6046670 TGGATTTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.54, T:0.17
Consensus pattern (18 bp):
GGTGGAGGAATTGGAAAA
Found at i:6046734 original size:24 final size:24
Alignment explanation
Indices: 6046704--6046768 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
6046694 TGGATATGGC
6046704 AAGGGTGGTGGTTTTGGAGGTGGA
1 AAGGGTGGTGGTTTTGGAGGTGGA
* ***
6046728 GTA-GGTGGTGGAGCTGGAGGTGGA
1 -AAGGGTGGTGGTTTTGGAGGTGGA
6046752 AAGGGTGGTGGTTTTGG
1 AAGGGTGGTGGTTTTGG
6046769 TGGAGGTGGT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.55, T:0.28
Consensus pattern (24 bp):
AAGGGTGGTGGTTTTGGAGGTGGA
Found at i:6046776 original size:42 final size:42
Alignment explanation
Indices: 6046658--6046780 Score: 102
Period size: 48 Copynumber: 2.8 Consensus size: 42
6046648 GTGGCGGGAT
* * * * ** * *
6046658 TGGAAAAGGTGGTGGATTTGGCGGTGGTGCCGGAGGTGGATA
1 TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGGAGCTGGAGA
* *
6046700 TGGCAAGGGTGGTGGTTTTGGAGGTGGAGTAGGTGGTGGAGCTGGAGG
1 TGGAAAGGGTGGTGGTTTT---GGT-G-G-AGGTGGTGGAGCTGGAGA
6046748 TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGG
1 TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGG
6046781 TGGTGGAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
42 25 0.39
43 1 0.02
44 1 0.02
45 5 0.08
46 1 0.02
47 1 0.02
48 30 0.47
ACGTcount: A:0.15, C:0.04, G:0.54, T:0.26
Consensus pattern (42 bp):
TGGAAAGGGTGGTGGTTTTGGTGGAGGTGGTGGAGCTGGAGA
Found at i:6047332 original size:21 final size:23
Alignment explanation
Indices: 6047283--6047332 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
6047273 ATATATTCTC
* * *
6047283 TTTTATTCTCCTATTTTTGTTTC
1 TTTTATTCTCCTATTATTATTTA
6047306 TTTTATTCT-CT-TTATTATTTA
1 TTTTATTCTCCTATTATTATTTA
6047327 TTTTAT
1 TTTTAT
6047333 AACACGTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTATTCTCCTATTATTATTTA
Found at i:6047706 original size:31 final size:29
Alignment explanation
Indices: 6047661--6047727 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 29
6047651 AAATGTTTAA
6047661 TATTTTTTTATTCAATTGGAATTTAGTT-TTC
1 TATTTTTTTATTCAA---GAATTTAGTTCTTC
*
6047692 TATTTTTATT-TTCAAGAATTTAGTTCTTT
1 TATTTTT-TTATTCAAGAATTTAGTTCTTC
6047721 TATTTTT
1 TATTTTT
6047728 CAAATTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 10 0.30
29 9 0.27
31 12 0.36
32 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.64
Consensus pattern (29 bp):
TATTTTTTTATTCAAGAATTTAGTTCTTC
Found at i:6051358 original size:15 final size:15
Alignment explanation
Indices: 6051313--6051420 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
6051303 CCAATATCTC
6051313 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
6051328 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
6051343 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
6051358 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
6051373 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
6051388 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
6051403 GATACCCATATCTTT
1 GATACCCATATCTTT
6051418 GAT
1 GAT
6051421 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:6051427 original size:30 final size:30
Alignment explanation
Indices: 6051303--6051426 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
6051293 TTTTATTATG
*
6051303 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
6051334 CTAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
6051364 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
6051394 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
6051424 CCA
1 CCA
6051427 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 82 0.93
31 6 0.07
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:6056042 original size:30 final size:30
Alignment explanation
Indices: 6055996--6056089 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
6055986 TTTTATTATG
*
6055996 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
6056027 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
6056057 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
6056087 CCA
1 CCA
6056090 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:6056051 original size:15 final size:15
Alignment explanation
Indices: 6056006--6056083 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
6055996 CCAATATCTC
6056006 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
6056021 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
6056036 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
6056051 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
6056066 GATACCCATATCTTT
1 GATACCCATATCTTT
6056081 GAT
1 GAT
6056084 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:6059591 original size:18 final size:18
Alignment explanation
Indices: 6059568--6059610 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6059558 GAATAAGTTT
6059568 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
6059586 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
6059604 TTAATTA
1 TTAATTA
6059611 CACCTTGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:6061405 original size:20 final size:18
Alignment explanation
Indices: 6061368--6061408 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6061358 GATTAGTATC
*
6061368 ATTTATGTTCGTTTTATG
1 ATTTATGTTCGATTTATG
6061386 ATTTATGTTCGAAATTTATG
1 ATTTATGTTCG--ATTTATG
6061406 ATT
1 ATT
6061409 GTTCTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
20 9 0.45
ACGTcount: A:0.24, C:0.05, G:0.15, T:0.56
Consensus pattern (18 bp):
ATTTATGTTCGATTTATG
Found at i:6062025 original size:32 final size:32
Alignment explanation
Indices: 6061956--6062028 Score: 85
Period size: 35 Copynumber: 2.2 Consensus size: 32
6061946 CCGACAGCCC
* *
6061956 GCCCGAAATATGGGAGGGTTTGGGTAAAAAGATAG
1 GCCCGAAATATGGGA--G-TTGGGCAAAAAAATAG
6061991 GCCCGAAATATGGGA-TTGGGCAAAAAAATGAG
1 GCCCGAAATATGGGAGTTGGGCAAAAAAAT-AG
6062023 GCCCGA
1 GCCCGA
6062029 TTAAAAAACG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 12 0.34
32 8 0.23
35 15 0.43
ACGTcount: A:0.36, C:0.14, G:0.34, T:0.16
Consensus pattern (32 bp):
GCCCGAAATATGGGAGTTGGGCAAAAAAATAG
Found at i:6062127 original size:11 final size:11
Alignment explanation
Indices: 6062111--6062135 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6062101 TTTTTTTAAC
6062111 TTTAAAATACT
1 TTTAAAATACT
6062122 TTTAAAATACT
1 TTTAAAATACT
6062133 TTT
1 TTT
6062136 TTTTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATACT
Found at i:6062140 original size:42 final size:41
Alignment explanation
Indices: 6062083--6062222 Score: 192
Period size: 43 Copynumber: 3.3 Consensus size: 41
6062073 CCCGAATAAT
* *
6062083 AAATATTTTTATTTTTTATTTTTTTAACTTTAAAATACTTTTA
1 AAATACTTTT-TTTTTTATTTTTTTAATTTTAAAATA-TTTTA
* *
6062126 AAATACTTTTTTTTTTAATTTTTTTAATTTTAAAATTTTTTT
1 AAATACTTTTTTTTTT-ATTTTTTTAATTTTAAAATATTTTA
*
6062168 AAATAC-TTTTTTTTAATTTTTTTAATTTTAAAATATTTTCA
1 AAATACTTTTTTTTTTATTTTTTTAATTTTAAAATATTTT-A
6062209 AAATACTTTTTTTT
1 AAATACTTTTTTTT
6062223 AATTTTTATT
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
40 23 0.26
41 14 0.16
42 23 0.26
43 27 0.31
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (41 bp):
AAATACTTTTTTTTTTATTTTTTTAATTTTAAAATATTTTA
Found at i:6062149 original size:9 final size:9
Alignment explanation
Indices: 6062135--6062196 Score: 54
Period size: 9 Copynumber: 6.4 Consensus size: 9
6062125 AAAATACTTT
6062135 TTTTTTTAA
1 TTTTTTTAA
6062144 TTTTTTTAA
1 TTTTTTTAA
**
6062153 -TTTTAAAA
1 TTTTTTTAA
6062161 TTTTTTTAAATA
1 TTTTTTT--A-A
6062173 CTTTTTTTTAA
1 --TTTTTTTAA
6062184 TTTTTTTAA
1 TTTTTTTAA
6062193 TTTT
1 TTTT
6062197 AAAATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
8 6 0.14
9 26 0.60
11 2 0.05
12 2 0.05
14 7 0.16
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:6062178 original size:40 final size:41
Alignment explanation
Indices: 6062094--6062229 Score: 204
Period size: 40 Copynumber: 3.3 Consensus size: 41
6062084 AATATTTTTA
* *
6062094 TTTTTT-ATTTTTTTAACTTTAAAATACTTTTAAAATACTTTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC--TT
*
6062136 TTTTTTAATTTTTTTAATTTTAAAAT-TTTTTTAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
*
6062176 TTTTTTAATTTTTTTAATTTTAAAATATTTTCAAAATACTT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
6062217 TTTTTTAATTTTT
1 TTTTTTAATTTTT
6062230 ATTTTTATTT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
40 28 0.32
41 25 0.29
42 16 0.18
43 18 0.21
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (41 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:6062240 original size:5 final size:6
Alignment explanation
Indices: 6062218--6062248 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
6062208 AAAATACTTT
6062218 TTTTTAA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
6062249 AAATAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:6062252 original size:40 final size:40
Alignment explanation
Indices: 6062094--6062253 Score: 164
Period size: 40 Copynumber: 3.9 Consensus size: 40
6062084 AATATTTTTA
* * * *
6062094 TTTTTTATTTTTTTAACTTTAAAATACTTTTAAAATACTTTT
1 TTTTTTAATTTTTTAATTTTAAATTATTTTTAAAATAC--TT
6062136 TTTTTTAATTTTTTTAATTTTAAAATT-TTTTT-AAATACTT
1 TTTTTTAA-TTTTTTAATTTT-AAATTATTTTTAAAATACTT
* *
6062176 TTTTTTAATTTTTTTAATTTTAAAATATTTTCAAAATACTT
1 TTTTTTAA-TTTTTTAATTTTAAATTATTTTTAAAATACTT
* **
6062217 TTTTTTAA-TTTTTATTTTTATTTTTATTTTTAAAATA
1 TTTTTTAATTTTTTAATTTTA-AATTATTTTTAAAATA
6062254 AATTTTTGGT
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
39 15 0.15
40 39 0.38
41 16 0.16
42 13 0.13
43 15 0.15
44 4 0.04
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.66
Consensus pattern (40 bp):
TTTTTTAATTTTTTAATTTTAAATTATTTTTAAAATACTT
Found at i:6063049 original size:21 final size:22
Alignment explanation
Indices: 6063002--6063052 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
6062992 CCCGGCCCGG
6063002 TTTTTAATAAACACAAAAAAATA
1 TTTTTAA-AAACACAAAAAAATA
*
6063025 -TTTTAAAAATA-AAAAAAATA
1 TTTTTAAAAACACAAAAAAATA
6063045 TTTTTAAA
1 TTTTTAAA
6063053 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 9 0.35
21 11 0.42
22 6 0.23
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTTTAAAAACACAAAAAAATA
Found at i:6075055 original size:20 final size:21
Alignment explanation
Indices: 6075020--6075058 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6075010 ATACATAATT
*
6075020 ATTTATTCGTAAAAATTTACA
1 ATTTATTCGAAAAAATTTACA
6075041 ATTTATTC-AAAAAATTTA
1 ATTTATTCGAAAAAATTTA
6075059 TATTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTTATTCGAAAAAATTTACA
Found at i:6075586 original size:40 final size:41
Alignment explanation
Indices: 6075529--6075613 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
6075519 AAAAAAAAGA
6075529 TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTG-TGT
1 TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTGTTGT
* *
6075569 TTTGTGTTTTGCTGCTCTTTCTTCTATTTTACTGTTGTTGT
1 TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTGTTGT
6075610 TTTG
1 TTTG
6075614 CTACTATTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 35 0.83
41 7 0.17
ACGTcount: A:0.06, C:0.15, G:0.18, T:0.61
Consensus pattern (41 bp):
TTTGTGTTTTGCCGCTCTTTCTACTATTTTACTGTTGTTGT
Found at i:6077527 original size:34 final size:35
Alignment explanation
Indices: 6077469--6077535 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
6077459 CAAACACCAA
6077469 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
6077504 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
6077536 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6078076 original size:4 final size:4
Alignment explanation
Indices: 6078067--6078109 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
6078057 AACGGATCCT
6078067 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
6078110 GAAATAAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:6081726 original size:25 final size:23
Alignment explanation
Indices: 6081677--6081729 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
6081667 AATTTTGGGT
*
6081677 CAAAACAAAATATTTTCCTTTCA
1 CAAAACAAAATATTTTCCTTCCA
* *
6081700 CAAAATCAATATATTTTTCTTCCCA
1 CAAAA-CAAAATATTTTCCTT-CCA
6081725 CAAAA
1 CAAAA
6081730 AATTATTCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 13 0.52
25 7 0.28
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (23 bp):
CAAAACAAAATATTTTCCTTCCA
Found at i:6084243 original size:9 final size:9
Alignment explanation
Indices: 6084228--6084287 Score: 84
Period size: 9 Copynumber: 6.7 Consensus size: 9
6084218 ATGTAGTAAT
6084228 TTAATTCGG
1 TTAATTCGG
*
6084237 GTAATTCGG
1 TTAATTCGG
* *
6084246 GTAATTCGA
1 TTAATTCGG
6084255 TTAATTCGG
1 TTAATTCGG
6084264 TTAATTCGG
1 TTAATTCGG
*
6084273 ATAATTCGG
1 TTAATTCGG
6084282 TTAATT
1 TTAATT
6084288 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.42
Consensus pattern (9 bp):
TTAATTCGG
Found at i:6084259 original size:27 final size:27
Alignment explanation
Indices: 6084228--6084287 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
6084218 ATGTAGTAAT
*
6084228 TTAATTCGGGTAATTCGGGTAATTCGA
1 TTAATTCGGGTAATTCGGATAATTCGA
* *
6084255 TTAATTCGGTTAATTCGGATAATTCGG
1 TTAATTCGGGTAATTCGGATAATTCGA
6084282 TTAATT
1 TTAATT
6084288 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.42
Consensus pattern (27 bp):
TTAATTCGGGTAATTCGGATAATTCGA
Found at i:6084345 original size:28 final size:27
Alignment explanation
Indices: 6084314--6084374 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
6084304 AAAAAACATA
6084314 TAATTAACCGAAAAAATTTCGGTTCGGT
1 TAATTAACCG-AAAAATTTCGGTTCGGT
* ** *
6084342 TAATTTTATTGAAAAATTTTGGTTCGGT
1 TAA-TTAACCGAAAAATTTCGGTTCGGT
6084370 TAATT
1 TAATT
6084375 CGGTTAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.07
28 22 0.79
29 4 0.14
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (27 bp):
TAATTAACCGAAAAATTTCGGTTCGGT
Found at i:6088633 original size:25 final size:27
Alignment explanation
Indices: 6088596--6088652 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
6088586 AAATATAAAA
6088596 AATAAAATTTAGTTAAA-ATATTGTTTT
1 AATAAAA-TTAGTTAAATATATTGTTTT
*
6088623 AATAAAA-TAGTTAAATTTATTGTTTT
1 AATAAAATTAGTTAAATATATTGTTTT
6088649 AATA
1 AATA
6088653 TTTTATTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 8 0.29
26 13 0.46
27 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (27 bp):
AATAAAATTAGTTAAATATATTGTTTT
Found at i:6105540 original size:25 final size:25
Alignment explanation
Indices: 6105506--6105564 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
6105496 TTTAATATAC
6105506 AAAATATATATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
6105531 AAAATATATATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
*
6105556 AAAAAATAT
1 AAAATATAT
6105565 TTTTTACTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
AAAATATATATTTGATTAAAAATAA
Found at i:6106717 original size:3 final size:3
Alignment explanation
Indices: 6106709--6106752 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6106699 TTTTTAAATT
6106709 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6106753 TCCATGTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6113458 original size:88 final size:88
Alignment explanation
Indices: 6113309--6114176 Score: 1259
Period size: 88 Copynumber: 9.9 Consensus size: 88
6113299 CCTCAGAGAA
* * * ** * *
6113309 CAGATCGAAGATACCAGCCTTGCCTCTCTGGGTTATAGCAGAGCAGGTTGAAGACAACAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
6113374 GCCTTCCTGTACCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * * *
6113397 CAGATCAAAGATACCAGCCTTGCCTCCCTAAGTTGTAGTGGAGCAGGTGGAAGATAGCAGATATT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6113462 GCCTTCCTATATCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
6113485 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
6113550 GCCTTCCTGTACCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
*
6113573 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
*
6113638 GCCTTCCTGTACCGACAGTAAAG
66 GCCTTCCTGTACCGACAGTGAAG
* *
6113661 CAAATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
*
6113726 GCCCTCCTGTACCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * *
6113749 CAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAACAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
** *
6113814 GCCTTCCTGTACCGATGGTGAAA
66 GCCTTCCTGTACCGACAGTGAAG
* * * *
6113837 CAGATCAAAGACACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* **
6113902 GCCTTCTTGTATTGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * *
6113925 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTAAAGATAGAAGATCTC
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
*
6113990 GCCTTCCTATACCGACAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * ** * *
6114013 CAGATCGAAGATACCAACCTTGCCTCTCTAGGTCATAGTGGAGTAGGTTGAAAATAGCAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6114078 GCATTCCTGTACCGAAAGTGAAG
66 GCCTTCCTGTACCGACAGTGAAG
* * * * * * * *
6114101 CAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAAGCTGAAGATAGTAGATCTT
1 CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
* *
6114166 GTCTTCATGTA
66 GCCTTCCTGTA
6114177 TTGGCGTGAA
Statistics
Matches: 698, Mismatches: 82, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 698 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
CAGATCGAAGATACCAGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
GCCTTCCTGTACCGACAGTGAAG
Found at i:6114228 original size:44 final size:44
Alignment explanation
Indices: 6114159--6114391 Score: 376
Period size: 44 Copynumber: 5.3 Consensus size: 44
6114149 TGAAGATAGT
* *
6114159 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGCTCAAAGAAAGC
1 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGAAAGC
* *
6114203 AGATCTTGTCTTCATATATTAGCGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGAAAGC
* *
6114247 AGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGC
1 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGAAAGC
* *
6114291 AGATCTTGTCTTCATGTATTAGCATGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGAAAGC
* *
6114335 AGATCTTGTCTTCATGTATTAGCATGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGAAAGC
6114379 AGATCTTGTCTTC
1 AGATCTTGTCTTC
6114392 CCATACTGGT
Statistics
Matches: 177, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 177 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGAAAGC
Found at i:6114251 original size:88 final size:88
Alignment explanation
Indices: 6114150--6114421 Score: 400
Period size: 88 Copynumber: 3.1 Consensus size: 88
6114140 GGAGCAAGCT
* *
6114150 GAAGATAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGCTCAAAGAAAGCAGATCTTGTCTT
1 GAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
6114215 CATATATTAGCGTGAAGTAGATC
66 CATATATTAGCGTGAAGTAGATC
* *
6114238 GAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
1 GAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
* *
6114303 CATGTATTAGCATGAAGTAGATC
66 CATATATTAGCGTGAAGTAGATC
* * * *
6114326 AAAGATAGCAGATCTTGTCTTCATGTATTAGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTT
1 GAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
** * * *
6114391 CCCATACTGGTGGTGAAGTAGATC
66 CATATATTAG-CGTGAAGTAGATC
6114415 GAAGATA
1 GAAGATA
6114422 CAATTCTTAT
Statistics
Matches: 163, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
88 146 0.90
89 17 0.10
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (88 bp):
GAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
CATATATTAGCGTGAAGTAGATC
Found at i:6116238 original size:6 final size:6
Alignment explanation
Indices: 6116229--6116259 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
6116219 TACATGTATA
6116229 TATATT TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT T
6116260 TTTTCTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:6116292 original size:18 final size:16
Alignment explanation
Indices: 6116229--6116290 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
6116219 TACATGTATA
6116229 TATATTTATATTTATATT
1 TATATTTATATTT-T-TT
6116247 TATATTTATATTTTTT
1 TATATTTATATTTTTT
* ** *
6116263 TCTAATGAATATTCTTT
1 TAT-ATTTATATTTTTT
6116280 TATATTTATAT
1 TATATTTATAT
6116291 ATATACATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 10 0.28
17 13 0.36
18 13 0.36
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATTTATATTTTTT
Found at i:6119623 original size:21 final size:22
Alignment explanation
Indices: 6119597--6119646 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
6119587 CTACAACTTA
*
6119597 AAGCAGAGA-CGGCAGCGAGGG
1 AAGCAGAGAGCGGCAGCGAGAG
*
6119618 AAGCAGA-AGCTGCAGCGAGAG
1 AAGCAGAGAGCGGCAGCGAGAG
6119639 AAGCAGAG
1 AAGCAGAG
6119647 CAGGCCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.38, C:0.18, G:0.42, T:0.02
Consensus pattern (22 bp):
AAGCAGAGAGCGGCAGCGAGAG
Found at i:6120140 original size:41 final size:41
Alignment explanation
Indices: 6120047--6120288 Score: 376
Period size: 41 Copynumber: 5.9 Consensus size: 41
6120037 TAAGAATAAA
*
6120047 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTCTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGT-TTTTTCTAAG
* *
6120089 CGCCGTTAAAGCACATGGTCTTTAGCGGCGTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
* *
6120130 CGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTCCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT-CTAAG
* *
6120172 CGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTGTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
* * *
6120213 CGCCGCTAAATAACATTGTCTTTAGCGGCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
6120254 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
6120289 GTTTGTAAAC
Statistics
Matches: 183, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
41 116 0.63
42 67 0.37
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTCTAAG
Found at i:6120157 original size:83 final size:82
Alignment explanation
Indices: 6120047--6120288 Score: 385
Period size: 83 Copynumber: 2.9 Consensus size: 82
6120037 TAAGAATAAA
* * * *
6120047 CGCCGCTAAAGTACATGGTCTTTAGCGGCGTCTTTTTCTAAGCGCCGTTAAAGCACATGGTCTTT
1 CGCCGCTAAAGAACATTGTCTTTAGCGGCGT-TTTTTCTAAGCGCCGCTAAAGAACATGGTCTTT
6120112 AGCGGCGTTTTTTCTAAG
65 AGCGGCGTTTTTTCTAAG
*
6120130 CGCCGCTAAAGAACATTGTCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTT
1 CGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTT-CTAAGCGCCGCTAAAGAACATGGTCTTT
* *
6120195 AGAGGCGTTTTTTGTAAG
65 AGCGGCGTTTTTTCTAAG
* *
6120213 CGCCGCTAAATAACATTGTCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGGTCTTTA
1 CGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
6120278 GCGGCGTTTTT
66 GCGGCGTTTTT
6120289 GTTTGTAAAC
Statistics
Matches: 147, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
82 43 0.29
83 104 0.71
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (82 bp):
CGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
GCGGCGTTTTTTCTAAG
Found at i:6128620 original size:3 final size:3
Alignment explanation
Indices: 6128612--6128670 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
6128602 AGTATTTATT
6128612 TTC TTC TTC TTC TTC TTC TT- TT- TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6128658 TT- TTC TTC TTC TT
1 TTC TTC TTC TTC TT
6128671 TTATTATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 6 0.11
3 48 0.89
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:6128677 original size:3 final size:3
Alignment explanation
Indices: 6128671--6128700 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6128661 TCTTCTTCTT
6128671 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6128701 CTTCATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6128798 original size:22 final size:24
Alignment explanation
Indices: 6128773--6128816 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6128763 ATACGTGTAC
*
6128773 ATTTTAT-TT-ATATTTTTTTATT
1 ATTTTATCTTCATAATTTTTTATT
6128795 ATTTTATCTTCATAATTTTTTA
1 ATTTTATCTTCATAATTTTTTA
6128817 ATACATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (24 bp):
ATTTTATCTTCATAATTTTTTATT
Found at i:6128889 original size:27 final size:28
Alignment explanation
Indices: 6128840--6128908 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
6128830 CATAGACATT
* * * *
6128840 TATATTTTATAATACATATACATTTTCG
1 TATATTTTATAATACATACACATATACA
* *
6128868 T-TATTTTATAATCCATGCACATATACA
1 TATATTTTATAATACATACACATATACA
6128895 TATATTTTATAATA
1 TATATTTTATAATA
6128909 TATATACTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.48
Consensus pattern (28 bp):
TATATTTTATAATACATACACATATACA
Found at i:6129025 original size:13 final size:13
Alignment explanation
Indices: 6129007--6129031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6128997 TATTTTAATT
6129007 TACTTATATATTG
1 TACTTATATATTG
6129020 TACTTATATATT
1 TACTTATATATT
6129032 ATATTTTGTA
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:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TACTTATATATTG
Found at i:6140393 original size:17 final size:18
Alignment explanation
Indices: 6140366--6140403 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6140356 GTTTACTTAT
6140366 TTTTTTATTTAGTTTTAA
1 TTTTTTATTTAGTTTTAA
* *
6140384 TTTTTT-TTTATTTTTTA
1 TTTTTTATTTAGTTTTAA
6140401 TTT
1 TTT
6140404 ACTTAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTTATTTAGTTTTAA
Found at i:6140763 original size:3 final size:3
Alignment explanation
Indices: 6140757--6140812 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
6140747 AGTATTTTTT
*
6140757 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6140805 TTC TTC TT
1 TTC TTC TT
6140813 ATTATTATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:6140817 original size:3 final size:3
Alignment explanation
Indices: 6140811--6140843 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
6140801 CTTCTTCTTC
6140811 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6140844 CTTCATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6142480 original size:16 final size:16
Alignment explanation
Indices: 6142455--6142489 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6142445 GTTGTGTTTG
6142455 TTTTGGCTGCATGACA
1 TTTTGGCTGCATGACA
*
6142471 TTTTGTCTGCATGACA
1 TTTTGGCTGCATGACA
6142487 TTT
1 TTT
6142490 CATCATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTTGGCTGCATGACA
Found at i:6146860 original size:44 final size:45
Alignment explanation
Indices: 6146747--6147131 Score: 487
Period size: 44 Copynumber: 8.7 Consensus size: 45
6146737 GTTGAAAGAG
6146747 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * *
6146792 AAATCTTATCTTCTTGTATTGGCAGTGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* *
6146837 A-ATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATC-AAGATAGT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
6146880 AGATCTTGTCTTCCTATATT-GTAGAGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* *
6146924 AGATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
6146969 AGATATTGTCTTCCTATA-TGGTAGCGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * * * * *
6147013 AGATCTCGTCTTCCTATATTGGTAGTGAAGTATATCGAA-ATAAC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
* * *
6147057 AGATCTTGT-TTCCTGTATTGGCAGTGAAGTAGATCAAAGATAAC
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
*
6147101 AGATCTTGTCTTCCTG-ATTGGCAGCAAAGTA
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTA
6147132 TATCAAAGCG
Statistics
Matches: 297, Mismatches: 37, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
43 45 0.15
44 149 0.50
45 103 0.35
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGC
Found at i:6147063 original size:177 final size:177
Alignment explanation
Indices: 6146747--6147139 Score: 515
Period size: 177 Copynumber: 2.2 Consensus size: 177
6146737 GTTGAAAGAG
* * * *
6146747 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAATCTTATCTTCTTGTATT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATATTATCTTCCTATATT
* * *
6146812 GGCAGTGAAGTAGATCGAAGATAACAATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATCAAGAT
66 GGCAGCGAAGTAGATCGAAGATAACAATCTCGTCTTCCTATATCGGCAGCGAAGTAGATCAAGAT
** * *
6146877 AGTAGATCTTGTCTTCCTATATT-GTAGAGAAGTAGATCAAAGATAGC
131 AACAGATCTTGT-TTCCTATATTGGCAGAGAAGTAGATCAAAGATAAC
* * *
6146924 AGATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATCAAAGATAGCAGATATTGTCTTCCTATA-T
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATATTATCTTCCTATATT
* * * * * *
6146988 GGTAGCGAAGTAGATCGAAGATAGCAGATCTCGTCTTCCTATATTGGTAGTGAAGTATATCGAA-
66 GGCAGCGAAGTAGATCGAAGATAACA-ATCTCGTCTTCCTATATCGGCAGCGAAGTAGATC-AAG
* *
6147052 ATAACAGATCTTGTTTCCTGTATTGGCAGTGAAGTAGATCAAAGATAAC
129 ATAACAGATCTTGTTTCCTATATTGGCAGAGAAGTAGATCAAAGATAAC
* *
6147101 AGATCTTGTCTTCCTG-ATTGGCAGCAAAGTATATCAAAG
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAG
6147140 CGAAGCAGGT
Statistics
Matches: 188, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
176 53 0.28
177 133 0.71
178 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (177 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATATTATCTTCCTATATT
GGCAGCGAAGTAGATCGAAGATAACAATCTCGTCTTCCTATATCGGCAGCGAAGTAGATCAAGAT
AACAGATCTTGTTTCCTATATTGGCAGAGAAGTAGATCAAAGATAAC
Found at i:6148954 original size:3 final size:3
Alignment explanation
Indices: 6148937--6148973 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
6148927 ATTTTTTTTC
* *
6148937 TAT TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6148974 TCCATGTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6149298 original size:13 final size:13
Alignment explanation
Indices: 6149280--6149304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6149270 TTTTCAAATT
6149280 TACTTATATATTG
1 TACTTATATATTG
6149293 TACTTATATATT
1 TACTTATATATT
6149305 ATAATTTTTG
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:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TACTTATATATTG
Found at i:6149902 original size:15 final size:15
Alignment explanation
Indices: 6149879--6149928 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
6149869 ATATAATATA
*
6149879 TTTATTTTTTAA-TT
1 TTTAATTTTTAATTT
6149893 TTTAATTTTTAATTTT
1 TTTAATTTTTAA-TTT
6149909 TTTAA-TTTTAATATT
1 TTTAATTTTTAAT-TT
6149924 TTTAA
1 TTTAA
6149929 AAAATATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 12 0.38
15 13 0.41
16 7 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAATTTTTAATTT
Found at i:6149917 original size:7 final size:7
Alignment explanation
Indices: 6149879--6149928 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
6149869 ATATAATATA
*
6149879 TTTATTT
1 TTTAATT
6149886 TTTAATT
1 TTTAATT
6149893 TTTAATT
1 TTTAATT
6149900 TTTAATTTT
1 TTTAA--TT
6149909 TTTAATT
1 TTTAATT
*
6149916 TTAATATT
1 TTTA-ATT
6149924 TTTAA
1 TTTAA
6149929 AAAATATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
7 24 0.65
8 6 0.16
9 7 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTAATT
Found at i:6149945 original size:26 final size:25
Alignment explanation
Indices: 6149917--6150067 Score: 84
Period size: 26 Copynumber: 6.1 Consensus size: 25
6149907 TTTTTAATTT
*
6149917 TAATATTTTTAAAAAATATTTAAAA
1 TAATAATTTTAAAAAATATTTAAAA
* *
6149942 TTAAAAAATTTAAAAAATATTTTAAAA
1 -TAATAATTTTAAAAAATA-TTTAAAA
* *
6149969 TATTAATATTAAAAAA-ATTT-AAA
1 TAATAATTTTAAAAAATATTTAAAA
*
6149992 -AAT-ATTTTAAATTAAAAAATTTAAAA
1 TAATAATTTT-AA--AAAATATTTAAAA
* *
6150018 AAAGT-ATTTT-AAAAATATTTTAAAT
1 TAA-TAATTTTAAAAAATA-TTTAAAA
* * *
6150043 TAA-AA-ATTAAAAAAAATTAAAAA
1 TAATAATTTTAAAAAATATTTAAAA
6150066 TA
1 TA
6150068 TTTTTAAAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 25
0.71 0.12 0.18
Matches are distributed among these distances:
21 4 0.04
22 4 0.04
23 12 0.12
24 19 0.19
25 13 0.13
26 31 0.32
27 9 0.09
28 6 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.38
Consensus pattern (25 bp):
TAATAATTTTAAAAAATATTTAAAA
Found at i:6149954 original size:35 final size:34
Alignment explanation
Indices: 6149915--6150164 Score: 155
Period size: 35 Copynumber: 7.3 Consensus size: 34
6149905 TTTTTTTAAT
*
6149915 TTTAATATTTTTAAAAAATATTTAAAATTAAAAAA
1 TTTAAAATTTTT-AAAAATATTTAAAATTAAAAAA
*
6149950 TTTAAAAAATATTTT-AAAATA-TTAATATT---AAA
1 TTT--AAAAT-TTTTAAAAATATTTAAAATTAAAAAA
*
6149982 ---AAAA--TTTAAAAATATTTTAAATTAAAAAA
1 TTTAAAATTTTTAAAAATATTTAAAATTAAAAAA
*
6150011 TTTAAAAAAAGTATTTTAAAAATATTTTAAATT-AAAAA
1 TTT---AAAA-T-TTTTAAAAATATTTAAAATTAAAAAA
* ***
6150049 TTAAAAAAAATTAAAAATATTTTTAAAATTAAAAAAA
1 TTTAAAATTTTTAAAAATA--TTTAAAATT-AAAAAA
*
6150086 ATTAAAATATTTT-AAAATATTTAAAATTAAAAAA
1 TTTAAAAT-TTTTAAAAATATTTAAAATTAAAAAA
* * * *
6150120 ATAAAAAGTATGTAAAAATATTTTAAAATTAAAAAA
1 TTTAAAA-TTTTTAAAAATA-TTTAAAATTAAAAAA
*
6150156 ATTAAAATT
1 TTTAAAATT
6150165 AAAATTAAAA
Statistics
Matches: 170, Mismatches: 19, Indels: 52
0.71 0.08 0.22
Matches are distributed among these distances:
24 3 0.02
25 6 0.04
26 6 0.04
27 4 0.02
29 3 0.02
32 3 0.02
33 9 0.05
34 14 0.08
35 43 0.25
36 27 0.16
37 20 0.12
38 13 0.08
39 19 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (34 bp):
TTTAAAATTTTTAAAAATATTTAAAATTAAAAAA
Found at i:6149957 original size:10 final size:10
Alignment explanation
Indices: 6149944--6150111 Score: 55
Period size: 10 Copynumber: 16.3 Consensus size: 10
6149934 ATTTAAAATT
6149944 AAAAAATTTA
1 AAAAAATTTA
6149954 AAAAATATTTTA
1 AAAAA-A-TTTA
6149966 AAATATTAATATTA
1 AAA-A--AAT-TTA
6149980 AAAAAATTTA
1 AAAAAATTTA
*
6149990 AAAATATTT-
1 AAAAAATTTA
*
6149999 --TAAA-TT-
1 AAAAAATTTA
6150005 AAAAAATTTAA
1 AAAAAATTT-A
6150016 AAAAAGTATTTTA
1 AAAAA--A-TTTA
*
6150029 AAAATATTTTA
1 AAAA-AATTTA
*
6150040 AATTAAAAATTA
1 AA--AAAATTTA
*
6150052 AAAAAAATTA
1 AAAAAATTTA
*
6150062 AAAATATTT-
1 AAAAAATTTA
**
6150071 TTAAAA-TTA
1 AAAAAATTTA
*
6150080 AAAAAAATT-
1 AAAAAATTTA
* *
6150089 AAAATATTTT
1 AAAAAATTTA
*
6150099 AAAATATTTA
1 AAAAAATTTA
6150109 AAA
1 AAA
6150112 TTAAAAAAAT
Statistics
Matches: 121, Mismatches: 17, Indels: 40
0.68 0.10 0.22
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.04
9 16 0.13
10 45 0.37
11 15 0.12
12 13 0.11
13 11 0.09
14 11 0.09
15 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:6149959 original size:17 final size:17
Alignment explanation
Indices: 6149925--6149957 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6149915 TTTAATATTT
*
6149925 TTAAAAAATATTTAAAA
1 TTAAAAAATATTAAAAA
6149942 TTAAAAAAT-TTAAAAA
1 TTAAAAAATATTAAAAA
6149958 ATATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAATATTAAAAA
Found at i:6149983 original size:27 final size:25
Alignment explanation
Indices: 6149925--6150069 Score: 88
Period size: 25 Copynumber: 5.9 Consensus size: 25
6149915 TTTAATATTT
**
6149925 TTAAAAAATA-TTTAAAATTAAAAAA
1 TTAAAAAATATTTTAAAA-TATTAAA
6149950 TTTAAAAAATATTTTAAAATATTAATA
1 -TTAAAAAATATTTTAAAATATTAA-A
*
6149977 TTAAAAAA-ATTTAAAAATATTTTAAA
1 TTAAAAAATATTTTAAAATA--TTAAA
* * * *
6150003 TT-AAAAA-ATTTAAAAAAAGT-AT
1 TTAAAAAATATTTTAAAATATTAAA
* * *
6150025 TTTAAAAATATTTTAAATTA-AAAA
1 TTAAAAAATATTTTAAAATATTAAA
* *
6150049 TTAAAAAA-AATTAAAAATATT
1 TTAAAAAATATTTTAAAATATT
6150070 TTTAAAATTA
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
22 3 0.03
23 14 0.15
24 16 0.17
25 25 0.26
26 25 0.26
27 12 0.13
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (25 bp):
TTAAAAAATATTTTAAAATATTAAA
Found at i:6150111 original size:28 final size:28
Alignment explanation
Indices: 6150042--6150111 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
6150032 ATATTTTAAA
6150042 TTAAAAATTAAAAAAAATTAAAAATATT
1 TTAAAAATTAAAAAAAATTAAAAATATT
*
6150070 TTTAAAATTAAAAAAAATT-AAAATATT
1 TTAAAAATTAAAAAAAATTAAAAATATT
*
6150097 TTAAAATATTTAAAA
1 TTAAAA-ATTAAAAA
6150112 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 13 0.34
28 25 0.66
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TTAAAAATTAAAAAAAATTAAAAATATT
Found at i:6150173 original size:72 final size:69
Alignment explanation
Indices: 6149955--6150174 Score: 212
Period size: 72 Copynumber: 3.1 Consensus size: 69
6149945 AAAAATTTAA
* * * * *
6149955 AAAATATTTTAAAATATTAATATTAAAAAAATTTAAAAATATTTT-AAATTAAAAAATTTAAAA-
1 AAAATA-TTTAAAAT-TAAAAAATAAAAAAAATTAAAAATATTTTAAAATTAAAAAAATTAAAAT
6150018 AAAGTATTTT
64 AAA--A--TT
* *
6150028 AAAAATATTTTAAATTAAAAATTAAAAAAAATTAAAAATATTTTTAAAATTAAAAAAAATTAAAA
1 -AAAATATTTAAAATTAAAAAATAAAAAAAATTAAAAATA-TTTTAAAATT-AAAAAAATTAAAA
**
6150093 T-ATTTT
63 TAAAATT
**
6150099 AAAATATTTAAAATTAAAAAAATAAAAAGTATGTAAAAATATTTTAAAATTAAAAAAATTAAAAT
1 AAAATATTTAAAATT-AAAAAATAAAAAAAAT-TAAAAATATTTTAAAATTAAAAAAATTAAAA-
6150164 TAAAATT
63 TAAAATT
6150171 AAAA
1 AAAA
6150175 ATAAATATTA
Statistics
Matches: 125, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
70 27 0.22
71 26 0.21
72 37 0.30
73 11 0.09
74 11 0.09
75 13 0.10
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (69 bp):
AAAATATTTAAAATTAAAAAATAAAAAAAATTAAAAATATTTTAAAATTAAAAAAATTAAAATAA
AATT
Found at i:6152960 original size:45 final size:45
Alignment explanation
Indices: 6152896--6153298 Score: 545
Period size: 45 Copynumber: 9.0 Consensus size: 45
6152886 ACCTGCTTCG
* * *
6152896 CTTTGATATACTTTGCTGCCAATACAGGAAGACAAGATCTGTTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* *
6152941 CTTTGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * * * * *
6152986 CTTCGATATACTTCACTACCAATATAGGAAGACGAGATCTGCTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * * *
6153031 CTTCGATCTACTTCGCTACCAATATAGGAAGACAATATCTGCTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
*
6153076 CTTTGATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * * *
6153121 CTTTGATCTACTTCTCTACCAATATAGGAAGACAAGATCTACTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * *
6153166 CTTTGATCTACTTCGCTGCCGATACAGGAAGACAAGATTTGTTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
* * * * *
6153211 CTTCGATCTACTTCACTGCCAATACAAGAAGATAAGATTTGCTAT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
*
6153256 CTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
1 CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
6153299 CTTTTCAGAC
Statistics
Matches: 318, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 318 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (45 bp):
CTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAT
Found at i:6157740 original size:16 final size:16
Alignment explanation
Indices: 6157719--6157753 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
6157709 TTCTATGATG
6157719 AAATGTCATGCAGACA
1 AAATGTCATGCAGACA
*
6157735 AAATGTCATGCAGCCA
1 AAATGTCATGCAGACA
6157751 AAA
1 AAA
6157754 CAGAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGTCATGCAGACA
Found at i:6159371 original size:27 final size:28
Alignment explanation
Indices: 6159303--6159380 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
6159293 CTAAAAAATT
* * * *
6159303 ATGTATATATATTATAAAATATATGTAT
1 ATGTATATGTATTATAAAATATACGAAA
** *
6159331 ATGTGCATGGATTATAAAATA-ACGAAA
1 ATGTATATGTATTATAAAATATACGAAA
6159358 ATGTATATGTATTATAAAATATA
1 ATGTATATGTATTATAAAATATA
6159381 AATGTCTATG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (28 bp):
ATGTATATGTATTATAAAATATACGAAA
Found at i:6159539 original size:3 final size:3
Alignment explanation
Indices: 6159527--6159556 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6159517 TATTATGAAG
6159527 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6159557 GAAGAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6159561 original size:3 final size:3
Alignment explanation
Indices: 6159555--6159616 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
6159545 TAATAATAAT
6159555 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6159603 AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AA
6159617 AAATAAATAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6168127 original size:42 final size:42
Alignment explanation
Indices: 6168029--6168272 Score: 382
Period size: 42 Copynumber: 5.8 Consensus size: 42
6168019 GTTTACAAAC
6168029 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA-AA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
6168070 AAAAACGCCGCTAAAGACAATGTTATTTAGCGGCGCTTACAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
6168112 AAAAACGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
6168154 AAAAATGCCGCTAAAGACAATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
6168196 AAAAACGCCGCTAAAGACCATGTGCTTTAACGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* *
6168238 AAAGACGCCGCTAAAGACCATGTACTTTAGCGGCG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCG
6168273 TTTATTCTTA
Statistics
Matches: 184, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
41 37 0.20
42 147 0.80
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:6168719 original size:21 final size:20
Alignment explanation
Indices: 6168672--6168722 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
6168662 TTTTTGGCCT
*
6168672 GCTCTGCTTCTCTCGCTGCA
1 GCTCTGCTTCCCTCGCTGCA
*
6168692 GCTTCTGCTTCCCTCGCTGCC
1 GC-TCTGCTTCCCTCGCTGCA
6168713 GTCTCTGCTT
1 G-CTCTGCTT
6168723 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.02, C:0.41, G:0.20, T:0.37
Consensus pattern (20 bp):
GCTCTGCTTCCCTCGCTGCA
Found at i:6173823 original size:39 final size:39
Alignment explanation
Indices: 6173698--6173824 Score: 127
Period size: 39 Copynumber: 3.2 Consensus size: 39
6173688 CTAAAATAGC
*
6173698 AGATCTGCTTTCTTTGATCTACTTCACGCCATACTGAAGA-T
1 AGATCTGCTTTCTTTGA-CTACTTCA--CCATACTGAAGACA
* *
6173739 AGATCTGC-TTCTTCGACTACTTCACGCTAATATATG-AGACA
1 AGATCTGCTTTCTTTGACTACTTCAC-C--ATA-CTGAAGACA
6173780 AGATCTGCTTTCTTTGAGCTACTTC-CCATACTGAAGACA
1 AGATCTGCTTTCTTTGA-CTACTTCACCATACTGAAGACA
6173819 AGATCT
1 AGATCT
6173825 ACTATTCAGC
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
37 1 0.01
38 3 0.04
39 22 0.30
40 13 0.18
41 19 0.26
42 8 0.11
43 7 0.10
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (39 bp):
AGATCTGCTTTCTTTGACTACTTCACCATACTGAAGACA
Found at i:6174116 original size:173 final size:176
Alignment explanation
Indices: 6173904--6174480 Score: 873
Period size: 173 Copynumber: 3.3 Consensus size: 176
6173894 GGTCATGAAT
* * ** * *
6173904 TGCTATTTTCAACCTACTCCACTATGACCTAGAGAGGCAAGGTTGGTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
* *
6173969 TGTCGGTATAGGAAGGCGAGATCTTCTATC-T-AACCTGCTCCACTACAACCTAGGGAGGCAAGG
66 TGTCGGTACAGGAAGGCAAGATCTTCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGG
** *
6174032 CTGGTATCTTCGATCTGCTTCACTGTC-AAACAAGAAGGCAAGATC
131 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * * * *
6174077 TGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGTTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
** * *
6174142 CATCGGTACAGGAAGGCAAGATCTGT-TATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAG
66 TGTCGGTACAGGAAGGCAAGATCT-TCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAG
*
6174206 GCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAGGGCAAGATC
130 GCTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
* * *
6174253 TTCTATCTTCAACCT-CTCCACTACAACCTAGGGAGGCAAGGCT-GTATCTTCGATTTGCTTTAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
6174316 TGTCGGTACAGGAAGGCAAGATCTTCTATCTTCAACCTGCTCCACTACAACCTAGGGA-GCAAGG
66 TGTCGGTACAGGAAGGCAAGATCTTCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGG
6174380 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
131 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
6174426 TGCTATC-TCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGAT
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGAT
6174481 NNNNNNNNNN
Statistics
Matches: 364, Mismatches: 33, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
172 7 0.02
173 166 0.46
174 80 0.22
175 83 0.23
176 28 0.08
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (176 bp):
TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
TGTCGGTACAGGAAGGCAAGATCTTCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGG
CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATC
Found at i:6174117 original size:87 final size:88
Alignment explanation
Indices: 6173904--6174480 Score: 862
Period size: 87 Copynumber: 6.6 Consensus size: 88
6173894 GGTCATGAAT
* * ** * *
6173904 TGCTATTTTCAACCTACTCCACTATGACCTAGAGAGGCAAGGTTGGTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
* *
6173969 TGTCGGTATAGGAAGGCGAGATC
66 TGTCGGTACAGGAAGGCAAGATC
*
6173992 TTCTATC-T-AACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
** *
6174055 TGTC-AAACAAGAAGGCAAGATC
66 TGTCGGTACAGGAAGGCAAGATC
* * * * *
6174077 TGCTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGTTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
**
6174142 CATCGGTACAGGAAGGCAAGATC
66 TGTCGGTACAGGAAGGCAAGATC
* * *
6174165 TGTTATCTTCAACCTGCTCCACTACGACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
*
6174230 TGTCGGTACAGGAGGGCAAGATC
66 TGTCGGTACAGGAAGGCAAGATC
* * *
6174253 TTCTATCTTCAACCT-CTCCACTACAACCTAGGGAGGCAAGGCT-GTATCTTCGATTTGCTTTAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
6174316 TGTCGGTACAGGAAGGCAAGATC
66 TGTCGGTACAGGAAGGCAAGATC
*
6174339 TTCTATCTTCAACCTGCTCCACTACAACCTAGGGA-GCAAGGCTGGTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
6174403 TGTCGGTACAGGAAGGCAAGATC
66 TGTCGGTACAGGAAGGCAAGATC
6174426 TGCTATC-TCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGAT
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGAT
6174481 NNNNNNNNNN
Statistics
Matches: 443, Mismatches: 40, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
85 19 0.04
86 145 0.33
87 165 0.37
88 114 0.26
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (88 bp):
TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
TGTCGGTACAGGAAGGCAAGATC
Found at i:6186403 original size:48 final size:48
Alignment explanation
Indices: 6186313--6186404 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 48
6186303 AAGGAGAAGG
* * * * **
6186313 GACCAAGGTGAAAACCCGCAAATGGCGTTTTGATTCTTAAAAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAAA
* *
6186361 GACCAAGGTGAAAACTCACAAAGGGCGCTTTGGGTCCAAAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAA
6186405 TAATAATAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 36 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.17
Consensus pattern (48 bp):
GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAAAAAA
Found at i:6187777 original size:45 final size:45
Alignment explanation
Indices: 6187696--6188096 Score: 527
Period size: 45 Copynumber: 9.0 Consensus size: 45
6187686 GTCTGAAAAG
*
6187696 AGCAGATCTTGTCTTCCTGTA-TGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * * *
6187740 AGCAAATCTTATCTTCTTGTATTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
6187785 AACAAATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * *
6187830 AGTAGATCTTGTCTTCCTATATT-GTAGAGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
*
6187874 AGCAGATCTTGTCTTCCTGTATCGGCAGCGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * *
6187919 AGCAGATATTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * * * * *
6187964 AGCAGATCTCGTCTTCCTATATTGGTAGTGAAGTATATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* *
6188009 AACAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
* * *
6188054 AACAGATCTTGTCTTCCTGTATTGGCAGCAAAGTATATCAAAG
1 AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAG
6188097 CGAAGCAGGT
Statistics
Matches: 315, Mismatches: 40, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
44 57 0.18
45 258 0.82
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
Found at i:6189251 original size:4 final size:4
Alignment explanation
Indices: 6189237--6189281 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
6189227 TTCGATTTTG
* *
6189237 TTTA CTTA TTTA TTTA TTTA TTT- TTGA TTT- TTTA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
6189282 CTTAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
3 8 0.24
4 26 0.76
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:6189268 original size:7 final size:7
Alignment explanation
Indices: 6189245--6189280 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
6189235 TGTTTACTTA
6189245 TTTATTT
1 TTTATTT
6189252 ATTTATTT
1 -TTTATTT
*
6189260 TTGATTT
1 TTTATTT
6189267 TTTATTT
1 TTTATTT
6189274 TTTATTT
1 TTTATTT
6189281 ACTTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTATTT
Found at i:6189939 original size:12 final size:12
Alignment explanation
Indices: 6189918--6189961 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
6189908 AATATAGTAT
*
6189918 TTATTTTTCTTA
1 TTATTATTCTTA
*
6189930 TTCTTATTCTTA
1 TTATTATTCTTA
*
6189942 TTATTATTATTA
1 TTATTATTCTTA
6189954 TTATTATT
1 TTATTATT
6189962 ATTTCCATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTATTCTTA
Found at i:6189947 original size:3 final size:3
Alignment explanation
Indices: 6189927--6189964 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
6189917 TTTATTTTTC
* *
6189927 TTA TTC TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6189965 TCCATGTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6190953 original size:7 final size:7
Alignment explanation
Indices: 6190915--6190945 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
6190905 AATAAATATA
*
6190915 TTTATTT
1 TTTAATT
6190922 TTTAATT
1 TTTAATT
6190929 TTTAATT
1 TTTAATT
6190936 TTTAATT
1 TTTAATT
6190943 TTT
1 TTT
6190946 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTAATT
Found at i:6190985 original size:38 final size:39
Alignment explanation
Indices: 6190934--6191220 Score: 331
Period size: 39 Copynumber: 7.7 Consensus size: 39
6190924 TAATTTTTAA
*
6190934 TTTTTAATTTTTTTAATTTTAAAATATTTTTTACATACT
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTTAAATACT
*
6190973 TTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATA-T
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTTAAATACT
*
6191011 TTTTTAATTTTTTTTAATTTTAAAATATTTTTT-AAT-TT
1 TTTTTAA-TTTTTTTAATTTTAAAATATTTTTTAAATACT
6191049 TTTTTAATTTTTTTAATTTTAAAATA-TTTTTAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTTAAATAC-T
*
6191088 TTTTTAA-ATTTTTAATTTTAAAATATTTTTT-AA-A-T
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTTAAATACT
6191123 TTTTTAA------T-A--TTAAAATA-TTTTTAAATACTT
1 TTTTTAATTTTTTTAATTTTAAAATATTTTTTAAATAC-T
*
6191153 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTT-AATTTTTTTAATTTTAAAATATTTTTTAAATAC-T
**
6191194 TTTTTAATTTTTAAAATTTTTAAAATA
1 TTTTTAATTTTTTTAA-TTTTAAAATA
6191221 AAAATGGGCC
Statistics
Matches: 218, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
26 5 0.02
27 10 0.05
28 1 0.00
29 1 0.00
30 7 0.03
31 2 0.01
35 8 0.04
36 5 0.02
37 24 0.11
38 39 0.18
39 72 0.33
40 17 0.08
41 27 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTAATTTTTTTAATTTTAAAATATTTTTTAAATACT
Found at i:6191143 original size:26 final size:27
Alignment explanation
Indices: 6191087--6191148 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 27
6191077 TTTAAATACT
*
6191087 TTTTTTAAA-TTTTTAATTTTAAAATA
1 TTTTTTAAATTTTTTAATATTAAAATA
6191113 TTTTTTAAATTTTTTAATATTAAAATA
1 TTTTTTAAATTTTTTAATATTAAAATA
6191140 -TTTTTAAAT
1 TTTTTTAAAT
6191149 ACTTTTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 18 0.53
27 16 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTTTAAATTTTTTAATATTAAAATA
Found at i:6191147 original size:65 final size:66
Alignment explanation
Indices: 6191048--6191189 Score: 241
Period size: 65 Copynumber: 2.2 Consensus size: 66
6191038 TTTTTTAATT
* *
6191048 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAATACTTTTTTTAAA-TTTTTAATTTTAAAAT
1 TTTTTTAAATTTTTTAATATTAAAATATTTTTAAATACTTTTTTTAAATTTTTTAATTTTAAAAT
6191112 A
66 A
6191113 TTTTTTAAATTTTTTAATATTAAAATATTTTTAAATACTTTTTTTAAATTTTTTTAATTTTAAAA
1 TTTTTTAAATTTTTTAATATTAAAATATTTTTAAATACTTTTTTTAAA-TTTTTTAATTTTAAAA
6191178 TA
65 TA
*
6191180 TTTTTAAAAT
1 TTTTTTAAAT
6191190 ACTTTTTTTA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
65 46 0.64
67 26 0.36
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (66 bp):
TTTTTTAAATTTTTTAATATTAAAATATTTTTAAATACTTTTTTTAAATTTTTTAATTTTAAAAT
A
Found at i:6191212 original size:40 final size:39
Alignment explanation
Indices: 6191103--6191220 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 39
6191093 AAATTTTTAA
* *
6191103 TTTTAAAATA-TTTTTTAAATTTTTTAATATTAAAATAT
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
6191141 TTTT-AAATACTTTTTTTAAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTT-AA-TTTTTTAATTTTAAAATAT
*
6191181 TTTTAAAATACTTTTTTTAATTTTTAAAATTTTTAAAATA
1 TTTTAAAATACTTTTTTTAATTTTT-TAA-TTTTAAAATA
6191221 AAAATGGGCC
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
37 5 0.07
38 10 0.14
39 7 0.10
40 26 0.37
41 23 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (39 bp):
TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
Found at i:6191213 original size:8 final size:9
Alignment explanation
Indices: 6190987--6191219 Score: 67
Period size: 9 Copynumber: 24.3 Consensus size: 9
6190977 TAATTTTTTT
*
6190987 AATTTTAAA
1 AATTTTTAA
6190996 ATATTTTTAAA
1 A-ATTTTT-AA
*
6191007 ATATTTTTTA
1 A-ATTTTTAA
* **
6191017 ATTTTTTTT
1 AATTTTTAA
*
6191026 AATTTTAAA
1 AATTTTTAA
*
6191035 ATATTTTTTA
1 A-ATTTTTAA
* **
6191045 ATTTTTTTT
1 AATTTTTAA
**
6191054 AATTTTTTT
1 AATTTTTAA
*
6191063 AATTTTAAA
1 AATTTTTAA
6191072 ATATTTTTAA
1 A-ATTTTTAA
*
6191082 ATACTTTTTTTA
1 A-A--TTTTTAA
6191094 AATTTTT--
1 AATTTTTAA
*
6191101 AATTTTAAA
1 AATTTTTAA
*
6191110 ATATTTTTTA
1 A-ATTTTTAA
*
6191120 AATTTTT-T
1 AATTTTTAA
* *
6191128 AATATTAAA
1 AATTTTTAA
6191137 ATATTTTTAA
1 A-ATTTTTAA
*
6191147 ATACTTTTTTTA
1 A-A--TTTTTAA
**
6191159 AATTTTTTT
1 AATTTTTAA
*
6191168 AATTTTAAA
1 AATTTTTAA
6191177 ATATTTTTAAA
1 A-ATTTTT-AA
**
6191188 ATACTTTTTTT
1 A-A-TTTTTAA
6191199 AATTTTTAA
1 AATTTTTAA
6191208 AATTTTTAA
1 AATTTTTAA
6191217 AAT
1 AAT
6191220 AAAAATGGGC
Statistics
Matches: 171, Mismatches: 37, Indels: 32
0.71 0.15 0.13
Matches are distributed among these distances:
7 6 0.04
8 5 0.03
9 77 0.45
10 46 0.27
11 18 0.11
12 19 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (9 bp):
AATTTTTAA
Found at i:6191213 original size:30 final size:31
Alignment explanation
Indices: 6191161--6191220 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
6191151 TTTTTTTAAA
6191161 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
*
6191192 TTTTTTTAATTTTTAAA-ATTTTTAAAATA
1 TTTTTTTAATTTTAAAATATTTTTAAAATA
6191221 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:6197057 original size:15 final size:15
Alignment explanation
Indices: 6196990--6197057 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
6196980 TTCCTTTTCT
*
6196990 AATACATTAAT-TAAT
1 AATA-ATTAATATAAA
*
6197005 AATAAAT-ATATTAAA
1 AATAATTAATA-TAAA
**
6197020 AATAATTAA-ATTTA
1 AATAATTAATATAAA
6197034 AATATATTAATATAAA
1 AATA-ATTAATATAAA
6197050 AATAATTA
1 AATAATTA
6197058 GAAAATGTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 23 0.56
16 8 0.20
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATTAATATAAA
Found at i:6216698 original size:21 final size:22
Alignment explanation
Indices: 6216660--6216709 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
6216650 AAATTTAAAT
6216660 GTTTAAAATTATAATATTT-TAG
1 GTTT-AAATTATAATATTTGTAG
* *
6216682 GTTTAAATTTTATTATTTGTAG
1 GTTTAAATTATAATATTTGTAG
6216704 GATTTA
1 G-TTTA
6216710 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 8 0.33
23 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (22 bp):
GTTTAAATTATAATATTTGTAG
Found at i:6217005 original size:24 final size:22
Alignment explanation
Indices: 6216978--6217021 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
6216968 TCCATCAAAT
6216978 ATTTAAATAATATATAAAAATTTG
1 ATTTAAAT-ATATA-AAAAATTTG
6217002 ATTTAAATATATAAAAAATT
1 ATTTAAATATATAAAAAATT
6217022 CATAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTTAAATATATAAAAAATTTG
Found at i:6217030 original size:21 final size:21
Alignment explanation
Indices: 6216981--6217030 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6216971 ATCAAATATT
* *
6216981 TAAATAATATATAAAAATTTGA
1 TAAA-AATATATAAAAAATTCA
**
6217003 TTTAAATATATAAAAAATTCA
1 TAAAAATATATAAAAAATTCA
6217024 TAAAAAT
1 TAAAAAT
6217031 CAATAATGTG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATATATAAAAAATTCA
Found at i:6218868 original size:20 final size:21
Alignment explanation
Indices: 6218845--6218883 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6218835 TCTATATTTT
6218845 AATTATT-ATTAAAATATAAA
1 AATTATTAATTAAAATATAAA
*
6218865 AATTATTAATTTAAATATA
1 AATTATTAATTAAAATATA
6218884 TAACTTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTATTAATTAAAATATAAA
Found at i:6223516 original size:20 final size:20
Alignment explanation
Indices: 6223477--6223516 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6223467 GAAAATTTTC
**
6223477 AGTTTTGGGTTTTCTTTTGT
1 AGTTTTGGGTTTTCGGTTGT
*
6223497 AGTTTTGGGTTTTGGGTTGT
1 AGTTTTGGGTTTTCGGTTGT
6223517 TAATGGGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.03, G:0.33, T:0.60
Consensus pattern (20 bp):
AGTTTTGGGTTTTCGGTTGT
Found at i:6232784 original size:37 final size:37
Alignment explanation
Indices: 6232720--6232829 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
6232710 TACGTATGAT
*
6232720 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
6232756 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6232793 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6232830 TAAAGCTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 10 0.14
37 60 0.86
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:6232872 original size:52 final size:52
Alignment explanation
Indices: 6232793--6233107 Score: 402
Period size: 52 Copynumber: 6.2 Consensus size: 52
6232783 TAAGTGTAGC
* * **
6232793 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
6232846 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
6232898 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
6232950 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
6232996 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
6233042 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
6233094 CACTTTATCACTTG
1 CACTTT-TCACTTG
6233108 ATCAGAAGTA
Statistics
Matches: 234, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 83 0.35
47 2 0.01
48 2 0.01
52 132 0.56
53 15 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:6232903 original size:98 final size:98
Alignment explanation
Indices: 6232793--6233113 Score: 438
Period size: 98 Copynumber: 3.3 Consensus size: 98
6232783 TAAGTGTAGC
* * *
6232793 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
6232858 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6232891 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
*
6232953 T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * * *
6232989 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
** *
6233054 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6233087 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
6233114 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.20
96 1 0.01
98 116 0.59
101 1 0.01
104 40 0.20
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6245312 original size:5 final size:5
Alignment explanation
Indices: 6245302--6245327 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6245292 TTTACTAAGA
6245302 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
6245328 TAATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:6249647 original size:31 final size:31
Alignment explanation
Indices: 6249612--6249688 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
6249602 CAAACGATAT
* *
6249612 AAAAATTATTAGAAATTC-TAAAATATTGTAA
1 AAAAATTATTA-AAAATCATAAAAGATTGTAA
*
6249643 AAAAATTATTAAAAATCATCAAAGATTGTAA
1 AAAAATTATTAAAAATCATAAAAGATTGTAA
*
6249674 AAGAATTATTAAAAA
1 AAAAATTATTAAAAA
6249689 ATTTAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 5 0.12
31 36 0.88
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (31 bp):
AAAAATTATTAAAAATCATAAAAGATTGTAA
Found at i:6250442 original size:16 final size:17
Alignment explanation
Indices: 6250402--6250459 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
6250392 TATTTTTTCC
**
6250402 ATTTTTAATAATTTAAAT
1 ATTTTT-ATAATTTGTAT
*
6250420 AATTTTTGTAATTT-TAT
1 -ATTTTTATAATTTGTAT
6250437 ATTTTTATAATTTGGTAT
1 ATTTTTATAATTT-GTAT
6250455 ATTTT
1 ATTTT
6250460 AGTGTGTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 12 0.35
17 2 0.06
18 14 0.41
19 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
ATTTTTATAATTTGTAT
Found at i:6250639 original size:32 final size:31
Alignment explanation
Indices: 6250579--6250650 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
6250569 TATTTGTTGT
* * * *
6250579 TCAAAATTTTTGAAAATTCTTATAAAACCTC
1 TCAAAATTTTTAAAAAATATTATAAAACCCC
* *
6250610 TTAAAATTTTTAAAAAATATTAATTAAACCCC
1 TCAAAATTTTTAAAAAATATT-ATAAAACCCC
6250642 TCAAAATTT
1 TCAAAATTT
6250651 AGGGATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (31 bp):
TCAAAATTTTTAAAAAATATTATAAAACCCC
Found at i:6253009 original size:192 final size:192
Alignment explanation
Indices: 6252682--6253072 Score: 764
Period size: 192 Copynumber: 2.0 Consensus size: 192
6252672 TTCTTCAACT
6252682 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
1 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
*
6252747 TAAACATATGTATAGTTACTTTGTGGGACAATTTGGATTTCATATTTTAAGAAAAATGTAATGAT
66 TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
*
6252812 GCTTAAGCTGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
131 GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
6252874 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
1 AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
6252939 TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
66 TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
6253004 GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
131 GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
6253066 AATCTAA
1 AATCTAA
6253073 CATTTGATGG
Statistics
Matches: 197, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 197 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (192 bp):
AATCTAATTATTAGTTTGGATTTGGATTTAACGTAAAGTGTATTTAAAACAAGTAGATGGAATTT
TAAACATATGTATAGTTACTTTGTGGGACAAATTGGATTTCATATTTTAAGAAAAATGTAATGAT
GCTTAAGCGGTTTATGTAATAGATACACAATATTTAAAATTTAATCCAATGCTGAGAAATTC
Found at i:6265690 original size:60 final size:59
Alignment explanation
Indices: 6265597--6265783 Score: 288
Period size: 60 Copynumber: 3.2 Consensus size: 59
6265587 ATGAATACAG
* *
6265597 ATTCATCAGAAAGTTTTGGTGGAGCCTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
1 ATTCATCAG-AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
* * *
6265657 ATTCATCAGAAGGTTTTAATGGAGACTTCATCGGACTCTGTTCTTCCCTTGCTTCATGAA
1 ATTCATCAGAA-GTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
*
6265717 ATTCATC--AAGTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAA
1 ATTCATCAGAAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
6265774 ATTCATCAGA
1 ATTCATCAGA
6265784 GCTGGTACTC
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
57 51 0.44
58 2 0.02
59 3 0.03
60 59 0.51
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (59 bp):
ATTCATCAGAAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAA
Found at i:6265757 original size:57 final size:57
Alignment explanation
Indices: 6265607--6265781 Score: 269
Period size: 57 Copynumber: 3.0 Consensus size: 57
6265597 ATTCATCAGA
* *
6265607 AAGTTTTGGTGGAGCCTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
1 AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
* * *
6265664 AGAAGGTTTTAATGGAGACTTCATCGGACTCTGTTCTTCCCTTGCTTCATGAAATTCATC
1 --AA-GTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
*
6265724 AAGTTTTAGTGGAGACTTCATTGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
1 AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
6265781 A
1 A
6265782 GAGCTGGTAC
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 52 0.49
58 2 0.02
59 2 0.02
60 50 0.47
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (57 bp):
AAGTTTTAGTGGAGACTTCATCGGACTCTGTTCTTCTCTTGCTTCTTGAAATTCATC
Found at i:6280671 original size:23 final size:22
Alignment explanation
Indices: 6280628--6280671 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
6280618 TTCTAAGTCG
6280628 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
6280651 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
6280672 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:6280780 original size:45 final size:45
Alignment explanation
Indices: 6280716--6280809 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
6280706 AATAGATACT
** *
6280716 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
6280761 CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTC
6280806 CGGT
1 CGGT
6280810 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (45 bp):
CGGTGGAAACAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:6280873 original size:51 final size:50
Alignment explanation
Indices: 6280806--6281001 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
6280796 CAATGATGTT
* *
6280806 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATC
* * * * * *
6280857 CGATACACGTAGTAGCCTACACATAGTACTACACAAGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATC
* * * * * *
6280908 TGGTACGCATAATAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TC
*
6280958 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAT
6281002 CACTTTCACT
Statistics
Matches: 116, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 73 0.63
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCATC
Found at i:6284323 original size:17 final size:18
Alignment explanation
Indices: 6284297--6284334 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
6284287 CAAAAATTAA
6284297 TTATAAATTTTGA-ATTT
1 TTATAAATTTTGAGATTT
* *
6284314 TTATATATTTTTAGATTT
1 TTATAAATTTTGAGATTT
6284332 TTA
1 TTA
6284335 AAAAATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
TTATAAATTTTGAGATTT
Found at i:6284544 original size:26 final size:26
Alignment explanation
Indices: 6284508--6284560 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
6284498 ATATTCTTAG
6284508 ATTTTTTAAAATATTTA-AATATTTTT
1 ATTTTTTAAAATATTTACAA-ATTTTT
*
6284534 ATTTTTTAAAATTTTTACAAATTTTT
1 ATTTTTTAAAATATTTACAAATTTTT
6284560 A
1 A
6284561 ATAATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTTTTAAAATATTTACAAATTTTT
Found at i:6284560 original size:10 final size:9
Alignment explanation
Indices: 6284471--6284591 Score: 84
Period size: 10 Copynumber: 13.0 Consensus size: 9
6284461 TATTTAATTT
6284471 AATTTTTAA
1 AATTTTTAA
*
6284480 AATGTTTAA
1 AATTTTTAA
6284489 ACATTTTTAA
1 A-ATTTTTAA
* * *
6284499 TATTCTTAG
1 AATTTTTAA
*
6284508 ATTTTTTAA
1 AATTTTTAA
*
6284517 AATATTTAA
1 AATTTTTAA
6284526 ATATTTTT--
1 A-ATTTTTAA
*
6284534 ATTTTTTAA
1 AATTTTTAA
6284543 AATTTTTACA
1 AATTTTTA-A
6284553 AATTTTTAA
1 AATTTTTAA
*
6284562 TAATTTATAA
1 -AATTTTTAA
* *
6284572 GTATGTTTAA
1 -AATTTTTAA
6284582 AAGTTTTTAA
1 AA-TTTTTAA
6284592 GCCACATGAA
Statistics
Matches: 84, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
7 5 0.06
8 1 0.01
9 37 0.44
10 41 0.49
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (9 bp):
AATTTTTAA
Found at i:6286012 original size:18 final size:19
Alignment explanation
Indices: 6285979--6286019 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
6285969 ATGTCTCTAA
6285979 AATAATAACAAGATTA-AC
1 AATAATAACAAGATTATAC
6285997 AATAA-AACAAGTATTATAC
1 AATAATAACAAG-ATTATAC
6286016 AATA
1 AATA
6286020 TCCAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.61, C:0.10, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAATAACAAGATTATAC
Found at i:6292752 original size:18 final size:20
Alignment explanation
Indices: 6292731--6292770 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
6292721 CTAAATAAAA
*
6292731 ATAAAAAT-TTATAAAT-TT
1 ATAAAAATATTAGAAATATT
6292749 ATAAAAATATTAGAAATATT
1 ATAAAAATATTAGAAATATT
6292769 AT
1 AT
6292771 TTGACACTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
ATAAAAATATTAGAAATATT
Done.