Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 238 of 259
Found at i:74598376 original size:24 final size:25
Alignment explanation
Indices: 74598330--74598395 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
74598320 ATGTATATAT
* *
74598330 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
74598354 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
74598379 TTACTATAATATAATAA
1 ATAATATAATATAATAA
74598396 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.51
25 13 0.37
26 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:74604495 original size:36 final size:36
Alignment explanation
Indices: 74604455--74604528 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
74604445 AGTTCGGAGT
74604455 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
1 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
74604491 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
1 CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
74604527 CA
1 CA
74604529 GAAAGGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (36 bp):
CATTTTCCCCTTTTGAATTGCAAGTTTACTGCTGCA
Found at i:74604970 original size:20 final size:21
Alignment explanation
Indices: 74604934--74604972 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
74604924 TTTTAAACAT
*
74604934 AAATAACTAAAATATAATTTA
1 AAATAAATAAAATATAATTTA
74604955 AAATAAATAAAA-ATAATT
1 AAATAAATAAAATATAATT
74604973 ATTTTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAATAAAATATAATTTA
Found at i:74620036 original size:112 final size:114
Alignment explanation
Indices: 74619919--74620139 Score: 281
Period size: 115 Copynumber: 1.9 Consensus size: 114
74619909 AAAAACGTCA
* * * *
74619919 CAAAATAATTCATCAACATGCCGTC-TTTTTT-TT-GCCTTAGA-GGCATTTAGCGGCGCTTTTT
1 CAAAATAATTCATCAACATGACATCATTTTTTGTTAGCCTTA-ATGGCA-TTAGCGACACTTTTT
* * *
74619980 -AACCAACACCGCTATAGGTCGAGCATTAGCGGCGCTTTTTTAGAAGTGCTG
64 GAA-AAACACCGCTATAGATCGAGCATTAGCGGCACTTTTTTAGAAGTGCTG
*
74620031 CAAAATATTTCATCAACATGACATCATTTTTTGTTGAGCCTTAATGGCATTAGCGACACTTTTTG
1 CAAAATAATTCATCAACATGACATCATTTTTTGTT-AGCCTTAATGGCATTAGCGACACTTTTTG
* *
74620096 AAAAACGCCGCTATAGATCGAGCTTTAGCGGCACTTTTTTAGAA
65 AAAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTTTAGAA
74620140 AACGCTGCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
112 22 0.24
113 6 0.06
114 2 0.02
115 51 0.55
116 12 0.13
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (114 bp):
CAAAATAATTCATCAACATGACATCATTTTTTGTTAGCCTTAATGGCATTAGCGACACTTTTTGA
AAAACACCGCTATAGATCGAGCATTAGCGGCACTTTTTTAGAAGTGCTG
Found at i:74620299 original size:27 final size:27
Alignment explanation
Indices: 74620243--74620300 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
74620233 ATTCTTCAAA
*
74620243 AAAATAATAACACATAGAAAAAATTTT
1 AAAATAATAACACATAGAAAAAATTGT
*
74620270 AAAATAA-AA-ACATATAAAAATATATGT
1 AAAATAATAACACATAGAAAAA-AT-TGT
74620297 AAAA
1 AAAA
74620301 AATGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 10 0.37
26 4 0.15
27 13 0.48
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.24
Consensus pattern (27 bp):
AAAATAATAACACATAGAAAAAATTGT
Found at i:74620572 original size:7 final size:7
Alignment explanation
Indices: 74620510--74620612 Score: 55
Period size: 7 Copynumber: 14.3 Consensus size: 7
74620500 GAGTTAATAT
*
74620510 TTTAAGG
1 TTTATGG
74620517 TTTATGG
1 TTTATGG
*
74620524 ATTATGGG
1 TTTAT-GG
*
74620532 TTTA-GAA
1 TTTATG-G
*
74620539 TTTAAGG
1 TTTATGG
*
74620546 TTTAAGG
1 TTTATGG
*
74620553 TTTAAGGG
1 TTT-ATGG
74620561 TTTATGG
1 TTTATGG
74620568 TTTATGAG
1 TTTATG-G
* **
74620576 TTAATAT
1 TTTATGG
*
74620583 TTTAAGG
1 TTTATGG
74620590 TTTATGG
1 TTTATGG
*
74620597 ATTATGG
1 TTTATGG
*
74620604 ATTATGG
1 TTTATGG
74620611 TT
1 TT
74620613 CAAAGGTTGA
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
6 1 0.01
7 56 0.76
8 17 0.23
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:74620619 original size:73 final size:71
Alignment explanation
Indices: 74620498--74620642 Score: 186
Period size: 73 Copynumber: 2.0 Consensus size: 71
74620488 GTGGTTTATG
* * *
74620498 ATGAGTTAATATTTTAAGGTTTATGGATTATGGGTTTAGAATTTAAGGTTTAAGGTTTAAGGGTT
1 ATGAGTTAATATTTTAAGGTTTATGGATTATGGATTTAGAATTAAAGG-TTAAGGTTT-AGAGTT
*
74620563 TATGGTTT
64 TATAGTTT
* *
74620571 ATGAGTTAATATTTTAAGGTTTATGGATTATGGA-TTATG-GTTCAAAGGTTGAGGTTTAGAGTT
1 ATGAGTTAATATTTTAAGGTTTATGGATTATGGATTTA-GAATT-AAAGGTTAAGGTTTAGAGTT
74620634 TATAGTTT
64 TATAGTTT
74620642 A
1 A
74620643 GGGCTCAAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
71 13 0.20
72 13 0.20
73 38 0.59
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.46
Consensus pattern (71 bp):
ATGAGTTAATATTTTAAGGTTTATGGATTATGGATTTAGAATTAAAGGTTAAGGTTTAGAGTTTA
TAGTTT
Found at i:74620727 original size:37 final size:37
Alignment explanation
Indices: 74620672--74620758 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 37
74620662 AATGGCTAAG
*
74620672 GGTTTAGGGGTTTATGGTTTAG-GTGTTTTGGGGATAT
1 GGTTTAGGGGTTTATGGTTTAGTG-GTTTTGGGGACAT
*
74620709 GGTTT-GGTGGTTTGTGGTTTAGTGGTTTTGGGGACAT
1 GGTTTAGG-GGTTTATGGTTTAGTGGTTTTGGGGACAT
74620746 GGTTTA-GGGTTTA
1 GGTTTAGGGGTTTA
74620759 AGGCTTATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 7 0.16
37 36 0.82
38 1 0.02
ACGTcount: A:0.11, C:0.01, G:0.41, T:0.46
Consensus pattern (37 bp):
GGTTTAGGGGTTTATGGTTTAGTGGTTTTGGGGACAT
Found at i:74621567 original size:47 final size:47
Alignment explanation
Indices: 74621498--74621591 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
74621488 TTTCCCCAGT
74621498 TCATTTCCCCTATTTTCCTTAGTCCCAAATCCGTAAAGTTTTATCAC
1 TCATTTCCCCTATTTTCCTTAGTCCCAAATCCGTAAAGTTTTATCAC
74621545 TCATTTCCCCTATTTTCCTTAGTCCCAAATCCGTAAAGTTTTATCAC
1 TCATTTCCCCTATTTTCCTTAGTCCCAAATCCGTAAAGTTTTATCAC
74621592 CCCTTTTTCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.30, G:0.06, T:0.40
Consensus pattern (47 bp):
TCATTTCCCCTATTTTCCTTAGTCCCAAATCCGTAAAGTTTTATCAC
Found at i:74623003 original size:105 final size:105
Alignment explanation
Indices: 74622880--74623342 Score: 759
Period size: 105 Copynumber: 4.4 Consensus size: 105
74622870 ATTTTAAATA
* * *
74622880 TTTTATTTTACTT-TTAAATTACCTAATTAAATTAAATTTTATTTAAAGTTTTATTTTGAATATG
1 TTTTATTTTA-TTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* * *
74622944 TTAATTTAATTTAATTTAATCACGAAAAATATTTTGTCTAC
65 TTATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
*
74622985 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* * * *
74623050 CATTTTATTTTAATTTAATCACGAGAAATATTTTATTTAA
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
* *
74623090 TTTTATTTTATTGTTGAATCACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AATATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
74623154 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
*
74623194 TTTTAATTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
74623259 TATTTTATTTTAATTTAATCACAAAAAATATTTTGTTTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
*
74623299 TTTTATTTTATTGTTAAATCACCTAATTAAATTAAATTGTATTT
1 TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTT
74623343 TTAAATATTG
Statistics
Matches: 333, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
104 99 0.30
105 234 0.70
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.54
Consensus pattern (105 bp):
TTTTATTTTATTGTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTAC
Found at i:74623229 original size:209 final size:210
Alignment explanation
Indices: 74622879--74623342 Score: 779
Period size: 209 Copynumber: 2.2 Consensus size: 210
74622869 TATTTTAAAT
* *
74622879 ATTTTATTTTACTT-TTAAATTACCTAATTAAATTAAATTTTATTTAAAGTTTTATTTTGAATAT
1 ATTTTATTTTA-TTGTTAAATCACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATAT
* *
74622943 GTTAATTTAATTTAATTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACC
65 GTTAATTTAATTTAATTTAATCACGAAAAATATTTTGTCTACTTTTAATTTATTGTTAAATTACC
*
74623008 TAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTTATTTTAATTTAATCACG
130 TAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTTATTTTAATTTAATCACA
*
74623073 AGAAATATTTTATTTA
195 AAAAATATTTTATTTA
* *
74623089 ATTTTATTTTATTGTTGAATCACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT-AATATT
1 ATTTTATTTTATTGTTAAATCACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
* * *
74623153 TTATTTTATTTTAATTTAATCACGAAAAATATTTTGTTTACTTTTAATTTATTGTTAAATTACCT
66 TTAATTTAATTTAATTTAATCACGAAAAATATTTTGTCTACTTTTAATTTATTGTTAAATTACCT
*
74623218 AATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTATTTTATTTTAATTTAATCACAA
131 AATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTTATTTTAATTTAATCACAA
*
74623283 AAAATATTTTGTTTA
196 AAAATATTTTATTTA
*
74623298 CTTTTATTTTATTGTTAAATCACCTAATTAAATTAAATTGTATTT
1 ATTTTATTTTATTGTTAAATCACCTAATTAAATTAAATTGTATTT
74623343 TTAAATATTG
Statistics
Matches: 238, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
209 186 0.78
210 52 0.22
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.54
Consensus pattern (210 bp):
ATTTTATTTTATTGTTAAATCACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTGAATATG
TTAATTTAATTTAATTTAATCACGAAAAATATTTTGTCTACTTTTAATTTATTGTTAAATTACCT
AATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTCATTTTATTTTAATTTAATCACAA
AAAATATTTTATTTA
Found at i:74623630 original size:9 final size:9
Alignment explanation
Indices: 74623608--74623747 Score: 69
Period size: 9 Copynumber: 16.0 Consensus size: 9
74623598 AAATATATAT
*
74623608 CATATCTTA
1 CATAACTTA
*
74623617 CATAATTTA
1 CATAACTTA
**
74623626 CATAAGATA
1 CATAACTTA
* *
74623635 AACAACTTA
1 CATAACTTA
*
74623644 CATAATTTA
1 CATAACTTA
74623653 CATAACTTA
1 CATAACTTA
74623662 CATAA--TA
1 CATAACTTA
*
74623669 CATAA-ATA
1 CATAACTTA
* *
74623677 TAT-ATTATA
1 CATAACT-TA
74623686 TCATAACTTA
1 -CATAACTTA
74623696 CATAACTTA
1 CATAACTTA
74623705 CATAA--TA
1 CATAACTTA
* *
74623712 TATAA-ATA
1 CATAACTTA
* * *
74623720 TATATCATA
1 CATAACTTA
74623729 TCATAACTTA
1 -CATAACTTA
74623739 CATAACTTA
1 CATAACTTA
74623748 ATTATACTTA
Statistics
Matches: 102, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
7 14 0.14
8 10 0.10
9 66 0.65
10 10 0.10
11 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:74623691 original size:43 final size:43
Alignment explanation
Indices: 74623644--74623747 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
74623634 AAACAACTTA
* *
74623644 CATAATTTACATAACTTACATAATACATAAATATATATTATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
*
74623687 CATAACTTACATAACTTACATAATATATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
74623730 CATAACTTACATAACTTA
1 CATAACTTACATAACTTA
74623748 ATTATACTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (43 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATAT
Found at i:74623694 original size:34 final size:37
Alignment explanation
Indices: 74623653--74623728 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 37
74623643 ACATAATTTA
*
74623653 CATAACTTACATAA-TACATAA-ATATATAT-TATAT
1 CATAACTTACATAACTACATAATATATAAATATATAT
74623687 CATAACTTACATAACTTACATAATATATAAATATATAT
1 CATAACTTACATAAC-TACATAATATATAAATATATAT
74623725 CATA
1 CATA
74623729 TCATAACTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 14 0.38
36 7 0.19
37 7 0.19
38 9 0.24
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (37 bp):
CATAACTTACATAACTACATAATATATAAATATATAT
Found at i:74631768 original size:31 final size:31
Alignment explanation
Indices: 74631733--74631798 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
74631723 TGCATTTTTT
74631733 ATGCTACATTTG-TTGTTTTTGGTTGGATTCA
1 ATGCTACATTTGCTT-TTTTTGGTTGGATTCA
* *
74631764 ATGCTATATTTGCTTTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTTTTTTTGGTTGGATTCA
74631795 ATGC
1 ATGC
74631799 AGAAAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTTTTTTTGGTTGGATTCA
Found at i:74638898 original size:13 final size:13
Alignment explanation
Indices: 74638875--74638907 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
74638865 TTGTACAGAA
74638875 ATTTTTA-TTTTT
1 ATTTTTATTTTTT
74638887 ATTTTTATTTTTT
1 ATTTTTATTTTTT
*
74638900 ATTCTTAT
1 ATTTTTAT
74638908 CAGATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:74639028 original size:39 final size:40
Alignment explanation
Indices: 74638967--74639042 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
74638957 ATCGAGTTTG
*
74638967 ATGTCCTTATATTAATTGTTT-AATTATT-TTGCATATACA
1 ATGTACTTATATTAATTGTTTAAATTATTATT-CATATACA
*
74639006 ATGTACTTATATTAATTTTTTAAATTATTATTCATAT
1 ATGTACTTATATTAATTGTTTAAATTATTATTCATAT
74639043 TTGGTAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 19 0.58
40 12 0.36
41 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (40 bp):
ATGTACTTATATTAATTGTTTAAATTATTATTCATATACA
Found at i:74645597 original size:23 final size:23
Alignment explanation
Indices: 74645571--74645649 Score: 56
Period size: 23 Copynumber: 3.4 Consensus size: 23
74645561 ATAACATATT
74645571 TTAAAAATACATAAATTTGTTGA
1 TTAAAAATACATAAATTTGTTGA
** * *
74645594 TTAAATTTACAT--ATTTATTGG
1 TTAAAAATACATAAATTTGTTGA
*
74645615 TTGAAAATTTTA-ATAAATTTGTTGA
1 TT-AAAA--ATACATAAATTTGTTGA
74645640 TTAAATAATA
1 TTAAA-AATA
74645650 ATTTTGGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
21 9 0.21
22 3 0.07
23 14 0.33
24 6 0.14
25 10 0.24
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (23 bp):
TTAAAAATACATAAATTTGTTGA
Found at i:74645609 original size:21 final size:21
Alignment explanation
Indices: 74645584--74645653 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
74645574 AAAATACATA
74645584 AATTTGTTGATTAAATTTACAT
1 AATTTGTTGATTAAATTTA-AT
* *
74645606 -ATTTATTGGTTGAAAATTTTAAT
1 AATTTGTTGATT--AAA-TTTAAT
74645629 AAATTTGTTGATTAAA--TAAT
1 -AATTTGTTGATTAAATTTAAT
74645649 AATTT
1 AATTT
74645654 TGGTTTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
19 5 0.13
20 4 0.10
21 9 0.23
23 8 0.21
24 4 0.10
25 9 0.23
ACGTcount: A:0.39, C:0.01, G:0.10, T:0.50
Consensus pattern (21 bp):
AATTTGTTGATTAAATTTAAT
Found at i:74660362 original size:46 final size:46
Alignment explanation
Indices: 74660310--74660483 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
74660300 TGGTTGAGCA
74660310 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
74660356 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
74660401 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
74660449 ACCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
74660484 TGGCGGGTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:74660466 original size:93 final size:93
Alignment explanation
Indices: 74660307--74660477 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
74660297 GGATGGTTGA
* **
74660307 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
74660372 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
74660400 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
74660465 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
74660478 ACTTATTGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:74663347 original size:46 final size:44
Alignment explanation
Indices: 74663243--74663411 Score: 137
Period size: 46 Copynumber: 3.7 Consensus size: 44
74663233 ATGAGATTTG
* *
74663243 TGTGCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTA-AGACGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACA-A-GA
* * *
74663292 -GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGA
* **
74663335 TGTTAGCCAGTGTCAGACATGTCTGGGACATGTGTCGGCTACAAGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
* * *
74663381 TGTGCTAGTGTAAGACAGGTCTAGGACATGC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGC
74663412 GTTAGCACGG
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.02
44 25 0.26
45 4 0.04
46 42 0.43
47 13 0.13
48 12 0.12
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
Found at i:74666880 original size:46 final size:46
Alignment explanation
Indices: 74666828--74667001 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
74666818 TGGTTGAGCA
*
74666828 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
74666874 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTGACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--A--CG
* * *
74666921 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
74666967 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
74667002 TGGCGGGTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.59
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:74666984 original size:93 final size:93
Alignment explanation
Indices: 74666825--74666995 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
74666815 GGATGGTTGA
* **** *
74666825 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
74666890 TGAGTCCGAGTTCGTGAGATGTGACTAG
66 TGAGTCCGAGTTCGTGAGATGTGACTAG
* *
74666918 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
74666983 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
74666996 ACTTATTGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTGACTAG
Found at i:74676211 original size:17 final size:19
Alignment explanation
Indices: 74676170--74676214 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
74676160 TTTTAATTAA
74676170 ATAAATAT-AATTTTATAT
1 ATAAATATGAATTTTATAT
74676188 ATAAATATGAA-TTTAT-T
1 ATAAATATGAATTTTATAT
*
74676205 TTAAATATGA
1 ATAAATATGA
74676215 TAGTAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 10 0.40
18 13 0.52
19 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
ATAAATATGAATTTTATAT
Found at i:74677562 original size:20 final size:22
Alignment explanation
Indices: 74677521--74677562 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
74677511 AATGTGATTT
74677521 TTATTATTATTTGAGATGTTTAG
1 TTATTATTATTT-AGATGTTTAG
74677544 TTATTATTATTT-GAT-TTTA
1 TTATTATTATTTAGATGTTTA
74677563 ATAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
23 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (22 bp):
TTATTATTATTTAGATGTTTAG
Found at i:74678575 original size:15 final size:15
Alignment explanation
Indices: 74678555--74678632 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
74678545 TTTATGGAAA
74678555 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
74678570 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
*
74678584 AGTCAAAGATATAGGT
1 A-TCAAAGATATGGGT
* **
74678600 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
74678614 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
74678630 ATC
1 ATC
74678633 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:74678584 original size:30 final size:30
Alignment explanation
Indices: 74678548--74678632 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
74678538 ATCCATATTT
*
74678548 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
74678578 ATGGAAAGTCAAAGATATAGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
74678608 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
74678633 GAGATATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:74683222 original size:15 final size:15
Alignment explanation
Indices: 74683202--74683309 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
74683192 TTTATGGAAA
74683202 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
74683217 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
74683231 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
74683247 ATCAAACAT-TGGAA
1 ATCAAAGATATGGGT
74683261 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
74683277 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
74683291 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
74683307 ATC
1 ATC
74683310 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:74683231 original size:30 final size:30
Alignment explanation
Indices: 74683195--74683309 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
74683185 ATCCATATTT
*
74683195 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
74683225 ATGGAAAGTCAAAGATATGGGTATCAAACA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
74683255 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
74683285 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
74683310 GAGATATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.24
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:74686491 original size:22 final size:22
Alignment explanation
Indices: 74686466--74686507 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
74686456 ATTGTTAACA
*
74686466 TATATAATT-ATTTTAAATTTTT
1 TATA-AATTCATTTGAAATTTTT
74686488 TATAAATTCATTTGAAATTT
1 TATAAATTCATTTGAAATTT
74686508 GTTGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATAAATTCATTTGAAATTTTT
Found at i:74686764 original size:35 final size:36
Alignment explanation
Indices: 74686658--74686797 Score: 96
Period size: 36 Copynumber: 3.9 Consensus size: 36
74686648 AAATATTTTT
* *
74686658 ATATAATTATATAATTATTAATTTATTTATATAAATAG
1 ATATAATTATATAAATATTATTTTATTTATAT-AAT-G
* * * *
74686696 AGGAGTTATTA-ATTAAA-ATT-TTTT-TTAACATAATG
1 A-TA-TAATTATA-TAAATATTATTTTATTTATATAATG
*
74686731 ATAT-A-TATATAAATATATATTTT-TATTATATAATT
1 ATATAATTATATAAATAT-TATTTTAT-TTATATAATG
*
74686766 ATATAATTATATAATTATTATTTTATTTATAT
1 ATATAATTATATAAATATTATTTTATTTATAT
74686798 TAGTAAAAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
31 6 0.08
32 4 0.05
33 2 0.03
34 6 0.08
35 13 0.16
36 16 0.20
37 16 0.20
38 4 0.05
39 5 0.06
40 8 0.10
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (36 bp):
ATATAATTATATAAATATTATTTTATTTATATAATG
Found at i:74686766 original size:8 final size:8
Alignment explanation
Indices: 74686755--74686783 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74686745 ATATATTTTT
74686755 ATTATATA
1 ATTATATA
74686763 ATTATATA
1 ATTATATA
74686771 ATTATATA
1 ATTATATA
74686779 ATTAT
1 ATTAT
74686784 TATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTATATA
Found at i:74688083 original size:22 final size:23
Alignment explanation
Indices: 74688034--74688083 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
74688024 CAAATATCTT
74688034 TAAAAATAGTAGTTATCAAATAA
1 TAAAAATAGTAGTTATCAAATAA
* * *
74688057 AAAAAATAGTATTTAT-AAATTA
1 TAAAAATAGTAGTTATCAAATAA
74688079 TAAAA
1 TAAAA
74688084 CAGACATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (23 bp):
TAAAAATAGTAGTTATCAAATAA
Found at i:74690444 original size:30 final size:29
Alignment explanation
Indices: 74690387--74690444 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
74690377 GTTTAATGTG
* *
74690387 TAATTTTATACGTGAATTTTGATTTTGAA
1 TAATTTTATACATGAATTTTGAATTTGAA
* *
74690416 TAATTTTATATATGAAATTTTTAATTTGA
1 TAATTTTATACATG-AATTTTGAATTTGA
74690445 TTCAGTTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.53
Consensus pattern (29 bp):
TAATTTTATACATGAATTTTGAATTTGAA
Found at i:74694651 original size:16 final size:16
Alignment explanation
Indices: 74694619--74694653 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
74694609 TGTTATCTTC
**
74694619 AATTTTTTATTTCAAT
1 AATTTTTTATTAAAAT
74694635 AATTTTTTATTAAAAT
1 AATTTTTTATTAAAAT
74694651 AAT
1 AAT
74694654 AAAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTTTATTAAAAT
Found at i:74699969 original size:15 final size:15
Alignment explanation
Indices: 74699929--74699973 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
74699919 CGATAACTTT
74699929 AATAATTAAAATAT-
1 AATAATTAAAATATA
* * *
74699943 ATTATTTTAAATATA
1 AATAATTAAAATATA
74699958 AATAATTAAAATATA
1 AATAATTAAAATATA
74699973 A
1 A
74699974 TGTGAGATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATTAAAATATA
Found at i:74706462 original size:16 final size:16
Alignment explanation
Indices: 74706430--74706464 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
74706420 TATACTATGT
74706430 GAGGATAAGAATCAAG
1 GAGGATAAGAATCAAG
74706446 GAGGACTAAGAAT-AAG
1 GAGGA-TAAGAATCAAG
74706462 GAG
1 GAG
74706465 AATGGAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.49, C:0.06, G:0.34, T:0.11
Consensus pattern (16 bp):
GAGGATAAGAATCAAG
Found at i:74726786 original size:86 final size:87
Alignment explanation
Indices: 74726287--74727101 Score: 517
Period size: 86 Copynumber: 9.8 Consensus size: 87
74726277 TTATCACTCT
* * * * * *
74726287 ACCAATATAGGAAGACAGGA-CTGCTATCTTCGATCTACTTCACGCCAATACATGAA-ACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCAATATAGGAAGACAAGAT
*
74726350 CT---T-TTCGATCTACTTCGCC
66 CTGCATCTTCGATCTACTTC-AC
* * * *
74726369 ACCAATAT-GGAAGACAAGATCTGC-ATCT-TGATCCACTTC-TACCAATATAGGAAG--AAGAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCAATATAGGAAGACAAGAT
*
74726428 CT-TA-CTT-GATCTACTTCAC
66 CTGCATCTTCGATCTACTTCAC
* * * *
74726447 GCCAATACA-TAAGA-AA-AT-T-CTTTCTGCGATCTACTTCGC-CACAATAT-GGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCAC-CAATATAGGAAGACAAGA
*
74726505 TCTGCATC-TCGATCCACTTC-C
65 TCTGCATCTTCGATCTACTTCAC
* * * * * * *
74726526 TA-CAATATAGGAAGATAGGA-CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
1 -ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCAATATAGGAAGACAAGA
* * *
74726589 TCTGCTTTCTGCGATCTACTTCGCC
65 TCTGC-ATCTTCGATCTACTTC-AC
* *
74726614 ACCAATATGGGAAGACAAGATCTGC-ATC-GTCGATC-ACTTC-CTACCAATATAGGAAGAC-CG
1 ACCAATATAGGAAGACAAGATCTGCTATCTG-CGATCTACTTCGC-ACCAATATAGGAAGACAAG
*
74726674 -GCT--ATCTTCGATCTACTTCAC
64 ATCTGCATCTTCGATCTACTTCAC
* * * * * *
74726695 GCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGC-CCAATATGGGAAGACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCAATATAGGAAGACAAGAT
*
74726759 CTGCATCTTCGATCCACTTC-C
66 CTGCATCTTCGATCTACTTCAC
* * * * * * * * *
74726780 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAG-TAAGA
1 -ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCAATATAGGAAGACAAGA
* * * *
74726844 TCTACTTCTGCGATCTACTTCGCC
65 TCTGCATCTTCGATCTACTTC-AC
* * * *
74726868 ACCAATATGGGAAG-CAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGA-TAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGC-ACCAATATAGGAAGACAAGA
74726929 -CTGC-TACTTCGATCTACTTCAC
65 TCTGCAT-CTTCGATCTACTTCAC
* * * * * *
74726951 GCCAATACATGAAGACAAGATCTACTTTCCTGCGATCTACTTCGCCACC-ATATGGGAAGACAAG
1 ACCAATATAGGAAGACAAGATCTGCTAT-CTGCGATCTACTTCG-CACCAATATAGGAAGACAAG
*
74727015 ATCTGC-TC-TCGATCCACTTC-C
64 ATCTGCATCTTCGATCTACTTCAC
* * * * * * * * *
74727036 -CCTATATAGGAAGAC-CGA-CTGTTATCT-TGATCTACTTCACGCCAGATACATGAAGACGAGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCA-ATATAGGAAGACAAGA
74727097 TCTGC
65 TCTGC
74727102 TTTTTTCGGT
Statistics
Matches: 570, Mismatches: 108, Indels: 111
0.72 0.14 0.14
Matches are distributed among these distances:
74 1 0.00
75 4 0.01
76 17 0.03
77 8 0.01
78 23 0.04
79 32 0.06
80 35 0.06
81 55 0.10
82 53 0.09
83 43 0.08
84 57 0.10
85 35 0.06
86 123 0.22
87 49 0.09
88 31 0.05
89 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (87 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTGCGATCTACTTCGCACCAATATAGGAAGACAAGAT
CTGCATCTTCGATCTACTTCAC
Found at i:74726913 original size:129 final size:129
Alignment explanation
Indices: 74726285--74727104 Score: 1174
Period size: 126 Copynumber: 6.6 Consensus size: 129
74726275 GATTATCACT
74726285 CTACCAATATAGGAAGACAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAA-ACAAGA
1 CTACCAATATAGGAAGA-A-GACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
74726349 --T-CTTT-T-CGATCTACTTCGCCACCAATAT-GGAAGACAAGATCTGCATCTT-GATCCACTT
64 TCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
74726407 -
129 C
74726407 CTACCAATATAGGAAGAAGAC--CT-TACTT-GATCTACTTCACGCCAATACAT-AAGA-AA-AT
1 CTACCAATATAGGAAGAAGACTGCTAT-CTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
74726465 -T-CTTTCTGCGATCTACTTCGCCA-CAATAT-GGAAGACAAGATCTGCATC-TCGATCCACTTC
65 CTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
74726525 CTA-CAATATAGGAAGATAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
1 CTACCAATATAGGAAGA-A-GACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
* *
74726589 TCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGAT-CACTT
64 TCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
74726653 C
129 C
* *
74726654 CTACCAATATAGGAAG-A-CCGGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
1 CTACCAATATAGGAAGAAGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
74726717 TACTTTCTGCGATCTACTTCG-C-CCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
66 TACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
* *
74726779 CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAG-TAAG
1 CTACCAATATAGGAAGA-A-GA-CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
74726843 ATCTAC-TTCTGCGATCTACTTCGCCACCAATATGGGAAG-CAAGATCTGCATCTTCGATCCACT
63 ATCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACT
74726906 TC
128 TC
74726908 CTACCAATATAGGAAGATAGACTGCTA-CTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 CTACCAATATAGGAAGA-AGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
74726972 CTACTTTCCTGCGATCTACTTCGCCACC-ATATGGGAAGACAAGATCTGC-TC-TCGATCCACTT
65 CTACTTT-CTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
74727034 C
129 C
* * * *
74727035 C--CCTATATAGGAAGACCGACTGTTATCTT-GATCTACTTCACGCCAGATACATGAAGACGAGA
1 CTACCAATATAGGAAGA-AGACTGCTATCTTCGATCTACTTCACGCCA-ATACATGAAGACAAGA
*
74727097 TCTGCTTT
64 TCTACTTT
74727105 TTTCGGTCTA
Statistics
Matches: 647, Mismatches: 15, Indels: 68
0.89 0.02 0.09
Matches are distributed among these distances:
115 1 0.00
116 10 0.02
117 72 0.11
118 24 0.04
119 3 0.00
120 3 0.00
121 6 0.01
122 40 0.06
123 4 0.01
124 34 0.05
125 61 0.09
126 120 0.19
127 51 0.08
128 40 0.06
129 113 0.17
130 65 0.10
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (129 bp):
CTACCAATATAGGAAGAAGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TACTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC
Found at i:74727006 original size:382 final size:367
Alignment explanation
Indices: 74726285--74727105 Score: 1193
Period size: 382 Copynumber: 2.2 Consensus size: 367
74726275 GATTATCACT
*
74726285 CTACCAATATAGGAAGACAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAA-ACAAGA
1 CTACCAATATAGGAAGAC----CGGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGA
74726349 --TCTTTTCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTGATCCACTTCTACC
62 TCTCTTTTCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTGATCCACTTCTACC
74726412 AATATAGGAAGAAGACCTTACTTGATCTACTTCACGCCAATACATAAGAAAATTCTTTCTGCGAT
127 AATATAGGAAGAAGACCTTACTTGATCTACTTCACGCCAATACATAAGAAAATTCTTTCTGCGAT
74726477 CTACTTCGCCACAATATGGAAGACAAGATCTGCATCTCGATCCACTTCCTACAATATAGGAAGAT
192 CTACTTCGCCACAATATGGAAGACAAGATCTGCATCTCGATCCACTTCCTACAATATAGGAAGAT
*
74726542 AGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTA
257 AGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTA
74726607 CTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGAT-CACTTC
322 CTTCGCCACCAATATGGGAAGACAAGATCTGC-TC-TCGATCCACTTC
74726654 CTACCAATATAGGAAGACCGGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTA
1 CTACCAATATAGGAAGACCGGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT-
74726719 CTTTCTGCGATCTACTTCG-C-CCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
65 CTTT-T-CGATCTACTTCGCCACCAATAT-GGAAGACAAGATCTGCATCTT-GATCCACTT-CTA
* *
74726782 CCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGTAAGA-TC
125 CCAATATAGGAAGA-A-GACCT--TA-CTT-GATCTACTTCACGCCAATACAT-AAG-AAAATTC
74726846 TACTTCTGCGATCTACTTCGCCACCAATATGGGAAG-CAAGATCTGCATCTTCGATCCACTTCCT
182 T--TTCTGCGATCTACTTCGCCA-CAATAT-GGAAGACAAGATCTGCATC-TCGATCCACTTCCT
74726910 ACCAATATAGGAAGATA-GACTGCTA-CTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
242 A-CAATATAGGAAGATAGGACTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
74726973 TACTTTCCTGCGATCTACTTCGCCACC-ATATGGGAAGACAAGATCTGCTCTCGATCCACTTC
306 TACTTT-CTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTCTCGATCCACTTC
* * *
74727035 C--CCTATATAGGAAGACCGACTGTTATCTT-GATCTACTTCACGCCAGATACATGAAGACGAGA
1 CTACCAATATAGGAAGACCG---GCTATCTTCGATCTACTTCACGCCA-ATACATGAAGACAAGA
74727097 TCTGCTTTT
62 TCT-CTTTT
74727106 TTCGGTCTAC
Statistics
Matches: 415, Mismatches: 8, Indels: 46
0.88 0.02 0.10
Matches are distributed among these distances:
365 35 0.08
366 6 0.01
368 1 0.00
369 29 0.07
370 23 0.06
371 21 0.05
372 17 0.04
373 1 0.00
374 4 0.01
376 2 0.00
377 3 0.01
378 22 0.05
379 22 0.05
380 8 0.02
381 46 0.11
382 112 0.27
383 48 0.12
384 15 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (367 bp):
CTACCAATATAGGAAGACCGGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTC
TTTTCGATCTACTTCGCCACCAATATGGAAGACAAGATCTGCATCTTGATCCACTTCTACCAATA
TAGGAAGAAGACCTTACTTGATCTACTTCACGCCAATACATAAGAAAATTCTTTCTGCGATCTAC
TTCGCCACAATATGGAAGACAAGATCTGCATCTCGATCCACTTCCTACAATATAGGAAGATAGGA
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCTCTCGATCCACTTC
Found at i:74741092 original size:19 final size:19
Alignment explanation
Indices: 74741050--74741092 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
74741040 AAAATTACAA
74741050 AAAAATTCTAAATAAATTTT
1 AAAAATTCTAAAT-AATTTT
74741070 -AAAATTCTAAAT-ATTTAT
1 AAAAATTCTAAATAATTT-T
74741088 AAAAA
1 AAAAA
74741093 ATTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.19
18 1 0.05
19 16 0.76
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCTAAATAATTTT
Found at i:74742122 original size:22 final size:23
Alignment explanation
Indices: 74742097--74742155 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
74742087 CAACCAAATT
74742097 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
74742119 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
74742141 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
74742156 CTAAAACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:74757159 original size:6 final size:7
Alignment explanation
Indices: 74757140--74757166 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
74757130 TTTAACTTAA
74757140 TATTTTT
1 TATTTTT
74757147 TATTTTT
1 TATTTTT
74757154 TATTTTT
1 TATTTTT
74757161 TATTTT
1 TATTTT
74757167 AGAAAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:74759218 original size:13 final size:14
Alignment explanation
Indices: 74759202--74759234 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
74759192 AACATCCAAC
74759202 CAAAAT-AGACATT
1 CAAAATAAGACATT
74759215 CAAAATAAGACATT
1 CAAAATAAGACATT
74759229 CAAAAT
1 CAAAAT
74759235 TGAAGGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (14 bp):
CAAAATAAGACATT
Found at i:74767402 original size:29 final size:29
Alignment explanation
Indices: 74767376--74767432 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
74767366 TAAACACCTC
74767376 ACTAAACCGA-CCACTAACTCCATCACCCT
1 ACTAAACC-ATCCACTAACTCCATCACCCT
*
74767405 ACTAAACCATCCACTACCTCCATCACCC
1 ACTAAACCATCCACTAACTCCATCACCC
74767433 CCACACCCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (29 bp):
ACTAAACCATCCACTAACTCCATCACCCT
Found at i:74767446 original size:37 final size:37
Alignment explanation
Indices: 74767395--74767483 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
74767385 ACCACTAACT
*
74767395 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
1 CCATCACCCCACTAAACCATCCACTACCTCCATCA-CC
*
74767433 CCA-CACCCCACTAAACCGTCCACTACCTCCATCACC
1 CCATCACCCCACTAAACCATCCACTACCTCCATCACC
74767469 CCATCACCCCCACTA
1 CCATCA-CCCCACTA
74767484 CCTCCATCAC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
36 5 0.11
37 31 0.66
38 11 0.23
ACGTcount: A:0.28, C:0.55, G:0.01, T:0.16
Consensus pattern (37 bp):
CCATCACCCCACTAAACCATCCACTACCTCCATCACC
Found at i:74767595 original size:12 final size:11
Alignment explanation
Indices: 74767564--74767608 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
74767554 GGGAATTTAG
74767564 AGAGGATTTTT
1 AGAGGATTTTT
*
74767575 AGAAGATTTTT
1 AGAGGATTTTT
*
74767586 AGAGGAATTTT
1 AGAGGATTTTT
*
74767597 GGAGGAATTTTT
1 AGAGG-ATTTTT
74767609 TTTAGAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 23 0.82
12 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (11 bp):
AGAGGATTTTT
Found at i:74767607 original size:22 final size:22
Alignment explanation
Indices: 74767555--74767607 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
74767545 TTGTATGGGG
* *
74767555 GGAATTTAGAGAGGATTTTTAGA
1 GGAATTT-TAGAGGAATTTTAGA
* * *
74767578 AGATTTTTAGAGGAATTTTGGA
1 GGAATTTTAGAGGAATTTTAGA
74767600 GGAATTTT
1 GGAATTTT
74767608 TTTTAGAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (22 bp):
GGAATTTTAGAGGAATTTTAGA
Found at i:74767953 original size:19 final size:18
Alignment explanation
Indices: 74767929--74767965 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
74767919 TTATGTTTCA
74767929 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
74767948 TATTATTATATATTTATT
1 TATTATTATATATTTATT
74767966 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:74767955 original size:63 final size:64
Alignment explanation
Indices: 74767814--74767956 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 64
74767804 TTTAACCCCT
* * * *
74767814 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGTTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGTTATATTCTCATTATTATTATA
* *
74767878 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAGTTATGTT-TCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGTTATATTCTCATTATTATTATA
74767939 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
74767957 ATATTTATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
61 13 0.19
62 7 0.10
63 32 0.46
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (64 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGTTATATTCTCATTATTATTATA
Found at i:74767977 original size:17 final size:14
Alignment explanation
Indices: 74767937--74767967 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
74767927 CATATTATTA
*
74767937 TATTATTTATTTAT
1 TATTATATATTTAT
74767951 TATTATATATTTAT
1 TATTATATATTTAT
74767965 TAT
1 TAT
74767968 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:74768642 original size:126 final size:126
Alignment explanation
Indices: 74768417--74768652 Score: 393
Period size: 126 Copynumber: 1.9 Consensus size: 126
74768407 CATTGATCTT
* *
74768417 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAATTTTTCAAAATAAAGGCAATATTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
*
74768482 ACGTATTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATACTCTTACCAGTTCA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATACTCTTACCAGTTCA
* *
74768543 CTCTCAAAA-TTTTCAAAATAAAGGCAATATTTGGTATTTAAAAAAATTCGAAGAATCGTGCTCT
1 CTCTCAAAATTTTTCAAAATAAAGGCAATATTCGGTATTT-AAAAAATTCGAAGAATCGTGCCCT
* *
74768607 AACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATA
65 AACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATA
74768653 CCCTCTTAAG
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
125 28 0.27
126 74 0.73
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
CTCTCAAAATTTTTCAAAATAAAGGCAATATTCGGTATTTAAAAAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATACTCTTACCAGTTCA
Found at i:74771713 original size:21 final size:20
Alignment explanation
Indices: 74771675--74771718 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
74771665 CAAAATCCCG
74771675 AACATCAAACTTTAAACCCA
1 AACATCAAACTTTAAACCCA
* *
74771695 AACATTAAATTTTGAAACCCA
1 AACATCAAACTTT-AAACCCA
74771716 AAC
1 AAC
74771719 TCACCCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (20 bp):
AACATCAAACTTTAAACCCA
Found at i:74774608 original size:18 final size:18
Alignment explanation
Indices: 74774574--74774649 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 18
74774564 TAAATTAAAT
*
74774574 CTAACAATTTCAA-TATAC
1 CTAACAACTT-AACTATAC
*
74774592 CTAACAACTTAACTATAAGAATT
1 CTAACAACTTAACTAT----A-C
* *
74774615 CTAACAATTTAAATATAC
1 CTAACAACTTAACTATAC
74774633 CTAACAACTTAACTATA
1 CTAACAACTTAACTATA
74774650 AGAATTCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
17 2 0.04
18 27 0.60
19 1 0.02
22 1 0.02
23 14 0.31
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (18 bp):
CTAACAACTTAACTATAC
Found at i:74774618 original size:23 final size:23
Alignment explanation
Indices: 74774592--74774659 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
74774582 TTCAATATAC
74774592 CTAACAACTTAACTATAAGAATT
1 CTAACAACTTAACTATAAGAATT
* * *
74774615 CTAACAATTTAA--AT-A-TA-C
1 CTAACAACTTAACTATAAGAATT
74774633 CTAACAACTTAACTATAAGAATT
1 CTAACAACTTAACTATAAGAATT
74774656 CTAA
1 CTAA
74774660 ACAAATTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 11 0.32
19 1 0.03
20 3 0.09
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (23 bp):
CTAACAACTTAACTATAAGAATT
Found at i:74774630 original size:41 final size:41
Alignment explanation
Indices: 74774573--74774659 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
74774563 ATAAATTAAA
*
74774573 TCTAACAATTTCAATATACCTAACAACTTAACTATAAGAAT
1 TCTAACAATTTAAATATACCTAACAACTTAACTATAAGAAT
74774614 TCTAACAATTTAAATATACCTAACAACTTAACTATAAGAAT
1 TCTAACAATTTAAATATACCTAACAACTTAACTATAAGAAT
74774655 TCTAA
1 TCTAA
74774660 ACAAATTATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.32
Consensus pattern (41 bp):
TCTAACAATTTAAATATACCTAACAACTTAACTATAAGAAT
Found at i:74775153 original size:14 final size:14
Alignment explanation
Indices: 74775134--74775175 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
74775124 TTTAAAATTA
74775134 ATAATTATTTAAAC
1 ATAATTATTTAAAC
*
74775148 ATAATTATTCAAA-
1 ATAATTATTTAAAC
* *
74775161 AAAAATATTTAAAC
1 ATAATTATTTAAAC
74775175 A
1 A
74775176 CAAAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATTATTTAAAC
Found at i:74775823 original size:22 final size:22
Alignment explanation
Indices: 74775793--74775840 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
74775783 TATTATATAT
74775793 AATATATATACCAAACTCAAATCC
1 AATATAT-TACCAAAC-CAAATCC
* *
74775817 AATATATTACCCAACCAAGTCC
1 AATATATTACCAAACCAAATCC
74775839 AA
1 AA
74775841 ACCCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 7 0.32
24 7 0.32
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (22 bp):
AATATATTACCAAACCAAATCC
Found at i:74778775 original size:12 final size:12
Alignment explanation
Indices: 74778758--74778792 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
74778748 ATTATTATAC
*
74778758 GTTATTGTTATT
1 GTTATTTTTATT
74778770 GTTATTTTTATT
1 GTTATTTTTATT
*
74778782 TTTATTTTTAT
1 GTTATTTTTAT
74778793 AAAATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (12 bp):
GTTATTTTTATT
Found at i:74779984 original size:16 final size:17
Alignment explanation
Indices: 74779965--74779997 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
74779955 TTAATCTTTC
*
74779965 AAATTATTAA-AAAATA
1 AAATTATAAACAAAATA
74779981 AAATTATAAACAAAATA
1 AAATTATAAACAAAATA
74779998 TATTTTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATTATAAACAAAATA
Found at i:74783450 original size:342 final size:337
Alignment explanation
Indices: 74782762--74783441 Score: 1126
Period size: 342 Copynumber: 2.0 Consensus size: 337
74782752 AAGCTAAGGA
74782762 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTCGGTATATAACTTGGATAGTAAATCAGTGCTGT
1 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTCGGTATATAACTTGGATAGTAAATCAGTGCTGT
74782827 TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
66 TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
* *
74782892 TTTGAAGGTTTCTTTGTATGTGTCTGTGATGAAACAATTCAGTAATTGTTTTGCTTGTGTTAATC
131 TTTGAAGGTTTCTTTGTATCTGTCTGTGATGAAACAATTCAGTAATTGTTTTGCTCGTGTTAATC
* * * *
74782957 TTCACTATCTCAATTTTAGATTCGTTTCCTATAGTCGATCTGCATGAAGCTGAGATTGAGAGATA
196 TTCACTATCTCAATTTTAGATTAGTTTCCTATAATCAATCTGCATGAAGCTGAAATTGAGAGATA
74783022 CTCCCTCCATCCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAACTTTAACC
261 CTCCCTCCATCCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAACTTTAACC
74783087 TCTTATTCTTTAAAATT
326 TCTTA----TT-AAATT
*
74783104 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTTGGTATATAACTTGGATAGTAAATCAGTGCTGT
1 TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTCGGTATATAACTTGGATAGTAAATCAGTGCTGT
* *
74783169 TCCTTTTTTATTTGTTTTCTCTAAAGAGCATGCATATGTTGGAATTTAGGCTGTATGAACCTTGT
66 TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
*
74783234 TTTGAAGGTTTCTTTGTATCTGTCTGTGATGAAACAATTCGGTAATTGTTTTGCTCGTGTTAATC
131 TTTGAAGGTTTCTTTGTATCTGTCTGTGATGAAACAATTCAGTAATTGTTTTGCTCGTGTTAATC
*
74783299 TTCACTATGTCAATTTTAGATTAGTTTCCTATAATCAATCTGCATGAAGTGAATGCTGAAATTGA
196 TTCACTATCTCAATTTTAGATTAGTTTCCTATAATCAATCTGC----A-TGAA-GCTGAAATTGA
* * *
74783364 GAGATACTCCCTCCATCCCAGTAAATTTGTAACTTTTTTATTTTTTGTGGTAAAAAATTTTCAAC
255 GAGATACTCCCTCCAT-CCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAAC
74783429 TTTAACCTCTTAT
319 TTTAACCTCTTAT
74783442 GATTTAAAAT
Statistics
Matches: 317, Mismatches: 14, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
342 228 0.72
345 1 0.00
346 1 0.00
347 4 0.01
348 26 0.08
349 57 0.18
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (337 bp):
TAAAAGTAGAGAAAGCTGGTGAGGCTTAGGTTCGGTATATAACTTGGATAGTAAATCAGTGCTGT
TCCTTTTATATTTGTTTTCTCTAAAGAGCATGCACATGTTGGAATTTAGGCTGTATGAACCTTGT
TTTGAAGGTTTCTTTGTATCTGTCTGTGATGAAACAATTCAGTAATTGTTTTGCTCGTGTTAATC
TTCACTATCTCAATTTTAGATTAGTTTCCTATAATCAATCTGCATGAAGCTGAAATTGAGAGATA
CTCCCTCCATCCAGTAAAATTGGAACTTTTTTATTTTTAGTGGTAAAAAATTTTCAACTTTAACC
TCTTATTAAATT
Found at i:74794308 original size:13 final size:13
Alignment explanation
Indices: 74794290--74794346 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
74794280 TATTATTTTA
74794290 TTATTTAATTATT
1 TTATTTAATTATT
*
74794303 TTATTTAAATATT
1 TTATTTAATTATT
*
74794316 TTATTTCATTA--
1 TTATTTAATTATT
74794327 -TA-TTAATTTATT
1 TTATTTAA-TTATT
74794339 TTATTTAA
1 TTATTTAA
74794347 GATTATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
9 3 0.09
10 5 0.14
13 23 0.66
14 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTTAATTATT
Found at i:74795926 original size:19 final size:18
Alignment explanation
Indices: 74795902--74795950 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
74795892 TGAATAGTAC
74795902 ACTTTAATAAAAAAATTTA
1 ACTTTAATAAAAAAA-TTA
* *
74795921 ACTTTAGTAATAAAATTA
1 ACTTTAATAAAAAAATTA
* *
74795939 AATTAAATAAAA
1 ACTTTAATAAAA
74795951 GTAAAGTCAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
ACTTTAATAAAAAAATTA
Found at i:74796130 original size:138 final size:138
Alignment explanation
Indices: 74795974--74796256 Score: 539
Period size: 138 Copynumber: 2.1 Consensus size: 138
74795964 ATTCAATAAA
*
74795974 AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGGTGGCAAATATCAATTAAAGT
1 AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
*
74796039 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAGATTTGTATATTAACTCATA
66 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
74796104 AAAATGTT
131 AAAATGTT
*
74796112 AAAATAAAATATAGTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
1 AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
74796177 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
66 GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
74796242 AAAATGTT
131 AAAATGTT
74796250 AAAATAA
1 AAAATAA
74796257 TGTTAGCTTG
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 142 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (138 bp):
AAAATAAAATATACTGATAAATTTATTTATAATCCACAAGGATGATGGCAAATATCAATTAAAGT
GAAGAATAGTGATAATTTTTAATTTCCACTTGAAGTATAGTGACAAATTTGTATATTAACTCATA
AAAATGTT
Found at i:74799721 original size:17 final size:17
Alignment explanation
Indices: 74799699--74799732 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74799689 TTCTCATAAA
*
74799699 TTTATTTAAGTATATTG
1 TTTATTTAAATATATTG
74799716 TTTATTTAAATATATTG
1 TTTATTTAAATATATTG
74799733 AGGAGGGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTTATTTAAATATATTG
Found at i:74801756 original size:61 final size:61
Alignment explanation
Indices: 74801658--74801772 Score: 178
Period size: 61 Copynumber: 1.9 Consensus size: 61
74801648 TATAAGCATA
* *
74801658 AAATAATTTAGTTCATTTGCTGTCAACTTTGTGTTACTAAAAATTTTGTCACTTGAGGATC
1 AAATAATTTAGTTCATGTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTGAGGATC
* *
74801719 AAATAATTTAGTTCCTGTGCTATCAGCTTT-TGGTTACTAAAAATTTTGTCACTT
1 AAATAATTTAGTTCATGTGCTATCAACTTTGT-GTTACTAAAAATTTTGTCACTT
74801773 AACTGAGTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 1 0.02
61 48 0.98
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (61 bp):
AAATAATTTAGTTCATGTGCTATCAACTTTGTGTTACTAAAAATTTTGTCACTTGAGGATC
Found at i:74806264 original size:2 final size:2
Alignment explanation
Indices: 74806257--74806289 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
74806247 CCAAGTAGAT
74806257 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
74806290 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:74806294 original size:2 final size:2
Alignment explanation
Indices: 74806289--74806318 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
74806279 TCTCTCTCTC
74806289 TG TG TG TG TG TG TG TG TG -G TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
74806319 AGATAGAGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:74816517 original size:18 final size:18
Alignment explanation
Indices: 74816494--74816530 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
74816484 AATATAAAAA
74816494 TTTTAAAAA-TATATTAGT
1 TTTTAAAAATTA-ATTAGT
74816512 TTTTAAAAATTAATTAGT
1 TTTTAAAAATTAATTAGT
74816530 T
1 T
74816531 ACTTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATTAATTAGT
Found at i:74828670 original size:17 final size:17
Alignment explanation
Indices: 74828636--74828701 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
74828626 AGATTTTTCC
*
74828636 TTATAA-TTTTAGATTT
1 TTATAATTTTTATATTT
74828652 TTATAATTTTTATAGTTT
1 TTATAATTTTTATA-TTT
74828670 TT-TAGATTTTATATATTAT
1 TTATA-ATTTT-TATATT-T
74828689 TTA-AATTTTTATA
1 TTATAATTTTTATA
74828702 AGATTTAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
16 6 0.14
17 12 0.28
18 17 0.40
19 8 0.19
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TTATAATTTTTATATTT
Found at i:74828671 original size:10 final size:9
Alignment explanation
Indices: 74828636--74828702 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
74828626 AGATTTTTCC
74828636 TTATAA-TT
1 TTATAATTT
*
74828644 TTA-GATTT
1 TTATAATTT
74828652 TTATAATTT
1 TTATAATTT
*
74828661 TTATAGTTT
1 TTATAATTT
74828670 TT-TAGA-TT
1 TTATA-ATTT
74828678 TTATATATTAT
1 TTATA-ATT-T
74828689 TTA-AATTT
1 TTATAATTT
74828697 TTATAA
1 TTATAA
74828703 GATTTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
7 1 0.02
8 18 0.38
9 22 0.47
10 2 0.04
11 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:74832935 original size:33 final size:33
Alignment explanation
Indices: 74832897--74832993 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
74832887 ACTGAGTGGA
*
74832897 AGTGTTTGGTTGCTGGATAGGAGCTGGAATGGG
1 AGTGTTTGGTTGCTGGACAGGAGCTGGAATGGG
* * *
74832930 AGTGTTTGGTTGCTAGACAGGAGCTGAAATGTG
1 AGTGTTTGGTTGCTGGACAGGAGCTGGAATGGG
*
74832963 AATGTTTGGTTGCTGGACAGGAGCTGGAATG
1 AGTGTTTGGTTGCTGGACAGGAGCTGGAATG
74832994 TCAAGAAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.22, C:0.08, G:0.40, T:0.30
Consensus pattern (33 bp):
AGTGTTTGGTTGCTGGACAGGAGCTGGAATGGG
Found at i:74845623 original size:17 final size:18
Alignment explanation
Indices: 74845601--74845651 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
74845591 TAATTTTATT
74845601 TTATTTTACTTTTAAT-A
1 TTATTTTACTTTTAATAA
*
74845618 TTATTTGTACTCTTT-CTAA
1 TTATTT-TACT-TTTAATAA
74845637 TT-TTTTACTTTTAAT
1 TTATTTTACTTTTAAT
74845652 TTTTCAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 8 0.29
19 6 0.21
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTTTACTTTTAATAA
Found at i:74847916 original size:5 final size:6
Alignment explanation
Indices: 74847903--74847943 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
74847893 ATAATTTAAT
*
74847903 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
74847944 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:74847931 original size:20 final size:21
Alignment explanation
Indices: 74847889--74847938 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
74847879 CATAAAAATT
74847889 ATAAATAATTTAATAAATAAAA
1 ATAAA-AATTTAATAAATAAAA
*
74847911 ATAAAAATTTAA-AACTAAAA
1 ATAAAAATTTAATAAATAAAA
74847931 ATAAAAAT
1 ATAAAAAT
74847939 AAAAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 15 0.56
21 7 0.26
22 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAATTTAATAAATAAAA
Found at i:74847944 original size:20 final size:20
Alignment explanation
Indices: 74847906--74847945 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
74847896 ATTTAATAAA
**
74847906 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
74847926 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
74847946 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:74849226 original size:12 final size:11
Alignment explanation
Indices: 74849211--74849324 Score: 52
Period size: 12 Copynumber: 9.4 Consensus size: 11
74849201 CAATAGTGAA
74849211 AATAATAAGTAT
1 AATAATAA-TAT
74849223 AATAATAAATAT
1 AATAAT-AATAT
* *
74849235 AATGATATATAAA
1 AATAATA-AT-AT
*
74849248 AATAATACTAT
1 AATAATAATAT
*
74849259 ATATAAAAAGTAT
1 A-ATAATAA-TAT
74849272 -ATATATACACGTAT
1 AATA-ATA-A--TAT
74849286 AATAA-AATAT
1 AATAATAATAT
*
74849296 ATATACTAATATT
1 A-ATAATAATA-T
74849309 AATAATAAATAT
1 AATAAT-AATAT
74849321 AATA
1 AATA
74849325 GGGGTAAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 26
0.69 0.09 0.23
Matches are distributed among these distances:
10 4 0.05
11 9 0.11
12 38 0.48
13 20 0.25
14 5 0.06
15 3 0.04
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (11 bp):
AATAATAATAT
Found at i:74849250 original size:18 final size:17
Alignment explanation
Indices: 74849209--74849278 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
74849199 AACAATAGTG
74849209 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
74849227 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
74849246 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
74849264 AAAAGTAT-ATATATA
1 AAAA-TATAATATATA
74849279 CACGTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.16
18 25 0.56
19 13 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:74849279 original size:24 final size:22
Alignment explanation
Indices: 74849221--74849321 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 22
74849211 AATAATAAGT
* * *
74849221 ATAATAATAAATATAATGATAT-
1 ATAA-AATATATATACTAATATA
74849243 ATAAAA-ATA-ATACTATATATA
1 ATAAAATATATATACTA-ATATA
*
74849264 A-AAAGTATATATATAC-ACGTATA
1 ATAAA--ATATATATACTA-ATATA
74849287 ATAAAATATATATACTAATATTA
1 ATAAAATATATATACTAATA-TA
74849310 ATAATAA-ATATA
1 ATAA-AATATATA
74849322 ATAGGGGTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
19 4 0.06
20 9 0.14
21 3 0.05
22 17 0.27
23 21 0.33
24 9 0.14
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (22 bp):
ATAAAATATATATACTAATATA
Found at i:74849321 original size:43 final size:40
Alignment explanation
Indices: 74849220--74849322 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 40
74849210 AAATAATAAG
*
74849220 TATAATAATAAATATAATGATATATAAAAATAATACTATA
1 TATAATAATAAATATAACGATATATAAAAATAATACTATA
*
74849260 TATAAAAAGTATATATATACACG-TATAATAAAATATATATACTA-A
1 TATAATAA-TA-A-ATATA-ACGATAT-ATAAAA-ATA-ATACTATA
74849305 TATTAATAATAAATATAA
1 TA-TAATAATAAATATAA
74849323 TAGGGGTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
40 7 0.13
41 2 0.04
42 2 0.04
43 13 0.25
44 9 0.17
45 8 0.15
46 11 0.21
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (40 bp):
TATAATAATAAATATAACGATATATAAAAATAATACTATA
Found at i:74849697 original size:24 final size:24
Alignment explanation
Indices: 74849668--74849794 Score: 103
Period size: 23 Copynumber: 5.4 Consensus size: 24
74849658 ACATATATAC
*
74849668 ATATATAAATAATAATGGTATTAGAA
1 ATATAT-AATAATAATAGTATTA-AA
*
74849694 ATATACAAT-AT-ATAGTATTAGAA
1 ATATATAATAATAATAGTATTA-AA
74849717 ATATATACATAA-AATAGTA-TAAA
1 ATATATA-ATAATAATAGTATTAAA
74849740 A-ATAT-ATAACTAAT-GATATTAAA
1 ATATATAATAA-TAATAG-TATTAAA
74849763 ATATATACATAATAATA-TA-TAAA
1 ATATATA-ATAATAATAGTATTAAA
74849786 A-ATATAATA
1 ATATATAATA
74849795 TTAAAAAAAT
Statistics
Matches: 87, Mismatches: 3, Indels: 27
0.74 0.03 0.23
Matches are distributed among these distances:
20 4 0.05
21 4 0.05
22 14 0.16
23 30 0.34
24 12 0.14
25 14 0.16
26 9 0.10
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (24 bp):
ATATATAATAATAATAGTATTAAA
Found at i:74849763 original size:22 final size:24
Alignment explanation
Indices: 74849715--74849870 Score: 92
Period size: 24 Copynumber: 6.9 Consensus size: 24
74849705 ATAGTATTAG
74849715 AAATATAT-ACATAA-AATAGTATAA
1 AAATATATAACATAATAATA-TAT-A
*
74849739 AAATATATAAC-TAATGATAT-TA
1 AAATATATAACATAATAATATATA
74849761 AAATATAT-ACATAATAATATATA
1 AAATATATAACATAATAATATATA
*
74849784 AAA-ATAT-A-AT-AT--TA-AAA
1 AAATATATAACATAATAATATATA
* *
74849801 AAATATATGTACATAA-CATATATA
1 AAATATAT-AACATAATAATATATA
*
74849825 AAAAATATATACATAAT-ATAGTATTA
1 AAATATATA-ACATAATAATA-TA-TA
*
74849851 AAATAT-TTACATAAT-ATATA
1 AAATATATAACATAATAATATA
74849871 CATATTAGAA
Statistics
Matches: 108, Mismatches: 8, Indels: 33
0.72 0.05 0.22
Matches are distributed among these distances:
17 5 0.05
18 6 0.06
20 3 0.03
21 6 0.06
22 23 0.21
23 10 0.09
24 40 0.37
25 8 0.07
26 7 0.06
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATATAACATAATAATATATA
Found at i:74849794 original size:18 final size:16
Alignment explanation
Indices: 74849774--74849807 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
74849764 TATATACATA
*
74849774 ATAATA-TATAAAAAT
1 ATAATATTAAAAAAAT
74849789 ATAATATTAAAAAAAT
1 ATAATATTAAAAAAAT
74849805 ATA
1 ATA
74849808 TGTACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATATTAAAAAAAT
Found at i:74849869 original size:13 final size:13
Alignment explanation
Indices: 74849763--74849870 Score: 59
Period size: 13 Copynumber: 8.4 Consensus size: 13
74849753 TGATATTAAA
74849763 ATATATACATAAT
1 ATATATACATAAT
*
74849776 AATATATA-AAAAT
1 -ATATATACATAAT
* *
74849789 ATAATATTAAAAAAAT
1 AT-ATA-T-ACATAAT
* *
74849805 ATATGTACATAAC
1 ATATATACATAAT
*
74849818 ATATATA-A-AAA
1 ATATATACATAAT
74849829 ATATATACATAAT
1 ATATATACATAAT
74849842 ATAGTATTA-A-AAT
1 ATA-TA-TACATAAT
74849855 AT-T-TACATAAT
1 ATATATACATAAT
74849866 ATATA
1 ATATA
74849871 CATATTAGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 25
0.69 0.07 0.23
Matches are distributed among these distances:
9 2 0.03
10 1 0.01
11 15 0.20
12 5 0.07
13 27 0.36
14 12 0.16
15 5 0.07
16 7 0.09
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:74849939 original size:21 final size:20
Alignment explanation
Indices: 74849911--74849975 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
74849901 AATACTACAT
74849911 AAATATATACATATATATTA
1 AAATATATACATATATATTA
* *
74849931 AAGATATATGCATATATAATA
1 AA-ATATATACATATATATTA
*
74849952 AAACATATAC-TA-ATATTA
1 AAATATATACATATATATTA
74849970 ATAATA
1 A-AATA
74849976 ATAATAATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 6 0.16
19 5 0.14
20 8 0.22
21 18 0.49
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (20 bp):
AAATATATACATATATATTA
Found at i:74849976 original size:3 final size:3
Alignment explanation
Indices: 74849962--74849994 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
74849952 AAACATATAC
*
74849962 TAA TAT TAA TAA TAA TAA TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
74849995 GTTAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:74866142 original size:23 final size:25
Alignment explanation
Indices: 74866089--74866143 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 25
74866079 TCTTTTTCTT
*
74866089 TTTC-TTTAGCGAATATGCTTGCAA
1 TTTCTTTTAGCGAATACGCTTGCAA
*
74866113 TTT-TTTTAGC-AATACGCTT-TAA
1 TTTCTTTTAGCGAATACGCTTGCAA
74866135 TTTCTTTTA
1 TTTCTTTTA
74866144 TCTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 13 0.48
24 9 0.33
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.51
Consensus pattern (25 bp):
TTTCTTTTAGCGAATACGCTTGCAA
Found at i:74866821 original size:24 final size:24
Alignment explanation
Indices: 74866794--74866839 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
74866784 GACCAATAAA
74866794 TTATTGGCAT-TAAATAATATGTTT
1 TTATT-GCATATAAATAATATGTTT
* *
74866818 TTATTTCATATAATTAATATGT
1 TTATTGCATATAAATAATATGT
74866840 AAAGTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (24 bp):
TTATTGCATATAAATAATATGTTT
Found at i:74870075 original size:3 final size:3
Alignment explanation
Indices: 74870067--74870114 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
74870057 TTTGTTTTCT
74870067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
74870115 AGGTGGTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:74876329 original size:70 final size:70
Alignment explanation
Indices: 74876211--74876393 Score: 276
Period size: 70 Copynumber: 2.6 Consensus size: 70
74876201 TAATATTGGA
* * *
74876211 CAGGTTTTATAAGTAGTATAGAGAAAACATGAAACCAAAAACCCTTCTCTGTTAAACCATCCAAG
1 CAGGTTTTATAAGTAGTATAGATAAAACAGGAAACCAAAAACCCTTCTCTATTAAACCATCCAAG
74876276 TGAGG
66 TGAGG
* **
74876281 CAGGTTTTATAAGTAGTATAGATAAAACGGGAAACCAAAAACTTTTCTCTATTAAACCATCCAAG
1 CAGGTTTTATAAGTAGTATAGATAAAACAGGAAACCAAAAACCCTTCTCTATTAAACCATCCAAG
74876346 TGAGG
66 TGAGG
* * **
74876351 CAGGTTTTATAAGTACTATAGATAAAACATGAAATTAAAAACC
1 CAGGTTTTATAAGTAGTATAGATAAAACAGGAAACCAAAAACC
74876394 ATCCAAGTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 101 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (70 bp):
CAGGTTTTATAAGTAGTATAGATAAAACAGGAAACCAAAAACCCTTCTCTATTAAACCATCCAAG
TGAGG
Found at i:74876906 original size:17 final size:18
Alignment explanation
Indices: 74876879--74876916 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
74876869 TACTTAAATT
74876879 TTAAGTTAAATATATT-TA
1 TTAAGTTAAATA-ATTATA
74876897 TTAA-TTAAATAATTATA
1 TTAAGTTAAATAATTATA
74876914 TTA
1 TTA
74876917 TAAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 12 0.63
18 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TTAAGTTAAATAATTATA
Found at i:74877205 original size:13 final size:14
Alignment explanation
Indices: 74877187--74877227 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
74877177 TATGAATTAA
74877187 ATATTATTA-TATT
1 ATATTATTATTATT
*
74877200 ATATTATTATTATA
1 ATATTATTATTATT
74877214 AT-TTATTATTATT
1 ATATTATTATTATT
74877227 A
1 A
74877228 ACTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:74877209 original size:16 final size:16
Alignment explanation
Indices: 74877188--74877227 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
74877178 ATGAATTAAA
74877188 TATTATTAT-ATTATAT
1 TATTATTATAATT-TAT
74877204 TATTATTATAATTTAT
1 TATTATTATAATTTAT
74877220 TATTATTA
1 TATTATTA
74877228 ACTAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTATAATTTAT
Found at i:74879655 original size:18 final size:18
Alignment explanation
Indices: 74879629--74879664 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74879619 TATTCAATTG
74879629 TTTAATTAATAAATATCT
1 TTTAATTAATAAATATCT
* *
74879647 TTTACTTAATAATTATCT
1 TTTAATTAATAAATATCT
74879665 ATTCAATAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATTAATAAATATCT
Found at i:74879894 original size:20 final size:20
Alignment explanation
Indices: 74879854--74879890 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
74879844 TTACAAATGT
74879854 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
74879874 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
74879891 CACACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:74880231 original size:20 final size:20
Alignment explanation
Indices: 74880212--74880248 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
74880202 CAAATGTGTG
74880212 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
74880231 GTAATAAATATTATACAT
1 GTAATAAATAATATACAT
74880249 ACATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:74881804 original size:29 final size:25
Alignment explanation
Indices: 74881736--74881790 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
74881726 TAATTTGTTT
*
74881736 ATTA-TACAAAAATCTCACAATTTA
1 ATTATTACAAAAATATCACAATTTA
74881760 ATTATTACAAAAATATCACAATTTA
1 ATTATTACAAAAATATCACAATTTA
74881785 ATTATT
1 ATTATT
74881791 TATCTCATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTATTACAAAAATATCACAATTTA
Found at i:74885260 original size:25 final size:26
Alignment explanation
Indices: 74885216--74885265 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
74885206 TTTATATATG
*
74885216 TATATATTTATATACGTTTCATACTC
1 TATATATTTATATACATTTCATACTC
* *
74885242 TATA-ATTTATATGCATTTCGTACT
1 TATATATTTATATACATTTCATACT
74885266 TTCATGGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (26 bp):
TATATATTTATATACATTTCATACTC
Found at i:74898054 original size:25 final size:26
Alignment explanation
Indices: 74898020--74898075 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
74898010 TACGTGTTTA
74898020 TTTTTAAATTTTATT-AAATA-ATAT
1 TTTTTAAATTTTATTAAAATATATAT
*
74898044 GTTTTTAAATTTTTTTAAAATATATAT
1 -TTTTTAAATTTTATTAAAATATATAT
74898071 TTTTT
1 TTTTT
74898076 CTAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTAAATTTTATTAAAATATATAT
Found at i:74898057 original size:26 final size:25
Alignment explanation
Indices: 74898020--74898075 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
74898010 TACGTGTTTA
74898020 TTTTTAAATTTTATT-AAATA-ATAT
1 TTTTTAAATTTT-TTAAAATATATAT
74898044 GTTTTTAAATTTTTTTAAAATATATAT
1 -TTTTTAAA-TTTTTTAAAATATATAT
74898071 TTTTT
1 TTTTT
74898076 CTAATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 10 0.36
26 14 0.50
27 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTTAAATTTTTTAAAATATATAT
Found at i:74898606 original size:3 final size:3
Alignment explanation
Indices: 74898576--74898624 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
74898566 ACCACTATCG
* * *
74898576 TAT TAAT TAA TAT TAA TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
74898622 TAT
1 TAT
74898625 CACAACTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:74901380 original size:11 final size:11
Alignment explanation
Indices: 74901366--74901391 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
74901356 AAAAATCCAC
74901366 ACATCATAATT
1 ACATCATAATT
74901377 ACATCATAATT
1 ACATCATAATT
74901388 ACAT
1 ACAT
74901392 ATGATGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
ACATCATAATT
Found at i:74902187 original size:22 final size:22
Alignment explanation
Indices: 74902154--74902205 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
74902144 AAATCTAATG
74902154 TATATTAA-ATTAAACCAAAATT
1 TATA-TAATATTAAACCAAAATT
* **
74902176 TATATAATATTAGATGAAAATT
1 TATATAATATTAAACCAAAATT
74902198 TATA-AATA
1 TATATAATA
74902206 ATTTTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
TATATAATATTAAACCAAAATT
Found at i:74905215 original size:17 final size:17
Alignment explanation
Indices: 74905189--74905223 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
74905179 TTAGTGTATT
*
74905189 TTTTTTATATATATATG
1 TTTTTAATATATATATG
*
74905206 TTTTTAATATATTTATG
1 TTTTTAATATATATATG
74905223 T
1 T
74905224 ATATACTTAT
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:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTTTAATATATATATG
Found at i:74905320 original size:30 final size:30
Alignment explanation
Indices: 74905265--74905339 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
74905255 TTTATCCCTA
*
74905265 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
74905294 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
74905325 ATATATTATGTATAT
1 ATATATTATGTATAT
74905340 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:74905352 original size:24 final size:25
Alignment explanation
Indices: 74905311--74905366 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
74905301 TATGTATATC
*
74905311 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
74905335 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
74905360 TATATAT
1 TATATAT
74905367 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:74905447 original size:19 final size:19
Alignment explanation
Indices: 74905423--74905459 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
74905413 CTATTTTATA
*
74905423 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
74905442 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
74905460 ATTATTTATA
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:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:74905544 original size:9 final size:9
Alignment explanation
Indices: 74905527--74905562 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
74905517 ATCATTTCTA
74905527 ATATATATT
1 ATATATATT
*
74905536 ATATGTATT
1 ATATATATT
*
74905545 TTATATATT
1 ATATATATT
74905554 ATATATATT
1 ATATATATT
74905563 TTAATGTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (9 bp):
ATATATATT
Found at i:74905549 original size:18 final size:18
Alignment explanation
Indices: 74905528--74905565 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
74905518 TCATTTCTAA
*
74905528 TATATATTATATGTATTT
1 TATATATTATATATATTT
74905546 TATATATTATATATATTT
1 TATATATTATATATATTT
74905564 TA
1 TA
74905566 ATGTTATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:74905996 original size:25 final size:24
Alignment explanation
Indices: 74905968--74906023 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
74905958 GTTATATTTT
*
74905968 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
74905993 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
74906016 CACTATTA
1 CACTATTA
74906024 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:74911859 original size:30 final size:30
Alignment explanation
Indices: 74911823--74911953 Score: 226
Period size: 30 Copynumber: 4.4 Consensus size: 30
74911813 ACTTTTCTCA
74911823 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
74911853 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
74911883 ACTAGCTACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
74911913 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
74911943 ACTAGCCACAC
1 ACTAGCCACAC
74911954 TTGCTCCATT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 95 1.00
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:74911961 original size:30 final size:30
Alignment explanation
Indices: 74911823--74911995 Score: 215
Period size: 30 Copynumber: 5.8 Consensus size: 30
74911813 ACTTTTCTCA
*
74911823 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
74911853 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
74911883 ACTAGCTACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
74911913 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** * *
74911943 ACTAGCCACA-CTTGCTCCATTACCTACTTC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
74911973 ACTAACCACA-CTTGCTCCACCAC
1 ACTAGCCACACCTT-CTCCACCAC
74911996 TACTTGTACC
Statistics
Matches: 128, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 3 0.02
30 125 0.98
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:74912509 original size:23 final size:23
Alignment explanation
Indices: 74912472--74912603 Score: 63
Period size: 25 Copynumber: 5.5 Consensus size: 23
74912462 TTTTTTTTGT
74912472 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
74912495 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
74912517 TATTAGGTATATT-TTAAATTTTA
1 TATTATATATATTCTT-AATATTA
* * *
74912540 TATTACGTATATATATATTTTATACTA
1 TATTA--TATATAT-T-CTTAATATTA
* * *
74912567 TTTTATTTATATATCTTTAAAATTA
1 TATTATATATAT-TC-TTAATATTA
*
74912592 TATTATTTATAT
1 TATTATATATAT
74912604 ATTTTTTTTC
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.19
23 19 0.23
24 4 0.05
25 30 0.37
26 1 0.01
27 8 0.10
28 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:74912577 original size:25 final size:25
Alignment explanation
Indices: 74912549--74912689 Score: 74
Period size: 25 Copynumber: 5.6 Consensus size: 25
74912539 ATATTACGTA
* *
74912549 TATATATATTTTATACTATTTTATT
1 TATATATATTTTAAACTATATTATT
* * *
74912574 TATATATCTTTAAAATTATATTATT
1 TATATATATTTTAAACTATATTATT
*** *
74912599 TATATAT-TTTTTTTCTACATGTTATCT
1 TATATATATTTTAAACT--ATATTAT-T
* *
74912626 TATGTATATATCTT-AACTATATTATG
1 TA--TATATATTTTAAACTATATTATT
* *
74912652 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTTAA-ACTATATTATT
*
74912677 TACATAT-TTTTAA
1 TATATATATTTTAA
74912690 TATTATCATG
Statistics
Matches: 88, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
23 3 0.03
24 9 0.10
25 49 0.56
26 8 0.09
27 9 0.10
29 7 0.08
30 3 0.03
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATTTTAAACTATATTATT
Found at i:74912707 original size:23 final size:24
Alignment explanation
Indices: 74912627--74912716 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
74912617 ATGTTATCTT
*
74912627 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
74912649 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
74912674 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
*
74912697 ATGTATTTATTTTT-ATATAT
1 ATGTATATATTTTTAATATAT
74912717 GTACATATTG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
22 13 0.24
23 24 0.44
24 2 0.04
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:74912887 original size:24 final size:27
Alignment explanation
Indices: 74912829--74912887 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 27
74912819 TCAATATTAA
74912829 TTATTATTATTCTAATATTTTGATATT
1 TTATTATTATTCTAATATTTTGATATT
74912856 TTGA-TATT-TTCT-AT-TTTAT-ATATT
1 TT-ATTATTATTCTAATATTT-TGATATT
74912880 TTATTATT
1 TTATTATT
74912888 CCCATCATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 1 0.03
24 14 0.48
25 3 0.10
26 4 0.14
27 6 0.21
28 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
TTATTATTATTCTAATATTTTGATATT
Found at i:74921621 original size:75 final size:74
Alignment explanation
Indices: 74921440--74921630 Score: 289
Period size: 74 Copynumber: 2.6 Consensus size: 74
74921430 GAATCAAAGG
* * * *
74921440 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGCATTTTCAATCT
74921505 ATTTTTTCA
66 ATTTTTTCA
74921514 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGCAGTTTT-AAT-
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGCA-TTTTCAATC
74921577 T-TTTGTTCATCA
65 TATTT-TT--TCA
74921589 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG
74921631 TCACATGTCG
Statistics
Matches: 109, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
72 3 0.03
73 3 0.03
74 54 0.50
75 49 0.45
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGCATTTTCAATCT
ATTTTTTCA
Found at i:74921752 original size:90 final size:90
Alignment explanation
Indices: 74921589--74921807 Score: 307
Period size: 90 Copynumber: 2.4 Consensus size: 90
74921579 TTGTTCATCA
* *
74921589 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACATGTCGAGGTATTTACAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTACAAT
** *
74921654 TTCCGTTTTTCAATTTATGTTTTTC
66 TAACGTTTTTCAATTTATGCTTTTC
* * *
74921679 -AAAAATCAATTCATATTGCTAGAGGTG-GATTGAGCCTCAGGATCACATGCCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGG-TCACATGCCGAGGTATTTACA
* *
74921742 ATTAATGTTTTTTAATTTATGCTTTTC
64 ATTAACGTTTTTCAATTTATGCTTTTC
*
74921769 AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
74921808 GGGACACGCT
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
88 1 0.01
89 36 0.32
90 41 0.37
91 33 0.29
92 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (90 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTACAAT
TAACGTTTTTCAATTTATGCTTTTC
Found at i:74921904 original size:71 final size:71
Alignment explanation
Indices: 74921777--74921909 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 71
74921767 TCAAAAAATT
** ** * *
74921777 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTAAGGCATTGTTAATTTTTGTTTCA
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTAAGGCATTGTTAATTTCTGTTTCA
74921842 AAACTC
66 AAACTC
* * *
74921848 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATT-TTCAATTTCTGTT
1 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTAAGGCATTGTT-AATTTCTGTT
74921910 CAATTTATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 2 0.04
71 50 0.96
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (71 bp):
AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTAAGGCATTGTTAATTTCTGTTTCA
AAACTC
Done.