Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 196 of 284
Found at i:65902307 original size:62 final size:60
Alignment explanation
Indices: 65902127--65902321 Score: 204
Period size: 62 Copynumber: 3.3 Consensus size: 60
65902117 TTTTGTTCTC
* *
65902127 TTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATA
1 TTTTATTTTATTTT-AAATTACCTAATTAAATTAAA-TCTATTTAAAGTTTTATTTTAAATA
* * ** * * * *
65902189 TTTTATTTT-TTTTGAATCACGAAAAATAATTTTAA-C-ATTT-TA-TTTTATTTTAAATA
1 TTTTATTTTATTTTAAATTAC-CTAATTAAATTAAATCTATTTAAAGTTTTATTTTAAATA
65902245 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATA
1 TTTTATTTTATTTTAA-ATTACCTAATTAAATTAAATC-TATTTAAAGTTTTATTTTAAATA
*
65902307 TTTCA-TTTATTTTAA
1 TTTTATTTTATTTTAA
65902322 TCACAAAAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
56 22 0.21
57 15 0.14
58 9 0.08
60 9 0.08
61 24 0.23
62 27 0.25
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (60 bp):
TTTTATTTTATTTTAAATTACCTAATTAAATTAAATCTATTTAAAGTTTTATTTTAAATA
Found at i:65902347 original size:98 final size:99
Alignment explanation
Indices: 65902241--65902505 Score: 487
Period size: 99 Copynumber: 2.7 Consensus size: 99
65902231 TTTTATTTTA
65902241 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
65902306 ATTTCATTTATTTT-AATCACAAAAAATAATTTC
66 ATTTCATTTATTTTGAATCACAAAAAATAATTTC
* *
65902339 ATTATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
* *
65902404 ATTTCATTTTTTTTGAATCACGAAAAATAATTTC
66 ATTTCATTTATTTTGAATCACAAAAAATAATTTC
65902438 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
65902503 ATT
66 ATT
65902506 CTATTTTTTT
Statistics
Matches: 160, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
98 76 0.47
99 84 0.52
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (99 bp):
AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
ATTTCATTTATTTTGAATCACAAAAAATAATTTC
Found at i:65902629 original size:9 final size:9
Alignment explanation
Indices: 65902615--65902773 Score: 109
Period size: 9 Copynumber: 17.7 Consensus size: 9
65902605 CCAGCAACTC
65902615 ACATAATTT
1 ACATAATTT
65902624 ACATAATTT
1 ACATAATTT
65902633 ACATAA--T
1 ACATAATTT
*
65902640 ACATAACTT
1 ACATAATTT
65902649 ACATAATTT
1 ACATAATTT
*
65902658 AAAGTTTGAATTT
1 ACA---T-AATTT
*
65902671 -CATAACTT
1 ACATAATTT
65902679 ACATAATTT
1 ACATAATTT
*
65902688 ACATAACTT
1 ACATAATTT
65902697 ACATAA--T
1 ACATAATTT
*
65902704 ACATAACTT
1 ACATAATTT
65902713 ACATAA--T
1 ACATAATTT
* *
65902720 ACATGACTT
1 ACATAATTT
65902729 ACATAATTT
1 ACATAATTT
*
65902738 AAAGATCAAATTT
1 --ACAT--AATTT
*
65902751 -CATAACTT
1 ACATAATTT
65902759 ACATAATTT
1 ACATAATTT
65902768 ACATAA
1 ACATAA
65902774 AATTAACACA
Statistics
Matches: 121, Mismatches: 13, Indels: 32
0.73 0.08 0.19
Matches are distributed among these distances:
7 20 0.17
8 8 0.07
9 76 0.63
10 2 0.02
11 3 0.02
12 2 0.02
13 10 0.08
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (9 bp):
ACATAATTT
Found at i:65902644 original size:16 final size:16
Alignment explanation
Indices: 65902623--65902735 Score: 113
Period size: 16 Copynumber: 7.1 Consensus size: 16
65902613 TCACATAATT
*
65902623 TACATAATTTACATAA
1 TACATAACTTACATAA
65902639 TACATAACTTACATAA
1 TACATAACTTACATAA
** * ** *
65902655 TTTA-AAGTTTGA-AT
1 TACATAACTTACATAA
*
65902669 TTCATAACTTACATAA
1 TACATAACTTACATAA
65902685 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
65902703 TACATAACTTACATAA
1 TACATAACTTACATAA
*
65902719 TACATGACTTACATAA
1 TACATAACTTACATAA
65902735 T
1 T
65902736 TTAAAGATCA
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.05
15 10 0.13
16 50 0.63
18 15 0.19
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:65902709 original size:80 final size:80
Alignment explanation
Indices: 65902623--65902773 Score: 257
Period size: 80 Copynumber: 1.9 Consensus size: 80
65902613 TCACATAATT
* * **
65902623 TACATAATTTACATAATACATAACTTACATAATTTAAAGTTTGAATTTCATAACTTACATAATTT
1 TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
65902688 ACATAACTTACATAA
66 ACATAACTTACATAA
*
65902703 TACATAACTTACATAATACATGACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
1 TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
65902768 ACATAA
66 ACATAA
65902774 AATTAACACA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (80 bp):
TACATAACTTACATAATACATAACTTACATAATTTAAAGATCAAATTTCATAACTTACATAATTT
ACATAACTTACATAA
Found at i:65902920 original size:9 final size:9
Alignment explanation
Indices: 65902906--65902977 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
65902896 TCGTACATAA
65902906 TACATAACT
1 TACATAACT
*
65902915 TACATAATT
1 TACATAACT
65902924 TACATAACT
1 TACATAACT
65902933 TACATAA--
1 TACATAACT
*
65902940 TACATAAAT
1 TACATAACT
* * *
65902949 T-TATATCA
1 TACATAACT
65902957 TATCATAACT
1 TA-CATAACT
65902967 TACATAACT
1 TACATAACT
65902976 TA
1 TA
65902978 ATTAAACTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
7 7 0.14
8 4 0.08
9 33 0.66
10 6 0.12
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:65902937 original size:34 final size:34
Alignment explanation
Indices: 65902899--65902973 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
65902889 CTTTATGTCG
*
65902899 TACATAATACAT-AACTTACATAATTTACATAACT
1 TACATAATACATAAACTTACATAATAT-CATAACT
* * *
65902933 TACATAATACATAAATTTATATCATATCATAACT
1 TACATAATACATAAACTTACATAATATCATAACT
65902967 TACATAA
1 TACATAA
65902974 CTTAATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 26 0.72
35 10 0.28
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (34 bp):
TACATAATACATAAACTTACATAATATCATAACT
Found at i:65907931 original size:13 final size:14
Alignment explanation
Indices: 65907915--65907943 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65907905 TTATAAATAT
65907915 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
65907928 TTATAATTGTTTAA
1 TTATAATTGTTTAA
65907942 TT
1 TT
65907944 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:65910181 original size:17 final size:18
Alignment explanation
Indices: 65910159--65910192 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65910149 AAGTGAATTG
65910159 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
65910176 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
65910193 AAGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:65910925 original size:21 final size:22
Alignment explanation
Indices: 65910896--65910939 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
65910886 AGCCTATTCC
**
65910896 TAATGAAATTCTAAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
*
65910918 TAAT-AAATAATTAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
65910939 T
1 T
65910940 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATGAAATAATAAAAGATAAA
Found at i:65912599 original size:15 final size:14
Alignment explanation
Indices: 65912579--65912626 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
65912569 TTAATATCTG
65912579 AAAATAATAAATAA
1 AAAATAATAAATAA
65912593 TAAAATAATAAGATAA
1 -AAAATAATAA-ATAA
*
65912609 AATAAAAATAAATAA
1 AA-AATAATAAATAA
65912624 AAA
1 AAA
65912627 TAAAAATTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 18 0.60
16 11 0.37
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAATAATAAATAA
Found at i:65912618 original size:16 final size:16
Alignment explanation
Indices: 65912579--65912633 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
65912569 TTAATATCTG
65912579 AAAAT-AATAAATAATAA
1 AAAATAAATAAA-AAT-A
65912596 AATAATAAGAT-AAAATA
1 AA-AATAA-ATAAAAATA
65912613 AAAATAAATAAAAATA
1 AAAATAAATAAAAATA
65912629 AAAAT
1 AAAAT
65912634 TGGGTTGCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.06
16 16 0.47
17 5 0.15
18 6 0.18
19 3 0.09
20 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAAATAAAAATA
Found at i:65917416 original size:3 final size:3
Alignment explanation
Indices: 65917410--65917488 Score: 61
Period size: 3 Copynumber: 25.3 Consensus size: 3
65917400 ATTGTTACAG
* * * *
65917410 TTA TTA TTA TTTA TTTA TTCC TTA TTA TTG TTA TTA TCA TTG TTA TT-
1 TTA TTA TTA -TTA -TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
65917457 TACA TGA TTA TTA TTA TTA TTA TTA TTA TTA T
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
65917489 GTATATATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
2 1 0.02
3 50 0.82
4 10 0.16
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:65917573 original size:26 final size:25
Alignment explanation
Indices: 65917540--65917623 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
65917530 CATAAGTATA
*
65917540 TATATATTTTTAATAGCTATATTATG
1 TATATATTTTTAACA-CTATATTATG
* *
65917566 TATGTATTTTCAACACTATATTATG
1 TATATATTTTTAACACTATATTATG
*
65917591 TATATACTTTT---ACTATCATTATG
1 TATATATTTTTAACACTAT-ATTATG
*
65917614 TATTTATTTT
1 TATATATTTT
65917624 AATATATATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
22 5 0.10
23 14 0.29
25 18 0.37
26 12 0.24
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATATTTTTAACACTATATTATG
Found at i:65917614 original size:23 final size:21
Alignment explanation
Indices: 65917556--65917642 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 21
65917546 TTTTTAATAG
*
65917556 CTATATTATGTATGTATTTTCAACA
1 CTATATTATGTATATATTTT----A
65917581 CTATATTATGTATATACTTTTA
1 CTATATTATGTATATA-TTTTA
*
65917603 CTATCATTATGTATTTATTTTA
1 CTAT-ATTATGTATATATTTTA
* *
65917625 ATATA-TATGTACATATTT
1 CTATATTATGTATATATTT
65917643 ATGTAGTGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.20
21 1 0.02
22 13 0.24
23 11 0.20
25 15 0.27
26 4 0.07
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (21 bp):
CTATATTATGTATATATTTTA
Found at i:65917623 original size:22 final size:22
Alignment explanation
Indices: 65917580--65917635 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
65917570 TATTTTCAAC
65917580 ACTATATTATGTATATACTTTT
1 ACTATATTATGTATATACTTTT
*
65917602 ACTATCATTATGTATTTA-TTTT
1 ACTAT-ATTATGTATATACTTTT
*
65917624 AATATA-TATGTA
1 ACTATATTATGTA
65917636 CATATTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 6 0.19
21 1 0.03
22 13 0.42
23 11 0.35
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (22 bp):
ACTATATTATGTATATACTTTT
Found at i:65921381 original size:21 final size:22
Alignment explanation
Indices: 65921352--65921395 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
65921342 AGTCTATTCC
**
65921352 TAATGAAATTCTAAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
*
65921374 TAAT-AAATAATTAAAGATAAA
1 TAATGAAATAATAAAAGATAAA
65921395 T
1 T
65921396 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATGAAATAATAAAAGATAAA
Found at i:65923604 original size:27 final size:26
Alignment explanation
Indices: 65923567--65923681 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
65923557 AGCATGGCTG
* *
65923567 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
65923593 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
65923621 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
65923648 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
65923675 CCAGAAC
1 CCAGAAC
65923682 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:65923626 original size:54 final size:54
Alignment explanation
Indices: 65923567--65923681 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
65923557 AGCATGGCTG
*
65923567 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
65923621 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
65923675 CCAGAAC
1 CCAGAAC
65923682 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:65925334 original size:26 final size:26
Alignment explanation
Indices: 65925298--65925407 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
65925288 CATGAAATTC
65925298 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
65925324 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
65925350 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
65925376 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
65925402 TTATCA
1 TTATCA
65925408 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:65928903 original size:21 final size:21
Alignment explanation
Indices: 65928877--65928924 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
65928867 CTTTGGGGTG
**
65928877 CACGTGCTTCTTGGGGCCTAT
1 CACGTGCTTCTAAGGGCCTAT
* *
65928898 CACGTGCTTGTAAGGGTCTAT
1 CACGTGCTTCTAAGGGCCTAT
65928919 CACGTG
1 CACGTG
65928925 TGGGCCACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.25, G:0.29, T:0.31
Consensus pattern (21 bp):
CACGTGCTTCTAAGGGCCTAT
Found at i:65930119 original size:19 final size:19
Alignment explanation
Indices: 65930091--65930130 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
65930081 TATCAAATTG
*
65930091 TATATTAAATCAAAATTTA
1 TATATAAAATCAAAATTTA
* *
65930110 TATATAAAATTAATATTTA
1 TATATAAAATCAAAATTTA
65930129 TA
1 TA
65930131 GAAAAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TATATAAAATCAAAATTTA
Found at i:65933631 original size:27 final size:25
Alignment explanation
Indices: 65933592--65933644 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
65933582 ATATCCTTCA
*
65933592 TTCCTTCTGATTCTGGTAAAGCAAC
1 TTCCTGCTGATTCTGGTAAAGCAAC
65933617 TNNTCCTGCTGATTCTGGTAAAGCAAC
1 T--TCCTGCTGATTCTGGTAAAGCAAC
65933644 T
1 T
65933645 GCAAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
27 24 0.96
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
TTCCTGCTGATTCTGGTAAAGCAAC
Found at i:65945543 original size:5 final size:5
Alignment explanation
Indices: 65945533--65945559 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
65945523 GATCAATTAT
65945533 CCCAA CCCAA CCCAA CCCAA CCCAA CC
1 CCCAA CCCAA CCCAA CCCAA CCCAA CC
65945560 AGGTTCCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.63, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCAA
Found at i:65953614 original size:21 final size:21
Alignment explanation
Indices: 65953588--65953628 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65953578 AGACGAGCAA
* *
65953588 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
65953609 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
65953629 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:65957869 original size:17 final size:18
Alignment explanation
Indices: 65957843--65957881 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
65957833 GTCCGTGTGG
65957843 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
65957859 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
65957877 AAAAT
1 AAAAT
65957882 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:65961422 original size:15 final size:15
Alignment explanation
Indices: 65961412--65961441 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65961402 TCCCTTCTTG
65961412 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
65961427 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
65961442 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:65962207 original size:17 final size:18
Alignment explanation
Indices: 65962182--65962221 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
65962172 CCAAATTGTG
*
65962182 AAAAATGTTCTC-AATAT
1 AAAATTGTTCTCGAATAT
*
65962199 AAAATTGTTCTCGCATAT
1 AAAATTGTTCTCGAATAT
65962217 AAAAT
1 AAAAT
65962222 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (18 bp):
AAAATTGTTCTCGAATAT
Found at i:65962398 original size:15 final size:15
Alignment explanation
Indices: 65962378--65962408 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
65962368 TAAACAATAT
65962378 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
65962393 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
65962408 A
1 A
65962409 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:65962596 original size:15 final size:15
Alignment explanation
Indices: 65962576--65962607 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65962566 CTAGCTAGTA
65962576 ATACTAGTCGTGTGG
1 ATACTAGTCGTGTGG
*
65962591 ATACTAGTCTTGTGG
1 ATACTAGTCGTGTGG
65962606 AT
1 AT
65962608 TCTTCTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (15 bp):
ATACTAGTCGTGTGG
Found at i:65964537 original size:11 final size:11
Alignment explanation
Indices: 65964501--65964556 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
65964491 CATGGTATGT
65964501 ATGATATGCAC
1 ATGATATGCAC
* *
65964512 ATGACATG--T
1 ATGATATGCAC
65964521 ATGATATGCAC
1 ATGATATGCAC
*
65964532 ATGATATG--T
1 ATGATATGCAC
65964541 ATGATATGCAC
1 ATGATATGCAC
65964552 ATGAT
1 ATGAT
65964557 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:65964556 original size:20 final size:20
Alignment explanation
Indices: 65964490--65964556 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
65964480 ATTTTGATAA
*
65964490 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
65964510 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
65964530 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65964550 ACATGAT
1 ACATGAT
65964557 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65964668 original size:23 final size:24
Alignment explanation
Indices: 65964605--65964687 Score: 132
Period size: 25 Copynumber: 3.4 Consensus size: 24
65964595 GGAGGAAGTG
65964605 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
65964629 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
65964654 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
65964677 TAAAAGAGGCT
1 TAAAAG-GGCT
65964688 AGGCCTCTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 18 0.33
24 14 0.25
25 23 0.42
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:65964700 original size:48 final size:49
Alignment explanation
Indices: 65964605--65964701 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
65964595 GGAGGAAGTG
*
65964605 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTAT
* *
65964654 TAAAAGGGCTT-TGCCCCAGTTATTA-AAAGAGGC-TAGGCCTCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-CCAGTTAT
65964702 ATGATAAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 9 0.21
48 23 0.53
49 11 0.26
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTAT
Found at i:65967327 original size:36 final size:35
Alignment explanation
Indices: 65967283--65967355 Score: 137
Period size: 36 Copynumber: 2.1 Consensus size: 35
65967273 CTAATAAGGA
65967283 GATAGAAACTTGTATTCTCTTGTTAAGCTAGGTTT
1 GATAGAAACTTGTATTCTCTTGTTAAGCTAGGTTT
65967318 GATAGGAAACTTGTATTCTCTTGTTAAGCTAGGTTT
1 GATA-GAAACTTGTATTCTCTTGTTAAGCTAGGTTT
65967354 GA
1 GA
65967356 GTCAAAACCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 4 0.11
36 33 0.89
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (35 bp):
GATAGAAACTTGTATTCTCTTGTTAAGCTAGGTTT
Found at i:65969818 original size:15 final size:16
Alignment explanation
Indices: 65969798--65969839 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65969788 AAATGAGTAG
*
65969798 TTAATTAGAGTTTAA-
1 TTAATTAGAATTTAAT
65969813 TTAATT-GAATTTAAT
1 TTAATTAGAATTTAAT
65969828 TTAATTAAGAAT
1 TTAATT-AGAAT
65969840 AATTGGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 7 0.30
15 12 0.52
17 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (16 bp):
TTAATTAGAATTTAAT
Found at i:65970421 original size:20 final size:18
Alignment explanation
Indices: 65970390--65970436 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
65970380 AGAATAGGCA
65970390 AAAGGG-AAAGAAAGAAAG
1 AAAGGGAAAAGAAAG-AAG
65970408 AAAGGAGAAAAGAAAGAAG
1 AAAGG-GAAAAGAAAGAAG
65970427 AAAGGGAAAA
1 AAAGGGAAAA
65970437 TTGAAGGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.37
19 9 0.33
20 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
AAAGGGAAAAGAAAGAAG
Found at i:65970839 original size:12 final size:11
Alignment explanation
Indices: 65970814--65970850 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
65970804 TTTAGTTAAG
*
65970814 ATTAAATTGAA
1 ATTAAATAGAA
65970825 ATTAAAGTAGAA
1 ATTAAA-TAGAA
65970837 ATTAAATAGAA
1 ATTAAATAGAA
65970848 ATT
1 ATT
65970851 GTATTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (11 bp):
ATTAAATAGAA
Found at i:65971539 original size:24 final size:24
Alignment explanation
Indices: 65971507--65971557 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
65971497 ACTTTGTGTG
65971507 TCGGATATTGTTACTGTTTCGGAT
1 TCGGATATTGTTACTGTTTCGGAT
65971531 TCGGATATTGTTACTGTTTCGGAT
1 TCGGATATTGTTACTGTTTCGGAT
65971555 TCG
1 TCG
65971558 TTCCGATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.14, G:0.25, T:0.45
Consensus pattern (24 bp):
TCGGATATTGTTACTGTTTCGGAT
Found at i:65971619 original size:53 final size:53
Alignment explanation
Indices: 65971539--65971707 Score: 266
Period size: 53 Copynumber: 3.2 Consensus size: 53
65971529 ATTCGGATAT
*
65971539 TGTTACTGTTTCGGATTCGTTCCGATGAGGTACTCTGTGTACCGTACTGTTAC
1 TGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGTTAC
*
65971592 TGTTATTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGTTAC
1 TGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGTTAC
* * * * * *
65971645 TATTATTGTTTCGAATTTGTTCCAATGAGGTACTCTGTGTACCGTATTGCTAC
1 TGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGTTAC
65971698 TGTTACTGTT
1 TGTTACTGTT
65971708 ACTGTTCCGG
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 107 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (53 bp):
TGTTACTGTTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGTTAC
Found at i:65971889 original size:18 final size:18
Alignment explanation
Indices: 65971826--65971896 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
65971816 TGGAAAGATC
65971826 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
65971845 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
65971863 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
65971881 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
65971897 CCGATCAGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:65971976 original size:36 final size:36
Alignment explanation
Indices: 65971917--65971985 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
65971907 GATTGATACT
* * * * *
65971917 GAATAACTGATTATTATTGAATAATTGATTGTTTCC
1 GAATAACTGACTATTACTAAATAAATAATTGTTTCC
*
65971953 GAATAATTGACTATTACTAAATAAATAATTGTT
1 GAATAACTGACTATTACTAAATAAATAATTGTT
65971986 CTGATTGACT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (36 bp):
GAATAACTGACTATTACTAAATAAATAATTGTTTCC
Found at i:65979797 original size:80 final size:80
Alignment explanation
Indices: 65979662--65979817 Score: 285
Period size: 80 Copynumber: 1.9 Consensus size: 80
65979652 TGAGACTTAG
* *
65979662 CCATCCACCCCACAAAACAACTCCATCATGGTCCCTAGCCACAAAGCCCTCCCCCTCCCCCTCCC
1 CCATCCACCCCACAAAACAACTCAATCATGGTCCCTAGCCACAAAGCCCTACCCCTCCCCCTCCC
65979727 CTTAATTATTATTAT
66 CTTAATTATTATTAT
*
65979742 CCATCCACCCCACAAAACACCTCAATCATGGTCCCTAGCCACAAAGCCCTACCCCTCCCCCTCCC
1 CCATCCACCCCACAAAACAACTCAATCATGGTCCCTAGCCACAAAGCCCTACCCCTCCCCCTCCC
65979807 CTTAATTATTA
66 CTTAATTATTA
65979818 AACCACTTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.27, C:0.47, G:0.05, T:0.21
Consensus pattern (80 bp):
CCATCCACCCCACAAAACAACTCAATCATGGTCCCTAGCCACAAAGCCCTACCCCTCCCCCTCCC
CTTAATTATTATTAT
Found at i:65980108 original size:13 final size:13
Alignment explanation
Indices: 65980092--65980118 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65980082 TACCAATAAC
65980092 TATTTTTTAAAAA
1 TATTTTTTAAAAA
65980105 TATTTTTTAAAAA
1 TATTTTTTAAAAA
65980118 T
1 T
65980119 CAATAAACCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:65986277 original size:12 final size:12
Alignment explanation
Indices: 65986252--65986298 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
65986242 AACCATTTTG
65986252 TATAACCAATTCA
1 TATAACC-ATTCA
65986265 TATAACCATTCA
1 TATAACCATTCA
*
65986277 TATAACCA-TCTG
1 TATAACCATTC-A
65986289 TATAACCATT
1 TATAACCATT
65986299 AGTTGTTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 2 0.06
12 21 0.68
13 8 0.26
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.34
Consensus pattern (12 bp):
TATAACCATTCA
Found at i:65986440 original size:23 final size:23
Alignment explanation
Indices: 65986410--65986455 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
65986400 ATGTTGCCAT
*
65986410 GGTATCTTTCGACCATGGTCTTA
1 GGTATCTTTCAACCATGGTCTTA
65986433 GGTATCTTTCAACCATGGTCTTA
1 GGTATCTTTCAACCATGGTCTTA
65986456 CACATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (23 bp):
GGTATCTTTCAACCATGGTCTTA
Found at i:65990875 original size:77 final size:78
Alignment explanation
Indices: 65990733--65990892 Score: 241
Period size: 77 Copynumber: 2.1 Consensus size: 78
65990723 AATTGTTTAT
* * * * *
65990733 AATTATATAAGGATGACATATTTGAGTGATTATTTTAATTGGTAAATCCCATTGAATTGTGTGTA
1 AATTACATAAAGATGACATATTTGAGTAACTATTTTAATTGGTAAATCACATTGAATTGTGTGTA
65990798 AATGGAGTATCCC
66 AATGGAGTATCCC
* * *
65990811 AATTACATAAAGATGACATATTTGAGTAACTA-TTTAATTGGTCAGTCATATTGAATTGTGTGTA
1 AATTACATAAAGATGACATATTTGAGTAACTATTTTAATTGGTAAATCACATTGAATTGTGTGTA
65990875 AATGGAGTATCCC
66 AATGGAGTATCCC
65990888 AATTA
1 AATTA
65990893 TATGAGGATT
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 46 0.62
78 28 0.38
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (78 bp):
AATTACATAAAGATGACATATTTGAGTAACTATTTTAATTGGTAAATCACATTGAATTGTGTGTA
AATGGAGTATCCC
Found at i:65991086 original size:37 final size:37
Alignment explanation
Indices: 65991036--65991112 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
65991026 TCTATATAGA
65991036 CTTGTCTTTTTCTTTATTGAGTAATCAGAGCTAAAGG
1 CTTGTCTTTTTCTTTATTGAGTAATCAGAGCTAAAGG
*
65991073 CTTGTCTTTTTCTTTATTGAGTAATTAGAGCTAAAGG
1 CTTGTCTTTTTCTTTATTGAGTAATCAGAGCTAAAGG
65991110 CTT
1 CTT
65991113 AACATGTGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.45
Consensus pattern (37 bp):
CTTGTCTTTTTCTTTATTGAGTAATCAGAGCTAAAGG
Found at i:65993025 original size:15 final size:16
Alignment explanation
Indices: 65992993--65993039 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
65992983 TAGTATTATG
65992993 AATTT-TTTATATTAAA
1 AATTTATTTAT-TTAAA
65993009 AATTTATTTATTTAAA
1 AATTTATTTATTTAAA
* *
65993025 AATTAATTTAATTAA
1 AATTTATTTATTTAA
65993040 TCGTTATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTATTTATTTAAA
Found at i:65994191 original size:3 final size:3
Alignment explanation
Indices: 65994183--65994241 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
65994173 TCTTCCTTTG
* * *
65994183 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTA CATC CTT C-G CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT
65994228 CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CT
65994242 ACATCTGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.94
4 2 0.04
ACGTcount: A:0.03, C:0.36, G:0.02, T:0.59
Consensus pattern (3 bp):
CTT
Found at i:66000468 original size:46 final size:46
Alignment explanation
Indices: 66000418--66000554 Score: 134
Period size: 46 Copynumber: 2.9 Consensus size: 46
66000408 CATTGGCTTA
*
66000418 CATCTCGAGGCTGATGTATGTCCCATG-CATGTCTTACACTAGCACT
1 CATCTCGAGGCCGATGTATGTCCCA-GACATGTCTTACACTAGCACT
* * * * *
66000464 CATCTCAATGCCGATGTTATGTTCCAGACATGGTCTTACACTGGCTCT
1 CATCTCGAGGCCGATG-TATGTCCCAGACAT-GTCTTACACTAGCACT
* * * *
66000512 CATAAT-GTGGCCGATGCATGTCCCAGACATGTTTTACACTAGC
1 CAT-CTCGAGGCCGATGTATGTCCCAGACATGTCTTACACTAGC
66000555 TCACACAAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
46 25 0.34
47 23 0.32
48 24 0.33
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (46 bp):
CATCTCGAGGCCGATGTATGTCCCAGACATGTCTTACACTAGCACT
Found at i:66004755 original size:16 final size:16
Alignment explanation
Indices: 66004734--66004764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66004724 ACACTAAACT
*
66004734 CCCTAAGAACATTGTC
1 CCCTAAGAAAATTGTC
66004750 CCCTAAGAAAATTGT
1 CCCTAAGAAAATTGT
66004765 TAACCAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
CCCTAAGAAAATTGTC
Found at i:66008510 original size:99 final size:99
Alignment explanation
Indices: 66008362--66008659 Score: 260
Period size: 99 Copynumber: 3.0 Consensus size: 99
66008352 AGAAATGCTA
* * ** * * * *
66008362 CCAAAAGATAGAGTTTATATGACTCAACCAGTTTACTCGGAGTGCAGGGTTAACTCAGTTGAAGC
1 CCAAAAGATGGAGTATATACAACTCAACTAGTTTACTTGGAGTGTAGGGTTAACTCAGTTAAAGC
* *
66008427 AAATCAA-TTTAACAGTCATATTGGAAGTAGCCTC
66 AAAT-AACCTCAACAGTCATATTGGAAGTAGCCTC
* * * * * *
66008461 CCAGAAGATGGAGTATATACAACTCAACTAGTTTACTTGAAATGTAGGGTTCACTTAGTTAAATC
1 CCAAAAGATGGAGTATATACAACTCAACTAGTTTACTTGGAGTGTAGGGTTAACTCAGTTAAAGC
* ** *
66008526 CAATAACCTCAATGGTCATATTGGAAGTAGCCTT
66 AAATAACCTCAACAGTCATATTGGAAGTAGCCTC
* * * * * * *
66008560 CTAAAAGATGGAGTTTATACAGCT-AAATCAGTTTACTTGGAGTGTAAGGTTAACTCACTTCAAG
1 CCAAAAGATGGAGTATATACAACTCAACT-AGTTTACTTGGAGTGTAGGGTTAACTCAGTTAAAG
* * * * *
66008624 -AAAAAACACTTAACGGTTATGTTGGAAGTAGCCTC
65 CAAATAAC-CTCAACAGTCATATTGGAAGTAGCCTC
66008659 C
1 C
66008660 AAGATGAGAT
Statistics
Matches: 156, Mismatches: 40, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
98 10 0.06
99 146 0.94
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (99 bp):
CCAAAAGATGGAGTATATACAACTCAACTAGTTTACTTGGAGTGTAGGGTTAACTCAGTTAAAGC
AAATAACCTCAACAGTCATATTGGAAGTAGCCTC
Found at i:66010553 original size:55 final size:54
Alignment explanation
Indices: 66010469--66010577 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 54
66010459 TCAAATTTTG
*
66010469 TGTAGGGGAGGCTGTGGAGAAGGGGGTTTTGCTCCGACGGTCTAAATCTCGTTA
1 TGTAGGGAAGGCTGTGGAGAAGGGGGTTTTGCTCCGACGGTCTAAATCTCGTTA
66010523 NTGTAGGGAAGGCTGTGGAGAAGGGGGTTTTGCTCCGACGGTCTAAATCTCGTTA
1 -TGTAGGGAAGGCTGTGGAGAAGGGGGTTTTGCTCCGACGGTCTAAATCTCGTTA
66010578 GTATCTGTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.19, C:0.15, G:0.38, T:0.28
Consensus pattern (54 bp):
TGTAGGGAAGGCTGTGGAGAAGGGGGTTTTGCTCCGACGGTCTAAATCTCGTTA
Found at i:66011373 original size:13 final size:14
Alignment explanation
Indices: 66011335--66011375 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
66011325 CTGAGGGTAG
66011335 GATTCTGTATATCT
1 GATTCTGTATATCT
* *
66011349 G-TTATGTTTATCT
1 GATTCTGTATATCT
66011362 GATTCTG-ATATCT
1 GATTCTGTATATCT
66011375 G
1 G
66011376 TATCTGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:66015199 original size:25 final size:26
Alignment explanation
Indices: 66015171--66015227 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
66015161 GGTTTTGGGT
*
66015171 GTTACATTTAGTGGTATCAGAGCGA-
1 GTTACATTTAGTGGTATCAGAGCAAG
66015196 GTTACATTTAGTGGTATCAGAGCAAG
1 GTTACATTTAGTGGTATCAGAGCAAG
66015222 GTTACA
1 GTTACA
66015228 AAACTCAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.80
26 6 0.20
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (26 bp):
GTTACATTTAGTGGTATCAGAGCAAG
Found at i:66015596 original size:10 final size:10
Alignment explanation
Indices: 66015583--66015632 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
66015573 GATTTTTTTC
66015583 ATTTATCTTT
1 ATTTATCTTT
66015593 ATTTATCTTT
1 ATTTATCTTT
*
66015603 AATTATCTTT
1 ATTTATCTTT
*
66015613 AATTAT-TTGT
1 ATTTATCTT-T
66015623 ATTTATCTTT
1 ATTTATCTTT
66015633 TAGAATTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:66016563 original size:12 final size:12
Alignment explanation
Indices: 66016546--66016578 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
66016536 CTACTTCTCC
*
66016546 TTTACTATTATT
1 TTTACTATTAAT
66016558 TTTACTATTAAT
1 TTTACTATTAAT
66016570 TTTACTATT
1 TTTACTATT
66016579 TTACAGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTACTATTAAT
Found at i:66019362 original size:18 final size:18
Alignment explanation
Indices: 66019339--66019376 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
66019329 AACCCAATTT
66019339 TTATTTAATT-TTATCTTA
1 TTATTTAATTATT-TCTTA
*
66019357 TTATTTTATTATTTCTTA
1 TTATTTAATTATTTCTTA
66019375 TT
1 TT
66019377 TTCAGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTAATTATTTCTTA
Found at i:66021046 original size:10 final size:10
Alignment explanation
Indices: 66021031--66021067 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
66021021 TTTTCTGTAT
66021031 TTATCTTTAA
1 TTATCTTTAA
66021041 TTATCTTTAA
1 TTATCTTTAA
* *
66021051 TTATTTTTAT
1 TTATCTTTAA
66021061 TTATCTT
1 TTATCTT
66021068 GTAGAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:66023617 original size:30 final size:31
Alignment explanation
Indices: 66023568--66023628 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
66023558 AACTTTTTAT
*
66023568 TTTCCCCCTAAATTTTTAC-TCCC-TCCCAC
1 TTTCCCCCTAAACTTTTACTTCCCATCCCAC
66023597 TTTCCCCCTAAAACTTTTACTTCCCATCCCAC
1 TTTCCCCCT-AAACTTTTACTTCCCATCCCAC
66023629 CCCAGCCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 9 0.32
30 9 0.32
31 4 0.14
32 6 0.21
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (31 bp):
TTTCCCCCTAAACTTTTACTTCCCATCCCAC
Found at i:66035945 original size:311 final size:311
Alignment explanation
Indices: 66035338--66035993 Score: 901
Period size: 311 Copynumber: 2.1 Consensus size: 311
66035328 CTTTACAAAT
* *
66035338 AACATTATTATGTGATGTTATGGATGTTATTTTTGGTATAGTTGGAAGTTTAGTTTTCTTTTATA
1 AACA-TATCATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAAGTTTAGTTTTCTTTTATA
66035403 ATGTAATTAAACTTTTACTAATGATTAAGCTAAATTACACTGTTTTTTGGTTGTGGTAATTTTTT
65 ATGTAATTAAACTTTTACTAATGATTAAGCTAAATTACACTGTTTTTTGGTTGTGGTAATTTTTT
* *
66035468 TAACCACTTTGATACCTAAAGTCACTTTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAAT
130 TAACCACTTTGATACCTAAAGTCACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTACGAAT
* * * ** * *
66035533 GTCAGAGACAAAATTGTTGGTAGAGTCATAAATTTGGATTATCAAAGTGAGAAAATAAAAGTATA
195 GTCAGAGACAAAATTGCTCGTAGAGTCAGAAACCTAGATTATCAAAATGAGAAAAT-AAAGTATA
* *
66035598 ATTGAAGGCAAAATGATGAATGTTATCCACGGACTTGTGAAATTTGAATTTTG
259 ATTGAAGGCAAAATGATGAATGTTATCCACGGACTTGTAAAATTTGAATTTCG
*
66035651 AACATATCATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAGGTTTAGTTTTCTTTTATAA
1 AACATATCATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAAGTTTAGTTTTCTTTTATAA
* * * *
66035716 TGTAATTAAGA-TTTT-CTAATTATTAAGCTAAATTATACTGTTTTCTT-TTTGTGTTAA-TTTT
66 TGTAATTAA-ACTTTTACTAATGATTAAGCTAAATTACACTGTTTT-TTGGTTGTGGTAATTTTT
* * * * *
66035777 TTAGCCACTTTTATATCTAAAGTTACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTATGAA
129 TTAACCACTTTGATACCTAAAGTCACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTACGAA
* ** * *
66035842 TGT-TGAAGATGACATTGCTCGTAGGACAGTCAGAAACCTAGATTATCAAAATGAGAAAAT-TAG
194 TGTCAG-AGACAAAATTGCTCGTA-G--AGTCAGAAACCTAGATTATCAAAATGAGAAAATAAAG
* * *
66035905 TATATTTGAAGGCGAAATGATGAATGTTATCCATGGACTTGTAAAATTTGAATTTCG
255 TATAATTGAAGGCAAAATGATGAATGTTATCCACGGACTTGTAAAATTTGAATTTCG
* *
66035962 AACTTATCATGTGACGTTATGGATGTTATTTT
1 AACATATCATGTGATGTTATGGATGTTATTTT
66035994 GATACATTAG
Statistics
Matches: 304, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
309 1 0.00
310 77 0.25
311 120 0.39
312 73 0.24
313 33 0.11
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (311 bp):
AACATATCATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAAGTTTAGTTTTCTTTTATAA
TGTAATTAAACTTTTACTAATGATTAAGCTAAATTACACTGTTTTTTGGTTGTGGTAATTTTTTT
AACCACTTTGATACCTAAAGTCACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTACGAATG
TCAGAGACAAAATTGCTCGTAGAGTCAGAAACCTAGATTATCAAAATGAGAAAATAAAGTATAAT
TGAAGGCAAAATGATGAATGTTATCCACGGACTTGTAAAATTTGAATTTCG
Found at i:66041478 original size:99 final size:99
Alignment explanation
Indices: 66041302--66041596 Score: 299
Period size: 99 Copynumber: 3.0 Consensus size: 99
66041292 AAATGCTCCT
* ** ** ** * *
66041302 AAAAGATGGAGTTTATGCGGCTCAACCTATTTACTCAGAGCACAGGGTTAACTTAGTTCAAACCA
1 AAAAGATGGAGTTTATACAACTCAACCGGTTTACTCAGAGCGTAGGGTTAACTCAGTTCAAACTA
* * *
66041367 ATCAGCTTAATAGTCATGTTGGAAGTAGCCT-TC
66 ATAAACTCAATAGTCATGTTGGAAGTAGCCTCTC
* * *
66041400 GAGAAGATGGAGTTTATACAACTCAACCGGTTTACTCAGAACGTAGGGTTAACTCAATT-AAAGC
1 -AAAAGATGGAGTTTATACAACTCAACCGGTTTACTCAGAGCGTAGGGTTAACTCAGTTCAAA-C
* * *
66041464 TAATAATCTCAATAGTCATATTGGAAGTAACCTCTC
64 TAATAAACTCAATAGTCATGTTGGAAGTAGCCTCTC
* ** ** * * *
66041500 AAAAGATGGAGTTTATACAACTAAATTGGTTTACTTGGAGCGTAGAGATAACTCGGTTCAAA-TA
1 AAAAGATGGAGTTTATACAACTCAACCGGTTTACTCAGAGCGTAGGGTTAACTCAGTTCAAACTA
*
66041564 GATAAACTCAATGGTCATGTTGGAAGTAGCCTC
66 -ATAAACTCAATAGTCATGTTGGAAGTAGCCTC
66041597 CAAGATGCGC
Statistics
Matches: 160, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
98 5 0.03
99 150 0.94
100 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (99 bp):
AAAAGATGGAGTTTATACAACTCAACCGGTTTACTCAGAGCGTAGGGTTAACTCAGTTCAAACTA
ATAAACTCAATAGTCATGTTGGAAGTAGCCTCTC
Found at i:66043806 original size:30 final size:30
Alignment explanation
Indices: 66043772--66043830 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
66043762 CATCAATCAT
* *
66043772 AGAGACAACCATCTACACTGCCAATGCCAC
1 AGAGACAACCATCCACAATGCCAATGCCAC
* * *
66043802 AGAGAGATCCATCCACAATGTCAATGCCA
1 AGAGACAACCATCCACAATGCCAATGCCA
66043831 ATGCCAGTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.32, G:0.15, T:0.15
Consensus pattern (30 bp):
AGAGACAACCATCCACAATGCCAATGCCAC
Found at i:66045014 original size:313 final size:311
Alignment explanation
Indices: 66044354--66045227 Score: 1197
Period size: 313 Copynumber: 2.8 Consensus size: 311
66044344 TGTGATGTTG
* * *
66044354 TGGATGTTTTTTTTAGTATAGTTGGACGTTTAGTTTTCTTTTATAATATAATTAAACTTTTACTA
1 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
* * *
66044419 ATGATTAAGTTAAATTATATTGTTTTTTCTTATTGTGTTAATTTTTAAAACCACTTTGATATCTA
66 ATGATTAAGCTAAATTATACTG--TTTTCTTATTGTGTTAATTTTT--GACCACTTTGATATCTA
* *
66044484 AAGTTACTTTTCA-TTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTT
127 AAGTTGCATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTT
* * ** * *
66044548 GGTAGAGTAGTCATAAATTTGGATTATCAAAATGAGAATAAA-AGTATAATTGAAGGCAAAATGA
192 GGTAGGGCAGTCATAAACATGGATTATCAAAATGAGAA-AAATAGTATAATTGAAGGCGAAATAA
* * * **
66044612 TGAATGTTATCCATGGACTTGTGAAATTTGAATTTTGAACTTATCATGTGATGGTA
256 TGAATGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACAGTA
* * *
66044668 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTCTATAATGTAATTAATCTTTTTCTA
1 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
* *
66044733 ATGATTAAGCTAAATTTTACTGTTTTCTTATTGTGTTAATTTCTTGACCACTTTTATATCTAAAG
66 ATGATTAAGCTAAATTATACTGTTTTCTTATTGTGTTAATTT-TTGACCACTTTGATATCTAAAG
**
66044798 TTGCATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACGGCATTGTTGGT
130 TTGCATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTTGGT
*
66044863 AGGGCAGTCATAAACATGGATTATCAAAAATGAGAAAAATAGTAGAATTGAAGGCGAAATAATGA
195 AGGGCAGTCATAAACATGGATTATC-AAAATGAGAAAAATAGTATAATTGAAGGCGAAATAATGA
* *
66044928 ATGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACATTC
259 ATGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACAGTA
*
66044981 TGGATGTTATTTTTGGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
1 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
** * *
66045046 ATGATTAAGCTAAATTATACTGTTTTC-TA-AAT-TT--TTTTAG-CCACTTTGATATTTAAAGT
66 ATGATTAAGCTAAATTATACTGTTTTCTTATTGTGTTAATTTTTGACCACTTTGATATCTAAAGT
* * * * *
66045105 TGCATTTCATTTAGTTATTTATCGATTTAAGGGAGGTATGAATGTTGGAGACAAAATTGTTGGGA
131 TGCATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTTGGTA
* * * * * ** * *
66045170 AGGCATTCACAAACCTAGATTATGGAAATGAGAAAAATATTATAATTGAAGGTGAAAT
196 GGGCAGTCATAAACATGGATTATCAAAATGAGAAAAATAGTATAATTGAAGGCGAAAT
66045228 GATGGACTTG
Statistics
Matches: 500, Mismatches: 56, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
305 30 0.06
306 93 0.19
307 2 0.00
308 3 0.01
310 2 0.00
311 27 0.05
312 98 0.20
313 167 0.33
314 78 0.16
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (311 bp):
TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
ATGATTAAGCTAAATTATACTGTTTTCTTATTGTGTTAATTTTTGACCACTTTGATATCTAAAGT
TGCATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTTGGTA
GGGCAGTCATAAACATGGATTATCAAAATGAGAAAAATAGTATAATTGAAGGCGAAATAATGAAT
GTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACAGTA
Found at i:66046600 original size:14 final size:14
Alignment explanation
Indices: 66046583--66046610 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66046573 AAATTAAATC
66046583 TCTAAGATTACAAA
1 TCTAAGATTACAAA
66046597 TCTAAGATTACAAA
1 TCTAAGATTACAAA
66046611 ATCATATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TCTAAGATTACAAA
Found at i:66046666 original size:36 final size:35
Alignment explanation
Indices: 66046613--66046691 Score: 133
Period size: 36 Copynumber: 2.3 Consensus size: 35
66046603 ATTACAAAAT
66046613 CATATC-TTCTAAGATTGTATCATATCTAAGATTG
1 CATATCATTCTAAGATTGTATCATATCTAAGATTG
*
66046647 CATATCATATCTAATATTGTATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTGTATCATATCTAAGATTG
66046683 CATATCATT
1 CATATCATT
66046692 GAAGATTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
34 6 0.14
35 2 0.05
36 34 0.81
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (35 bp):
CATATCATTCTAAGATTGTATCATATCTAAGATTG
Found at i:66046690 original size:19 final size:17
Alignment explanation
Indices: 66046620--66046682 Score: 99
Period size: 17 Copynumber: 3.6 Consensus size: 17
66046610 AATCATATCT
66046620 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
66046637 TCTAAGATTGCATATCATA
1 TCTAAGATTG--TATCATA
*
66046656 TCTAATATTGTATCATA
1 TCTAAGATTGTATCATA
66046673 TCTAAGATTG
1 TCTAAGATTG
66046683 CATATCATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 26 0.62
19 16 0.38
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:66047119 original size:45 final size:45
Alignment explanation
Indices: 66047055--66047222 Score: 259
Period size: 45 Copynumber: 3.8 Consensus size: 45
66047045 ACTATTTTTG
*
66047055 ATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* *
66047100 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* *
66047144 ATCTACTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC-TCTT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTC-A
*
66047189 ATTTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
66047223 ATCTTGGATC
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
44 43 0.38
45 70 0.62
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
Found at i:66047174 original size:89 final size:89
Alignment explanation
Indices: 66047055--66047222 Score: 275
Period size: 89 Copynumber: 1.9 Consensus size: 89
66047045 ACTATTTTTG
*
66047055 ATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCT-TCAATCTGCTCCCCGTCTAATA
1 ATCTACTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCTCT-AATCTGCTCCCCGTCTAATA
66047119 CAGAGACGCCAAATCTGCTTCTTCA
65 CAGAGACGCCAAATCTGCTTCTTCA
* * *
66047144 ATCTACTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCTTATTTGCTCCCCGTCTAATAC
1 ATCTACTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCTCTAATCTGCTCCCCGTCTAATAC
*
66047209 AGAGATGCCAAATC
66 AGAGACGCCAAATC
66047223 ATCTTGGATC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
89 72 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (89 bp):
ATCTACTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCTCTAATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:66047321 original size:78 final size:78
Alignment explanation
Indices: 66047192--66047378 Score: 293
Period size: 78 Copynumber: 2.4 Consensus size: 78
66047182 ATCTCTTATT
*
66047192 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTAC
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATATAC
*
66047257 TGTGTCTTCGATC
66 TATGTCTTCGATC
* * *
66047270 TGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCAGATATGC
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATATAC
66047335 TATGTCTTCGATC
66 TATGTCTTCGATC
* * **
66047348 TGCTCTCCGTCGAATATGGAGATGCCAAATC
1 TGCTCCCCGTCTAATACAGAGATGCCAAATC
66047379 TGTTTCTTCG
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 99 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (78 bp):
TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATATAC
TATGTCTTCGATC
Found at i:66047669 original size:78 final size:78
Alignment explanation
Indices: 66047540--66047832 Score: 408
Period size: 78 Copynumber: 3.8 Consensus size: 78
66047530 GAAGACATTC
* * *
66047540 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCGGTCTAATACAGAGATGTCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
66047605 GATCTGTTTCAAT
66 GATCTGTTTCAAT
* * *
66047618 GAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 GAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
*
66047682 GGATCTGCTTCAAT
65 GGATCTGTTTCAAT
* * * * *
66047696 GAAGGTTATATCTGCTGTGTCTTCGATTTGCTTCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
66047761 GATCTGTTTCAAT
66 GATCTGTTTCAAT
* * * * **
66047774 GAAGGTCAGATTTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
66047833 TGTTTCTTCG
Statistics
Matches: 187, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 185 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGTTTCAAT
Found at i:66047824 original size:156 final size:156
Alignment explanation
Indices: 66047540--66047832 Score: 455
Period size: 156 Copynumber: 1.9 Consensus size: 156
66047530 GAAGACATTC
*
66047540 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCGGTCTAATACAGAGATGTCAAATCATCTTG
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCGGTCTAATACAGAGATGCCAAATCATCTTG
** * *
66047605 GATCTGTTTCAATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATG
66 GATCTGTTTCAATGAAGGTCCAATCTACTATGTCTTCGATCTGCTCCCCGTCGAATATAGAGATG
66047670 CCAAATCATCTTGGATCTGCTTCAAT
131 CCAAATCATCTTGGATCTGCTTCAAT
* * *
66047696 GAAGGTTATATCTGCTGTGTCTTCGATTTGCTTCCC-GTCTAATACAGAGATGCCAAATCATCTT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGC-TCCCGGTCTAATACAGAGATGCCAAATCATCTT
* * *
66047760 GGATCTGTTTCAATGAAGGT-CAGATTTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGA
65 GGATCTGTTTCAATGAAGGTCCA-ATCTACTATGTCTTCGATCTGCTCCCCGTCGAATATAGAGA
66047824 TGCCAAATC
129 TGCCAAATC
66047833 TGTTTCTTCG
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
155 2 0.02
156 118 0.95
157 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (156 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCGGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGTTTCAATGAAGGTCCAATCTACTATGTCTTCGATCTGCTCCCCGTCGAATATAGAGATG
CCAAATCATCTTGGATCTGCTTCAAT
Found at i:66048111 original size:44 final size:44
Alignment explanation
Indices: 66048040--66048140 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
66048030 GTCGAATATG
* * *
66048040 GAGATGCCAAATCTGTTATTTTCGATCTGCTCTCTGACAATACA
1 GAGACGCCAAATCTGCTATTTTCGATCTGCTCCCTGACAATACA
66048084 GAGACGCCAAATCTGCTATCTTT-GATCTGCTCCCTGACAATACA
1 GAGACGCCAAATCTGCTAT-TTTCGATCTGCTCCCTGACAATACA
66048128 GAGACGCCAAATC
1 GAGACGCCAAATC
66048141 ATCTTAGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
44 50 0.94
45 3 0.06
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
GAGACGCCAAATCTGCTATTTTCGATCTGCTCCCTGACAATACA
Found at i:66056161 original size:17 final size:17
Alignment explanation
Indices: 66056139--66056172 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
66056129 GATATGATAC
66056139 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
66056156 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
66056173 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:66056496 original size:19 final size:19
Alignment explanation
Indices: 66056462--66056569 Score: 172
Period size: 19 Copynumber: 5.9 Consensus size: 19
66056452 AATCATATCT
66056462 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
66056479 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
66056498 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
66056516 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
66056533 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
66056552 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
66056570 TGAAGATTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
17 26 0.31
18 15 0.18
19 43 0.51
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:66056525 original size:54 final size:55
Alignment explanation
Indices: 66056455--66056569 Score: 200
Period size: 54 Copynumber: 2.1 Consensus size: 55
66056445 ATTACAAAAT
*
66056455 CATATC-T-TCTAAGATTGTATCATATCTAAGATTGCATATCATATCTAATATTG
1 CATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTG
66056508 CA-ATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTG
66056562 CATATCAT
1 CATATCAT
66056570 TGAAGATTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
52 3 0.05
53 3 0.05
54 47 0.81
55 5 0.09
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (55 bp):
CATATCATATCTAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:66073059 original size:41 final size:41
Alignment explanation
Indices: 66072997--66073151 Score: 103
Period size: 41 Copynumber: 3.5 Consensus size: 41
66072987 TCCTGTCTCT
* *
66072997 CTGAAGTTGTAGTAGAGCAGATCAAAACAAATCATATTTCC
1 CTGAAGTTGCAGTAGAACAGATCAAAACAAATCATATTTCC
* * * *
66073038 CTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACTACAGATCCTATCTCT
1 CTGAAGTTGCAGTAGAACAGA-T----C-A-AAAC-A-A-ATCATATTTCC
* * * *
66073089 CTGAAGTTGCAGTAGAGCAGGTGAAAACAAATCTTATTTCC
1 CTGAAGTTGCAGTAGAACAGATCAAAACAAATCATATTTCC
* * *
66073130 CTGAAGTTACGGTGGAACAGAT
1 CTGAAGTTGCAGTAGAACAGAT
66073152 TGAAGCCATA
Statistics
Matches: 86, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
41 43 0.50
42 2 0.02
43 1 0.01
44 4 0.05
45 1 0.01
46 1 0.01
47 1 0.01
48 4 0.05
49 1 0.01
50 2 0.02
51 26 0.30
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (41 bp):
CTGAAGTTGCAGTAGAACAGATCAAAACAAATCATATTTCC
Found at i:66073062 original size:92 final size:92
Alignment explanation
Indices: 66072894--66073248 Score: 514
Period size: 92 Copynumber: 3.8 Consensus size: 92
66072884 TTACAAGTCT
* * *
66072894 TATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CAAA-A-CAAATCTTATTTCCCTGAAGTTGCAGT
66072959 GGAACAGATTGAAGCTATAAACTACAGATCC
62 GGAACAGATTGAAGCTATAAACTACAGATCC
* * *
66072990 TGTCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAAATCATATTTCCCTGAAGTTGCAGTGGAA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTGGAA
66073055 CAGATTGAAGCTATAAACTACAGATCC
66 CAGATTGAAGCTATAAACTACAGATCC
* * * *
66073082 TATCTCTCTGAAGTTGCAGTAGAGCAGGTGAAAACAAATCTTATTTCCCTGAAGTTACGGTGGAA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTGGAA
*
66073147 CAGATTGAAGCCATAAACTACAGATCC
66 CAGATTGAAGCTATAAACTACAGATCC
* * *
66073174 TATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAACAAGTCTTATCTT-CCTGAAGTTGCAGTGGA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTAT-TTCCCTGAAGTTGCAGTGGA
* *
66073238 GCAGACTGAAG
65 ACAGATTGAAG
66073249 ATAGTAACTT
Statistics
Matches: 239, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
92 206 0.86
93 3 0.01
94 3 0.01
95 1 0.00
96 26 0.11
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (92 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTGGAA
CAGATTGAAGCTATAAACTACAGATCC
Found at i:66075772 original size:129 final size:127
Alignment explanation
Indices: 66075538--66075845 Score: 393
Period size: 129 Copynumber: 2.4 Consensus size: 127
66075528 AAACGAAGGT
* * **
66075538 AATGTTTGATGTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTTGATTTCCCGTTTG
1 AATGTTTGATGCTTGGAAATTCGGGAAATCGTGCCCTATCGTGCTGGGTTTCAATTTCCCGTTTG
* * * * * *
66075603 TTCAAGATAATCGAACCTTCCTTTAGAATTTCATTTGTATTTTTTCTAAATTCTAAAACAAGAC
66 TTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTA-TTCTT-TAAATTCTAAAACAAGAC
* *
66075667 AATGTTTGATGCTTGGAAATTCGGGAAATCGTGCCCTATCGTGTTGGGTTTCAATTTCTCGTTTG
1 AATGTTTGATGCTTGGAAATTCGGGAAATCGTGCCCTATCGTGCTGGGTTTCAATTTCCCGTTTG
* *
66075732 TTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCTAAAACAAGGC
66 TTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCTAAAACAAGAC
**** * * *
66075794 AATGCCCAATGCTTGGAAGTTCGTGG-AATAGTGCTCTATCGTGCTGGGTTTC
1 AATGTTTGATGCTTGGAAATTCG-GGAAATCGTGCCCTATCGTGCTGGGTTTC
66075846 GGTTTTCCGT
Statistics
Matches: 156, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 58 0.37
128 6 0.04
129 92 0.59
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (127 bp):
AATGTTTGATGCTTGGAAATTCGGGAAATCGTGCCCTATCGTGCTGGGTTTCAATTTCCCGTTTG
TTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCTAAAACAAGAC
Found at i:66080489 original size:27 final size:27
Alignment explanation
Indices: 66080441--66080599 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
66080431 GCGAGGCTGC
* *
66080441 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
66080468 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
66080494 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
66080521 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
66080548 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
66080575 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
66080600 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:66080600 original size:54 final size:54
Alignment explanation
Indices: 66080459--66080602 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
66080449 GTGACGAAGT
* *
66080459 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
66080513 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
66080567 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
66080603 GCTTCCTCCA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 82 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:66081005 original size:8 final size:8
Alignment explanation
Indices: 66080989--66081018 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
66080979 CTCAAAATAC
66080989 CGGCTTTT
1 CGGCTTTT
*
66080997 CGGCATTT
1 CGGCTTTT
66081005 CGGCTTTT
1 CGGCTTTT
66081013 CGGCTT
1 CGGCTT
66081019 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:66084837 original size:27 final size:27
Alignment explanation
Indices: 66084796--66084847 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
66084786 GTAAAGATGA
* * *
66084796 CAAATTATCAGATTAATTGAATCATGT
1 CAAAATATCAAATTAACTGAATCATGT
66084823 CAAAATATCAAATTAACTGAATCAT
1 CAAAATATCAAATTAACTGAATCAT
66084848 AAAATTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (27 bp):
CAAAATATCAAATTAACTGAATCATGT
Found at i:66087523 original size:29 final size:29
Alignment explanation
Indices: 66087465--66087523 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
66087455 TGTTATTCTC
* *
66087465 GTATATATATTTTTTCTAAATTTATTTAT
1 GTATATATATGTTTTCTAAATCTATTTAT
66087494 GTATATATATGTTTT-TAAATCTATTATAT
1 GTATATATATGTTTTCTAAATCTATT-TAT
66087523 G
1 G
66087524 CATAAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.58
Consensus pattern (29 bp):
GTATATATATGTTTTCTAAATCTATTTAT
Found at i:66088824 original size:129 final size:126
Alignment explanation
Indices: 66088590--66088898 Score: 393
Period size: 129 Copynumber: 2.4 Consensus size: 126
66088580 AAACGAAGGT
* * * *
66088590 AATGTTTGATGTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTCGATTTCCCGTTTG
1 AATGTTTGATGCTTGGAAATTCGGG-AATAGTGCCCTATCGTGCTGGGTTTCGATTTCCCATTTG
* * * * * *
66088655 TTCAAGATAATCGAACCTTCCTTTAGAATTTCATTTGTATTTTTTCTAAATTCTAAAACAAGAC
65 TTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTA-TTCTT-TAAATTCTAAAACAAGAC
* * *
66088719 AATGTTTGATGCTTGGAAATTCGGAGAATTGTGCCCTATCGTGTTGGGTTTCGATTTCTCATTTG
1 AATGTTTGATGCTTGGAAATTCGG-GAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCCATTTG
* *
66088784 TTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCTAAAACAAGGC
65 TTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCTAAAACAAGAC
** * * *
66088846 AATGTTCAATGCTTGGAAGTTTGTGGAATAGTGCTCTATCGTGCTGGGTTTCG
1 AATGTTTGATGCTTGGAAATTCG-GGAATAGTGCCCTATCGTGCTGGGTTTCG
66088899 GTTTTTCGTT
Statistics
Matches: 157, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
127 61 0.39
128 5 0.03
129 90 0.57
130 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (126 bp):
AATGTTTGATGCTTGGAAATTCGGGAATAGTGCCCTATCGTGCTGGGTTTCGATTTCCCATTTGT
TCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCTAAAACAAGAC
Found at i:66096669 original size:9 final size:9
Alignment explanation
Indices: 66096655--66096685 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
66096645 TACCCATTAT
66096655 ATGACTTCA
1 ATGACTTCA
66096664 ATGACTTCA
1 ATGACTTCA
66096673 ATGACTTCA
1 ATGACTTCA
66096682 ATGA
1 ATGA
66096686 TTTTGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (9 bp):
ATGACTTCA
Found at i:66097825 original size:99 final size:99
Alignment explanation
Indices: 66097648--66097939 Score: 276
Period size: 99 Copynumber: 2.9 Consensus size: 99
66097638 GAAAGGCTCT
* *
66097648 CAGAAGATCGAGTTTATACAGA-TCAACCAATTTACTC--AGAACCTAGGGTTAACTCAGTTCAA
1 CAGAAGATGGAATTTATAC-GACTCAACCAATTTACTCGGAGAA--TAGGGTTAACTCAGTTCAA
* ** *
66097710 GCAAACCAGTTTAATAATCATATTGGAAGTAGAATAC
63 GAAAATAAGTTCAATAATCATATTGGAAGTAGAATAC
* * ** * *
66097747 CAGAAGAT-GAAGTTTATACGGCTCAATCGGTTTGCTCGGA-ATGTAGGGTTAACTC-GATTCAA
1 CAGAAGATGGAA-TTTATACGACTCAACCAATTTACTCGGAGA-ATAGGGTTAACTCAG-TTCAA
* * ** *
66097809 GAAAATAAGTTCAATAATCATATTAGAAATAGCCTGC
63 GAAAATAAGTTCAATAATCATATTGGAAGTAGAATAC
66097846 CAGAAGATGGAATTTATACGACTCAACCAATTTACTCGGAGAATAGGGTTAACTCAGTTCAA-AC
1 CAGAAGATGGAATTTATACGACTCAACCAATTTACTCGGAGAATAGGGTTAACTCAGTTCAAGA-
** *
66097910 AAATAA-TCTCAATGGTGATATTGGAAGTAG
65 AAATAAGT-TCAATAATCATATTGGAAGTAG
66097940 CCTTCAAGCT
Statistics
Matches: 155, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
98 6 0.04
99 142 0.92
100 6 0.04
101 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (99 bp):
CAGAAGATGGAATTTATACGACTCAACCAATTTACTCGGAGAATAGGGTTAACTCAGTTCAAGAA
AATAAGTTCAATAATCATATTGGAAGTAGAATAC
Found at i:66103879 original size:19 final size:19
Alignment explanation
Indices: 66103855--66103893 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
66103845 CACCAGAATC
66103855 ATGGTTTGTGAAACTCCAA
1 ATGGTTTGTGAAACTCCAA
66103874 ATGGTTTGTGAAACTCCAA
1 ATGGTTTGTGAAACTCCAA
66103893 A
1 A
66103894 GCAAGCCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (19 bp):
ATGGTTTGTGAAACTCCAA
Found at i:66111000 original size:40 final size:38
Alignment explanation
Indices: 66110935--66111060 Score: 180
Period size: 38 Copynumber: 3.3 Consensus size: 38
66110925 ATATTCGATG
66110935 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
66110973 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* * *
66111013 AATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
66111051 TATATTCGGG
1 TATATCCGGG
66111061 CCCTCGTGCC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 37 0.48
39 10 0.13
40 30 0.39
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:66111045 original size:38 final size:38
Alignment explanation
Indices: 66110936--66111049 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 38
66110926 TATTCGATGT
**
66110936 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
*
66110974 ATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
1 ATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAAA
* *
66111014 ATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTA
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
66111050 TTATATTCGG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 28 0.41
39 10 0.15
40 30 0.44
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
Found at i:66111177 original size:43 final size:43
Alignment explanation
Indices: 66111053--66111164 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
66111043 GCTGGTATTA
*
66111053 TATTCGGGCCCTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
66111096 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
66111139 TATTCGGGCCTTCATGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
66111165 GTAATGCCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.12, C:0.28, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:66116657 original size:18 final size:19
Alignment explanation
Indices: 66116634--66116686 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 19
66116624 ATTGGTCAAG
66116634 TGTGAATTTAGAAGAATTT
1 TGTGAATTTAGAAGAATTT
*
66116653 T-TGAA-TTAG-TGAATTT
1 TGTGAATTTAGAAGAATTT
* *
66116669 TGTGATTTTAAAAGAATT
1 TGTGAATTTAGAAGAATT
66116687 AATTAGGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 7 0.26
19 6 0.22
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (19 bp):
TGTGAATTTAGAAGAATTT
Found at i:66117737 original size:21 final size:21
Alignment explanation
Indices: 66117711--66117778 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
66117701 TAACTCATGA
66117711 GTTTCTGTTTAACCCTTATGG
1 GTTTCTGTTTAACCCTTATGG
* * * *
66117732 GTTTCTGTTCAGCTCTTTTGAG
1 GTTTCTGTTTAACCCTTATG-G
*
66117754 CTTT-TGTTTAACCCTTATGG
1 GTTTCTGTTTAACCCTTATGG
66117774 GTTTC
1 GTTTC
66117779 CGTTCAGCTC
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (21 bp):
GTTTCTGTTTAACCCTTATGG
Found at i:66117764 original size:42 final size:41
Alignment explanation
Indices: 66117695--66117820 Score: 150
Period size: 42 Copynumber: 3.1 Consensus size: 41
66117685 TCTCACGAGC
*
66117695 TTCTGTT-AACTC-ATGAG-TTTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTATGAGCTTT-TGTTTAACCCTTATGGGT
*
66117734 TTCTGTTCAGCTCTTTTGAGCTTTTGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTC-TATGAGCTTTTGTTTAACCCTTATGGGT
* * ** *
66117776 TTCCGTTCAGCTCTACGAGCTTCCGTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTATGAGCTTTTGTTTAACCCTTATGGGT
66117817 TTCT
1 TTCT
66117821 ATTTAGCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 7 0.09
40 4 0.05
41 26 0.35
42 34 0.46
43 3 0.04
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.44
Consensus pattern (41 bp):
TTCTGTTCAGCTCTATGAGCTTTTGTTTAACCCTTATGGGT
Found at i:66117808 original size:41 final size:42
Alignment explanation
Indices: 66117721--66117819 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 42
66117711 GTTTCTGTTT
* ** ** *
66117721 AACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTTTGTTT
1 AACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCCGTTC
66117763 AACCCTTATGGGTTTCCGTTCAGCTC-TACGAGCTTCCGTTC
1 AACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCCGTTC
66117804 AACCCTTATGGGTTTC
1 AACCCTTATGGGTTTC
66117820 TATTTAGCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 26 0.51
42 25 0.49
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.41
Consensus pattern (42 bp):
AACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCCGTTC
Found at i:66123057 original size:39 final size:38
Alignment explanation
Indices: 66123014--66123453 Score: 323
Period size: 39 Copynumber: 11.4 Consensus size: 38
66123004 AGAAAATCTT
* *
66123014 ATTCAGTATAATCAGTGGATAAT-GCTCGTTTGAGCAAAC
1 ATTCAGTATAATCAGTAGAT--TCGCTCGTTTGAGCAAGC
* *
66123053 ATTCAATATAATCAGTAGATATGGCTCG-TTGAGCAA-C
1 ATTCAGTATAATCAGTAGAT-TCGCTCGTTTGAGCAAGC
* * * * *
66123090 ATTCAGTAAAATCAGTGGATTCACTTGCTTTGAACAAGC
1 ATTCAGTATAATCAGTAGATTCGCTCG-TTTGAGCAAGC
* * * * * *
66123129 ATTCAGGATAATTATTAGATTCACTCGCTTAAGCAAGC
1 ATTCAGTATAATCAGTAGATTCGCTCGTTTGAGCAAGC
* * * *
66123167 ATTCAGTAAAATCAGTAGATTTGCTTGTTTTGAACAAGC
1 ATTCAGTATAATCAGTAGATTCGCTCG-TTTGAGCAAGC
* * *
66123206 ATTCAATATAATCAGTAGATTCGCTCGCTTGAGCAACC
1 ATTCAGTATAATCAGTAGATTCGCTCGTTTGAGCAAGC
* * * *
66123244 ATTCGGTA-AAACTAGTGGATTCGCTCGTTTTGAACAAGC
1 ATTCAGTATAATC-AGTAGATTCGCTCG-TTTGAGCAAGC
* * * *
66123283 A-TCTAGTATAATCGGTAGATTTGCTCGCTTGAGCAATC
1 ATTC-AGTATAATCAGTAGATTCGCTCGTTTGAGCAAGC
* * * * *
66123321 ATTCAGTAAAATCAGTGGATTCGCTCTTTTAGAACAAGT
1 ATTCAGTATAATCAGTAGATTCGCTCGTTT-GAGCAAGC
* * * * * *
66123360 ATTCAATAAAATCAGTGGATTCGTTCTTTTTGAACAAGC
1 ATTCAGTATAATCAGTAGATTCGCTC-GTTTGAGCAAGC
* * * *
66123399 ATTCAGTATAAACAGTAGATTCACTCGCTTGAGCAAAC
1 ATTCAGTATAATCAGTAGATTCGCTCGTTTGAGCAAGC
* * *
66123437 TTTTAGTAGAATCAGTA
1 ATTCAGTATAATCAGTA
66123454 TTCTACTTTT
Statistics
Matches: 313, Mismatches: 76, Indels: 25
0.76 0.18 0.06
Matches are distributed among these distances:
36 4 0.01
37 21 0.07
38 124 0.40
39 157 0.50
40 7 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (38 bp):
ATTCAGTATAATCAGTAGATTCGCTCGTTTGAGCAAGC
Found at i:66123199 original size:77 final size:76
Alignment explanation
Indices: 66123014--66123382 Score: 390
Period size: 77 Copynumber: 4.8 Consensus size: 76
66123004 AGAAAATCTT
* * * * * *
66123014 ATTCAGTATAATCAGTGGATAAT-GCTCG-TTTGAGCAAACATTCAATATAATCAGTAGATATGG
1 ATTCAGTAAAATCAGTGGAT--TCGCTTGTTTTGAACAAGCATTCAGTATAATCAGTAGAT-TCG
66123077 CTCG-TTGAGCAAC
63 CTCGCTTGAGCAAC
* * * * * *
66123090 ATTCAGTAAAATCAGTGGATTCACTTGCTTTGAACAAGCATTCAGGATAATTATTAGATTCACTC
1 ATTCAGTAAAATCAGTGGATTCGCTTGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTC
*
66123155 GCTTAAGCAAGC
66 GCTTGAGCAA-C
* * *
66123167 ATTCAGTAAAATCAGTAGATTTGCTTGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCTC
1 ATTCAGTAAAATCAGTGGATTCGCTTGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTC
66123232 GCTTGAGCAACC
66 GCTTGAGCAA-C
* * * *
66123244 ATTCGGTAAAA-CTAGTGGATTCGCTCGTTTTGAACAAGCA-TCTAGTATAATCGGTAGATTTGC
1 ATTCAGTAAAATC-AGTGGATTCGCTTGTTTTGAACAAGCATTC-AGTATAATCAGTAGATTCGC
66123307 TCGCTTGAGCAATC
64 TCGCTTGAGCAA-C
* * * * *
66123321 ATTCAGTAAAATCAGTGGATTCGCTCT-TTTAGAACAAGTATTCAATAAAATCAGTGGATTCG
1 ATTCAGTAAAATCAGTGGATTCGCT-TGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCG
66123383 TTCTTTTTGA
Statistics
Matches: 244, Mismatches: 40, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
74 1 0.00
75 8 0.03
76 54 0.22
77 178 0.73
78 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (76 bp):
ATTCAGTAAAATCAGTGGATTCGCTTGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTC
GCTTGAGCAAC
Found at i:66123282 original size:116 final size:116
Alignment explanation
Indices: 66123014--66123430 Score: 314
Period size: 116 Copynumber: 3.6 Consensus size: 116
66123004 AGAAAATCTT
* * * * * * *
66123014 ATTCAGTATAATCAGTGGATAAT-GCTCG-TTTGAGCAAACATTCAATATAATCAGTAGATATGG
1 ATTCAATAAAATCAGTGGAT--TCGCTCGTTTTGAACAAGCATTCAGTAAAATCAGTAGAT-TTG
* * * * * * *
66123077 CTCG-TTGAGCAA-CATTCAGTAAAATCAGTGGATTCACTTGCTTTGAACAAGC
63 CTCGCTTGAACAAGCATTCAATAAAATCAGTAGATTCGCTCGCTTAGAACAACC
** * * * * * *
66123129 ATTCAGGATAATTATTAGATTCACTCG-CTT-AAGCAAGCATTCAGTAAAATCAGTAGATTTGCT
1 ATTCAATAAAATCAGTGGATTCGCTCGTTTTGAA-CAAGCATTCAGTAAAATCAGTAGATTTGCT
* * * *
66123192 TGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCTCGCTT-GAGCAACC
65 CG-CTTGAACAAGCATTCAATAAAATCAGTAGATTCGCTCGCTTAGAACAACC
** * *
66123244 ATTCGGTAAAA-CTAGTGGATTCGCTCGTTTTGAACAAGCA-TCTAGTATAATCGGTAGATTTGC
1 ATTCAATAAAATC-AGTGGATTCGCTCGTTTTGAACAAGCATTC-AGTAAAATCAGTAGATTTGC
* * * * ** **
66123307 TCGCTTGAGCAATCATTCAGTAAAATCAGTGGATTCGCTCTTTTAGAACAAGT
64 TCGCTTGAACAAGCATTCAATAAAATCAGTAGATTCGCTCGCTTAGAACAACC
* * **
66123360 ATTCAATAAAATCAGTGGATTCGTTCTTTTTGAACAAGCATTCAGTATAAA-CAGTAGATTCACT
1 ATTCAATAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTA-AAATCAGTAGATTTGCT
66123424 CGCTTGA
65 CGCTTGA
66123431 GCAAACTTTT
Statistics
Matches: 239, Mismatches: 50, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
113 7 0.03
114 28 0.12
115 83 0.35
116 114 0.48
117 7 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (116 bp):
ATTCAATAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTAAAATCAGTAGATTTGCTC
GCTTGAACAAGCATTCAATAAAATCAGTAGATTCGCTCGCTTAGAACAACC
Found at i:66123311 original size:154 final size:152
Alignment explanation
Indices: 66123014--66123428 Score: 444
Period size: 154 Copynumber: 2.7 Consensus size: 152
66123004 AGAAAATCTT
* * * * * *
66123014 ATTCAGTATAATCAGTGGATAATGCTCG-TTTGAGCAAACATTCAATATAATCAGTAGATATGGC
1 ATTCAGTAAAATCAGTGGAT-TTGCTTGTTTTGAACAAGCATTCAATATAATCAGTAGAT-TCGC
* *
66123078 TCGTTGAGCAACATTCAGTAAAATCAGTGGATTCACTTGCTTTGAACAAGCATTCAGGATAATTA
64 TCGTTGAGCAACATTCAGTAAAATCAGTGGATTCACTCGCTTTGAACAAGCATTCAGGATAATCA
*
66123143 TTAGATTCACTCGCTTAAGCAAGC
129 GTAGATTCACTCGCTTAAGCAAGC
*
66123167 ATTCAGTAAAATCAGTAGATTTGCTTGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCTC
1 ATTCAGTAAAATCAGTGGATTTGCTTGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCTC
* * * *
66123232 GCTTGAGCAACCATTCGGTAAAA-CTAGTGGATTCGCTCGTTTTGAACAAGCA-TCTAGTATAAT
66 G-TTGAGCAA-CATTCAGTAAAATC-AGTGGATTCACTCGCTTTGAACAAGCATTC-AGGATAAT
* ** * *
66123295 CGGTAGATTTGCTCGCTTGAGCAATC
127 CAGTAGATTCACTCGCTTAAGCAAGC
* * * * *
66123321 ATTCAGTAAAATCAGTGGATTCGCTCT-TTTAGAACAAGTATTCAATAAAATCAGTGGATTCGTT
1 ATTCAGTAAAATCAGTGGATTTGCT-TGTTTTGAACAAGCATTCAATATAATCAGTAGATTCG--
** * *
66123385 CTTTTTGAACAAGCATTCAGTATAAA-CAGTAGATTCACTCGCTT
63 CTCGTTGAGCAA-CATTCAGTA-AAATCAGTGGATTCACTCGCTT
66123429 GAGCAAACTT
Statistics
Matches: 220, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
152 11 0.05
153 58 0.26
154 115 0.52
155 30 0.14
156 6 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (152 bp):
ATTCAGTAAAATCAGTGGATTTGCTTGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCTC
GTTGAGCAACATTCAGTAAAATCAGTGGATTCACTCGCTTTGAACAAGCATTCAGGATAATCAGT
AGATTCACTCGCTTAAGCAAGC
Found at i:66125991 original size:24 final size:24
Alignment explanation
Indices: 66125964--66126013 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
66125954 TTACTTCCGT
66125964 TCTGCTAAATTTTGTGTCTGCTGC
1 TCTGCTAAATTTTGTGTCTGCTGC
*
66125988 TCTGCTAAATTTTGTGTCTGTTGC
1 TCTGCTAAATTTTGTGTCTGCTGC
66126012 TC
1 TC
66126014 ATTTGATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.48
Consensus pattern (24 bp):
TCTGCTAAATTTTGTGTCTGCTGC
Found at i:66126107 original size:27 final size:27
Alignment explanation
Indices: 66126077--66126160 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
66126067 TGTAGGACCC
66126077 ACCAGTCGCGCCTGTCAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
* * * *
66126104 ACCAGTCGCACTTGTCAAATAGGCACA
1 ACCAGTCGCGCCTGTCAGATAGGCTCA
* *
66126131 ACGAGTCGCGCCT-ACTAGATAGGCTCA
1 ACCAGTCGCGCCTGTC-AGATAGGCTCA
66126158 ACC
1 ACC
66126161 TACCCCTATA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.02
27 44 0.98
ACGTcount: A:0.27, C:0.32, G:0.23, T:0.18
Consensus pattern (27 bp):
ACCAGTCGCGCCTGTCAGATAGGCTCA
Found at i:66138662 original size:33 final size:33
Alignment explanation
Indices: 66138625--66138694 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
66138615 TATTTATACA
*
66138625 ATTATAATATT-TTATTTAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
* *
66138658 ATTATTTATTATTATTAAAATTAAGATATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
66138691 ATTA
1 ATTA
66138695 ATTAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 4 0.12
33 26 0.81
34 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:66138716 original size:33 final size:33
Alignment explanation
Indices: 66138652--66138717 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
66138642 AAATTAGTAG
* *
66138652 ATATTTATTATTTATTATTATTAAAATTAAGAT
1 ATATTTATTATTAATAATTATTAAAATTAAGAT
66138685 ATATTTATTAATTAAATAATTA-TAAAA-TAAGAT
1 ATATTTATT-ATT-AATAATTATTAAAATTAAGAT
66138718 TTTTATGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 15 0.52
34 8 0.28
35 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (33 bp):
ATATTTATTATTAATAATTATTAAAATTAAGAT
Found at i:66139295 original size:40 final size:40
Alignment explanation
Indices: 66139233--66139319 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
66139223 AATTATGGAA
* * * *
66139233 TACTGAATATTGTTTTAAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTATTATAAGTACTGAATTGAACTGTGAAAT
** *
66139273 TACTGAATATTATTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTATTATAAGTACTGAATTGAACTGTGAAAT
66139313 TACTGAA
1 TACTGAA
66139320 GTAATGAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (40 bp):
TACTGAATATTATTATAAGTACTGAATTGAACTGTGAAAT
Found at i:66139610 original size:45 final size:45
Alignment explanation
Indices: 66139541--66139637 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 45
66139531 TACCGTTATT
* * * * *
66139541 GTTACTGTTACCGATTCGATACTTTGTGTGTCGAATATTGTTACC
1 GTTACTGTTACAGATTCAACACTTTATGTGTCGAATACTGTTACC
* *
66139586 GTTACTGTTACAGATTCAACACTTTATGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAACACTTTATGTGTCGAATACTGTTACC
66139631 GTTACTG
1 GTTACTG
66139638 CTACCGTTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTATGTGTCGAATACTGTTACC
Found at i:66139710 original size:18 final size:18
Alignment explanation
Indices: 66139667--66139710 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
66139657 TTTAGGTATG
**
66139667 TGTACCGTTAAGGCACTG
1 TGTACCGTTAAGGCACAA
66139685 TGTACCGTTAAGGCACAA
1 TGTACCGTTAAGGCACAA
*
66139703 TGTGCCGT
1 TGTACCGT
66139711 ACTGGTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (18 bp):
TGTACCGTTAAGGCACAA
Found at i:66139712 original size:23 final size:18
Alignment explanation
Indices: 66139665--66139700 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
66139655 TGTTTAGGTA
66139665 TGTGTACCGTTAAGGCAC
1 TGTGTACCGTTAAGGCAC
66139683 TGTGTACCGTTAAGGCAC
1 TGTGTACCGTTAAGGCAC
66139701 AATGTGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (18 bp):
TGTGTACCGTTAAGGCAC
Found at i:66146180 original size:21 final size:20
Alignment explanation
Indices: 66146117--66146182 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 20
66146107 ACTGAACTGA
66146117 ATTATGGAA-TACTGAATATT
1 ATTAT-GAAGTACTGAATATT
* * *
66146137 GTT-TTAAGTACTGAAT-TGA
1 ATTATGAAGTACTGAATAT-T
66146156 ATTATGAAGTTACTGAATATT
1 ATTATGAAG-TACTGAATATT
66146177 ATTATG
1 ATTATG
66146183 TGTACTGCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
18 3 0.09
19 11 0.31
20 6 0.17
21 14 0.40
22 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTATGAAGTACTGAATATT
Found at i:66146188 original size:40 final size:39
Alignment explanation
Indices: 66146106--66146212 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
66146096 TTGAGACTGA
* * *
66146106 TACTGAACTGAATTATGGAA-TACTGAATATTGTTTTAAG
1 TACTGAATTGAATTAT-GAATTACTGAATATTATTATAAG
**
66146145 TACTGAATTGAATTATGAAGTTACTGAATATTATTATGTG
1 TACTGAATTGAATTATGAA-TTACTGAATATTATTATAAG
* * *
66146185 TACTGCATTGAACTGTGAAATTACTGAA
1 TACTGAATTGAATTATG-AATTACTGAA
66146213 GTAATGAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
38 3 0.05
39 15 0.26
40 37 0.65
41 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (39 bp):
TACTGAATTGAATTATGAATTACTGAATATTATTATAAG
Found at i:66146434 original size:18 final size:18
Alignment explanation
Indices: 66146411--66146445 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
66146401 ATGTGCCGAC
66146411 TACTGTTACTGTTACCGT
1 TACTGTTACTGTTACCGT
*
66146429 TACTGTTATTGTTACCG
1 TACTGTTACTGTTACCG
66146446 ATTCGATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGTTACCGT
Found at i:66146494 original size:45 final size:45
Alignment explanation
Indices: 66146427--66146529 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
66146417 TACTGTTACC
* * * *
66146427 GTTACTGTTATTGTTACCGATTC-GATACTTTGTGTGTCGAATATT
1 GTTACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACT
* *
66146472 GTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACT
1 GTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACT
66146517 GTTACTGTTACTG
1 GTTACTGTTACTG
66146530 CTACCGTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 49 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (45 bp):
GTTACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACT
Found at i:66149588 original size:5 final size:6
Alignment explanation
Indices: 66149556--66149596 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
66149546 GTTAGCAGGG
* *
66149556 AAAGAA AGAAGAA AAGGGA AAAGAA AAAGAA AAAGAA AAAG
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG
66149597 GGGAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:66149590 original size:19 final size:18
Alignment explanation
Indices: 66149552--66149588 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
66149542 CACGGTTAGC
66149552 AGGGAAAGAAAGAAGAAA
1 AGGGAAAGAAAGAAGAAA
66149570 AGGGAAAAGAAA-AAGAAA
1 AGGG-AAAGAAAGAAGAAA
66149588 A
1 A
66149589 AGAAAAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AGGGAAAGAAAGAAGAAA
Found at i:66150062 original size:19 final size:20
Alignment explanation
Indices: 66150022--66150062 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
66150012 GGAAAATACA
66150022 TAAATGTGTTATTAATGATTT
1 TAAATGTGTTATTAAT-ATTT
66150043 TAAATGT-TATATTAAT-TTT
1 TAAATGTGT-TATTAATATTT
66150062 T
1 T
66150063 TCGTAGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.21
20 1 0.05
21 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TAAATGTGTTATTAATATTT
Found at i:66152817 original size:29 final size:28
Alignment explanation
Indices: 66152732--66152846 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 28
66152722 TACCTATATC
* *
66152732 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
66152760 TGGCCCATTCA-GCCCAGATCACCTGT-ATA
1 TGGCCCATT-AGGCCCA-ATCACAT-TCATA
* *
66152789 TAGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
66152818 TGGCCTATTAGACCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
66152846 T
1 T
66152847 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
28 28 0.39
29 42 0.58
30 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:66153113 original size:9 final size:9
Alignment explanation
Indices: 66153099--66153148 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
66153089 ATAAGTATAA
66153099 AATTAACCG
1 AATTAACCG
66153108 AATTAACCG
1 AATTAACCG
* *
66153117 AATTACCCT
1 AATTAACCG
66153126 AATTAACCG
1 AATTAACCG
*
66153135 AATTAATCG
1 AATTAACCG
66153144 AATTA
1 AATTA
66153149 TTTGTATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:66153183 original size:5 final size:6
Alignment explanation
Indices: 66153168--66153208 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
66153158 AATTATATAT
*
66153168 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
66153209 ATGAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:66154937 original size:13 final size:13
Alignment explanation
Indices: 66154919--66154981 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
66154909 GTCAGATTTG
66154919 CCCACGGCCTGGC
1 CCCACGGCCTGGC
66154932 CCCACGGCCTGGC
1 CCCACGGCCTGGC
66154945 CCCACGGCCATGGGAGC
1 CCCACGGCC-T--G-GC
*
66154962 CCCACGGGCTGGC
1 CCCACGGCCTGGC
*
66154975 CACACGG
1 CCCACGG
66154982 TCATGTCTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
13 30 0.68
14 2 0.05
16 2 0.05
17 10 0.23
ACGTcount: A:0.13, C:0.48, G:0.33, T:0.06
Consensus pattern (13 bp):
CCCACGGCCTGGC
Found at i:66154966 original size:30 final size:30
Alignment explanation
Indices: 66154930--66154986 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
66154920 CCACGGCCTG
*
66154930 GCCCCACGGCCTGGCCCCACGGCCATGGGA
1 GCCCCACGGCCTGGCCACACGGCCATGGGA
* *
66154960 GCCCCACGGGCTGGCCACACGGTCATG
1 GCCCCACGGCCTGGCCACACGGCCATG
66154987 TCTCGGGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.44, G:0.33, T:0.09
Consensus pattern (30 bp):
GCCCCACGGCCTGGCCACACGGCCATGGGA
Done.