Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 40 of 93
Found at i:15421571 original size:3 final size:3
Alignment explanation
Indices: 15421522--15421557 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
15421512 TCTGTTCATT
*
15421522 TTA TTA TTA TTA TTA TTA TTA TTA TTA -AA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15421558 ATATCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 29 0.97
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:15425434 original size:31 final size:31
Alignment explanation
Indices: 15425376--15425435 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
15425366 ATGTATGTAT
*
15425376 TTTTTCTCTTTCCACTTTTCTCCTCTCCCAA
1 TTTTTCTCTTTCCACTTTTCTACTCTCCCAA
* *
15425407 TTTTTCATC-TTCCATTTTTCTATTCTCCC
1 TTTTTC-TCTTTCCACTTTTCTACTCTCCC
15425436 TACAACGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTTTCTCTTTCCACTTTTCTACTCTCCCAA
Found at i:15428559 original size:23 final size:23
Alignment explanation
Indices: 15428533--15428603 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
15428523 TACAAACATA
15428533 TTTTTATTATAATTTAATAATAT
1 TTTTTATTATAATTTAATAATAT
* ** *
15428556 TTTTTATTAGAAGATAATTAA-AC
1 TTTTTATTATAATTTAA-TAATAT
* *
15428579 CTTTTATTATAATTAAATAATAT
1 TTTTTATTATAATTTAATAATAT
15428602 TT
1 TT
15428604 AATATTAAAA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
22 3 0.09
23 29 0.83
24 3 0.09
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTTATTATAATTTAATAATAT
Found at i:15428702 original size:45 final size:45
Alignment explanation
Indices: 15428641--15428734 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
15428631 ATTAAATTTA
* * * *
15428641 AATAATACTAAATAATATTCTTTGTTACATTTATTATATTCAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATAGTCAAAT
* * * *
15428686 AATAATATTAAGTAATATGCTTTATAATATTTATTATAGTGAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATAGTCAAAT
15428731 AATA
1 AATA
15428735 TTAATATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (45 bp):
AATAATACTAAATAATATGCTTTATAACATTTATTATAGTCAAAT
Found at i:15438786 original size:22 final size:22
Alignment explanation
Indices: 15438761--15438808 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
15438751 GCTAACAAGT
*
15438761 CTTGAACCTTGGAGATAAAAGG
1 CTTGAACCTTGGAGATAAAAGA
*
15438783 CTTGAACTTTGGAGATAAAAGA
1 CTTGAACCTTGGAGATAAAAGA
15438805 CTTG
1 CTTG
15438809 TACAAGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (22 bp):
CTTGAACCTTGGAGATAAAAGA
Found at i:15440263 original size:44 final size:42
Alignment explanation
Indices: 15440215--15440785 Score: 212
Period size: 42 Copynumber: 13.7 Consensus size: 42
15440205 ATAAAGTTAA
15440215 TTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATT
1 TTTATATTACTTGAACTATGAT--AAACTTAAATATATAAAATT
* * * **
15440259 TTTATATGAGTTGAACT-TG-TAAACTAATAAATGTA-AAATAAA
1 TTTATATTACTTGAACTATGATAAACT--TAAATATATAAA-ATT
* * *
15440301 TTTGTATTACTTAAACTATGATATAAACTTAAATATATAAAGTT
1 TTTATATTACTTGAACTATG--ATAAACTTAAATATATAAAATT
* *
15440345 TTTATATTAGC-TGAACT-TG-TAAA-TTAATAAATACAAAATTAT
1 TTTATATTA-CTTGAACTATGATAAACTTAA-ATATATAAAA-T-T
*
15440387 TTTATATTACTTGAACTATGAAGCAAACTTAAATATAT-AAATT
1 TTTATATTACTTGAACTATG-A-TAAACTTAAATATATAAAATT
* * * * * * * ** *
15440430 TCTANA--AGTT-AAATATTATAAAATT---TTTATATTA-G
1 TTTATATTACTTGAACTATGATAAACTTAAATATATAAAATT
* ** * * *
15440465 TTGAGCTTGC--AAACTA--ACAAA-TGTAAA-AT-T--AA--
1 TTTATATTACTTGAACTATGATAAACT-TAAATATATAAAATT
*
15440497 TTTATATTATTTGAACTATGATGCAAACTT-AATATATAAAATT
1 TTTATATTACTTGAACTATGAT--AAACTTAAATATATAAAATT
* * *
15440540 TTTATATTAGC-TGAGCT-TG-TAAAC-TAACAAATGTAAAATT
1 TTTATATTA-CTTGAACTATGATAAACTTAA-ATATATAAAATT
*
15440580 AATTTATATTACTTCAACTATGATGCAAACTTAAATATATAAAATT
1 --TTTATATTACTTGAACTATGAT--AAACTTAAATATATAAAATT
* * * *
15440626 TTTATACTAGTTGAACT-TG-TAAAC-TAATAAATGTAAAATT
1 TTTATATTACTTGAACTATGATAAACTTAA-ATATATAAAATT
*
15440666 AATTTATATTACTTGAA-TAATAATGCAAACTTAAATATATAAAATT
1 --TTTATATTACTTGAACT-ATGAT--AAACTTAAATATATAAAATT
* *
15440712 TTTATATTAGTTGAACT-TG-TAAAC--AAATAAATGTAAAATT
1 TTTATATTACTTGAACTATGATAAACTTAAAT--ATATAAAATT
15440752 AATTTATATTACTTGAACTATGATGCAAACTTAA
1 --TTTATATTACTTGAACTATGAT--AAACTTAA
15440786 TAGCATATCA
Statistics
Matches: 386, Mismatches: 71, Indels: 136
0.65 0.12 0.23
Matches are distributed among these distances:
32 5 0.01
33 2 0.01
34 10 0.03
35 7 0.02
36 7 0.02
37 2 0.01
38 16 0.04
39 15 0.04
40 58 0.15
41 13 0.03
42 84 0.22
43 35 0.09
44 67 0.17
45 8 0.02
46 45 0.12
47 10 0.03
48 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (42 bp):
TTTATATTACTTGAACTATGATAAACTTAAATATATAAAATT
Found at i:15440321 original size:86 final size:86
Alignment explanation
Indices: 15440213--15440427 Score: 313
Period size: 86 Copynumber: 2.5 Consensus size: 86
15440203 AAATAAAGTT
*
15440213 AATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTTTTATATGAGTTGAACTTG
1 AATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTTTTATATGAGCTGAACTTG
**
15440278 TAAACTAATAAATGTAAAATA
66 TAAACTAATAAATACAAAATA
* * ** * *
15440299 AATTTGTATTACTTAAACTATGATATAAACTTAAATATATAAAGTTTTTATATTAGCTGAACTTG
1 AATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTTTTATATGAGCTGAACTTG
* *
15440364 TAAATTAATAAATACAAAATT
66 TAAACTAATAAATACAAAATA
* *
15440385 ATTTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAA
1 AATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAA
15440428 TTTCTANAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 112 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (86 bp):
AATTTATATTACTTGAACTATGATGCAAACTTAAATATATAAAATTTTTATATGAGCTGAACTTG
TAAACTAATAAATACAAAATA
Found at i:15440540 original size:110 final size:108
Alignment explanation
Indices: 15440324--15440536 Score: 293
Period size: 110 Copynumber: 2.0 Consensus size: 108
15440314 AACTATGATA
* * * * * *
15440324 TAAACTTAAATATATAAAGTTTTTATATTAGCTGAACTTGTAAATTAATAAATACAAAATTATTT
1 TAAAGTTAAATATATAAAATTTTTATATTAGCTGAACTTGCAAACTAACAAATACAAAATTAATT
15440389 TATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTC
66 TATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTC
* * **
15440432 TANAAGTTAAATATTATAAAATTTTTATATTAGTTGAGCTTGCAAACTAACAAATGTAAAATTAA
1 TA-AAGTTAAATA-TATAAAATTTTTATATTAGCTGAACTTGCAAACTAACAAATACAAAATTAA
* *
15440497 TTTATATTATTTGAACTATGATGCAAACTT-AATATATAAA
64 TTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAA
15440537 ATTTTTATAT
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 2 0.02
109 19 0.21
110 70 0.77
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (108 bp):
TAAAGTTAAATATATAAAATTTTTATATTAGCTGAACTTGCAAACTAACAAATACAAAATTAATT
TATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTC
Found at i:15440588 original size:195 final size:194
Alignment explanation
Indices: 15440243--15440622 Score: 564
Period size: 195 Copynumber: 2.0 Consensus size: 194
15440233 TGATGCAAAC
* * *
15440243 TTAAATATATAAAATTTTTATATGAGTTGAACTTGTAAACTAATAAATGTAAAATAAATTTGTAT
1 TTAAATATATAAAATTTTTATATGAGTTGAACTTGCAAACTAACAAATGTAAAATAAATTTATAT
* * * *
15440308 TACTTAAACTATGATATAAACTTAAATATATAAAGTTTTTATATTAGCTGAACTTGTAAATTAAT
66 TACTTAAACTATGATACAAACTTAAATATATAAAATTTTTATATTAGCTGAACTTGTAAACTAAC
* *
15440373 AAATACAAAATTATTTTATATTACTTGAACTATGAAGCAAACTTAAATATATAAATTTCTANAAG
131 AAATACAAAATTAATTTATATTACTTCAACTATGAAGCAAACTTAAATATATAAATTTCTA-AAG
* * *
15440438 TTAAATATTATAAAATTTTTATATTAGTTGAGCTTGCAAACTAACAAATGTAAAATTAATTTATA
1 TTAAATA-TATAAAATTTTTATATGAGTTGAACTTGCAAACTAACAAATGTAAAATAAATTTATA
* * * *
15440503 TTATTTGAACTATGATGCAAACTT-AATATATAAAATTTTTATATTAGCTGAGCTTGTAAACTAA
65 TTACTTAAACTATGATACAAACTTAAATATATAAAATTTTTATATTAGCTGAACTTGTAAACTAA
** *
15440567 CAAATGTAAAATTAATTTATATTACTTCAACTATGATGCAAACTTAAATATATAAA
130 CAAATACAAAATTAATTTATATTACTTCAACTATGAAGCAAACTTAAATATATAAA
15440623 ATTTTTATAC
Statistics
Matches: 165, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
195 94 0.57
196 71 0.43
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (194 bp):
TTAAATATATAAAATTTTTATATGAGTTGAACTTGCAAACTAACAAATGTAAAATAAATTTATAT
TACTTAAACTATGATACAAACTTAAATATATAAAATTTTTATATTAGCTGAACTTGTAAACTAAC
AAATACAAAATTAATTTATATTACTTCAACTATGAAGCAAACTTAAATATATAAATTTCTAAAG
Found at i:15440672 original size:86 final size:86
Alignment explanation
Indices: 15440438--15440785 Score: 565
Period size: 86 Copynumber: 4.0 Consensus size: 86
15440428 TTTCTANAAG
* *
15440438 TTAAATATTATAAAATTTTTATATTAGTTGAGCTTGCAAACTAACAAATGTAAAATTAATTTATA
1 TTAAATA-TATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATA
*
15440503 TTATTTGAACTATGATGCAAAC
65 TTACTTGAACTATGATGCAAAC
* *
15440525 TT-AATATATAAAATTTTTATATTAGCTGAGCTTGTAAACTAACAAATGTAAAATTAATTTATAT
1 TTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATAT
*
15440589 TACTTCAACTATGATGCAAAC
66 TACTTGAACTATGATGCAAAC
* *
15440610 TTAAATATATAAAATTTTTATACTAGTTGAACTTGTAAACTAATAAATGTAAAATTAATTTATAT
1 TTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATAT
*
15440675 TACTTGAA-TAATAATGCAAAC
66 TACTTGAACT-ATGATGCAAAC
* *
15440696 TTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACAAATAAATGTAAAATTAATTTATAT
1 TTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATAT
15440761 TACTTGAACTATGATGCAAAC
66 TACTTGAACTATGATGCAAAC
15440782 TTAA
1 TTAA
15440786 TAGCATATCA
Statistics
Matches: 245, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
85 78 0.32
86 164 0.67
87 3 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (86 bp):
TTAAATATATAAAATTTTTATATTAGTTGAACTTGTAAACTAACAAATGTAAAATTAATTTATAT
TACTTGAACTATGATGCAAAC
Found at i:15442286 original size:25 final size:26
Alignment explanation
Indices: 15442224--15442287 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
15442214 TGGGATGAAG
* *
15442224 TAATA-ACTTATTA-TTTGGTAGCAA
1 TAATATACTTGTTATTTTGCTAGCAA
*
15442248 TAATATATCTTGTTATTTTGCTAGTAA
1 TAATATA-CTTGTTATTTTGCTAGCAA
15442275 TAATATA-TTGTTA
1 TAATATACTTGTTA
15442288 ATATCTTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.15
25 7 0.21
26 6 0.18
27 16 0.47
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.48
Consensus pattern (26 bp):
TAATATACTTGTTATTTTGCTAGCAA
Found at i:15449550 original size:15 final size:15
Alignment explanation
Indices: 15449530--15449561 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15449520 TCAAGGAGAT
15449530 AATGATGAAAACATC
1 AATGATGAAAACATC
15449545 AATGATGAAAACATC
1 AATGATGAAAACATC
15449560 AA
1 AA
15449562 GGACCACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (15 bp):
AATGATGAAAACATC
Found at i:15452541 original size:35 final size:34
Alignment explanation
Indices: 15452502--15452569 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 34
15452492 CCTAGTCTTG
*
15452502 CAAAAGGCAAGTTGTAGAGGTTATGCTTGATCCTA
1 CAAAAGGCAAGTTGTAAAGGTTATGCTTG-TCCTA
*
15452537 CAAAAGGCATGTTGTAAAGGTTATGCTTGTCCT
1 CAAAAGGCAAGTTGTAAAGGTTATGCTTGTCCT
15452570 TATTGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 4 0.13
35 27 0.87
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (34 bp):
CAAAAGGCAAGTTGTAAAGGTTATGCTTGTCCTA
Found at i:15455985 original size:66 final size:66
Alignment explanation
Indices: 15455903--15456034 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
15455893 CTGGTTTCAC
15455903 TTATTCACTGATCAAACTAAGCCTTCACTAATTGATTGGCAATGAAAACCTTGCAAACCTTGCGA
1 TTATTCACTGATCAAACTAAGCCTTCACTAATTGATTGGCAATGAAAACCTTGCAAACCTTGCGA
15455968 A
66 A
* *
15455969 TTATTCACTGATCAAACTAAGCCTTCACTAATTGATTGGCACTGAAAACCTTGCAAGCCTTGCGA
1 TTATTCACTGATCAAACTAAGCCTTCACTAATTGATTGGCAATGAAAACCTTGCAAACCTTGCGA
15456034 A
66 A
15456035 ACCTTTCGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (66 bp):
TTATTCACTGATCAAACTAAGCCTTCACTAATTGATTGGCAATGAAAACCTTGCAAACCTTGCGA
A
Found at i:15456028 original size:36 final size:36
Alignment explanation
Indices: 15455921--15456029 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 36
15455911 TGATCAAACT
*
15455921 AAGCCTTCACTAATTGATTGGCAATGAAAACCTTGC
1 AAGCCTTCACTAATTGATTGGCACTGAAAACCTTGC
* * *
15455957 AAACCTT-GCGAATT-ATT--CACTGATCAAA-C-T--
1 AAGCCTTCACTAATTGATTGGCACTGA--AAACCTTGC
15455987 AAGCCTTCACTAATTGATTGGCACTGAAAACCTTGC
1 AAGCCTTCACTAATTGATTGGCACTGAAAACCTTGC
15456023 AAGCCTT
1 AAGCCTT
15456030 GCGAAACCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
30 6 0.11
31 5 0.09
32 12 0.21
33 2 0.04
34 13 0.23
35 5 0.09
36 13 0.23
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (36 bp):
AAGCCTTCACTAATTGATTGGCACTGAAAACCTTGC
Found at i:15461106 original size:50 final size:50
Alignment explanation
Indices: 15461031--15461137 Score: 214
Period size: 50 Copynumber: 2.1 Consensus size: 50
15461021 TTTCACGGTT
15461031 GTGGGGTATGGTAATATGCATCCAGTCCAGGTTTCAATTTAATCAGATTG
1 GTGGGGTATGGTAATATGCATCCAGTCCAGGTTTCAATTTAATCAGATTG
15461081 GTGGGGTATGGTAATATGCATCCAGTCCAGGTTTCAATTTAATCAGATTG
1 GTGGGGTATGGTAATATGCATCCAGTCCAGGTTTCAATTTAATCAGATTG
15461131 GTGGGGT
1 GTGGGGT
15461138 GGCGAGTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (50 bp):
GTGGGGTATGGTAATATGCATCCAGTCCAGGTTTCAATTTAATCAGATTG
Found at i:15472752 original size:16 final size:17
Alignment explanation
Indices: 15472733--15472765 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15472723 AAAAACAAAG
*
15472733 AGAAGAATG-AAAGAGA
1 AGAAGAAAGTAAAGAGA
15472749 AGAAGAAAGTAAAGAGA
1 AGAAGAAAGTAAAGAGA
15472766 CATGGGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (17 bp):
AGAAGAAAGTAAAGAGA
Found at i:15472763 original size:12 final size:13
Alignment explanation
Indices: 15472729--15472757 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15472719 AAGCAAAAAC
15472729 AAAGAGAAGAATG
1 AAAGAGAAGAATG
15472742 AAAGAGAAGAA-G
1 AAAGAGAAGAATG
15472754 AAAG
1 AAAG
15472758 TAAAGAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (13 bp):
AAAGAGAAGAATG
Found at i:15475261 original size:15 final size:14
Alignment explanation
Indices: 15475230--15475272 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
15475220 AGCCAATAAA
15475230 CCTCTCCCTCCCTTCC
1 CCTC-CCCTCCC-TCC
*
15475246 CTTCCCCTGCCCTCC
1 CCTCCCCT-CCCTCC
15475261 CCTCCCCTCCCT
1 CCTCCCCTCCCT
15475273 GCAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 14 0.58
16 6 0.25
ACGTcount: A:0.00, C:0.70, G:0.02, T:0.28
Consensus pattern (14 bp):
CCTCCCCTCCCTCC
Found at i:15481743 original size:16 final size:17
Alignment explanation
Indices: 15481713--15481745 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15481703 TTTATTTATT
15481713 TATTTATATTATTTAAC
1 TATTTATATTATTTAAC
15481730 TATTTATA-TATTTAAC
1 TATTTATATTATTTAAC
15481746 CATTGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTTATATTATTTAAC
Found at i:15481754 original size:17 final size:17
Alignment explanation
Indices: 15481714--15481754 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
15481704 TTATTTATTT
*
15481714 ATTTATATTATTTAACT
1 ATTTATATTATTTAACC
15481731 ATTTATA-TATTTAACC
1 ATTTATATTATTTAACC
15481747 ATTGTATA
1 ATT-TATA
15481755 AAATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTATATTATTTAACC
Found at i:15481789 original size:7 final size:7
Alignment explanation
Indices: 15481779--15481823 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
15481769 GTATTTAACA
15481779 TTTATAT
1 TTTATAT
15481786 TTTATAT
1 TTTATAT
*
15481793 ATTATAGT
1 TTTATA-T
15481801 TTTATAT
1 TTTATAT
*
15481808 TTAATAT
1 TTTATAT
*
15481815 TTTAAAT
1 TTTATAT
15481822 TT
1 TT
15481824 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (7 bp):
TTTATAT
Found at i:15481825 original size:14 final size:13
Alignment explanation
Indices: 15481772--15481824 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
15481762 ATATATCGTA
15481772 TTTAACATTTATAT
1 TTTAA-ATTTATAT
*
15481786 TTTATATATTATAGT
1 TTTAAAT-TTATA-T
*
15481801 TTTATATTTAATAT
1 TTTAAATTT-ATAT
15481815 TTTAAATTTA
1 TTTAAATTTA
15481825 AATAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 3 0.09
14 20 0.59
15 11 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (13 bp):
TTTAAATTTATAT
Found at i:15484881 original size:16 final size:16
Alignment explanation
Indices: 15484836--15484882 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
15484826 TATTTACTTA
15484836 TTTTATTT-ATAATATT
1 TTTTATTTAATAAT-TT
* *
15484852 TTTAACTTAA-AATTT
1 TTTTATTTAATAATTT
15484867 TTTTATTTAATAATTT
1 TTTTATTTAATAATTT
15484883 CTATTTGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.40
16 14 0.56
17 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTAATAATTT
Found at i:15487241 original size:25 final size:25
Alignment explanation
Indices: 15487213--15487260 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15487203 ACATACGAGT
15487213 TTATGAATGAATATGTAATGTATGC
1 TTATGAATGAATATGTAATGTATGC
***
15487238 TTATGAATTTGTATGTAATGTAT
1 TTATGAATGAATATGTAATGTAT
15487261 TTTTCCACGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (25 bp):
TTATGAATGAATATGTAATGTATGC
Found at i:15492163 original size:71 final size:70
Alignment explanation
Indices: 15492084--15492229 Score: 161
Period size: 72 Copynumber: 2.1 Consensus size: 70
15492074 GTAATGCAAG
* * *
15492084 GATTGACCCCTAAAGG-GAGAAA-GTCAATCCCCTAGCAAACAAAATGCTTGGAAGGCATTCTGT
1 GATTGACCCAT-AAGGAGA-AAAGGTCAATCCCCTAACAAACAAAATGCTTGGAAGGCATTCTAT
15492147 TTTATAAA
64 TTTAT-AA
* ** * *
15492155 GATTGACCCATAAGGAGAAAATGGTCGATCTTCTAACAAATAGAATGCTTGGAAGGCATTCTATT
1 GATTGACCCATAAGGAGAAAA-GGTCAATCCCCTAACAAACAAAATGCTTGGAAGGCATTCTATT
*
15492220 TTGTAA
65 TTATAA
15492226 GATT
1 GATT
15492230 AAACTTCCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
70 7 0.11
71 18 0.29
72 38 0.60
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (70 bp):
GATTGACCCATAAGGAGAAAAGGTCAATCCCCTAACAAACAAAATGCTTGGAAGGCATTCTATTT
TATAA
Found at i:15494855 original size:42 final size:42
Alignment explanation
Indices: 15494793--15494925 Score: 160
Period size: 42 Copynumber: 3.2 Consensus size: 42
15494783 TGTGCAAGTA
*
15494793 GGAGTGTGCATAAGCCGATGCTGACCCGACTATATGCGAGTG
1 GGAGTGCGCATAAGCCGATGCTGACCCGACTATATGCGAGTG
* * * *
15494835 GGAGTGCGCATAAGCTGATGCTGACCCTG-CTATGTGTGAGTA
1 GGAGTGCGCATAAGCCGATGCTGACCC-GACTATATGCGAGTG
* * * * *
15494877 GGAGTGCGCATAAACCGATGTTGACCCAACCATATGCTAGTG
1 GGAGTGCGCATAAGCCGATGCTGACCCGACTATATGCGAGTG
15494919 GGAGTGC
1 GGAGTGC
15494926 ATATGAGCTG
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 74 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (42 bp):
GGAGTGCGCATAAGCCGATGCTGACCCGACTATATGCGAGTG
Found at i:15494935 original size:84 final size:84
Alignment explanation
Indices: 15494779--15494937 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
15494769 TATTGACTCG
* * * * *
15494779 GCTATGTGCAAGTAGGAGTGTGCATAAGCCGATGCTGACCCGACTATATGCGAGTGGGAGTGCGC
1 GCTATGTGCAAGTAGGAGTGCGCATAAACCGATGCTGACCCAACCATATGCGAGTGGGAGTGCAC
15494844 ATAAGCTGATGCTGACCCT
66 ATAAGCTGATGCTGACCCT
** * * *
15494863 GCTATGTGTGAGTAGGAGTGCGCATAAACCGATGTTGACCCAACCATATGCTAGTGGGAGTGCAT
1 GCTATGTGCAAGTAGGAGTGCGCATAAACCGATGCTGACCCAACCATATGCGAGTGGGAGTGCAC
*
15494928 ATGAGCTGAT
66 ATAAGCTGAT
15494938 AATGATGGGA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 64 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (84 bp):
GCTATGTGCAAGTAGGAGTGCGCATAAACCGATGCTGACCCAACCATATGCGAGTGGGAGTGCAC
ATAAGCTGATGCTGACCCT
Found at i:15494989 original size:10 final size:10
Alignment explanation
Indices: 15494966--15495014 Score: 80
Period size: 10 Copynumber: 4.9 Consensus size: 10
15494956 ATGATGATTG
* *
15494966 ATATATATAT
1 ATATACATAC
15494976 ATATACATAC
1 ATATACATAC
15494986 ATATACATAC
1 ATATACATAC
15494996 ATATACATAC
1 ATATACATAC
15495006 ATATACATA
1 ATATACATA
15495015 TGTATACATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATACATAC
Found at i:15495020 original size:10 final size:10
Alignment explanation
Indices: 15494966--15495047 Score: 78
Period size: 10 Copynumber: 8.4 Consensus size: 10
15494956 ATGATGATTG
*
15494966 ATATATATAT
1 ATATACATAT
*
15494976 ATATACATAC
1 ATATACATAT
*
15494986 ATATACATAC
1 ATATACATAT
*
15494996 ATATACATAC
1 ATATACATAT
15495006 ATATACATAT
1 ATATACATAT
* *
15495016 GTATACATGT
1 ATATACATAT
*
15495026 ATGT--ATAT
1 ATATACATAT
*
15495034 ATATACATAC
1 ATATACATAT
15495044 ATAT
1 ATAT
15495048 GTGTTTGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
8 6 0.10
10 54 0.90
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (10 bp):
ATATACATAT
Found at i:15495048 original size:20 final size:20
Alignment explanation
Indices: 15494966--15495158 Score: 102
Period size: 20 Copynumber: 9.4 Consensus size: 20
15494956 ATGATGATTG
15494966 ATATATATATATATACATAC
1 ATATATATATATATACATAC
* *
15494986 ATATACATACATATACATAC
1 ATATATATATATATACATAC
* *
15495006 ATATACATATGTATACAT--
1 ATATATATATATATACATAC
* *
15495024 GTATGTATATATATACATAC
1 ATATATATATATATACATAC
* * * * ** **
15495044 ATATGTGTTTGTATGTATGT
1 ATATATATATATATACATAC
* * * *
15495064 ATGTATGTATACATACATATGTGT
1 ATATATATATATATACATA----C
* * *
15495088 ATGTATGTATGTATACATAC
1 ATATATATATATATACATAC
*
15495108 ATACATATATATACATACATAC
1 AT--ATATATATATATACATAC
*
15495130 ATATACATATATATACATAC
1 ATATATATATATATACATAC
*
15495150 ATACATATA
1 ATATATATA
15495159 CGGTGTATGG
Statistics
Matches: 130, Mismatches: 35, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
18 14 0.11
20 82 0.63
22 16 0.12
24 18 0.14
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATATATATATATACATAC
Found at i:15495049 original size:32 final size:33
Alignment explanation
Indices: 15495008--15495123 Score: 112
Period size: 32 Copynumber: 3.5 Consensus size: 33
15494998 ATACATACAT
15495008 ATACATATGTATACATGTATGTA-TATATATAC
1 ATACATATGTATACATGTATGTAGTATATATAC
* ** *
15495040 ATACATATGTGTTTGTATGTATGTATGTATGTATAC
1 ATACATA--TGTATACATGTATGTA-GTATATATAC
* *
15495076 ATACATATGTGT--ATGTATGTATGTATACATAC
1 ATACATATGTATACATGTATGTA-GTATATATAC
*
15495108 ATACATATATATACAT
1 ATACATATGTATACAT
15495124 ACATACATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
32 35 0.51
34 19 0.28
36 15 0.22
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (33 bp):
ATACATATGTATACATGTATGTAGTATATATAC
Found at i:15495057 original size:38 final size:36
Alignment explanation
Indices: 15494996--15495115 Score: 122
Period size: 38 Copynumber: 3.4 Consensus size: 36
15494986 ATATACATAC
***
15494996 ATATACATACATATACATATGTATACATGTATGTATAT
1 ATATACATACATATGTGTATGTATACATGTATG--TAT
* **
15495034 ATATACATACATATGTGTTTGTATGTATGTATGTAT
1 ATATACATACATATGTGTATGTATACATGTATGTAT
*
15495070 GTATACATACATATGTGTATG--T--ATGTATGTAT
1 ATATACATACATATGTGTATGTATACATGTATGTAT
*
15495102 ACATACATACATAT
1 ATATACATACATAT
15495116 ATATACATAC
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 22 0.31
34 1 0.01
36 22 0.31
38 27 0.38
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (36 bp):
ATATACATACATATGTGTATGTATACATGTATGTAT
Found at i:15495082 original size:36 final size:35
Alignment explanation
Indices: 15495022--15495119 Score: 126
Period size: 36 Copynumber: 2.8 Consensus size: 35
15495012 ATATGTATAC
*
15495022 ATGTATGTA-TATATATACATACATATGTGTTTGT
1 ATGTATGTATTATATATACATACATATGTGTATGT
*
15495056 ATGTATGTATGTATGTATACATACATATGTGTATGT
1 ATGTATGTAT-TATATATACATACATATGTGTATGT
* * *
15495092 ATGTATGTATACATACATACATATATAT
1 ATGTATGTAT-TATATATACATACATAT
15495120 ACATACATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
34 9 0.16
36 46 0.84
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (35 bp):
ATGTATGTATTATATATACATACATATGTGTATGT
Found at i:15495093 original size:24 final size:24
Alignment explanation
Indices: 15495061--15495106 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
15495051 TTTGTATGTA
15495061 TGTATGTATGTATACATACATATG
1 TGTATGTATGTATACATACATATG
**
15495085 TGTATGTATGTATGTATACATA
1 TGTATGTATGTATACATACATA
15495107 CATACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTATGTATGTATACATACATATG
Found at i:15495093 original size:28 final size:28
Alignment explanation
Indices: 15495057--15495110 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
15495047 TGTGTTTGTA
15495057 TGTATGTATGTATGTATACATACATATG
1 TGTATGTATGTATGTATACATACATATG
15495085 TGTATGTATGTATGTATACATACATA
1 TGTATGTATGTATGTATACATACATA
15495111 CATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (28 bp):
TGTATGTATGTATGTATACATACATATG
Found at i:15495107 original size:4 final size:4
Alignment explanation
Indices: 15495100--15495156 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
15495090 GTATGTATGT
* * * * *
15495100 ATAC ATAC ATAC AT-- ATAT ATAC ATAC ATAC ATAT ACAT ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
15495146 ATAC ATAC ATA
1 ATAC ATAC ATA
15495157 TACGGTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.04
4 44 0.96
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.32
Consensus pattern (4 bp):
ATAC
Found at i:15495116 original size:14 final size:14
Alignment explanation
Indices: 15495099--15495159 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
15495089 TGTATGTATG
15495099 TATACATACATACA
1 TATACATACATACA
*
15495113 TATATATACATACA
1 TATACATACATACA
* * *
15495127 TACATATACATATA
1 TATACATACATACA
15495141 TATACATACATACA
1 TATACATACATACA
15495155 TATAC
1 TATAC
15495160 GGTGTATGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (14 bp):
TATACATACATACA
Found at i:15495140 original size:24 final size:24
Alignment explanation
Indices: 15495100--15495159 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
15495090 GTATGTATGT
15495100 ATACATAC--ATACATATATATAC
1 ATACATACATATACATATATATAC
15495122 ATACATACATATACATATATATAC
1 ATACATACATATACATATATATAC
15495146 ATACATACATATAC
1 ATACATACATATAC
15495160 GGTGTATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.22
24 28 0.78
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (24 bp):
ATACATACATATACATATATATAC
Found at i:15495159 original size:10 final size:10
Alignment explanation
Indices: 15495104--15495152 Score: 66
Period size: 10 Copynumber: 5.1 Consensus size: 10
15495094 GTATGTATAC
15495104 ATACATACAT
1 ATACATACAT
*
15495114 ATATATAC--
1 ATACATACAT
15495122 ATACATACAT
1 ATACATACAT
*
15495132 ATACATATAT
1 ATACATACAT
15495142 ATACATACAT
1 ATACATACAT
15495152 A
1 A
15495153 CATATACGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 7 0.21
10 26 0.79
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (10 bp):
ATACATACAT
Found at i:15498197 original size:23 final size:20
Alignment explanation
Indices: 15498169--15498237 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 20
15498159 AAAATTAAAC
15498169 AATATTAATATTTTAACCATAA
1 AATATTAATATTTTAA--ATAA
*
15498191 TAATATTGAA-ATTATAAATAA
1 -AATATT-AATATTTTAAATAA
15498212 AATATTAATATTTT---TAA
1 AATATTAATATTTTAAATAA
15498229 AATATTAAT
1 AATATTAAT
15498238 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
17 12 0.29
19 2 0.05
20 10 0.24
21 4 0.10
23 12 0.29
24 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
AATATTAATATTTTAAATAA
Found at i:15498796 original size:14 final size:16
Alignment explanation
Indices: 15498777--15498808 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
15498767 GTAATAAAAG
15498777 TTATTTT-TA-TCTTT
1 TTATTTTCTATTCTTT
15498791 TTATTTTCTATTCTTT
1 TTATTTTCTATTCTTT
15498807 TT
1 TT
15498809 CTATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTTTCTATTCTTT
Found at i:15500232 original size:41 final size:41
Alignment explanation
Indices: 15500168--15500251 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
15500158 GTGCTTTAGT
* * *
15500168 GGCTGTTGTTAATAGACAAAATGTGTCTATTTGTTACCTAA
1 GGCTATTGTTAATAGACAAAATGTGTCTATTTGCTAACTAA
* *
15500209 GGCTATTGTTAATGGACAGAATGTGTCTATTTGCTAACTAA
1 GGCTATTGTTAATAGACAAAATGTGTCTATTTGCTAACTAA
15500250 GG
1 GG
15500252 AATATCTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.37
Consensus pattern (41 bp):
GGCTATTGTTAATAGACAAAATGTGTCTATTTGCTAACTAA
Found at i:15505141 original size:4 final size:4
Alignment explanation
Indices: 15505126--15505159 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
15505116 ATTCATGGGN
* *
15505126 GTAT GCAT GTAT GTAT ATAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
15505160 GCACCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:15506268 original size:57 final size:57
Alignment explanation
Indices: 15506161--15506691 Score: 384
Period size: 57 Copynumber: 9.2 Consensus size: 57
15506151 CTTAAAGCAT
* * ** * * * * *
15506161 CAAGCATGTGTCTCACTCACCACATATGTCTAGCATCAAGCGTTGGTAGATAGGCAA
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
* ** * * *
15506218 CAAGCACGTGT-TTCACTAAATACACATGTTTAGCACCAAGCCTTACTAGATAGTATAA
1 CAAGCATGTGTCTT-ACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAG-GTAA
* * * * * *
15506276 CAAACATGTGTCTTACCCACTACACATATCTAGCACTAATCCTTGCTAGATAGGTAT
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
* * * * * *
15506333 CAAGCGTGTGTCTTACCCACTACACATATCTAGCACTAATCCTTGCTAGATAGGTAT
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
* * ** ***
15506390 CAAGCGTGTGTCTTACCCACTACACATGTCTAGCACCAAGTTTTGCTAGATAAACAA
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
* *** *
15506447 CAAGCATGTGTCTCATTTAATACACATGTCTAGCACCAA-CCTTTGCTAGATATGTATAA
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCC-TTGCTAGATA-G-GTAA
* * * * * ** * *
15506506 CAAGCATGTGTATTACACATTGCACATGTCTAGCACCAAGCTTTTTTAGATAGGCAT
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
* * ** * * * *
15506563 CAACCATGTGTCTCATGCAATAAACATGTCTAACACTAA-CCTTTCTTAGATAGGTATAA
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGC-TAGATAGG--TAA
* * * * * * * * *
15506622 CAAGCACGTATCTTACCCATTACACATGTTTAGCACCAAACCTTACTAAATAGGCAT
1 CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
15506679 CAAGCATGTGTCT
1 CAAGCATGTGTCT
15506692 AATGGGAAAG
Statistics
Matches: 373, Mismatches: 90, Indels: 22
0.77 0.19 0.05
Matches are distributed among these distances:
56 5 0.01
57 238 0.64
58 43 0.12
59 81 0.22
60 6 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (57 bp):
CAAGCATGTGTCTTACCCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTAA
Found at i:15506571 original size:116 final size:116
Alignment explanation
Indices: 15506161--15506691 Score: 516
Period size: 116 Copynumber: 4.6 Consensus size: 116
15506151 CTTAAAGCAT
* * * * * * * * *
15506161 CAAGCATGTGTCTCACTCACCACATATGTCTAGCATCAAGCGTTGGTAGATAGGCAACAAGCACG
1 CAAGCATGTGTCTTACCCACTACACATGTCTAGCACCAAGCCTTGCTAGATAGGCATCAAGCATG
* * * *
15506226 TGTTTCACTAAATACACATGTTTAGCACCAAGCCTTACTAGATA-GTATAA
66 TGTCTCACTCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTATAA
* * * * * *
15506276 CAAACATGTGTCTTACCCACTACACATATCTAGCACTAATCCTTGCTAGATAGGTATCAAGCGTG
1 CAAGCATGTGTCTTACCCACTACACATGTCTAGCACCAAGCCTTGCTAGATAGGCATCAAGCATG
* * * * * *
15506341 TGTCTTACCCACTACACATATCTAGCACTAATCCTTGCTAGATAGGTAT--
66 TGTCTCACTCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTATAA
* ** ** *
15506390 CAAGCGTGTGTCTTACCCACTACACATGTCTAGCACCAAGTTTTGCTAGATAAACAACAAGCATG
1 CAAGCATGTGTCTTACCCACTACACATGTCTAGCACCAAGCCTTGCTAGATAGGCATCAAGCATG
* * *
15506455 TGTCTCATTTAATACACATGTCTAGCACCAA-CCTTTGCTAGATATGTATAA
66 TGTCTCACTCAATACACATGTCTAGCACCAAGCC-TTGCTAGATAGGTATAA
* * * * * ** *
15506506 CAAGCATGTGTATTACACATTGCACATGTCTAGCACCAAGCTTTTTTAGATAGGCATCAACCATG
1 CAAGCATGTGTCTTACCCACTACACATGTCTAGCACCAAGCCTTGCTAGATAGGCATCAAGCATG
* * * *
15506571 TGTCTCA-TGCAATAAACATGTCTAACACTAA-CCTTTCTTAGATAGGTATAA
66 TGTCTCACT-CAATACACATGTCTAGCACCAAGCCTTGC-TAGATAGGTATAA
* * * * * * *
15506622 CAAGCACGTATCTTACCCATTACACATGTTTAGCACCAAACCTTACTAAATAGGCATCAAGCATG
1 CAAGCATGTGTCTTACCCACTACACATGTCTAGCACCAAGCCTTGCTAGATAGGCATCAAGCATG
15506687 TGTCT
66 TGTCT
15506692 AATGGGAAAG
Statistics
Matches: 335, Mismatches: 75, Indels: 11
0.80 0.18 0.03
Matches are distributed among these distances:
113 2 0.01
114 91 0.27
115 88 0.26
116 154 0.46
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (116 bp):
CAAGCATGTGTCTTACCCACTACACATGTCTAGCACCAAGCCTTGCTAGATAGGCATCAAGCATG
TGTCTCACTCAATACACATGTCTAGCACCAAGCCTTGCTAGATAGGTATAA
Found at i:15510221 original size:20 final size:20
Alignment explanation
Indices: 15510193--15510231 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15510183 ATTAGGAATT
15510193 TAAGATTC-TAATATATAAAA
1 TAAGATTCTTAA-ATATAAAA
*
15510213 TAAGGTTCTTAAATATAAA
1 TAAGATTCTTAAATATAAA
15510232 GTCTTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (20 bp):
TAAGATTCTTAAATATAAAA
Found at i:15533885 original size:30 final size:30
Alignment explanation
Indices: 15533843--15533901 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
15533833 CATAACTCTG
*
15533843 TTATACTTTAATTAAATAA-TAGTATTATA
1 TTATACTCTAATTAAATAATTAGTATTATA
*
15533872 TTATAACTCTAATTAGATAATTAGTATTAT
1 TTAT-ACTCTAATTAAATAATTAGTATTAT
15533902 TATCTTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 13 0.50
31 9 0.35
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (30 bp):
TTATACTCTAATTAAATAATTAGTATTATA
Found at i:15538355 original size:254 final size:254
Alignment explanation
Indices: 15537905--15538399 Score: 812
Period size: 254 Copynumber: 1.9 Consensus size: 254
15537895 GAAAAAGCAG
*
15537905 GCTGATAATTGATATGCCTGCTTGTTTCGGTTGATTTCATAATGCTTGAAATTTCTTGGGATGTG
1 GCTGATAATTGATATGCCTGCTTGTTTCGGTTGATTTCATAATGCTTGAAATTTCTTGGGAAGTG
* * * *
15537970 TTTTGCTCTGATCCAAAATTTTTGTAGGAATCTTCCTTAGGTTGTCAATAAGCAAGTCATTTAGC
66 TTTTGCTCTGATCCAAAATTTTTCTAGGAATCTTCATTAGGCTGTCAACAAGCAAGTCATTTAGC
** * *
15538035 TATTGTGTTGTTGTATGCTCTGGACATGCGATATATGTATGTAATTATTTGTGATGTCTAAGTAT
131 TATTGTGTTGTTGTACACTCTGGACATGCAATATATGTATGTAATTATTCGTGATGTCTAAGTAT
* * *
15538100 GATGCCCCAGTAGTGATACTTGATTAATTATTTTGTTTGAGAGATCTCTACCTGGCCAT
196 GAAGCCCCAATAGTGATACTTCATTAATTATTTTGTTTGAGAGATCTCTACCTGGCCAT
*
15538159 GCTGATAATTGATATGCCTGCTTGTTTTGGTTGATTTCATAATGCTTGAAATTTCTTGGGAAGTG
1 GCTGATAATTGATATGCCTGCTTGTTTCGGTTGATTTCATAATGCTTGAAATTTCTTGGGAAGTG
* *
15538224 TTTTGCTCTGATCCAGAATTTTTCTGGGAATCTTCATTAGGCTGTCAACAAGCAAGTCATTTAGC
66 TTTTGCTCTGATCCAAAATTTTTCTAGGAATCTTCATTAGGCTGTCAACAAGCAAGTCATTTAGC
* *
15538289 TTTTGTGTTGTTGTACACTCTGGACATGCAAT-TCATGTATGTAATTATTCGTGATGTCTCAGTA
131 TATTGTGTTGTTGTACACTCTGGACATGCAATAT-ATGTATGTAATTATTCGTGATGTCTAAGTA
*
15538353 TGAAGCCCCAATGGTGATACTTCATTAATTATTTTGTTTGAGAGATC
195 TGAAGCCCCAATAGTGATACTTCATTAATTATTTTGTTTGAGAGATC
15538400 CCTGCTTGGC
Statistics
Matches: 222, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
253 1 0.00
254 221 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (254 bp):
GCTGATAATTGATATGCCTGCTTGTTTCGGTTGATTTCATAATGCTTGAAATTTCTTGGGAAGTG
TTTTGCTCTGATCCAAAATTTTTCTAGGAATCTTCATTAGGCTGTCAACAAGCAAGTCATTTAGC
TATTGTGTTGTTGTACACTCTGGACATGCAATATATGTATGTAATTATTCGTGATGTCTAAGTAT
GAAGCCCCAATAGTGATACTTCATTAATTATTTTGTTTGAGAGATCTCTACCTGGCCAT
Found at i:15551018 original size:27 final size:27
Alignment explanation
Indices: 15550980--15551064 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
15550970 ACATTTGATC
*
15550980 AATACATTTAACCACCAGAAGTGGATG
1 AATACATTTAACCACAAGAAGTGGATG
* *
15551007 AATACATTTAACCACTAGAAATGGATG
1 AATACATTTAACCACAAGAAGTGGATG
*
15551034 GATACATTTAACCACAAGAAGTGGATG
1 AATACATTTAACCACAAGAAGTGGATG
15551061 AATA
1 AATA
15551065 GTGAAAAGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.24
Consensus pattern (27 bp):
AATACATTTAACCACAAGAAGTGGATG
Found at i:15552330 original size:22 final size:23
Alignment explanation
Indices: 15552299--15552380 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 23
15552289 AAATAGAGTT
15552299 ATTTGAGCTTAATTTTAATAGTA
1 ATTTGAGCTTAATTTTAATAGTA
* *
15552322 ATTT-AGCTTAGTTCTT-GTAGTAA
1 ATTTGAGCTTAATT-TTAATAGT-A
15552345 TGCATTTGAGCTTAATTTTAATAGTA
1 ---ATTTGAGCTTAATTTTAATAGTA
15552371 ATTT-AGCTTA
1 ATTTGAGCTTA
15552381 GTTCCTGTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
22 18 0.38
23 11 0.23
26 7 0.15
27 12 0.25
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTGAGCTTAATTTTAATAGTA
Found at i:15552369 original size:27 final size:25
Alignment explanation
Indices: 15552298--15552372 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 25
15552288 GAAATAGAGT
15552298 TATTTGAGCTTAATTTTAATAGT-A
1 TATTTGAGCTTAATTTTAATAGTAA
* *
15552322 -ATTT-AGCTTAGTTCTT-GTAGTAA
1 TATTTGAGCTTAATT-TTAATAGTAA
15552345 TGCATTTGAGCTTAATTTTAATAGTAA
1 T--ATTTGAGCTTAATTTTAATAGTAA
15552372 T
1 T
15552373 TTAGCTTAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
22 12 0.30
23 7 0.17
26 6 0.15
27 15 0.38
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.48
Consensus pattern (25 bp):
TATTTGAGCTTAATTTTAATAGTAA
Found at i:15552739 original size:19 final size:20
Alignment explanation
Indices: 15552715--15552754 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
15552705 CCATTTGACT
15552715 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
15552734 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
15552754 T
1 T
15552755 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:15557344 original size:28 final size:28
Alignment explanation
Indices: 15557312--15557390 Score: 124
Period size: 28 Copynumber: 2.8 Consensus size: 28
15557302 TTTTTCGGAG
15557312 CATAAGGGTAAAATGGTAATTTTGCCAC
1 CATAAGGGTAAAATGGTAATTTTGCCAC
15557340 CATAAGGGTAAAATGGTAATTTTGCCAC
1 CATAAGGGTAAAATGGTAATTTTGCCAC
* *
15557368 CAT-AGTGGCAAAATTGTAATTTT
1 CATAAG-GGTAAAATGGTAATTTT
15557391 ACACCACTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 2 0.04
28 46 0.96
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (28 bp):
CATAAGGGTAAAATGGTAATTTTGCCAC
Found at i:15560077 original size:21 final size:22
Alignment explanation
Indices: 15560038--15560080 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15560028 TTCGATTGGT
15560038 ATCAGAGTATTTGGTTTTAAAG
1 ATCAGAGTATTTGGTTTTAAAG
15560060 ATCAGAGCT-TTT-GTTTTAAAG
1 ATCAGAG-TATTTGGTTTTAAAG
15560081 TTGTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 10 0.50
23 1 0.05
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (22 bp):
ATCAGAGTATTTGGTTTTAAAG
Found at i:15560123 original size:5 final size:5
Alignment explanation
Indices: 15560115--15560150 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
15560105 GTGTGGTCCC
* *
15560115 AAGTT AAGTT AAGTT AAGTC AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
15560151 GGTTGAGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (5 bp):
AAGTT
Found at i:15568163 original size:21 final size:21
Alignment explanation
Indices: 15568121--15568163 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15568111 CTTGTACCGG
*
15568121 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
15568142 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
15568163 T
1 T
15568164 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:15575810 original size:11 final size:11
Alignment explanation
Indices: 15575794--15575826 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
15575784 AACCAGCAAC
15575794 AAGAACAAAGG
1 AAGAACAAAGG
15575805 AAGAACAAAGG
1 AAGAACAAAGG
15575816 AAGAACAAAGG
1 AAGAACAAAGG
15575827 GAAAAACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (11 bp):
AAGAACAAAGG
Found at i:15576867 original size:42 final size:42
Alignment explanation
Indices: 15576808--15576906 Score: 180
Period size: 42 Copynumber: 2.4 Consensus size: 42
15576798 GTTGATTTGA
15576808 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
*
15576850 ACCCGGCTATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTG
1 ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
*
15576892 ACCCGGCTATATGCG
1 ACCCGGCTATGTGCG
15576907 CATAAGCCGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.21
Consensus pattern (42 bp):
ACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTG
Found at i:15576962 original size:26 final size:26
Alignment explanation
Indices: 15576926--15576987 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
15576916 TTGCATATGA
15576926 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
15576952 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGGTGTGCAT
*
15576978 GTTGATGATG
1 GATGATGATG
15576988 GGTATATGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGGTGTGCAT
Found at i:15586988 original size:22 final size:23
Alignment explanation
Indices: 15586963--15587010 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
15586953 AATTTCTATG
*
15586963 AATTACTA-CAATAATTAAGCT-A
1 AATTACTATCAA-AATGAAGCTCA
15586985 AATTACTATCAAAATGAAGCTCA
1 AATTACTATCAAAATGAAGCTCA
15587008 AAT
1 AAT
15587011 AACTCTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (23 bp):
AATTACTATCAAAATGAAGCTCA
Found at i:15591958 original size:43 final size:43
Alignment explanation
Indices: 15591897--15591981 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
15591887 CATTTCATAC
* *
15591897 GTTTCTTATGCTTTGATTTATATTCTTCACATACTGATTTGAA
1 GTTTCTTATGCTTTGATTTATACTCTGCACATACTGATTTGAA
* *
15591940 GTTTCTTATGCTTTGATTTATACTCTGCACTTATTGATTTGA
1 GTTTCTTATGCTTTGATTTATACTCTGCACATACTGATTTGA
15591982 TTCTTTGCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.14, G:0.13, T:0.52
Consensus pattern (43 bp):
GTTTCTTATGCTTTGATTTATACTCTGCACATACTGATTTGAA
Found at i:15599985 original size:29 final size:28
Alignment explanation
Indices: 15599928--15599986 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
15599918 TTAAATAAAT
* *
15599928 AACTAAAAATACCTAAAATTTATGCTAA
1 AACTAAAAATACCTAAAATTAATGATAA
*
15599956 AACTAAAAA-ACCTAGCAACTTAATGATAA
1 AACTAAAAATACCTA--AAATTAATGATAA
15599985 AA
1 AA
15599987 TTTAGACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 12 0.46
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (28 bp):
AACTAAAAATACCTAAAATTAATGATAA
Found at i:15604227 original size:13 final size:13
Alignment explanation
Indices: 15604209--15604233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15604199 TTCTAGAAAA
15604209 TTTATAAAATCAT
1 TTTATAAAATCAT
15604222 TTTATAAAATCA
1 TTTATAAAATCA
15604234 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15605498 original size:19 final size:19
Alignment explanation
Indices: 15605474--15605510 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15605464 CTTCTAAACT
*
15605474 TCAAATCATACTGCAATAC
1 TCAAATCATACTCCAATAC
15605493 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
15605511 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:15608744 original size:13 final size:13
Alignment explanation
Indices: 15608726--15608750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15608716 TTCCAAAAAA
15608726 TTTATAAAATCAT
1 TTTATAAAATCAT
15608739 TTTATAAAATCA
1 TTTATAAAATCA
15608751 CCATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15610015 original size:19 final size:19
Alignment explanation
Indices: 15609991--15610046 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
15609981 CTTCTAAACT
15609991 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
**
15610010 TCAAATCATACTCTTATAC
1 TCAAATCATACTCCAATAC
15610029 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
15610047 AGTCAAACGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.30
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:15613890 original size:25 final size:26
Alignment explanation
Indices: 15613862--15613915 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
15613852 ATGGGCTCTC
15613862 CCCAATT-TCTTCCT-ATTGGGCCATG
1 CCCAATTCT-TTCCTCATTGGGCCATG
*
15613887 CCC-ATTCTTTTCTCATTGGGCCATG
1 CCCAATTCTTTCCTCATTGGGCCATG
15613912 CCCA
1 CCCA
15613916 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (26 bp):
CCCAATTCTTTCCTCATTGGGCCATG
Found at i:15613933 original size:11 final size:11
Alignment explanation
Indices: 15613917--15613956 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
15613907 CCATGCCCAC
15613917 TCTTTTTTTTT
1 TCTTTTTTTTT
*
15613928 TCTTTTTCTTT
1 TCTTTTTTTTT
15613939 TCTTTTCTTTTT
1 TCTTTT-TTTTT
15613951 T-TTTTT
1 TCTTTTT
15613957 CTTCCTGTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 1 0.04
11 20 0.77
12 5 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:15613944 original size:16 final size:15
Alignment explanation
Indices: 15613919--15613954 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
15613909 ATGCCCACTC
15613919 TTTTTT-TTTTCTTT
1 TTTTTTCTTTTCTTT
15613933 TTCTTTTCTTTTCTTT
1 TT-TTTTCTTTTCTTT
15613949 TTTTTT
1 TTTTTT
15613955 TTCTTCCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 8 0.40
16 10 0.50
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:15614082 original size:51 final size:51
Alignment explanation
Indices: 15614016--15614161 Score: 150
Period size: 59 Copynumber: 2.7 Consensus size: 51
15614006 CGGCCTTCAT
*
15614016 TCTCTCCTTTCCTTTCCTTTTTTTTTTCTCTCCTCCAACCGGCCTTTTTTC
1 TCTCTCCTTTCCTTTCCTTTTTTTTTTCTCTCCTCCAACCGGCCTTCTTTC
** *
15614067 TCTCTCCTTTCCTTTCCTTTTCTTTCTTCTTTCCCTTCTCCTCCCGCTGGCCTTCTTTC
1 TCTCTCCTTTCCTTTCC--TT-TTT-TT-TTT--C-TCTCCTCCAACCGGCCTTCTTTC
* *
15614126 TCTCTCTTTTCCTTT-CTTTTCTTCTTTCTCTCCTCC
1 TCTCTCCTTTCCTTTCCTTTT-TTTTTTCTCTCCTCC
15614162 CGTCGGCTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
51 25 0.31
52 1 0.01
53 2 0.03
54 6 0.08
55 5 0.06
56 6 0.08
58 2 0.03
59 33 0.41
ACGTcount: A:0.01, C:0.40, G:0.03, T:0.55
Consensus pattern (51 bp):
TCTCTCCTTTCCTTTCCTTTTTTTTTTCTCTCCTCCAACCGGCCTTCTTTC
Found at i:15614270 original size:3 final size:3
Alignment explanation
Indices: 15614264--15614312 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
15614254 TTTTCTTTCT
*
15614264 TTC TTC TT- TT- TTT TTC TTC TCTC TTC TTC TTC TTTC TT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC -TTC TTC TTC TTC
15614308 TTC TT
1 TTC TT
15614313 TCTTTGGCCG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 6 0.15
3 29 0.71
4 6 0.15
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:15614276 original size:20 final size:20
Alignment explanation
Indices: 15614251--15614313 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
15614241 GTCACCCTCA
15614251 TTTTTTTCTTTCTTTCTTCT
1 TTTTTTTCTTTCTTTCTTCT
*
15614271 TTTTTTT-TCTTCTCTCTTCT
1 TTTTTTTCT-TTCTTTCTTCT
*
15614291 TCTTCTTTCTTT-TCTTCTTCT
1 T-TTTTTTCTTTCT-TTCTTCT
15614312 TT
1 TT
15614314 CTTTGGCCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.03
20 20 0.56
21 14 0.39
22 1 0.03
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTTCTTTCTTTCTTCT
Found at i:15614303 original size:26 final size:24
Alignment explanation
Indices: 15614264--15614312 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
15614254 TTTTCTTTCT
15614264 TTCTTCTT-TTT-TTTTCTTCTCTC
1 TTCTTCTTCTTTCTTTTCTTCT-TC
15614287 TTCTTCTTCTTTCTTTTCTTCTTC
1 TTCTTCTTCTTTCTTTTCTTCTTC
15614311 TT
1 TT
15614313 TCTTTGGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.33
24 7 0.29
25 9 0.38
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (24 bp):
TTCTTCTTCTTTCTTTTCTTCTTC
Found at i:15614307 original size:15 final size:15
Alignment explanation
Indices: 15614255--15614317 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
15614245 CCCTCATTTT
15614255 TTTC-TTTCTTTCTTC
1 TTTCTTTTC-TTCTTC
15614270 TTT-TTTT-TTCTTC
1 TTTCTTTTCTTCTTC
*
15614283 --TCTCTTCTTCTTC
1 TTTCTTTTCTTCTTC
15614296 TTTCTTTTCTTCTTC
1 TTTCTTTTCTTCTTC
15614311 TTTCTTT
1 TTTCTTT
15614318 GGCCGACACT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 1 0.02
12 3 0.07
13 12 0.29
15 25 0.61
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTTTCTTCTTC
Found at i:15614314 original size:10 final size:10
Alignment explanation
Indices: 15614260--15614316 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
15614250 ATTTTTTTCT
15614260 TTCTTTCTTC
1 TTCTTTCTTC
* *
15614270 TTTTTTTTTC
1 TTCTTTCTTC
*
15614280 TTCTCTCTTC
1 TTCTTTCTTC
15614290 TTC-TTC-T-
1 TTCTTTCTTC
15614297 TTCTTTTCTTC
1 TTC-TTTCTTC
15614308 TTCTTTCTT
1 TTCTTTCTT
15614317 TGGCCGACAC
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 5 0.14
10 25 0.68
11 3 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:15616630 original size:28 final size:29
Alignment explanation
Indices: 15616589--15616648 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15616579 GTCTATGGGC
*
15616589 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15616617 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15616647 AA
1 AA
15616649 ATTGCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15619853 original size:15 final size:15
Alignment explanation
Indices: 15619833--15619861 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15619823 ATTTACCATA
15619833 ATATAGTATCATTTT
1 ATATAGTATCATTTT
15619848 ATATAGTATCATTT
1 ATATAGTATCATTT
15619862 CTTTTTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (15 bp):
ATATAGTATCATTTT
Found at i:15627132 original size:2 final size:2
Alignment explanation
Indices: 15627125--15627307 Score: 321
Period size: 2 Copynumber: 91.5 Consensus size: 2
15627115 ATATTAGTTA
* * *
15627125 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15627167 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15627209 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15627251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15627293 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
15627308 NNNNNNNNNN
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 171 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15628319 original size:25 final size:25
Alignment explanation
Indices: 15628271--15628319 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
15628261 GGTATTGATA
*
15628271 TATAACTGAAACGTGGTGGGCATTG
1 TATAACTGAAACGTGGTGGACATTG
* * *
15628296 TATAAGTGAAATGTGGTTGACATT
1 TATAACTGAAACGTGGTGGACATT
15628320 TGACGAAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.33
Consensus pattern (25 bp):
TATAACTGAAACGTGGTGGACATTG
Found at i:15636063 original size:20 final size:21
Alignment explanation
Indices: 15636033--15636076 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
15636023 GATTAAAATC
15636033 AGAATGGTAACACTAATCTAA
1 AGAATGGTAACACTAATCTAA
*
15636054 AGAA-GGTAACACTGATCTAA
1 AGAATGGTAACACTAATCTAA
15636074 AGA
1 AGA
15636077 TCTCTTGCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (21 bp):
AGAATGGTAACACTAATCTAA
Found at i:15637521 original size:39 final size:39
Alignment explanation
Indices: 15637478--15637564 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
15637468 ATGTGCTATC
* * * *
15637478 CCCATGATAAACTTGTTATTTCATAATGAATGTGATCTT
1 CCCATGATAAACATGTTATTCCATAAAGAACGTGATCTT
* * * *
15637517 CCCATCATGAACATGTTCTTCCATAAAGAACGTGTTCTT
1 CCCATGATAAACATGTTATTCCATAAAGAACGTGATCTT
15637556 CCCATGATA
1 CCCATGATA
15637565 TCCAATAAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.36
Consensus pattern (39 bp):
CCCATGATAAACATGTTATTCCATAAAGAACGTGATCTT
Found at i:15637536 original size:20 final size:20
Alignment explanation
Indices: 15637513--15637560 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
15637503 ATGAATGTGA
* *
15637513 TCTTCCCATCATGAACATGT
1 TCTTCCCATAAAGAACATGT
*
15637533 TCTT-CCATAAAGAACGTGT
1 TCTTCCCATAAAGAACATGT
15637552 TCTTCCCAT
1 TCTTCCCAT
15637561 GATATCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.25, C:0.29, G:0.10, T:0.35
Consensus pattern (20 bp):
TCTTCCCATAAAGAACATGT
Found at i:15640638 original size:34 final size:35
Alignment explanation
Indices: 15640599--15640676 Score: 104
Period size: 37 Copynumber: 2.2 Consensus size: 35
15640589 AGTTATCTCT
* * *
15640599 TCACATAA-AAAGTTATTTTAACTCAAAGATTATG
1 TCACATAATAAAGTTATCTCAACTCAAAGATTATA
15640633 TCACATAATGTAAAGTTATCTCAACTCAAAGATTATA
1 TCACATAA--TAAAGTTATCTCAACTCAAAGATTATA
15640670 TCACATA
1 TCACATA
15640677 GTGTAACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 8 0.21
37 30 0.79
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (35 bp):
TCACATAATAAAGTTATCTCAACTCAAAGATTATA
Found at i:15640651 original size:37 final size:37
Alignment explanation
Indices: 15640607--15640682 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
15640597 CTTCACATAA
* * *
15640607 AAAGTTATTTTAACTCAAAGATTATGTCACATAATGT
1 AAAGTTATCTCAACTCAAAGATTATATCACATAATGT
*
15640644 AAAGTTATCTCAACTCAAAGATTATATCACATAGTGT
1 AAAGTTATCTCAACTCAAAGATTATATCACATAATGT
15640681 AA
1 AA
15640683 CATTATGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (37 bp):
AAAGTTATCTCAACTCAAAGATTATATCACATAATGT
Found at i:15647514 original size:2 final size:2
Alignment explanation
Indices: 15647507--15647656 Score: 153
Period size: 2 Copynumber: 76.0 Consensus size: 2
15647497 TAATCTTTTG
*
15647507 CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* * * * * ** * *
15647549 CA CA CA CA CA CA CA TA CA CA CA CA TA TA TA TA GG TA GCA -A CT
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA -CA CA CA
* *
15647591 TA C- CA NA CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
15647631 CA CA CA CA CA CA CA CA TA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
15647657 TATATATAGG
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
1 3 0.02
2 122 0.97
3 1 0.01
ACGTcount: A:0.49, C:0.42, G:0.02, T:0.06
Consensus pattern (2 bp):
CA
Found at i:15647658 original size:84 final size:83
Alignment explanation
Indices: 15647518--15647680 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 83
15647508 ACACACAAAC
15647518 ACACACACACACACACACACACACACACACACACACACACACACATACACACACATATATATAGG
1 ACACACACACACACACACACACACACACACACACACACACACACATACACACACATATATATAGG
15647583 TAGCAACTTACCANACACA
66 TAGCAACTTACCA-ACACA
15647602 ACACACACACACACACACACACACACACACACACACACACACACATACACACACATATATATAGG
1 ACACACACACACACACACACACACACACACACACACACACACACATACACACACATATATATAGG
15647667 TAGCAACTTACCAA
66 TAGCAACTTACCAA
15647681 ATAATTCTCA
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 1 0.01
84 78 0.99
ACGTcount: A:0.48, C:0.38, G:0.04, T:0.10
Consensus pattern (83 bp):
ACACACACACACACACACACACACACACACACACACACACACACATACACACACATATATATAGG
TAGCAACTTACCAACACA
Found at i:15650080 original size:24 final size:24
Alignment explanation
Indices: 15650052--15650112 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
15650042 AAAAGGGTAG
* *
15650052 GAGAACGGAGAAGTAAGAAAAGAA
1 GAGAAAGGAGAAGTAAGAAAAAAA
15650076 GAGAAAGGAGAAGTAAGAAAAAAA
1 GAGAAAGGAGAAGTAAGAAAAAAA
15650100 GAGAAAGGAGAAG
1 GAGAAAGGAGAAG
15650113 AAAAAACTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.61, C:0.02, G:0.34, T:0.03
Consensus pattern (24 bp):
GAGAAAGGAGAAGTAAGAAAAAAA
Found at i:15652263 original size:19 final size:20
Alignment explanation
Indices: 15652239--15652278 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15652229 TTTATTTTAA
15652239 TATTATTATATCT-AAAATT
1 TATTATTATATCTCAAAATT
* *
15652258 TATTATTTTATTTCAAAATT
1 TATTATTATATCTCAAAATT
15652278 T
1 T
15652279 TCCTCTAGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTATATCTCAAAATT
Found at i:15658573 original size:43 final size:43
Alignment explanation
Indices: 15658492--15658616 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
15658482 TATTGACTCG
* **
15658492 GCTATGTGCGAGTAGGGAGTGCGTATAAGCC-GAAGATGA-CCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAA-CCTGGTGATGACCCA
* *
15658534 GATTATGTGCGAGTAGAGAGTGCGCATAACCTGGTGATGACCCA
1 G-CTATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCA
* * *
15658578 GCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGA
15658617 TGATGATGGG
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.04
43 63 0.90
44 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.37, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCTGGTGATGACCCA
Found at i:15662110 original size:43 final size:43
Alignment explanation
Indices: 15662063--15662152 Score: 135
Period size: 43 Copynumber: 2.1 Consensus size: 43
15662053 AGTGGCTTCA
* *
15662063 GCATCGAGGCTTCGGTGTTGTTGAGTTCTCTTTTCTTATTGAG
1 GCATCGAGGCTTCGATGTTGTTGAGGTCTCTTTTCTTATTGAG
* * *
15662106 GCATCGAGGCTTCTATGTTGTTGAGGTGTCTTTTCTTATTGGG
1 GCATCGAGGCTTCGATGTTGTTGAGGTCTCTTTTCTTATTGAG
15662149 GCAT
1 GCAT
15662153 TGCAGTGCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.12, C:0.16, G:0.29, T:0.43
Consensus pattern (43 bp):
GCATCGAGGCTTCGATGTTGTTGAGGTCTCTTTTCTTATTGAG
Found at i:15666924 original size:35 final size:33
Alignment explanation
Indices: 15666872--15666974 Score: 107
Period size: 35 Copynumber: 3.0 Consensus size: 33
15666862 TCAGCCAGTT
* *
15666872 TGCACTCCCTACACGCACAAGGCAATTTCATCATG
1 TGCACT-CCTACTCGCACAA-GCAATATCATCATG
** **
15666907 TGCACTCGCTACTCGCACATTTCAATATCATTGTG
1 TGCACTC-CTACTCGCACA-AGCAATATCATCATG
15666942 TGCACTCCTTACTCGCACAAGCAATATCATCAT
1 TGCACTCC-TACTCGCACAAGCAATATCATCAT
15666975 CCACACTTCC
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
34 12 0.22
35 43 0.78
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (33 bp):
TGCACTCCTACTCGCACAAGCAATATCATCATG
Found at i:15674202 original size:22 final size:22
Alignment explanation
Indices: 15674177--15674224 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
15674167 ATTTTCAAAT
15674177 TTCTTAACTCAATCTTTCTTCC
1 TTCTTAACTCAATCTTTCTTCC
* * *
15674199 TTCTTTACTCGATCTTTCTTTC
1 TTCTTAACTCAATCTTTCTTCC
15674221 TTCT
1 TTCT
15674225 CTTTACTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.12, C:0.29, G:0.02, T:0.56
Consensus pattern (22 bp):
TTCTTAACTCAATCTTTCTTCC
Found at i:15674245 original size:24 final size:24
Alignment explanation
Indices: 15674178--15674246 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
15674168 TTTTCAAATT
* * *
15674178 TCTTAACTCAATCTTTC-TTCCT-
1 TCTTTACTCGATCTTTCATTCTTC
*
15674200 TCTTTACTCGATCTTTCTTTCTTC
1 TCTTTACTCGATCTTTCATTCTTC
*
15674224 TCTTTACTCTAT-TCTTCATTCTT
1 TCTTTACTCGATCT-TTCATTCTT
15674247 TGGTTCATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 15 0.38
23 5 0.13
24 19 0.49
ACGTcount: A:0.13, C:0.29, G:0.01, T:0.57
Consensus pattern (24 bp):
TCTTTACTCGATCTTTCATTCTTC
Found at i:15681161 original size:38 final size:40
Alignment explanation
Indices: 15681072--15681174 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
15681062 ACCCGGCTCA
*
15681072 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCACCG
* * **
15681112 TGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCACCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCACCG
15681150 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
15681175 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 32 0.56
39 1 0.02
40 24 0.42
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCACCACCG
Found at i:15694526 original size:22 final size:22
Alignment explanation
Indices: 15694486--15694528 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15694476 TTATAGTGGT
*
15694486 ATCAGAGCTTTTGATTTTAAAG
1 ATCAGAGCTTTTGAGTTTAAAG
*
15694508 ATCAGAGCTTTTGGGTTTAAA
1 ATCAGAGCTTTTGAGTTTAAA
15694529 ATTGTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (22 bp):
ATCAGAGCTTTTGAGTTTAAAG
Found at i:15701654 original size:42 final size:41
Alignment explanation
Indices: 15701590--15701731 Score: 194
Period size: 42 Copynumber: 3.4 Consensus size: 41
15701580 TGTTGATTTA
*
15701590 GACCTGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTACT
1 GACC-GGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
15701632 GACTCGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
1 GAC-CGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
* * * *
15701674 GACCCGGCTCTGTGTGAGTGGGAGTGCACATAAGCCGTTGCT
1 GA-CCGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
*
15701716 GACCTGGCTATATGCG
1 GACC-GGCTATGTGCG
15701732 CATAAGTCGT
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.02
42 85 0.96
43 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.25
Consensus pattern (41 bp):
GACCGGCTATGTGCGAGTAGGAGTGCACATAAGTCGTTGCT
Found at i:15708988 original size:2 final size:2
Alignment explanation
Indices: 15708981--15709005 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15708971 TGATGGTGTC
15708981 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15709006 CATACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15709244 original size:41 final size:41
Alignment explanation
Indices: 15709199--15709286 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 41
15709189 TAATATATTG
*
15709199 GGTTATTAGG-TTAAACTACTGAA-CTATAATATATTATGATA
1 GGTTATT-GGATTAAACTA-TGAAGATATAATATATTATGATA
* *
15709240 GGTTATTGGATTAGACTATTAAGATATAATATATTATGATA
1 GGTTATTGGATTAAACTATGAAGATATAATATATTATGATA
15709281 GGTTAT
1 GGTTAT
15709287 ATTTATATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 5 0.12
41 37 0.88
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.41
Consensus pattern (41 bp):
GGTTATTGGATTAAACTATGAAGATATAATATATTATGATA
Found at i:15710279 original size:22 final size:23
Alignment explanation
Indices: 15710239--15710281 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15710229 TAGAACTCCA
* *
15710239 TTTTTTTCTTTTTCTTTCTTTTC
1 TTTTTTTCTTTCTCCTTCTTTTC
15710262 TTTTTTT-TTTCTCCTTCTTT
1 TTTTTTTCTTTCTCCTTCTTT
15710282 CTTACATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTTCTTTCTCCTTCTTTTC
Found at i:15711048 original size:117 final size:120
Alignment explanation
Indices: 15710807--15711048 Score: 409
Period size: 117 Copynumber: 2.0 Consensus size: 120
15710797 ACGTGCCCTT
*
15710807 TGCTCATTGTAATGACATTACAATGGGAAGACTTTACAATGTATTTTAAATAAACCAATCGATGC
1 TGCTCATTGTAATGACATTACAATGGGAAGACTTTACAATATATTTTAAATAAACCAA-C-ATGC
* *
15710872 AATGTGAATACATTCATTTAGAATACAAAGAATGTTCCTCACATACGGCATACCGAA
64 AATGTGAATACATTCATTTAGAATACAAAGAATGTTCCTCACATAAGGCATACCAAA
*
15710929 TGCTCATTGTAATGACATTACAATGGGAAGATTTTACAATATATTTTAAATAAACC-A-A-GCAA
1 TGCTCATTGTAATGACATTACAATGGGAAGACTTTACAATATATTTTAAATAAACCAACATGCAA
15710991 TGTGAATACATTCATTTAGAATACAAAGAATGTTCCTCACATAAGGCATACCAAA
66 TGTGAATACATTCATTTAGAATACAAAGAATGTTCCTCACATAAGGCATACCAAA
15711046 TGC
1 TGC
15711049 CCTTTTAGGG
Statistics
Matches: 116, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
117 60 0.52
118 1 0.01
121 1 0.01
122 54 0.47
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (120 bp):
TGCTCATTGTAATGACATTACAATGGGAAGACTTTACAATATATTTTAAATAAACCAACATGCAA
TGTGAATACATTCATTTAGAATACAAAGAATGTTCCTCACATAAGGCATACCAAA
Found at i:15713808 original size:31 final size:31
Alignment explanation
Indices: 15713770--15713833 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
15713760 GTTATGCTTC
15713770 CTATTTCTCTCTCTTATGTTTTTAGATTTCT
1 CTATTTCTCTCTCTTATGTTTTTAGATTTCT
15713801 CTATTTCTCTCTCTTATGTTTTTAGATTTCT
1 CTATTTCTCTCTCTTATGTTTTTAGATTTCT
15713832 CT
1 CT
15713834 TTCTTACGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.12, C:0.20, G:0.06, T:0.61
Consensus pattern (31 bp):
CTATTTCTCTCTCTTATGTTTTTAGATTTCT
Found at i:15713846 original size:23 final size:23
Alignment explanation
Indices: 15713803--15713847 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15713793 AGATTTCTCT
* *
15713803 ATTTCTCTCTCTTATGTTTTTAG
1 ATTTCTCTCTCTTACGCTTTTAG
*
15713826 ATTTCTCTTTCTTACGCTTTTA
1 ATTTCTCTCTCTTACGCTTTTA
15713848 AGACACCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.20, G:0.07, T:0.60
Consensus pattern (23 bp):
ATTTCTCTCTCTTACGCTTTTAG
Found at i:15714293 original size:26 final size:26
Alignment explanation
Indices: 15714259--15714403 Score: 91
Period size: 26 Copynumber: 5.3 Consensus size: 26
15714249 ATATTGTTTA
15714259 ATAACAATATTTTTTCAACATGACGT
1 ATAACAATATTTTTTCAACATGACGT
15714285 ATAACAATAATATTTTTTTTTCAACATGACGT
1 ATAAC---AATA---TTTTTTCAACATGACGT
* ** *
15714317 GTAACAACCTTTTTT-AACCATGGCGT
1 ATAACAATATTTTTTCAA-CATGACGT
*
15714343 ATAAC-ATATTTTTGT--GCATGACGTGT
1 ATAACAATATTTTT-TCAACATGAC--GT
*
15714369 AATAACAGTATTTTTTTCAACATGACGT
1 -ATAACAATA-TTTTTTCAACATGACGT
*
15714397 GTAACAA
1 ATAACAA
15714404 CCTAACCATG
Statistics
Matches: 91, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
24 5 0.05
25 8 0.09
26 25 0.27
27 10 0.11
28 5 0.05
29 11 0.12
30 6 0.07
32 21 0.23
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (26 bp):
ATAACAATATTTTTTCAACATGACGT
Found at i:15714296 original size:29 final size:30
Alignment explanation
Indices: 15714264--15714323 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 30
15714254 GTTTAATAAC
15714264 AATA-TTTTTTCAACATGACGTATAACAAT
1 AATATTTTTTTCAACATGACGTATAACAAT
*
15714293 AATATTTTTTTTTCAACATGACGTGTAACAA
1 AATA--TTTTTTTCAACATGACGTATAACAA
15714324 CCTTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
32 23 0.85
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (30 bp):
AATATTTTTTTCAACATGACGTATAACAAT
Found at i:15714329 original size:29 final size:30
Alignment explanation
Indices: 15714268--15714331 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
15714258 AATAACAATA
*
15714268 TTTTTTCAACATGACGTATAACAATAATATTT
1 TTTTTTCAACATGACGTATAAC-A-AACATTT
* *
15714300 TTTTTTCAACATGACGTGTAAC-AACCTTT
1 TTTTTTCAACATGACGTATAACAAACATTT
15714329 TTT
1 TTT
15714332 AACCATGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 8 0.28
32 21 0.72
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (30 bp):
TTTTTTCAACATGACGTATAACAAACATTT
Found at i:15714468 original size:45 final size:45
Alignment explanation
Indices: 15714381--15714475 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
15714371 TAACAGTATT
**
15714381 TTTTTCAACATGACGTGTAACAACCTAACCATGGCTTATCACAGA
1 TTTTTCAACATGACGTGTAACAACCTAACCATAACTTATCACAGA
* * * * * *
15714426 TTTTTCTACATGGCGTGTAACAAGCTAATCATAACTTGTCACAGG
1 TTTTTCAACATGACGTGTAACAACCTAACCATAACTTATCACAGA
15714471 TTTTT
1 TTTTT
15714476 TGTGAGACCT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
TTTTTCAACATGACGTGTAACAACCTAACCATAACTTATCACAGA
Found at i:15715653 original size:42 final size:43
Alignment explanation
Indices: 15715591--15715684 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
15715581 TTTTGTGTGA
* * *
15715591 TGATGATGACCCAGCCATGTGCGTGT-AGGAGTGCACATGAGT
1 TGATGATGACCCAGCCATGTGCGAGTGAGGAGTGCACACGAGC
* * * *
15715633 TGATGCTGACCCAGCTATGTGTGAGTGGGGAGTGCACACGAGC
1 TGATGATGACCCAGCCATGTGCGAGTGAGGAGTGCACACGAGC
15715676 TGATGATGA
1 TGATGATGA
15715685 GGGGGATGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 22 0.51
43 21 0.49
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.23
Consensus pattern (43 bp):
TGATGATGACCCAGCCATGTGCGAGTGAGGAGTGCACACGAGC
Found at i:15715719 original size:2 final size:2
Alignment explanation
Indices: 15715714--15715741 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15715704 GATGTATATA
15715714 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
15715742 CTATAGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:15717091 original size:45 final size:45
Alignment explanation
Indices: 15717012--15717281 Score: 371
Period size: 45 Copynumber: 6.0 Consensus size: 45
15717002 CATTTTTGTA
* * * * * *
15717012 CATGACTTGTCATATATTTTTGCACATGGTGTGTAACAAGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAACACGCTAAC
* **
15717057 CATGGCTTGTCACATATTTTTGTACATAACGTGTAACACGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAACACGCTAAC
* *
15717102 CATGGCTAGTCACA-AGTTTTTGTATATGGCGTGTAACACGCTAAC
1 CATGGCTTGTCACAGA-TTTTTGTACATGGCGTGTAACACGCTAAC
* * *
15717147 CATGGTTTGTCACAGGTTTTTGTACATGACGTGTAACACGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAACACGCTAAC
*
15717192 CATGGCTTGTCACAGGTTTTTGTACATGGCGTGTAACACGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAACACGCTAAC
* *
15717237 CATGACTTGTCACGGATTTTTGTACATGGCGTGTAACACGCTAAC
1 CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAACACGCTAAC
15717282 GTGCAACTTC
Statistics
Matches: 202, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.00
45 201 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (45 bp):
CATGGCTTGTCACAGATTTTTGTACATGGCGTGTAACACGCTAAC
Found at i:15723248 original size:16 final size:15
Alignment explanation
Indices: 15723217--15723305 Score: 87
Period size: 16 Copynumber: 6.0 Consensus size: 15
15723207 TTAAAATATT
*
15723217 AATAGTTAATAATTTA
1 AATA-TTAATATTTTA
15723233 AATATTAATATCTTTA
1 AATATTAATAT-TTTA
15723249 AATATTAATATTTT-
1 AATATTAATATTTTA
*
15723263 -AT-TT-ATAATTTA
1 AATATTAATATTTTA
* *
15723275 ATTATTAACATTTTAA
1 AATATTAATATTTT-A
15723291 AATATTAATATTTTA
1 AATATTAATATTTTA
15723306 TTTGAACATG
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
11 6 0.10
12 2 0.03
13 3 0.05
14 2 0.03
15 15 0.25
16 32 0.53
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (15 bp):
AATATTAATATTTTA
Found at i:15723281 original size:42 final size:42
Alignment explanation
Indices: 15723206--15723308 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
15723196 TTATAATTTA
* *
15723206 TTTAAAATATTAATA-GTTA---ATAATTTAAATATTAATAT
1 TTTAAAATATTAATATTTTATTTATAATTTAAATATTAACAT
*
15723244 CTTT-AAATATTAATATTTTATTTATAATTTAATTATTAACAT
1 -TTTAAAATATTAATATTTTATTTATAATTTAAATATTAACAT
15723286 TTTAAAATATTAATATTTTATTT
1 TTTAAAATATTAATATTTTATTT
15723309 GAACATGATA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
38 11 0.20
39 6 0.11
41 3 0.05
42 36 0.64
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (42 bp):
TTTAAAATATTAATATTTTATTTATAATTTAAATATTAACAT
Found at i:15723719 original size:31 final size:30
Alignment explanation
Indices: 15723684--15723750 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
15723674 GTCATAAAGA
*
15723684 TTTATTTGACTCAAAATAAAA-ATATAAGAGT
1 TTTATTTGA-ACAAAATAAAAGA-ATAAGAGT
**
15723715 TTTA-TTGAACGTAATAAAAGAATAAGAGT
1 TTTATTTGAACAAAATAAAAGAATAAGAGT
15723744 TTTATTT
1 TTTATTT
15723751 AAATATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 20 0.65
30 7 0.23
31 4 0.13
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (30 bp):
TTTATTTGAACAAAATAAAAGAATAAGAGT
Found at i:15723828 original size:17 final size:17
Alignment explanation
Indices: 15723808--15723842 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15723798 TTTATAATTT
*
15723808 AAATATTATTATGTTTA
1 AAATATTAATATGTTTA
*
15723825 AAATATTAATATTTTTA
1 AAATATTAATATGTTTA
15723842 A
1 A
15723843 TTAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
AAATATTAATATGTTTA
Found at i:15723878 original size:15 final size:16
Alignment explanation
Indices: 15723821--15723885 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 16
15723811 TATTATTATG
*
15723821 TTTAAAATATTAATATT
1 TTTAAAATATTTA-ATT
* *
15723838 TTTAATTAATTTTTAA-C
1 TTTAA--AATATTTAATT
15723855 TTTAAAATA-TTAATT
1 TTTAAAATATTTAATT
*
15723870 TTTATAATATTTAATT
1 TTTAAAATATTTAATT
15723886 AAAAACATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
14 4 0.11
15 11 0.29
16 6 0.16
17 10 0.26
18 1 0.03
19 6 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTAAAATATTTAATT
Found at i:15723887 original size:28 final size:33
Alignment explanation
Indices: 15723822--15723889 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
15723812 ATTATTATGT
*
15723822 TTAAAATATTAATATTTTTAATTAATTTTTAAC
1 TTAAAATATTAATATTTTTAATTAATATTTAAC
15723855 TTTAAAATATT-A-ATTTTT-A-TAATATTTAA-
1 -TTAAAATATTAATATTTTTAATTAATATTTAAC
15723884 TTAAAA
1 TTAAAA
15723890 ACATAAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 6 0.18
30 9 0.27
31 1 0.03
32 6 0.18
33 1 0.03
34 10 0.30
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (33 bp):
TTAAAATATTAATATTTTTAATTAATATTTAAC
Found at i:15727669 original size:19 final size:19
Alignment explanation
Indices: 15727645--15727682 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15727635 CTGCCAAACC
*
15727645 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
15727664 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
15727683 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:15728686 original size:31 final size:31
Alignment explanation
Indices: 15728651--15728731 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
15728641 TATTTTTCAA
* *
15728651 AATTTTTTTCAATTTAGTCCCTCA-ACTTTTT
1 AATTTTTTTCAATTTAGTCCCT-ATACTATAT
* *
15728682 AATTTTATTCAATTTAGTCACTATACTATAT
1 AATTTTTTTCAATTTAGTCCCTATACTATAT
15728713 -ATTTTTTTCAATTTAGTCC
1 AATTTTTTTCAATTTAGTCC
15728732 ATATGACGTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.27, C:0.16, G:0.04, T:0.53
Consensus pattern (31 bp):
AATTTTTTTCAATTTAGTCCCTATACTATAT
Found at i:15730215 original size:108 final size:108
Alignment explanation
Indices: 15730017--15730226 Score: 300
Period size: 108 Copynumber: 1.9 Consensus size: 108
15730007 TAAAATGACT
*
15730017 AAATATGTTGATTTAGCTACAACTTTTACAATTTATAAATACACATTCTTTTGAAATTATTCATC
1 AAATATGTTGATTTAGCTACAACTTTTACAATTTACAAATACACATTCTTTTGAAATTATTCATC
* * * *
15730082 TCTTATTCAATTTACCTTTTCTTTAAATTTTCTCAAATTAGCA
66 TCTTACTCAATTTACATTTTATTTAAATTTACTCAAATTAGCA
* **
15730125 AAATATGTTGATTTAGTTACAA-TTTTCACAATTTACAAATATGCATTCTTTTGAAATTATTCAA
1 AAATATGTTGATTTAGCTACAACTTTT-ACAATTTACAAATACACATTCTTTTGAAATTATTC-A
15730189 T-TCTTAC-CTAATTTACATTTTATTTAAATTTACTCAAA
64 TCTCTTACTC-AATTTACATTTTATTTAAATTTACTCAAA
15730227 ATTTCTTATA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
107 5 0.05
108 84 0.92
109 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (108 bp):
AAATATGTTGATTTAGCTACAACTTTTACAATTTACAAATACACATTCTTTTGAAATTATTCATC
TCTTACTCAATTTACATTTTATTTAAATTTACTCAAATTAGCA
Found at i:15732147 original size:26 final size:26
Alignment explanation
Indices: 15732104--15732160 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
15732094 CAAATGCACG
*
15732104 TGTTGAAAAAACTATTGTTACATGCCA
1 TGTTGAAAAAAC-ATTGTAACATGCCA
*
15732131 TGTTGAAAAAA-AGTTGTAACATGTCA
1 TGTTGAAAAAACA-TTGTAACATGCCA
15732157 TGTT
1 TGTT
15732161 TAAGGTGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 15 0.56
27 11 0.41
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (26 bp):
TGTTGAAAAAACATTGTAACATGCCA
Done.