Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 223 of 253
Found at i:73125777 original size:15 final size:15
Alignment explanation
Indices: 73125728--73125807 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
73125718 AGACTTATAT
*
73125728 TTATTATTATTATGT-
1 TTATTATTATT-TCTA
73125743 TTATTATTATTT-TGA
1 TTATTATTATTTCT-A
*
73125758 GTATTATTATTTCTA
1 TTATTATTATTTCTA
* * *
73125773 TTATTTTTGTTACTA
1 TTATTATTATTTCTA
* *
73125788 TTGTT-TTATTTGTA
1 TTATTATTATTTCTA
73125802 TTATTA
1 TTATTA
73125808 CTGTCATTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
13 1 0.02
14 11 0.22
15 38 0.75
16 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (15 bp):
TTATTATTATTTCTA
Found at i:73125829 original size:3 final size:3
Alignment explanation
Indices: 73125823--73125852 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
73125813 ATTATTATTA
73125823 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
73125853 CAACTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:73125884 original size:24 final size:24
Alignment explanation
Indices: 73125857--73125910 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
73125847 TTGTTGCAAC
*
73125857 TATTATTATATTTGTTA-TATTTGT
1 TATTATTATATTTGTTACTA-TTAT
* *
73125881 TATTATTTTTTTTGTTACTATTAT
1 TATTATTATATTTGTTACTATTAT
73125905 TATTAT
1 TATTAT
73125911 CATACTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.69
Consensus pattern (24 bp):
TATTATTATATTTGTTACTATTAT
Found at i:73128086 original size:19 final size:19
Alignment explanation
Indices: 73128062--73128106 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
73128052 CGTCTCTTTT
*
73128062 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
73128081 TGCATTGCATTTCATCATA
1 TGCATTGCATTTCATCATA
73128100 TGCATTG
1 TGCATTG
73128107 AATGTCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:73133017 original size:44 final size:44
Alignment explanation
Indices: 73132573--73133155 Score: 204
Period size: 44 Copynumber: 13.2 Consensus size: 44
73132563 AAAATTGCAG
* * **
73132573 ATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* * * ** *
73132617 ATCTTATCTTCCCGAGGTAGTAG-GGAAGCAGATTTAA-TC--CATTA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGGCA--A
** * * ** * *
73132661 GCCTTATCTCCCTAAGCAGTAGTGGAGCAG-GCTGAAGAATGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGACGGCAA
* *
73132705 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* * ** ** *
73132749 ATCTTATCTTCCCGAAGTAGTAG-GGAAGCAGATTTAA-ACCACTA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGGCAA
** * * * * *** *
73132793 GCCTTATCTCCCTAAGCAGTAGTGGAG-TGAGCTGATGATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGACGGCAA
*
73132837 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* * * * * ** * * *
73132881 ATCTTATCTTCTCGAGGTATTAG-GGAAGCAGATTTAAGTC-ACTA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGGCAA
** ** * * ** *
73132925 GCCTTATCTCTTTAAGCAGTAGTGGAGC-GAGCTAATGATTGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGACGGCAA
*
73132969 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
* * * ** * ** *
73133013 ATCTTATCTTCCCGAGGTAGTAG-GGAAGCAGAT-TTAGGCCACTA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGGCAA
** * * ** * * * *** *
73133057 GCCTCATCTCCTTAAGTTGCAGTGGAGCAAACTGAAA-ATTACAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCAAAGACGGCAA
* *
73133101 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
73133145 ATCTTATCTCC
1 ATCTTATCTCC
73133156 ATGTAGCGGA
Statistics
Matches: 374, Mismatches: 137, Indels: 56
0.66 0.24 0.10
Matches are distributed among these distances:
42 4 0.01
43 64 0.17
44 220 0.59
45 85 0.23
46 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
Found at i:73133196 original size:88 final size:87
Alignment explanation
Indices: 73133104--73133380 Score: 204
Period size: 88 Copynumber: 3.1 Consensus size: 87
73133094 ATTACAGATC
*
73133104 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCATGTAGCGGAAAT
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-GGCGAATCTTATCTCCATGTAGCGGCAAT
73133169 GGAGCAGATTTAAGCCACCAGCT
65 GGAGCAGATTTAAGCCACCAGCT
* ** * ** ** * **
73133192 TTATCTCCCT--GGAGTTACAGTAAAGCAGGTTC-AAGATAC-AAGTCTTATCTCCCCGAAGTTG
1 TTATCTCCCTAAGCAG-T--AGTGGAGCA-GATCGAAGAGGCGAA-TCTTATCTCCATGTAGCGG
* * * ****** *
73133253 CAATAGAGCAGACTGAAAATTGTAGAT
61 CAATGGAGCAGATTTAAGCCACCAGCT
* *
73133280 CTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCGAATCTTATCTCCATGTAGCGGCAA
1 -TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-GGCGAATCTTATCTCCATGTAGCGGCAA
*
73133345 TGGAGCAGATTTAAGCCATCAGCCT
64 TGGAGCAGATTTAAGCCACCAG-CT
*
73133370 TT-TCCCCCTAA
1 TTATCTCCCTAA
73133381 AGTTGCAGTA
Statistics
Matches: 131, Mismatches: 46, Indels: 24
0.65 0.23 0.12
Matches are distributed among these distances:
86 3 0.02
87 5 0.04
88 59 0.45
89 54 0.41
90 7 0.05
91 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (87 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAGGCGAATCTTATCTCCATGTAGCGGCAATG
GAGCAGATTTAAGCCACCAGCT
Found at i:73133199 original size:132 final size:132
Alignment explanation
Indices: 73132561--73133153 Score: 859
Period size: 132 Copynumber: 4.5 Consensus size: 132
73132551 GTAACACTAG
* * *
73132561 TGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGTGAATCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * *
73132626 TCCCGAGGTAGTAGGGAAGCAGATTTAATCCATTAGCCTTATCTCCCTAAGCAGTAGTGGAGCAG
66 TCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCAGTAGTGGAGCAA
73132691 GC
131 GC
73132693 TGAAGAATGT--AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT
1 TGAA-AAT-TACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTAT
* * *
73132756 CTTCCCGAAGTAGTAGGGAAGCAGATTTAAACCACTAGCCTTATCTCCCTAAGCAGTAGTGGAGT
64 CTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCAGTAGTGGAGC
*
73132821 GAGC
129 AAGC
** *
73132825 TGATGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* * * ** *
73132890 TCTCGAGGTATTAGGGAAGCAGATTTAAGTCACTAGCCTTATCTCTTTAAGCAGTAGTGGAGCGA
66 TCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCAGTAGTGGAGCAA
73132955 GC
131 GC
* * * * *
73132957 T-AATGATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGACGGCAAATCTTATC
1 TGAA-AATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATC
* * * ** *
73133021 TTCCCGAGGTAGTAGGGAAGCAGATTTAGGCCACTAGCCTCATCTCCTTAAGTTGCAGTGGAGCA
65 TTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCAGTAGTGGAGCA
*
73133086 AAC
130 AGC
73133089 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
73133154 CCATGTAGCG
Statistics
Matches: 416, Mismatches: 39, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
130 1 0.00
131 3 0.01
132 406 0.98
133 5 0.01
134 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
TGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
TCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTAAGCAGTAGTGGAGCAA
GC
Found at i:73133284 original size:177 final size:177
Alignment explanation
Indices: 73133070--73133409 Score: 520
Period size: 177 Copynumber: 1.9 Consensus size: 177
73133060 TCATCTCCTT
* *
73133070 AAGTTGCAGTGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
1 AAGTTGCAATAGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
*
73133135 AAGACGGCGAATCTTATCTCCATGTAGCGGAAATGGAGCAGATTTAAGCCACCAG-CTTTATCTC
66 AAGACGGCGAATCTTATCTCCATGTAGCGGAAATGGAGCAGATTTAAGCCACCAGCCTTT-TCCC
**
73133199 CCTGGAGTTACAGTAAAGCAGGTTCAAGATACAAGTCTTATCTCCCCG
130 CCTAAAGTTACAGTAAAGCAGGTTCAAGATACAAGTCTTATCTCCCCG
* ** * *
73133247 AAGTTGCAATAGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTG
1 AAGTTGCAATAGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* * *
73133312 AAGATGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCATCAGCCTTTTCCCC
66 AAGACGGCGAATCTTATCTCCATGTAGCGGAAATGGAGCAGATTTAAGCCACCAGCCTTTTCCCC
* * *
73133377 CTAAAGTTGCAGTAGAGCAGGTTCAAGCTACAA
131 CTAAAGTTACAGTAAAGCAGGTTCAAGATACAA
73133410 ATCTGTTCTC
Statistics
Matches: 146, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
177 142 0.97
178 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (177 bp):
AAGTTGCAATAGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACGGCGAATCTTATCTCCATGTAGCGGAAATGGAGCAGATTTAAGCCACCAGCCTTTTCCCC
CTAAAGTTACAGTAAAGCAGGTTCAAGATACAAGTCTTATCTCCCCG
Found at i:73133345 original size:89 final size:89
Alignment explanation
Indices: 73133079--73133353 Score: 238
Period size: 89 Copynumber: 3.1 Consensus size: 89
73133069 TAAGTTGCAG
* * *
73133079 TGGAGCAAACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
1 TGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCG
*
73133144 AATCTTATCTCCATGTAGCGGAAA
66 AATCTTATCTCCATGTAGCGGCAA
** *** * * ** * *
73133168 TGGAGCAGA-TTTAAGCCACCAGCT-TTATCTCCCT--GGAGTTACAGTAAAGCAGGTTCAAGAT
1 TGGAGCAGACTGAAAATTA-CAGATCTTATCTCCCTAAGCAG-T--AGTGGAGCAGATTGAAGAT
* ** * **
73133229 -AC-AAGTCTTATCTCCCCGAAGTTGCAA
62 GGCGAA-TCTTATCTCCATGTAGCGGCAA
* ** *
73133256 TAGAGCAGACTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGCG
1 TGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCG
73133321 AATCTTATCTCCATGTAGCGGCAA
66 AATCTTATCTCCATGTAGCGGCAA
73133345 TGGAGCAGA
1 TGGAGCAGA
73133354 TTTAAGCCAT
Statistics
Matches: 132, Mismatches: 43, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
86 3 0.02
87 3 0.02
88 56 0.42
89 64 0.48
90 3 0.02
91 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (89 bp):
TGGAGCAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCG
AATCTTATCTCCATGTAGCGGCAA
Found at i:73134660 original size:3 final size:3
Alignment explanation
Indices: 73134652--73134751 Score: 66
Period size: 3 Copynumber: 33.7 Consensus size: 3
73134642 AGTCTTATAT
*
73134652 TTA TTA TTA TGT- TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA
* * * * * *
73134697 TTG CTA TTA CTA TTG TT- TTA TT- TGTA TTA TTA CTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
73134741 TTA TTA TTA TT
1 TTA TTA TTA TT
73134752 GTATTTGTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
2 7 0.09
3 64 0.85
4 4 0.05
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:73134695 original size:12 final size:11
Alignment explanation
Indices: 73134646--73134780 Score: 55
Period size: 12 Copynumber: 11.6 Consensus size: 11
73134636 AATTTGAGTC
73134646 TTATATTTATTA
1 TTAT-TTTATTA
73134658 TTATGTTTATTA
1 TTAT-TTTATTA
*
73134670 TTATTTTGAGTA
1 TTATTTT-ATTA
73134682 TTATTATT-TCTA
1 TTATT-TTAT-TA
*
73134694 TTATTGCTATTA
1 TTATT-TTATTA
*
73134706 CTATTGTT-TTA
1 TTATT-TTATTA
*
73134717 -T-TTGTATTA
1 TTATTTTATTA
* *
73134726 TTACTATCATTA
1 TTA-TTTTATTA
73134738 TTATTATTATTA
1 TTATT-TTATTA
* *
73134750 TTGTATTTGTTA
1 TTAT-TTTATTA
73134762 -TATTTGTTATTA
1 TTA-TT-TTATTA
73134774 TTATTTT
1 TTATTTT
73134781 TGTTACTATT
Statistics
Matches: 93, Mismatches: 17, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
8 1 0.01
9 5 0.05
10 2 0.02
11 11 0.12
12 68 0.73
13 6 0.06
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:73134698 original size:15 final size:14
Alignment explanation
Indices: 73134652--73134795 Score: 64
Period size: 15 Copynumber: 9.9 Consensus size: 14
73134642 AGTCTTATAT
73134652 TTATTATTATGTTTA
1 TTATTATTAT-TTTA
*
73134667 TTATTA-T-TTTGA
1 TTATTATTATTTTA
*
73134679 GTATTATTATTTCTA
1 TTATTATTATTT-TA
** *
73134694 TTATTGCTATTACTA
1 TTATTATTATT-TTA
*
73134709 TTGTT-TTATTTGTA
1 TTATTATTATTT-TA
73134723 TTATTACTATCATTATTA
1 TTATTA-T-T-ATT-TTA
*
73134741 TTATTATTATTGTA
1 TTATTATTATTTTA
* *
73134755 -T-TTGTTATATTTG
1 TTATTATTAT-TTTA
*
73134768 TTATTATTATTTTTG
1 TTATTATTA-TTTTA
*
73134783 TTACTATTATTTT
1 TTATTATTATTTT
73134796 TATCATACTA
Statistics
Matches: 98, Mismatches: 17, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
12 14 0.14
13 5 0.05
14 21 0.21
15 41 0.42
16 3 0.03
17 2 0.02
18 11 0.11
19 1 0.01
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (14 bp):
TTATTATTATTTTA
Found at i:73134806 original size:17 final size:15
Alignment explanation
Indices: 73134723--73134808 Score: 52
Period size: 15 Copynumber: 5.8 Consensus size: 15
73134713 TTTATTTGTA
* *
73134723 TTATTACTATCATTA
1 TTATTACTATTATTT
*
73134738 TTATTATTATTA-TT
1 TTATTACTATTATTT
* * *
73134752 GTATT--TGTTATAT
1 TTATTACTATTATTT
* *
73134765 TTGTTATTATTATTT
1 TTATTACTATTATTT
*
73134780 TTGTTACTATTATTT
1 TTATTACTATTATTT
73134795 TTATCATACTATTA
1 TTAT--TACTATTA
73134809 AATTAATTCG
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
12 4 0.07
13 4 0.07
14 5 0.09
15 33 0.61
17 8 0.15
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.63
Consensus pattern (15 bp):
TTATTACTATTATTT
Found at i:73135114 original size:27 final size:27
Alignment explanation
Indices: 73135084--73135135 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
73135074 AAAAAAATCA
*
73135084 TTTTCT-ATATTATTGATTTTCAACTTC
1 TTTTCTCACATTATT-ATTTTCAACTTC
*
73135111 TTTTCTCACATTATTATTTTGAACT
1 TTTTCTCACATTATTATTTTCAACT
73135136 CATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.23, C:0.15, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTCTCACATTATTATTTTCAACTTC
Found at i:73138882 original size:26 final size:26
Alignment explanation
Indices: 73138851--73138958 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
73138841 TGAAATTCCC
*
73138851 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
73138877 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
73138903 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
73138929 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
73138955 ATCA
1 ATCA
73138959 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:73139435 original size:31 final size:30
Alignment explanation
Indices: 73139365--73139436 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
73139355 TATAAATATG
*
73139365 AACTTTAATTTGGTGTAATTATATACCTGA
1 AACTTTAATTTGGTCTAATTATATACCTGA
* * **
73139395 AAGTCTAATTGTGGTACTAA-TATATATTTGA
1 AACTTTAATT-TGGT-CTAATTATATACCTGA
73139426 AACTTTAATTT
1 AACTTTAATTT
73139437 TGATTTAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
30 9 0.27
31 21 0.64
32 3 0.09
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (30 bp):
AACTTTAATTTGGTCTAATTATATACCTGA
Found at i:73140951 original size:10 final size:10
Alignment explanation
Indices: 73140936--73140965 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
73140926 GAAGATAAAA
73140936 TTAATTAATT
1 TTAATTAATT
73140946 TTAATTAATT
1 TTAATTAATT
73140956 TTAATTAATT
1 TTAATTAATT
73140966 GCAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTAATT
Found at i:73140975 original size:20 final size:20
Alignment explanation
Indices: 73140936--73140977 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
73140926 GAAGATAAAA
** *
73140936 TTAATTAATTTTAATTAATT
1 TTAATTAATTGCAATAAATT
73140956 TTAATTAATTGCAATAAATT
1 TTAATTAATTGCAATAAATT
73140976 TT
1 TT
73140978 CTTTACTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATTAATTGCAATAAATT
Found at i:73141815 original size:24 final size:24
Alignment explanation
Indices: 73141782--73141829 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
73141772 CTTATTTACA
73141782 TAATTATAAATA-ATATATTATTTT
1 TAATTATAAATATATA-ATTATTTT
*
73141806 TAATTTTAAATATATAATTATTTT
1 TAATTATAAATATATAATTATTTT
73141830 ATAAGTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATTATAAATATATAATTATTTT
Found at i:73141838 original size:24 final size:24
Alignment explanation
Indices: 73141788--73141838 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
73141778 TACATAATTA
*
73141788 TAAATAATATATTATTTTTAATTT
1 TAAATAATATATTATTTTTAATGT
73141812 TAAAT-ATATAATTATTTTATAA-GT
1 TAAATAATAT-ATTATTTT-TAATGT
73141836 TAA
1 TAA
73141839 CTTATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATAATATATTATTTTTAATGT
Found at i:73142408 original size:21 final size:20
Alignment explanation
Indices: 73142379--73142417 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
73142369 GCAATCACAC
73142379 AAAATATCGATACATTTTTA
1 AAAATATCGATACATTTTTA
*
73142399 AAAATTATCGATACCTTTT
1 AAAA-TATCGATACATTTT
73142418 ACCATGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATATCGATACATTTTTA
Found at i:73142417 original size:20 final size:20
Alignment explanation
Indices: 73142379--73142418 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
73142369 GCAATCACAC
*
73142379 AAAATATCGATACATTTTTA
1 AAAATATCGATACACTTTTA
73142399 AAAATTATCGATAC-CTTTTA
1 AAAA-TATCGATACACTTTTA
73142419 CCATGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (20 bp):
AAAATATCGATACACTTTTA
Found at i:73143715 original size:42 final size:42
Alignment explanation
Indices: 73143669--73143756 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
73143659 CTCAAATGCA
73143669 ATTTTGAATTTTTATATTTAAGTCCTTACTATGTAGATTTCG
1 ATTTTGAATTTTTATATTTAAGTCCTTACTATGTAGATTTCG
73143711 ATTTTGAATTTTTATATTTAAGTCCTTACTATGTAGATTTCG
1 ATTTTGAATTTTTATATTTAAGTCCTTACTATGTAGATTTCG
73143753 ATTT
1 ATTT
73143757 ATTCTACTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.53
Consensus pattern (42 bp):
ATTTTGAATTTTTATATTTAAGTCCTTACTATGTAGATTTCG
Found at i:73151280 original size:22 final size:22
Alignment explanation
Indices: 73151255--73151297 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
73151245 TATACTAAAT
* *
73151255 ATATATATTTTTATTTTTAATC
1 ATATATATATATATTTTTAATC
*
73151277 ATATTTATATATATTTTTAAT
1 ATATATATATATATTTTTAAT
73151298 TTAAATATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATATATATATATTTTTAATC
Found at i:73151694 original size:17 final size:17
Alignment explanation
Indices: 73151674--73151711 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
73151664 GATCACTATA
73151674 AATAAGTAAATAAGTAC
1 AATAAGTAAATAAGTAC
73151691 AATAAGTAAATAAGTAC
1 AATAAGTAAATAAGTAC
73151708 AATA
1 AATA
73151712 TTGTTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.24
Consensus pattern (17 bp):
AATAAGTAAATAAGTAC
Found at i:73151696 original size:9 final size:8
Alignment explanation
Indices: 73151672--73151711 Score: 62
Period size: 8 Copynumber: 4.8 Consensus size: 8
73151662 GTGATCACTA
73151672 TAAATAAG
1 TAAATAAG
73151680 TAAATAAG
1 TAAATAAG
73151688 TACAATAAG
1 TA-AATAAG
73151697 TAAATAAG
1 TAAATAAG
73151705 TACAATA
1 TA-AATA
73151712 TTGTTAAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 18 0.60
9 12 0.40
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.25
Consensus pattern (8 bp):
TAAATAAG
Found at i:73154709 original size:16 final size:16
Alignment explanation
Indices: 73154676--73154716 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
73154666 ATGTGAAGAA
73154676 TATTATTTAAAATCAT
1 TATTATTTAAAATCAT
73154692 TATT-TTTAAAAT--T
1 TATTATTTAAAATCAT
73154705 TATTA-TTAAAAT
1 TATTATTTAAAAT
73154717 AAAATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTATTTAAAATCAT
Found at i:73154736 original size:18 final size:18
Alignment explanation
Indices: 73154698--73154733 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
73154688 TCATTATTTT
*
73154698 TAAAATTTATTATTAAAA
1 TAAAATTTAATATTAAAA
73154716 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
73154734 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:73154752 original size:34 final size:29
Alignment explanation
Indices: 73154697--73154774 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
73154687 ATCATTATTT
*
73154697 TTAA-AATTTATTATTAAAATAAAATTTAAATA
1 TTAATAATTTATTATAAAAAT-AAA-TT--ATA
73154729 TTAAATAATTTATTA-AAATAATAAATTATA
1 TT-AATAATTTATTATAAA-AATAAATTATA
73154759 TTAATAATTTATTATA
1 TTAATAATTTATTATA
73154775 TGACTAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
29 12 0.29
30 6 0.15
32 4 0.10
33 7 0.17
34 12 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATAATTTATTATAAAAATAAATTATA
Found at i:73154772 original size:16 final size:16
Alignment explanation
Indices: 73154726--73154775 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
73154716 TAAAATTTAA
73154726 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
73154743 A-A--AATAATAAATT
1 ATATTAATAATTTATT
73154756 ATATTAATAATTTATT
1 ATATTAATAATTTATT
73154772 ATAT
1 ATAT
73154776 GACTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:73154783 original size:29 final size:30
Alignment explanation
Indices: 73154707--73154772 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
73154697 TTAAAATTTA
*
73154707 TTATTAAAATAA-AATTTAAATATTAAATAAT
1 TTATTAAAATAATAAATT--ATATTAAATAAT
73154738 TTATTAAAATAATAAATTATATT-AATAAT
1 TTATTAAAATAATAAATTATATTAAATAAT
73154767 TTATTA
1 TTATTA
73154773 TATGACTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 12 0.36
30 5 0.15
31 12 0.36
32 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
TTATTAAAATAATAAATTATATTAAATAAT
Found at i:73165701 original size:51 final size:51
Alignment explanation
Indices: 73165637--73165737 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
73165627 TTTTTAGATA
*
73165637 TTGACATATTAACTATTCTGGAGCTTTCAACTAATTTTGTACAACCAAATG
1 TTGACATATTAACTATTCTGAAGCTTTCAACTAATTTTGTACAACCAAATG
* * * ** **
73165688 TTGATATATTAACTCTTTTGAAGCTTTTGACTAATTTTGTATTACCAAAT
1 TTGACATATTAACTATTCTGAAGCTTTCAACTAATTTTGTACAACCAAAT
73165738 ATTGGAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (51 bp):
TTGACATATTAACTATTCTGAAGCTTTCAACTAATTTTGTACAACCAAATG
Found at i:73171831 original size:64 final size:64
Alignment explanation
Indices: 73171758--73171882 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
73171748 GAGTAAATTC
*
73171758 ATATAAAAATTGGATCATTAGGTATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAAT
1 ATATAAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAAT
* *
73171822 ATATTAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAATAAATATTC
1 ATATAAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTC
73171883 TTTGTTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (64 bp):
ATATAAAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAAT
Found at i:73175084 original size:29 final size:28
Alignment explanation
Indices: 73175051--73175137 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
73175041 TCATAAGAAC
73175051 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
73175080 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
73175104 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
73175134 ATTT
1 ATTT
73175138 CAAATCTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:73175304 original size:67 final size:66
Alignment explanation
Indices: 73175229--73175441 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
73175219 ATTATAATGT
73175229 ATTT-AATAATAATTATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATATGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
73175293 AA
65 AA
* * ** * * * * * * *
73175295 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAAT-ATGATTA-AATATTTATTATTGATATTAATA-ATCTT
73175355 AATTAAAA
61 -ATT-AAA
* * *
73175363 TATATTTAATAATAATTATGTTTAAATATGATTAAGATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATATGATTAA-ATATTTATTATTGATATTAATAATCTTAT
73175428 TAAA
63 TAAA
73175432 ATTTAAATAA
1 ATTTAAATAA
73175442 CATTAACAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.23
68 18 0.17
69 20 0.19
70 18 0.17
71 7 0.07
72 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATATGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:73175332 original size:137 final size:138
Alignment explanation
Indices: 73175185--73175450 Score: 428
Period size: 137 Copynumber: 1.9 Consensus size: 138
73175175 TAAGAATATG
* *
73175185 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* *
73175250 AATATGATTAA-ATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AATATGATTAAGA-TATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
73175314 ATTTCTGCT
130 ATTTCTGCT
****
73175323 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
*
73175387 AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
73175451 TAATCATTTA
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 112 0.95
138 6 0.05
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:73175361 original size:18 final size:17
Alignment explanation
Indices: 73175333--73175367 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
73175323 AATTATAAGA
*
73175333 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
73175350 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
73175368 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:73175483 original size:137 final size:136
Alignment explanation
Indices: 73175195--73175631 Score: 434
Period size: 156 Copynumber: 3.1 Consensus size: 136
73175185 AATTATTAAG
**** * *
73175195 AATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
* * *
73175260 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAATTTCTGCTAA
66 AATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATCT-CTAA
** * *
73175325 TTATAAG
130 CCAAAAC
73175332 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
*
73175397 AGA-TATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAAC-AATAATCAT-T
66 A-ATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAAT-ATC-TCT
*
73175459 TACCAAAAC
128 AACCAAAAC
* *
73175468 AATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATA
1 AA--TT-T--T-A-T-T-A-AA--TTA-T--A-TAT-T-TTA--ATTAAAATATATTTAATAATA
*
73175533 ATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAA
46 ATTATGTTTAAATATGATTAAATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAA
*
73175598 CAATAAC-AATAATCAT-TTACCAAAAC
111 CAATAACAAAT-ATC-TCTAACCAAAAC
73175624 AATTTTAT
1 AATTTTAT
73175632 GCTAAGGGTA
Statistics
Matches: 258, Mismatches: 18, Indels: 36
0.83 0.06 0.12
Matches are distributed among these distances:
136 10 0.04
137 108 0.42
138 4 0.02
139 1 0.00
141 1 0.00
142 1 0.00
143 1 0.00
144 1 0.00
145 1 0.00
146 2 0.01
148 3 0.01
149 2 0.01
150 1 0.00
151 2 0.01
152 3 0.01
153 2 0.01
154 4 0.02
155 1 0.00
156 110 0.43
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (136 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTA
AATTATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATCTCTAAC
CAAAAC
Found at i:73175488 original size:156 final size:156
Alignment explanation
Indices: 73175309--73175636 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
73175299 AAATAACAAT
*
73175309 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
73175374 ATAATTATGTTTAAATATGATTAAGATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
73175439 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
73175465 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
73175530 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
73175595 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
73175621 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
73175637 GGGTATTCTA
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:73175517 original size:18 final size:18
Alignment explanation
Indices: 73175489--73175537 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
73175479 AATTATAAGA
73175489 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
73175506 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
73175522 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
73175538 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:73175523 original size:16 final size:16
Alignment explanation
Indices: 73175489--73175543 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
73175479 AATTATAAGA
73175489 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
73175506 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
73175522 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
73175536 ATGTTTAA
1 AT-TTTAA
73175544 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:73175753 original size:44 final size:45
Alignment explanation
Indices: 73175688--73175778 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
73175678 ACCTCTATTC
* * *
73175688 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
73175732 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
73175777 CA
1 CA
73175779 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:73175780 original size:16 final size:16
Alignment explanation
Indices: 73175759--73175827 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
73175749 GATTAGCTAT
73175759 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
73175775 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
73175792 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
73175808 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
73175824 TACA
1 TACA
73175828 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:73175801 original size:33 final size:32
Alignment explanation
Indices: 73175759--73175827 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
73175749 GATTAGCTAT
73175759 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
73175792 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
73175824 TACA
1 TACA
73175828 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:73175984 original size:28 final size:26
Alignment explanation
Indices: 73175931--73175993 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
73175921 TTTATTTTTA
* *
73175931 TTATTTTGATATTATATAATTCTTATT
1 TTATTTTAATATTAAATAATTCTTA-T
* *
73175958 TTATTGTTAATATTAAATACTTTTTAT
1 TTATT-TTAATATTAAATAATTCTTAT
73175985 TTATTTTAA
1 TTATTTTAA
73175994 ATTTATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 4 0.13
27 11 0.35
28 16 0.52
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (26 bp):
TTATTTTAATATTAAATAATTCTTAT
Found at i:73177190 original size:15 final size:15
Alignment explanation
Indices: 73177167--73177200 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
73177157 TTCCTAGTGG
*
73177167 ATGATAATGATGATC
1 ATGACAATGATGATC
*
73177182 ATGACAATGATGATG
1 ATGACAATGATGATC
73177197 ATGA
1 ATGA
73177201 TGTTGCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (15 bp):
ATGACAATGATGATC
Found at i:73184465 original size:17 final size:18
Alignment explanation
Indices: 73184445--73184484 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
73184435 TAAATTTTTC
73184445 TTTTAAAAAAATTAT-AA
1 TTTTAAAAAAATTATAAA
**
73184462 TTTTTTAAAAATTATAAA
1 TTTTAAAAAAATTATAAA
73184480 TTTTA
1 TTTTA
73184485 GAATTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAAAAAAATTATAAA
Found at i:73184480 original size:24 final size:24
Alignment explanation
Indices: 73184453--73184500 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
73184443 TCTTTTAAAA
*
73184453 AAATTATA-ATTTTTTAAAAATTAT
1 AAATTATAGAATTTTT-AAAATTAT
*
73184477 AAATTTTAGAATTTTTAAAATTAT
1 AAATTATAGAATTTTTAAAATTAT
73184501 TTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AAATTATAGAATTTTTAAAATTAT
Found at i:73185901 original size:23 final size:23
Alignment explanation
Indices: 73185851--73185901 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
73185841 TTTTCATGTT
73185851 TTTTA-AAATTATTATATATATA
1 TTTTATAAATTATTATATATATA
*
73185873 TATTATAAATTACTGTAT-TAT-TA
1 TTTTATAAATTA-T-TATATATATA
73185896 TTTTAT
1 TTTTAT
73185902 CATTTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 4 0.17
23 13 0.54
24 4 0.17
25 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTATAAATTATTATATATATA
Found at i:73186830 original size:30 final size:27
Alignment explanation
Indices: 73186796--73186858 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
73186786 GTTCGTGAAT
*
73186796 TTTAAACAAACAAATATGAACACACATAAA
1 TTTAAACAAACAAACATGAACA-A-A-AAA
* *
73186826 TTTAAATAAACGAACATGAACAAAAAA
1 TTTAAACAAACAAACATGAACAAAAAA
73186853 TTTAAA
1 TTTAAA
73186859 ATTTTTAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 9 0.30
28 1 0.03
29 1 0.03
30 19 0.63
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (27 bp):
TTTAAACAAACAAACATGAACAAAAAA
Found at i:73188040 original size:7 final size:7
Alignment explanation
Indices: 73188028--73188060 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
73188018 GATATGCGTT
73188028 TGCAGAC
1 TGCAGAC
73188035 TGCAGAC
1 TGCAGAC
73188042 TGCAGAC
1 TGCAGAC
73188049 TGCAGAC
1 TGCAGAC
73188056 TGCAG
1 TGCAG
73188061 TGCGCAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.15
Consensus pattern (7 bp):
TGCAGAC
Found at i:73194303 original size:17 final size:17
Alignment explanation
Indices: 73194262--73194294 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
73194252 AAAAACATAT
73194262 TTAATATTAATAATAATA
1 TTAA-ATTAATAATAATA
73194280 TTAAATTAA-AATAAT
1 TTAAATTAATAATAAT
73194295 GTATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATTAATAATAATA
Found at i:73204639 original size:5 final size:5
Alignment explanation
Indices: 73204629--73204667 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
73204619 CCAATTTGTA
73204629 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
73204668 GAACACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:73206509 original size:17 final size:17
Alignment explanation
Indices: 73206480--73206515 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
73206470 TTTTTTTAGT
73206480 TAAAATAAAGTTAATGAA
1 TAAAATAAAGTTAAT-AA
73206498 TAAAAT-AAGTTAATAA
1 TAAAATAAAGTTAATAA
73206514 TA
1 TA
73206516 TGGTTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
TAAAATAAAGTTAATAA
Found at i:73209097 original size:22 final size:22
Alignment explanation
Indices: 73209069--73209110 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
73209059 TTTATATTTT
*
73209069 ATATAAAATCTATAA-AAATCAA
1 ATAT-AAATCTAAAATAAATCAA
73209091 ATATAAATCTAAAATAAATC
1 ATATAAATCTAAAATAAATC
73209111 TAGAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (22 bp):
ATATAAATCTAAAATAAATCAA
Found at i:73209219 original size:14 final size:14
Alignment explanation
Indices: 73209197--73209247 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
73209187 TCAAAGATTC
*
73209197 ATTAATTTTATATA
1 ATTATTTTTATATA
73209211 ATTATTTTTATA-A
1 ATTATTTTTATATA
*
73209224 ATATATTTTTACATA
1 AT-TATTTTTATATA
*
73209239 ATTCTTTTT
1 ATTATTTTT
73209248 TCAATCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 3 0.09
14 26 0.81
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTTTTATATA
Found at i:73216280 original size:18 final size:18
Alignment explanation
Indices: 73216257--73216294 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
73216247 TTACCATGAG
*
73216257 ATAAAATAAGATCATCTT
1 ATAAAATAAGATCATATT
*
73216275 ATAAAATAAGTTCATATT
1 ATAAAATAAGATCATATT
73216293 AT
1 AT
73216295 GAGAATGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (18 bp):
ATAAAATAAGATCATATT
Found at i:73223125 original size:52 final size:52
Alignment explanation
Indices: 73223058--73223162 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
73223048 ATGTTTTAAG
*
73223058 TGTATGTTTTGATTGTTTTGGTCATGGGATGGTTTGTGCTTTATGTGTACCT
1 TGTATATTTTGATTGTTTTGGTCATGGGATGGTTTGTGCTTTATGTGTACCT
*
73223110 TGTATATTTTGATTGTTTTGGTCATGGGATGGTTTGTGTTTTATGTGTACCT
1 TGTATATTTTGATTGTTTTGGTCATGGGATGGTTTGTGCTTTATGTGTACCT
73223162 T
1 T
73223163 ATTGGGCAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.12, C:0.07, G:0.28, T:0.53
Consensus pattern (52 bp):
TGTATATTTTGATTGTTTTGGTCATGGGATGGTTTGTGCTTTATGTGTACCT
Found at i:73223145 original size:25 final size:25
Alignment explanation
Indices: 73223065--73223145 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
73223055 AAGTGTATGT
73223065 TTTGATTGTTTTGGTCATGGGATGG
1 TTTGATTGTTTTGGTCATGGGATGG
* * * **
73223090 TTTG--TGCTTTATGTGTACCTTGTATAT
1 TTTGATTG-TTT-TG-GT-CATGGGATGG
73223117 TTTGATTGTTTTGGTCATGGGATGG
1 TTTGATTGTTTTGGTCATGGGATGG
73223142 TTTG
1 TTTG
73223146 TGTTTTATGT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 2 0.05
24 3 0.08
25 15 0.38
26 4 0.10
27 11 0.28
28 3 0.08
29 2 0.05
ACGTcount: A:0.12, C:0.06, G:0.30, T:0.52
Consensus pattern (25 bp):
TTTGATTGTTTTGGTCATGGGATGG
Found at i:73232104 original size:18 final size:19
Alignment explanation
Indices: 73232069--73232123 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 19
73232059 TTTTTTATTT
*
73232069 TTTTATAA-TTTTGAATT-
1 TTTTATAATTTTTAAATTA
*
73232086 TTTTAT--TCTTTAAA-TA
1 TTTTATAATTTTTAAATTA
73232102 TTTTATAATTTTTAAATTA
1 TTTTATAATTTTTAAATTA
73232121 TTT
1 TTT
73232124 GTTGATGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.37
17 6 0.20
18 7 0.23
19 5 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTAAATTA
Found at i:73232104 original size:25 final size:26
Alignment explanation
Indices: 73232058--73232114 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
73232048 ACGTGTTTTT
**
73232058 ATTTTTTATTTTTTTATAATTTT-GA
1 ATTTTTTATTTTTAAATAATTTTAGA
*
73232083 ATTTTTTATTCTTTAAAT-ATTTTATA
1 ATTTTTTATT-TTTAAATAATTTTAGA
73232109 ATTTTT
1 ATTTTT
73232115 AAATTATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (26 bp):
ATTTTTTATTTTTAAATAATTTTAGA
Found at i:73238449 original size:17 final size:18
Alignment explanation
Indices: 73238414--73238472 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
73238404 CCCTTCATAT
**
73238414 TTTTTTAGTACTT-AGAA
1 TTTTTTAGTACTTCCTAA
*
73238431 TTTTTTA-TATTTCCTAA
1 TTTTTTAGTACTTCCTAA
73238448 TTTTTCTTAGTACTTCCTAA
1 -TTTT-TTAGTACTTCCTAA
73238468 TTTTT
1 TTTTT
73238473 GGTATCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 4 0.12
17 9 0.26
18 5 0.15
19 7 0.21
20 9 0.26
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTTTAGTACTTCCTAA
Found at i:73238513 original size:20 final size:20
Alignment explanation
Indices: 73238465--73238636 Score: 97
Period size: 20 Copynumber: 8.7 Consensus size: 20
73238455 TAGTACTTCC
* *
73238465 TAATTTTTGGTATCCCCTCA
1 TAATTTTTGGTATTCTCTCA
* *
73238485 T-GTTATTTGGTATTCTCTCG
1 TAATT-TTTGGTATTCTCTCA
73238505 TAATTTTTGAG-ACTTC-CTCA
1 TAATTTTTG-GTA-TTCTCTCA
* * *
73238525 TATTTTTTGGTATTCACTTA
1 TAATTTTTGGTATTCTCTCA
* *
73238545 TAATTTTTTGTGTTCTCTCA
1 TAATTTTTGGTATTCTCTCA
* * *
73238565 T-ATTTTTGGTGTTCCCTTA
1 TAATTTTTGGTATTCTCTCA
* *
73238584 GAAATTTTGGTACTT-TCTCA
1 TAATTTTTGGTA-TTCTCTCA
* *
73238604 -ACAATTTTGATACTTC-CTCA
1 TA-ATTTTTGGTA-TTCTCTCA
73238624 TAATTTTTGGTAT
1 TAATTTTTGGTAT
73238637 GGTCTTAAAA
Statistics
Matches: 117, Mismatches: 24, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
19 23 0.20
20 85 0.73
21 9 0.08
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (20 bp):
TAATTTTTGGTATTCTCTCA
Found at i:73238603 original size:39 final size:40
Alignment explanation
Indices: 73238516--73238603 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 40
73238506 AATTTTTGAG
* * * *
73238516 ACTTCCTCATATTTTTTGGTATTCACTTATAATTTTTTGT
1 ACTTTCTCATATTTTTTGGTATTCACTTAGAAATTTTGGT
* * *
73238556 -GTTCTCTCATA-TTTTTGGTGTTCCCTTAGAAATTTTGGT
1 ACTT-TCTCATATTTTTTGGTATTCACTTAGAAATTTTGGT
73238595 ACTTTCTCA
1 ACTTTCTCA
73238604 ACAATTTTGA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
39 30 0.79
40 8 0.21
ACGTcount: A:0.18, C:0.17, G:0.11, T:0.53
Consensus pattern (40 bp):
ACTTTCTCATATTTTTTGGTATTCACTTAGAAATTTTGGT
Found at i:73239166 original size:20 final size:20
Alignment explanation
Indices: 73239062--73239189 Score: 74
Period size: 20 Copynumber: 6.5 Consensus size: 20
73239052 GTCAAAACTT
* *
73239062 AATTTTGAAAGGATATCC-AA
1 AATTATGAAGGGATA-CCAAA
* *
73239082 AATTTTG-AGGGCATACAAAA
1 AATTATGAAGGG-ATACCAAA
* *
73239102 AATTATG-AGAGAACACCAAA
1 AATTATGAAG-GGATACCAAA
*
73239122 AATTA-G-A-GGCTA-CAAA
1 AATTATGAAGGGATACCAAA
*
73239138 TAATTATGAAGGGGTACCAAA
1 -AATTATGAAGGGATACCAAA
*
73239159 AGTTATG-AGAGGATACCAAA
1 AATTATGAAG-GGATACCAAA
73239179 AATTATGAAGG
1 AATTATGAAGG
73239190 TCTAACCTTC
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.05
17 7 0.08
18 1 0.01
19 9 0.11
20 57 0.67
21 7 0.08
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (20 bp):
AATTATGAAGGGATACCAAA
Found at i:73240175 original size:45 final size:45
Alignment explanation
Indices: 73240083--73240221 Score: 149
Period size: 45 Copynumber: 3.1 Consensus size: 45
73240073 ACCACTGGAA
* *
73240083 TGTGGATACGCAACAAAAT-TAGCAGATGAAACCTGCAACTCA-GC
1 TGTGGATACGCAACAAAATATCGCAGATGAAACCTGCCACT-AGGC
* * *
73240127 TGTGGGTACGCAACAAAATATCGCAGATAAAATCTGCCACTAGGC
1 TGTGGATACGCAACAAAATATCGCAGATGAAACCTGCCACTAGGC
** * * *
73240172 TGTGGATACTAAACAAAA-ATTCGCAGATGAAACCTACCACTGGGT
1 TGTGGATACGCAACAAAATA-TCGCAGATGAAACCTGCCACTAGGC
73240217 TGTGG
1 TGTGG
73240222 GTGCACATCA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
44 20 0.25
45 59 0.75
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (45 bp):
TGTGGATACGCAACAAAATATCGCAGATGAAACCTGCCACTAGGC
Found at i:73240782 original size:28 final size:29
Alignment explanation
Indices: 73240741--73240810 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
73240731 AGCAAAACTA
*
73240741 AAAAATTTG-AAAACAAGAGA-AAAATT-T
1 AAAAATCTGAAAAACAAG-GACAAAATTGT
* *
73240768 TAAAATCTGAAAAACATGGACAAAATTGT
1 AAAAATCTGAAAAACAAGGACAAAATTGT
*
73240797 AAAAATCTAAAAAA
1 AAAAATCTGAAAAA
73240811 ATAGGGGGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 9 0.26
28 13 0.37
29 13 0.37
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.21
Consensus pattern (29 bp):
AAAAATCTGAAAAACAAGGACAAAATTGT
Found at i:73240857 original size:28 final size:28
Alignment explanation
Indices: 73240806--73240887 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
73240796 TAAAAATCTA
* *
73240806 AAAAAATAGGGGGAAAACTATAAAATGT
1 AAAAAATAAGGGCAAAACTATAAAATGT
* * *
73240834 AAAAAATAAGGGCAAATCTGTAAAATTT
1 AAAAAATAAGGGCAAAACTATAAAATGT
* * * *
73240862 AGAAAACATGGGCCAAACTATAAAAT
1 AAAAAATAAGGGCAAAACTATAAAAT
73240888 ATGGAAAATA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.20
Consensus pattern (28 bp):
AAAAAATAAGGGCAAAACTATAAAATGT
Found at i:73240867 original size:29 final size:28
Alignment explanation
Indices: 73240790--73240859 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
73240780 AACATGGACA
* *
73240790 AAAT-TGTAAAAATCTAAAAAAATAGGGGG
1 AAATCTGT-AAAATCT-AAAAAATAAGGGC
* * *
73240819 AAAACTATAAAATGTAAAAAATAAGGGC
1 AAATCTGTAAAATCTAAAAAATAAGGGC
73240847 AAATCTGTAAAAT
1 AAATCTGTAAAAT
73240860 TTAGAAAACA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 22 0.67
29 9 0.27
30 2 0.06
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (28 bp):
AAATCTGTAAAATCTAAAAAATAAGGGC
Found at i:73249061 original size:22 final size:22
Alignment explanation
Indices: 73249035--73249077 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
73249025 GCACCAATTT
*
73249035 TTTTTAAAAAAATATTTTTTTG
1 TTTTTAAAAAAATATTATTTTG
73249057 TTTTTAAAAAAATATTATTTT
1 TTTTTAAAAAAATATTATTTT
73249078 ATTAGTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTAAAAAAATATTATTTTG
Found at i:73249384 original size:12 final size:12
Alignment explanation
Indices: 73249355--73249421 Score: 66
Period size: 12 Copynumber: 5.4 Consensus size: 12
73249345 AAAAAGAGGG
* *
73249355 AAGAAGGGAGGA
1 AAGAAGAGAAGA
73249367 AGAGAAGAGAAGA
1 A-AGAAGAGAAGA
73249380 AAGAAGAAGAAG-
1 AAGAAG-AGAAGA
73249392 AAGAAGAAGAAGA
1 AAGAAG-AGAAGA
73249405 AAGAA-AGAAAGA
1 AAGAAGAG-AAGA
73249417 AAGAA
1 AAGAA
73249422 AAAAAGGTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.04
12 27 0.55
13 20 0.41
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AAGAAGAGAAGA
Found at i:73249386 original size:3 final size:3
Alignment explanation
Indices: 73249365--73249405 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
73249355 AAGAAGGGAG
73249365 GAA G-A GAA G-A GAA GAAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA
73249406 AGAAAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:73249416 original size:15 final size:13
Alignment explanation
Indices: 73249369--73249421 Score: 69
Period size: 12 Copynumber: 4.3 Consensus size: 13
73249359 AGGGAGGAAG
73249369 AGAAG-AGAAGAA
1 AGAAGAAGAAGAA
73249381 AGAAGAAGAAG-A
1 AGAAGAAGAAGAA
73249393 AGAAGAAGAAGAA
1 AGAAGAAGAAGAA
73249406 AG-A-AAGAAAGAA
1 AGAAGAAG-AAGAA
73249418 AGAA
1 AGAA
73249422 AAAAAGGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.08
12 25 0.68
13 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAGAA
Found at i:73249422 original size:12 final size:11
Alignment explanation
Indices: 73249369--73249422 Score: 62
Period size: 9 Copynumber: 5.1 Consensus size: 11
73249359 AGGGAGGAAG
73249369 AGAAGAGAAGAA
1 AGAAGA-AAGAA
73249381 AGAAG-AAG-A
1 AGAAGAAAGAA
73249390 AGAAG-AAG-A
1 AGAAGAAAGAA
73249399 AGAAGAAAGAA
1 AGAAGAAAGAA
73249410 AGAAAGAAAGAA
1 AG-AAGAAAGAA
73249422 A
1 A
73249423 AAAAGGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
9 15 0.38
10 6 0.15
11 3 0.08
12 15 0.38
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGAAGAAAGAA
Found at i:73249427 original size:12 final size:13
Alignment explanation
Indices: 73249376--73249427 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 13
73249366 AAGAGAAGAG
*
73249376 AAGAAAGAAGAAG
1 AAGAAAGAAGAAA
*
73249389 AAG-AAGAAGAAG
1 AAGAAAGAAGAAA
*
73249401 AAGAAAGAA-AGA
1 AAGAAAGAAGAAA
73249413 AAGAAAGAA-AAA
1 AAGAAAGAAGAAA
73249425 AAG
1 AAG
73249428 GTATGTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
12 27 0.77
13 8 0.23
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAGAAA
Found at i:73249888 original size:103 final size:101
Alignment explanation
Indices: 73249554--73250164 Score: 613
Period size: 96 Copynumber: 6.2 Consensus size: 101
73249544 TGGTTTAATT
* * * * *
73249554 TTTTTTATGAATGTAAAATTGTTTTTATAATTATTTTAAAATTATTTTGTCAGTAATTTATGAAT
1 TTTTTTAT-AATGT-AAATT-TTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATTTATG-AT
* * * * *
73249619 TTGTTTAT-ACTTGTTTGTGTTTTAGTTTTAGT-TATTTGGGA
62 TAGGTTATAAATTGTTAGTG-TTTAG-TTTAGTGT-TTTGTGA
* ** ** *
73249660 -ATTTTATTAATGT--A-TTTTAAAAAATAATTTT-TA--TATTTTGTT--TTATTATAT-ATTA
1 TTTTTTA-TAATGTAAATTTTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATT-TATGATTA
*
73249715 GATTAT-AATTGTT-GTGTTTAG-TT-GTG-TTTGTGA
64 GGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
* * **
73249748 -TTTTTATTATGTAAA---TTTAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTA-G
1 TTTTTTATAATGTAAATTTTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
* *
73249808 TTATAAA-TGTTAGTGTTGTTAGTGTAGTGTTTTTTTGA
66 TTATAAATTGTTAGTG-T-TTAGTTTAGTG-TTTTGTGA
*
73249846 TTTTTTAGTAATGTAAATTTTTTTAAAATTTTTTTATGGTTATTTTGTTAGTAATTTATGATTAG
1 TTTTTTA-TAATGTAAATTTTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATTTATGATTAG
73249911 GTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
65 GTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
73249948 TTTTTTAGTAATGTAAATTTTTTTAAAATTTTTTT-TAGTTATTTTGTTAGT-ATTTATGA-TAG
1 TTTTTTA-TAATGTAAATTTTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATTTATGATTAG
73250010 G-TATAAATTGTTAGTGTTTAGTTTAGT-TGTTTGTGA
65 GTTATAAATTGTTAGTGTTTAGTTTAGTGT-TTTGTGA
* *
73250046 TTTTTT-TAATGTAAAATTTTTT-AAA--TTTTTATAGTTA-TGTGTTAGTAATTTATGATTAGG
1 TTTTTTATAATGTAAATTTTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
73250106 TTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
66 TTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
73250142 TTTTTTATGAATGTAAATTTTTT
1 TTTTTTAT-AATGTAAATTTTTT
73250165 ATAATGTAAT
Statistics
Matches: 441, Mismatches: 30, Indels: 76
0.81 0.05 0.14
Matches are distributed among these distances:
87 19 0.04
88 13 0.03
89 3 0.01
90 11 0.02
91 11 0.02
92 18 0.04
93 17 0.04
94 32 0.07
95 12 0.03
96 60 0.14
97 11 0.02
98 58 0.13
99 11 0.02
100 28 0.06
101 16 0.04
102 43 0.10
103 50 0.11
104 9 0.02
105 18 0.04
106 1 0.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.57
Consensus pattern (101 bp):
TTTTTTATAATGTAAATTTTTTTAAAATTTTTTTATAGTTATTTTGTTAGTAATTTATGATTAGG
TTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
Found at i:73250098 original size:194 final size:202
Alignment explanation
Indices: 73249711--73250179 Score: 625
Period size: 194 Copynumber: 2.4 Consensus size: 202
73249701 TTTATTATAT
* *
73249711 ATTAGATTAT-AATTGTT-GTGTTTAG-TT-GTG-TTTGTGA-TTTTTATTATGTAAA---TTTA
1 ATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATAATGTAAATTTTTTA
*
73249767 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGTTATAAATGTTAGTGTTGTTAGTG
66 AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTATAAATGTTAGTGTTGTTAGTG
* * * * *
73249832 TAGTGTTTTTTTGATTTTTTAGTAATGTAAATTTTTTTAAAATTTTTTTATGGTTATTTTGTTAG
131 TAGTGTGTTTGTGATTTTTTA-TAATGTAAAATTTTTTAAAA-TTTTTTATAGTTATTGTGTTAG
73249897 TAATTTATG
194 TAATTTATG
73249906 ATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTAGTAATGTAAATTTTTT
1 ATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTA-TAATGTAAATTTTTT
* * *
73249971 TAAAAT-TTTTTTTAGTTATTTTGTTAGT-ATTTATGA-TAGGTATAAATTGTTAGTG-T-TTAG
65 AAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTATAAA-TGTTAGTGTTGTTAG
*
73250031 TTTAGT-TGTTTGTGATTTTTT-TAATGTAAAATTTTTT-AAA-TTTTTATAGTTA-TGTGTTAG
129 TGTAGTGTGTTTGTGATTTTTTATAATGTAAAATTTTTTAAAATTTTTTATAGTTATTGTGTTAG
73250091 TAATTTATG
194 TAATTTATG
73250100 ATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATGAATGTAAATTTTTT
1 ATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTAT-AATGTAAATTTTTT
**
73250165 ATAATGTAATTTTAT
65 A-AAAATAATTTTAT
73250180 TTAATTTTTA
Statistics
Matches: 243, Mismatches: 17, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
193 1 0.00
194 79 0.33
195 23 0.09
196 12 0.05
197 11 0.05
198 17 0.07
199 3 0.01
200 20 0.08
201 15 0.06
202 18 0.07
203 16 0.07
204 20 0.08
205 8 0.03
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (202 bp):
ATTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATAATGTAAATTTTTTA
AAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTATAAATGTTAGTGTTGTTAGTG
TAGTGTGTTTGTGATTTTTTATAATGTAAAATTTTTTAAAATTTTTTATAGTTATTGTGTTAGTA
ATTTATG
Found at i:73250182 original size:17 final size:17
Alignment explanation
Indices: 73250141--73250177 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
73250131 GTGTTTTGTG
73250141 ATTTTTTATGAATGTAA
1 ATTTTTTATGAATGTAA
73250158 ATTTTTTAT-AATGT-A
1 ATTTTTTATGAATGTAA
73250173 ATTTT
1 ATTTT
73250178 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 5 0.25
17 9 0.45
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (17 bp):
ATTTTTTATGAATGTAA
Found at i:73254185 original size:39 final size:39
Alignment explanation
Indices: 73254142--73254351 Score: 187
Period size: 39 Copynumber: 5.3 Consensus size: 39
73254132 AAATCACGTA
* * **
73254142 CCTTCGGAATTTAACCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCGGATATAG-TAACTCGCACAAATG
* * * *
73254181 CCTTCGGGACATAGCCCGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACAAATG
*
73254220 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACAAATG
* *
73254260 CCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGATA-TAGTAACTCGCACAAATG
* * * *
73254299 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACAAATG
73254339 CCTTCGGGACTTA
1 CCTTCGGGACTTA
73254352 GCCCGGACAT
Statistics
Matches: 141, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
38 3 0.02
39 72 0.51
40 54 0.38
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACAAATG
Found at i:73254257 original size:40 final size:40
Alignment explanation
Indices: 73254175--73254358 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
73254165 GCTACTCGTT
*
73254175 CAAATGCCTTCGGGACATAGCCC-G-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
73254214 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
73254254 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
73254293 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
73254334 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73254359 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 54 0.43
40 57 0.45
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:73254258 original size:79 final size:81
Alignment explanation
Indices: 73254175--73254358 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 81
73254165 GCTACTCGTT
* **
73254175 CAAATGCCTTCGGGACATAGCCCGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
73254238 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
73254254 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
73254318 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
73254334 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73254359 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 12 0.13
79 60 0.66
80 19 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:73263491 original size:21 final size:21
Alignment explanation
Indices: 73263451--73263531 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
73263441 CGAATATGCC
*
73263451 AACAGAAGCTCG-AA-AGCTT
1 AACAAAAGCTCGTAAGAGCTT
73263470 AACAAAAGCTCGTAAGAGCTT
1 AACAAAAGCTCGTAAGAGCTT
* *
73263491 AACAGAAGCTCGTAAGAGCTG
1 AACAAAAGCTCGTAAGAGCTT
* *
73263512 AATAAAAGCTCATAAGAGCT
1 AACAAAAGCTCGTAAGAGCT
73263532 AATCCACCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.20
20 2 0.04
21 41 0.76
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAAAAGCTCGTAAGAGCTT
Found at i:73263528 original size:42 final size:40
Alignment explanation
Indices: 73263451--73263531 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
73263441 CGAATATGCC
* *
73263451 AACAGAAGCTCGAAAGCTTAACAAAAGCTCGTAAGAGCTT
1 AACAGAAGCTCGAAAGCTGAACAAAAGCTCATAAGAGCTT
*
73263491 AACAGAAGCTCGTAAGAGCTGAATAAAAGCTCATAAGAGCT
1 AACAGAAGCTCG-AA-AGCTGAACAAAAGCTCATAAGAGCT
73263532 AATCCACCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 12 0.33
41 2 0.06
42 22 0.61
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (40 bp):
AACAGAAGCTCGAAAGCTGAACAAAAGCTCATAAGAGCTT
Found at i:73268459 original size:27 final size:27
Alignment explanation
Indices: 73268383--73268460 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
73268373 AATAATTAAC
* *
73268383 CACTAGTGCCGCCTATCAGATAAGGGT
1 CACTAGTGACGCCTATCAGATAGGGGT
* *
73268410 CACCAGTGGCGCCTATCAGATAGGGGT
1 CACTAGTGACGCCTATCAGATAGGGGT
* *
73268437 CACTGGTGACGCCTATCAAATAGG
1 CACTAGTGACGCCTATCAGATAGG
73268461 CACCACCCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (27 bp):
CACTAGTGACGCCTATCAGATAGGGGT
Found at i:73286138 original size:16 final size:17
Alignment explanation
Indices: 73286114--73286147 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
73286104 TAATTACAAG
73286114 ATTCATCTTAGGT-TTC
1 ATTCATCTTAGGTATTC
*
73286130 ATTCCTCTTAGGTATTC
1 ATTCATCTTAGGTATTC
73286147 A
1 A
73286148 GGGGATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTCATCTTAGGTATTC
Found at i:73290207 original size:27 final size:27
Alignment explanation
Indices: 73290150--73290207 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
73290140 TTAGTGGCTC
* *
73290150 TGCCACGTAATTACTGCTCTAGTGGCTT
1 TGCCACGT-ATTACTGCTCTAGTAGCAT
*
73290178 TGCCACGT-TTACTGTTACTAGTAGCAT
1 TGCCACGTATTACTGCT-CTAGTAGCAT
73290205 TGC
1 TGC
73290208 TGCGTTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 11 0.42
28 8 0.31
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TGCCACGTATTACTGCTCTAGTAGCAT
Found at i:73297670 original size:47 final size:47
Alignment explanation
Indices: 73297611--73297739 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
73297601 TGCGAGTAAA
* ** *
73297611 TACCTTGATTTGGCTACGGGCCATGGTATTGGTA-TTTTGTGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCTG-GAGAAGT
* *
73297658 TACCTTGATTTGGCTACGGACCATGGTATAGGTACTCCTGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCTGGAGAAGT
* *
73297705 TACTTTAATTTGGCTAC-GGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
73297740 TATCGATTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
46 17 0.24
47 52 0.72
48 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCTGGAGAAGT
Found at i:73299769 original size:14 final size:14
Alignment explanation
Indices: 73299730--73299769 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
73299720 CCAAAATCTT
73299730 TGTATGCAGATGTA
1 TGTATGCAGATGTA
* *
73299744 TGTATACCGATGTA
1 TGTATGCAGATGTA
*
73299758 TGTATGCGGATG
1 TGTATGCAGATG
73299770 CCCCAACTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.10, G:0.30, T:0.35
Consensus pattern (14 bp):
TGTATGCAGATGTA
Found at i:73300123 original size:21 final size:21
Alignment explanation
Indices: 73300099--73300162 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
73300089 GCTAATATGG
* *
73300099 AGGCCTCACACGCTCGTGTGA
1 AGGCCCCACACGCCCGTGTGA
*
73300120 AGGCCCCACACGCCCGTGTGG
1 AGGCCCCACACGCCCGTGTGA
*** *
73300141 AGGGGGCACATGCCCGTGTGA
1 AGGCCCCACACGCCCGTGTGA
73300162 A
1 A
73300163 CAGCTCGTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.33, G:0.34, T:0.14
Consensus pattern (21 bp):
AGGCCCCACACGCCCGTGTGA
Found at i:73306052 original size:21 final size:20
Alignment explanation
Indices: 73306026--73306069 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
73306016 TAAATCTTAG
73306026 TTAATAATTCATAATTTA-AAT
1 TTAATAATT-A-AATTTATAAT
73306047 TTAATAATTAAATTTATAAT
1 TTAATAATTAAATTTATAAT
73306067 TTA
1 TTA
73306070 GTATTAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 7 0.32
21 9 0.41
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATAATTAAATTTATAAT
Found at i:73310029 original size:35 final size:35
Alignment explanation
Indices: 73309990--73310081 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
73309980 ATTCAATTAC
** *
73309990 ATGTGAGTTTATATTGAATTTGTGTATTTGGTCAT
1 ATGTGAGTTTATATTGAATTTGCATATTTGGCCAT
* *
73310025 ATGTGAAG-TTATCTTGAATGTGCATATTTGGCCAT
1 ATGTG-AGTTTATATTGAATTTGCATATTTGGCCAT
*
73310060 ATGCGA-TGTTATATTGAATTTG
1 ATGTGAGT-TTATATTGAATTTG
73310082 AACTATAGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 1 0.02
35 43 0.93
36 2 0.04
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (35 bp):
ATGTGAGTTTATATTGAATTTGCATATTTGGCCAT
Found at i:73317803 original size:35 final size:35
Alignment explanation
Indices: 73317737--73317857 Score: 102
Period size: 35 Copynumber: 3.5 Consensus size: 35
73317727 ATATGTAATC
* * * *
73317737 TTATATTGAACTTGAATATTTGATTACATGTGAGT
1 TTATATTGAATTTGAATATTTGGTCATATGTGAGT
**
73317772 TTATATTGAATTTGTGTATTTGGTCATATGTGAAG-
1 TTATATTGAATTTGAATATTTGGTCATATGTG-AGT
* * * * * *
73317807 TAATCTTGAATGTGCATATTTGGCCATATGCGA-T
1 TTATATTGAATTTGAATATTTGGTCATATGTGAGT
73317841 GTTATATTGAATTTGAA
1 -TTATATTGAATTTGAA
73317858 ATATAGGTTA
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
34 1 0.02
35 63 0.95
36 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (35 bp):
TTATATTGAATTTGAATATTTGGTCATATGTGAGT
Found at i:73326294 original size:16 final size:16
Alignment explanation
Indices: 73326275--73326316 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
73326265 TAATAAATTG
73326275 TTATTATATTATATTA
1 TTATTATATTATATTA
73326291 TTATTATATTATATTA
1 TTATTATATTATATTA
73326307 TATATTATAT
1 T-TATTATAT
73326317 ATTATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTATATTATATTA
Found at i:73326312 original size:7 final size:7
Alignment explanation
Indices: 73326279--73326331 Score: 74
Period size: 7 Copynumber: 7.6 Consensus size: 7
73326269 AAATTGTTAT
73326279 TATATTA
1 TATATTA
73326286 TATTATTA
1 TA-TATTA
73326294 T-TA-TA
1 TATATTA
73326299 TTATATTA
1 -TATATTA
73326307 TATATTA
1 TATATTA
73326314 TATATTA
1 TATATTA
73326321 TATATTA
1 TATATTA
73326328 TATA
1 TATA
73326332 AATAAGTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 2 0.05
6 3 0.07
7 29 0.69
8 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:73326330 original size:5 final size:5
Alignment explanation
Indices: 73326276--73326323 Score: 64
Period size: 5 Copynumber: 9.6 Consensus size: 5
73326266 AATAAATTGT
73326276 TATTA TATTA TATTA TTATTA TATTA TATTA TA-TA T-TATA TATTA TAT
1 TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TAT-TA TATTA TAT
73326324 ATTATATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 3 0.08
5 30 0.77
6 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:73327974 original size:22 final size:23
Alignment explanation
Indices: 73327915--73327974 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 23
73327905 TTGAATTGAG
73327915 AAAGTGAATTATAATTGATACTGA
1 AAAGTGAATTA-AATTGATACTGA
73327939 ACTAAGAT-AA--AAATT-ATACTGA
1 A--AAG-TGAATTAAATTGATACTGA
73327961 AAAGTGAATTAAAT
1 AAAGTGAATTAAAT
73327975 ACCCTATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
19 1 0.03
20 5 0.17
22 12 0.40
23 4 0.13
24 2 0.07
26 5 0.17
27 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (23 bp):
AAAGTGAATTAAATTGATACTGA
Found at i:73328097 original size:26 final size:26
Alignment explanation
Indices: 73328068--73328117 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
73328058 CAGGCACTTA
* *
73328068 TGTGCCGACTACTGTTACTGTTACTG
1 TGTGCCGAATACTATTACTGTTACTG
*
73328094 TGTGTCGAATACTATTACTGTTAC
1 TGTGCCGAATACTATTACTGTTAC
73328118 CGTTATCGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
TGTGCCGAATACTATTACTGTTACTG
Found at i:73328368 original size:18 final size:18
Alignment explanation
Indices: 73328345--73328520 Score: 144
Period size: 18 Copynumber: 9.8 Consensus size: 18
73328335 CTGATTATTT
73328345 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
73328363 -TCGAATAATTGACTGTTA
1 CT-GAATAATTGACTGTTA
* *
73328381 CTGGATAATAGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
73328399 CTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* *
73328417 CTGAATAAATGA-TCATTA
1 CTGAATAATTGACT-GTTA
* * *
73328435 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
73328453 CTGAATAAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * *
73328471 CTGAATAACTTAATTGCTA
1 CTGAATAA-TTGACTGTTA
*
73328490 CTGAAT-ATCTGA-TTTTA
1 CTGAATAAT-TGACTGTTA
*
73328507 CTAAATAATTGACT
1 CTGAATAATTGACT
73328521 ATTAATGGAT
Statistics
Matches: 128, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
17 14 0.11
18 100 0.78
19 14 0.11
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:73328467 original size:72 final size:72
Alignment explanation
Indices: 73328330--73328480 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 72
73328320 AAAGGTATAA
* * * * * * *
73328330 AATAACTGATTATTTCTGAATAATTGACTGTTATCGAATAATTGACTGTTACTGGATAATAGACT
1 AATAACTGAATATTACTGAATAAATGACTATTATCGAATAACTGACTGTCACTGAATAATAGACT
73328395 GTTACTG
66 GTTACTG
*
73328402 AATAACTGAATATTACTGAATAAATGA-TCATTA-CTGAATAACTGATTGTCACTGAATAA-ATG
1 AATAACTGAATATTACTGAATAAATGACT-ATTATC-GAATAACTGACTGTCACTGAATAATA-G
73328464 ACTGTTACTG
63 ACTGTTACTG
73328474 AATAACT
1 AATAACT
73328481 TAATTGCTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.04
72 65 0.96
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAAATGACTATTATCGAATAACTGACTGTCACTGAATAATAGACT
GTTACTG
Found at i:73328621 original size:18 final size:18
Alignment explanation
Indices: 73328330--73328625 Score: 123
Period size: 18 Copynumber: 16.1 Consensus size: 18
73328320 AAAGGTATAA
* * *
73328330 AATAACTGATTATTTCTG
1 AATAAATGATTGTTACTG
* *
73328348 AATAATTGACTGTTA-TCG
1 AATAAATGATTGTTACT-G
* *
73328366 AATAATTGACTGTTACTG
1 AATAAATGATTGTTACTG
* *
73328384 GAT-AATAGACTGTTACTG
1 AATAAAT-GATTGTTACTG
* * *
73328402 AATAACTGAATATTACTG
1 AATAAATGATTGTTACTG
**
73328420 AATAAATGATCATTACTG
1 AATAAATGATTGTTACTG
* *
73328438 AATAACTGATTGTCACTG
1 AATAAATGATTGTTACTG
*
73328456 AATAAATGACTGTTACTG
1 AATAAATGATTGTTACTG
* * *
73328474 AATAACTTAATTGCTACTG
1 AATAA-ATGATTGTTACTG
** *
73328493 AATATCTGATT-TTACTA
1 AATAAATGATTGTTACTG
* * * *
73328510 AATAATTGACTATTAATG
1 AATAAATGATTGTTACTG
* *
73328528 GATAACCGATCAATTGATCGATACTG
1 AATAA---AT-GATTG-T---TACTG
* * * *
73328554 AATAACTGGTTATTATTG
1 AATAAATGATTGTTACTG
* *
73328572 AATAATTGATTGTTACCG
1 AATAAATGATTGTTACTG
* *
73328590 AATAACTGACTGTTACTG
1 AATAAATGATTGTTACTG
*
73328608 AATAAATAATTGTT-CTG
1 AATAAATGATTGTTACTG
73328625 A
1 A
73328626 TTGTTAATGA
Statistics
Matches: 207, Mismatches: 57, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
17 19 0.09
18 156 0.75
19 16 0.08
21 2 0.01
22 4 0.02
23 2 0.01
26 8 0.04
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
AATAAATGATTGTTACTG
Found at i:73329517 original size:20 final size:20
Alignment explanation
Indices: 73329488--73329530 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
73329478 AAAATAAACA
* **
73329488 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
73329508 TATAACTATTCAAATAATAT
1 TATAACTATTCAAATAATAT
73329528 TAT
1 TAT
73329531 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:73329950 original size:29 final size:30
Alignment explanation
Indices: 73329918--73329974 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
73329908 TGGTTCAATG
*
73329918 TGCAATTGTATGCATG-AATTTTGATTTTA
1 TGCAATTGTATACATGAAATTTTGATTTTA
* *
73329947 TGCAATTTTATATATGAAATTTTGATTT
1 TGCAATTGTATACATGAAATTTTGATTT
73329975 GATCAAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (30 bp):
TGCAATTGTATACATGAAATTTTGATTTTA
Found at i:73332636 original size:10 final size:11
Alignment explanation
Indices: 73332603--73332636 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
73332593 ATATATTCTT
*
73332603 ATAATAAACAC
1 ATAAAAAACAC
73332614 ATAAAAAACAC
1 ATAAAAAACAC
73332625 ATAAAAAA-AC
1 ATAAAAAACAC
73332635 AT
1 AT
73332637 TCAAAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (11 bp):
ATAAAAAACAC
Found at i:73337009 original size:39 final size:39
Alignment explanation
Indices: 73336965--73337043 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
73336955 ACCACCATGG
73336965 GATAGATGCCTTGTACTCCATCCATTATTTTTACTAAGT
1 GATAGATGCCTTGTACTCCATCCATTATTTTTACTAAGT
73337004 GATAGATGCCTTGTACTCCATCCATTATTTTTACTAAGT
1 GATAGATGCCTTGTACTCCATCCATTATTTTTACTAAGT
73337043 G
1 G
73337044 CCCTATCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (39 bp):
GATAGATGCCTTGTACTCCATCCATTATTTTTACTAAGT
Found at i:73337248 original size:26 final size:26
Alignment explanation
Indices: 73337219--73337271 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
73337209 TCAAAATTAA
73337219 TACATTGCCTTAAGCAAATTTCACAT
1 TACATTGCCTTAAGCAAATTTCACAT
*
73337245 TACATTGCCTTGAGCAAATTTCACAT
1 TACATTGCCTTAAGCAAATTTCACAT
73337271 T
1 T
73337272 CTCGTAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (26 bp):
TACATTGCCTTAAGCAAATTTCACAT
Found at i:73343979 original size:22 final size:21
Alignment explanation
Indices: 73343936--73343980 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
73343926 GAATACTAAT
*
73343936 ACCAAAAACCATATGTAGAAA
1 ACCAAAAACCATATGTACAAA
* *
73343957 ACCACAAAACCGTATTTACAAA
1 ACCA-AAAACCATATGTACAAA
73343979 AC
1 AC
73343981 ACATACCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.53, C:0.24, G:0.07, T:0.16
Consensus pattern (21 bp):
ACCAAAAACCATATGTACAAA
Found at i:73346236 original size:50 final size:51
Alignment explanation
Indices: 73346159--73346281 Score: 187
Period size: 50 Copynumber: 2.4 Consensus size: 51
73346149 GACCATGGCA
73346159 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
* *
73346210 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCTATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
73346260 ACAAGTGAAAAGTGGTAGCTTC
1 ACAAGTGATAAGTGATAGCTTC
73346282 AACTACCTAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
50 44 0.67
51 22 0.33
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:73346301 original size:31 final size:31
Alignment explanation
Indices: 73346263--73346442 Score: 236
Period size: 31 Copynumber: 5.8 Consensus size: 31
73346253 ACAAATGACA
* *
73346263 AGTGAAAAGTGGTAGCTTCAACTACCTAATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
73346294 AGTGAAAAGTGGTAGCTTCCGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
73346325 AGTGCAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCTGATC
* *
73346356 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
73346387 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
* *
73346418 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
73346443 AAGTGACAAG
Statistics
Matches: 132, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 2 0.02
31 129 0.98
32 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Found at i:73346537 original size:47 final size:46
Alignment explanation
Indices: 73346467--73346590 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
73346457 AAGTGATTTC
* *
73346467 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
73346513 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
73346560 CGTGTAAGACCATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATATCTGGGATATGGCATCG
73346591 ATATATAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:73346619 original size:42 final size:43
Alignment explanation
Indices: 73346561--73346675 Score: 153
Period size: 42 Copynumber: 2.7 Consensus size: 43
73346551 TATGTGATTC
*
73346561 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATAAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATAAAGAT
* * *
73346603 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATAAAGAT
* **
73346645 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
73346676 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATAAAGAT
Found at i:73347781 original size:9 final size:9
Alignment explanation
Indices: 73347769--73347811 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
73347759 TTTACATATT
73347769 TAATTTTTA
1 TAATTTTTA
*
73347778 TAATATTTA
1 TAATTTTTA
*
73347787 TTACTTTTTTA
1 -TA-ATTTTTA
73347798 TAATTTTTA
1 TAATTTTTA
73347807 TAATT
1 TAATT
73347812 AAAAAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 19 0.68
10 4 0.14
11 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
TAATTTTTA
Found at i:73347940 original size:17 final size:18
Alignment explanation
Indices: 73347918--73347960 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
73347908 CTATATCTAT
73347918 ATTTTTTTAT-TAATTTA
1 ATTTTTTTATATAATTTA
* *
73347935 A-TTTTTTATATATTTTT
1 ATTTTTTTATATAATTTA
73347952 ATTTTTTTA
1 ATTTTTTTA
73347961 ATTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTTTTATATAATTTA
Found at i:73347941 original size:16 final size:17
Alignment explanation
Indices: 73347920--73347958 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
73347910 ATATCTATAT
73347920 TTTTTTAT-TAATTTAA
1 TTTTTTATATAATTTAA
* *
73347936 TTTTTTATATATTTTTA
1 TTTTTTATATAATTTAA
73347953 TTTTTT
1 TTTTTT
73347959 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTATATAATTTAA
Found at i:73347944 original size:26 final size:26
Alignment explanation
Indices: 73347915--73347967 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
73347905 ATTCTATATC
*
73347915 TATATTTTTTTATTAATTTAATTTTT
1 TATATATTTTTATTAATTTAATTTTT
**
73347941 TATATATTTTTATTTTTTTAATTTTT
1 TATATATTTTTATTAATTTAATTTTT
73347967 T
1 T
73347968 TTTGATGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (26 bp):
TATATATTTTTATTAATTTAATTTTT
Found at i:73347966 original size:16 final size:16
Alignment explanation
Indices: 73347917--73347967 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
73347907 TCTATATCTA
*
73347917 TATTTTTTT-ATTAATT
1 TATTTTTTTAATT-TTT
*
73347933 TAATTTTTTATATATTTT
1 TATTTTTTTA-AT-TTTT
73347951 TATTTTTTTAATTTTT
1 TATTTTTTTAATTTTT
73347967 T
1 T
73347968 TTTGATGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.45
17 2 0.07
18 13 0.45
19 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTTTTTAATTTTT
Found at i:73347967 original size:17 final size:17
Alignment explanation
Indices: 73347917--73347968 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
73347907 TCTATATCTA
**
73347917 TATTTTTTT-ATTAATT
1 TATTTTTTTAATTTTTT
* *
73347933 TAATTTTTTATATATTTT
1 TATTTTTTTA-ATTTTTT
73347951 TATTTTTTTAATTTTTT
1 TATTTTTTTAATTTTTT
73347968 T
1 T
73347969 TTGATGTGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 13 0.46
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTTTTAATTTTTT
Found at i:73349246 original size:33 final size:33
Alignment explanation
Indices: 73349208--73349297 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 33
73349198 AGATTAATTT
73349208 ATATTTTATATATCATTATATTAAATTAATCAA
1 ATATTTTATATATCATTATATTAAATTAATCAA
* * * * *
73349241 ATATTTTATGTATAATTATATTAACTTATTTAA
1 ATATTTTATATATCATTATATTAAATTAATCAA
* *
73349274 ATA--TAATTTATCATTATATTAAAT
1 ATATTTTATATATCATTATATTAAAT
73349298 CATTTAAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
31 17 0.35
33 31 0.65
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (33 bp):
ATATTTTATATATCATTATATTAAATTAATCAA
Found at i:73349293 original size:31 final size:32
Alignment explanation
Indices: 73349218--73349306 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 32
73349208 ATATTTTATA
* * *
73349218 TATCATTATATTAAATTAATCAAATATTTTATG
1 TATCATTATATTAAATTATTTAAATA-TTAATG
* * *
73349251 TATAATTATATTAACTTATTTAAATA-TAATT
1 TATCATTATATTAAATTATTTAAATATTAATG
*
73349282 TATCATTATATTAAATCATTTAAAT
1 TATCATTATATTAAATTATTTAAAT
73349307 TTAGTTCATT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 25 0.53
33 22 0.47
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (32 bp):
TATCATTATATTAAATTATTTAAATATTAATG
Found at i:73351156 original size:67 final size:68
Alignment explanation
Indices: 73351033--73351165 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 68
73351023 CGCACTAAAT
* *
73351033 ATGGATTGTGCAGACAGAAACGCCCTTAATTAATTCTTTCCCTCCTTCAGACATGTATTGTGACA
1 ATGGATTGTGCAGACAGAAACACCCTTAATTAATTATTTCCCTCCTTCAGACATGTATTGTGACA
73351098 CGC
66 CGC
* * * *
73351101 ATGGATT-TGCAGATAGAAACACCCTTAATTAATTATTTTCCT-CTGTCATATATGTATTGTGAC
1 ATGGATTGTGCAGACAGAAACACCCTTAATTAATTATTTCCCTCCT-TCAGACATGTATTGTGAC
73351164 AC
65 AC
73351166 AGCCTAGTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 2 0.03
67 49 0.84
68 7 0.12
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (68 bp):
ATGGATTGTGCAGACAGAAACACCCTTAATTAATTATTTCCCTCCTTCAGACATGTATTGTGACA
CGC
Found at i:73354549 original size:26 final size:26
Alignment explanation
Indices: 73354493--73354543 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
73354483 CTCTATATAT
73354493 GGCTCTTCGTGAGCTTCCTAATTAAA
1 GGCTCTTCGTGAGCTTCCTAATTAAA
* *
73354519 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTCGTGAGCTTCCTAATTAA
73354544 TAGCTCCCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTAATTAAA
Done.