Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 202 of 222
Found at i:64160429 original size:43 final size:43
Alignment explanation
Indices: 64160306--64160432 Score: 175
Period size: 43 Copynumber: 3.0 Consensus size: 43
64160296 CGAAGGAAAT
* *
64160306 ATATTGGCACACATAGTGCATCATC-GAATAAACCAAAACAATC
1 ATATTGGCACACATAGTGCATCATCAG-ATAAACCGAAGCAATC
* * *
64160349 ATACTAGCACACATAGTGCATCTTCAGATAAACCGAAGCAATC
1 ATATTGGCACACATAGTGCATCATCAGATAAACCGAAGCAATC
* *
64160392 ATATTGGCACACATAGTGTATCATCAGATAAATCGAAGCAA
1 ATATTGGCACACATAGTGCATCATCAGATAAACCGAAGCAA
64160433 ATAAATTGAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 72 0.99
44 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (43 bp):
ATATTGGCACACATAGTGCATCATCAGATAAACCGAAGCAATC
Found at i:64163562 original size:43 final size:43
Alignment explanation
Indices: 64163509--64163732 Score: 281
Period size: 43 Copynumber: 5.2 Consensus size: 43
64163499 TTCTAGAAAT
*
64163509 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAAAAAC
* * * *
64163552 GCCGCTAAAGACCACGACCTTTAGCGGCACTTCTCCCACAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAAAAAC
* * *
64163595 ACCGCTAAAGACCAAGACCTTTAGCGGCACTATTT-CCATAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTTCCCAAAAAC
* *
64163638 GCCGCTATAGACCATGACCTTTAGCGGCGCTTTTTCCCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTCCCAAAAAC
* * * **
64163682 GCCGCTAAAGAACAA-ACCTTTAGCGACGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAAAAAC
64163724 GCCGCTAAA
1 GCCGCTAAA
64163733 AACATAATCT
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
42 19 0.12
43 118 0.74
44 22 0.14
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAAAAAC
Found at i:64167645 original size:21 final size:21
Alignment explanation
Indices: 64167602--64167642 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
64167592 CTTAACTCTT
*
64167602 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCATAAATCCC
64167623 AACCCTTAAACCAT-AATCCC
1 AACCCTTAAACCATAAATCCC
64167643 CAAATCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTTAAACCATAAATCCC
Found at i:64167933 original size:20 final size:21
Alignment explanation
Indices: 64167905--64167944 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64167895 CTAGTTAATC
*
64167905 TAAATCCT-AAACCATAAACT
1 TAAACCCTAAAACCATAAACT
64167925 TAAACCCTAAAACCATAAAC
1 TAAACCCTAAAACCATAAAC
64167945 CCTTAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAAACCATAAACT
Found at i:64167974 original size:15 final size:14
Alignment explanation
Indices: 64167912--64168016 Score: 63
Period size: 14 Copynumber: 7.4 Consensus size: 14
64167902 ATCTAAATCC
* *
64167912 TAAACCATAAA-CT
1 TAAACCCTAAACCA
64167925 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
64167940 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
64167955 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
64167969 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
* *
64167983 TAAATCATAAACCA
1 TAAACCCTAAACCA
*
64167997 TAAACCGTAAACCA
1 TAAACCCTAAACCA
64168011 TAAACC
1 TAAACC
64168017 ATAACCTCTA
Statistics
Matches: 71, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
13 10 0.14
14 37 0.52
15 24 0.34
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:64167993 original size:7 final size:7
Alignment explanation
Indices: 64167983--64168020 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
64167973 CCCCAGCCTT
*
64167983 TAAATCA
1 TAAACCA
64167990 TAAACCA
1 TAAACCA
*
64167997 TAAACCG
1 TAAACCA
64168004 TAAACCA
1 TAAACCA
64168011 TAAACCA
1 TAAACCA
64168018 TAA
1 TAA
64168021 CCTCTAAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.55, C:0.24, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:64168028 original size:21 final size:21
Alignment explanation
Indices: 64167953--64168035 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
64167943 ACCCTTAACA
*
64167953 CATAACCTCTAAACCTTAAAC
1 CATAACCTCTAAACCATAAAC
** * * *
64167974 CCCAGCCTTTAAATCATAAAC
1 CATAACCTCTAAACCATAAAC
*
64167995 CATAAACC-GTAAACCATAAAC
1 CAT-AACCTCTAAACCATAAAC
64168016 CATAACCTCTAAACCCATAA
1 CATAACCTCTAAA-CCATAA
64168036 TCCACAAACC
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 4 0.09
21 34 0.72
22 9 0.19
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (21 bp):
CATAACCTCTAAACCATAAAC
Found at i:64168035 original size:78 final size:78
Alignment explanation
Indices: 64167905--64168050 Score: 190
Period size: 78 Copynumber: 1.9 Consensus size: 78
64167895 CTAGTTAATC
* * * * *
64167905 TAAATCCTAAACCATAAACTTAAACCCTAAAACCATAAACCCTTAACACATAA-CCTCTAAACCT
1 TAAATCATAAACCATAAACGTAAACCATAAAACCATAAACCCTAAACACATAATCCAC-AAACCT
64167969 TAAACCCCAGCCTT
65 TAAACCCCAGCCTT
*
64167983 TAAATCATAAACCATAAACCGTAAACCAT-AAACCAT-AACCTCTAAACCCATAATCCACAAACC
1 TAAATCATAAACCATAAA-CGTAAACCATAAAACCATAAACC-CTAAACACATAATCCACAAACC
64168046 TTAAA
64 TTAAA
64168051 ATGGTAACAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
77 4 0.07
78 44 0.75
79 11 0.19
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.21
Consensus pattern (78 bp):
TAAATCATAAACCATAAACGTAAACCATAAAACCATAAACCCTAAACACATAATCCACAAACCTT
AAACCCCAGCCTT
Found at i:64168338 original size:40 final size:40
Alignment explanation
Indices: 64168263--64168338 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
64168253 TTAAATCCCT
* *
64168263 GAGCATTAGCGGCGCTTTTTAAAAAACGTCACTAAAAATA
1 GAGCATTAGCGGCGCTTTATAAAAAACGCCACTAAAAATA
* * *
64168303 GAGCATTCGCGGCGCTTTATCAAAAACGCCGCTAAA
1 GAGCATTAGCGGCGCTTTATAAAAAACGCCACTAAA
64168339 GCCCTGAGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTATAAAAAACGCCACTAAAAATA
Found at i:64168348 original size:41 final size:41
Alignment explanation
Indices: 64168254--64168465 Score: 205
Period size: 41 Copynumber: 5.2 Consensus size: 41
64168244 TAAATTATTT
* *** * *
64168254 TAAATCCCTGAGCATTAGCGGCGCTTTTTAAAAAACGTCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
** * *
64168295 TAAA--AATAGAGCATTCGCGGCGCTTTATCAAAAACGCCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCTTTACCAAAAACGCCGC
* ** * *
64168335 TAAAGCCCTGAGCATTAGCGGCACTTCCCCAAAAATGCTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
64168376 TAAAGCCCTGAGCATTAGCGGCGC-TTACCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTA-CCAAAAACGCCGC
* * ** *
64168417 TAAAACCATGAGCATTAGCGGCGCTTCCCCAAAAACGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
64168458 TAAAGCCC
1 TAAAGCCC
64168466 CGAAAGCTCA
Statistics
Matches: 138, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 32 0.23
41 103 0.75
42 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTACCAAAAACGCCGC
Found at i:64168410 original size:82 final size:82
Alignment explanation
Indices: 64168303--64168465 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 82
64168293 ACTAAAAATA
* * * *
64168303 GAGCATTCGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCCCAAA
1 GAGCATTAGCGGCGCTTTACCAAAAACGCCGCTAAAACCATGAGCATTAGCGGCACTTCCCCAAA
* *
64168368 AATGCTGCTAAAGCCCT
66 AACGCCGCTAAAGCCCT
*
64168385 GAGCATTAGCGGCGC-TTACCCAAAAACGCCGCTAAAACCATGAGCATTAGCGGCGCTTCCCCAA
1 GAGCATTAGCGGCGCTTTA-CCAAAAACGCCGCTAAAACCATGAGCATTAGCGGCACTTCCCCAA
*
64168449 AAACGCCGTTAAAGCCC
65 AAACGCCGCTAAAGCCC
64168466 CGAAAGCTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 3 0.04
82 69 0.96
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (82 bp):
GAGCATTAGCGGCGCTTTACCAAAAACGCCGCTAAAACCATGAGCATTAGCGGCACTTCCCCAAA
AACGCCGCTAAAGCCCT
Found at i:64168569 original size:39 final size:40
Alignment explanation
Indices: 64168526--64168635 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
64168516 CTGGAAAACT
* * *
64168526 CCACTAATGCTTG-TTTTTAGCGGCGTTTTTCATAAAGCG
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
* *
64168565 CCACTAATACTCGATCTTTAGCGGCGTTTTCCAAAAAGCG
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
* *
64168605 CCGCTAATGCTCGATCTTTAACGGCGTTTTT
1 CCACTAATGCTCGATCTTTAGCGGCGTTTTT
64168636 TATCCAAACG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 11 0.18
40 50 0.82
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.35
Consensus pattern (40 bp):
CCACTAATGCTCGATCTTTAGCGGCGTTTTTCAAAAAGCG
Found at i:64170358 original size:28 final size:29
Alignment explanation
Indices: 64170303--64170361 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
64170293 CTAATATTAA
64170303 TAAGATTAAATTTTTAAAAAATAAATAAT
1 TAAGATTAAATTTTTAAAAAATAAATAAT
**
64170332 TAAGATT-AA-TTTTATCAAATAACATAAT
1 TAAGATTAAATTTTTAAAAAATAA-ATAAT
64170360 TA
1 TA
64170362 CATTCCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.41
28 9 0.33
29 7 0.26
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAGATTAAATTTTTAAAAAATAAATAAT
Found at i:64175638 original size:41 final size:41
Alignment explanation
Indices: 64175593--64175735 Score: 141
Period size: 41 Copynumber: 3.4 Consensus size: 41
64175583 TATTTTTTTA
*
64175593 TTTTTTAATTTTAAAATA-CTTTAAAATACTTTTTTAAAAT-T
1 TTTTTTAATTTTAAAATATCTTTAAAATA--TTTTTAAAATGC
*
64175634 TTTTTTAATTTTAAAATATTTTTAAAATATTTTTAAAATGC
1 TTTTTTAATTTTAAAATATCTTTAAAATATTTTTAAAATGC
*** **
64175675 TTTTTTAATTTT-TTTTAAT-TTTAAAATATTTTTAAAATAAAT
1 TTTTTTAATTTTAAAAT-ATCTTTAAAATATTTTTAAAAT--GC
64175717 TTTTTTAATTTTCAAAATA
1 TTTTTTAATTTT-AAAATA
64175736 ATTTTTTGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
40 30 0.35
41 32 0.38
42 21 0.25
43 1 0.01
44 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (41 bp):
TTTTTTAATTTTAAAATATCTTTAAAATATTTTTAAAATGC
Found at i:64175690 original size:51 final size:51
Alignment explanation
Indices: 64175601--64175713 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
64175591 TATTTTTTAA
64175601 TTTTAAAATACTTTAAAATACTTTTTTAAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTAAAATACTTTTTT-AAATTTTTTTTAATTTTAAAATAT
* *
64175653 TTTTAAAATATTTTTAAAATGCTTTTTT-AATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATA-CTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
64175704 TTTTAAAATA
1 TTTTAAAATA
64175714 AATTTTTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 33 0.57
52 10 0.17
53 15 0.26
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (51 bp):
TTTTAAAATACTTTAAAATACTTTTTTAAATTTTTTTTAATTTTAAAATAT
Found at i:64175720 original size:13 final size:11
Alignment explanation
Indices: 64175601--64175713 Score: 66
Period size: 11 Copynumber: 10.9 Consensus size: 11
64175591 TATTTTTTAA
64175601 TTTTAAAATA-
1 TTTTAAAATAT
*
64175611 CTTTAAAATACTT
1 TTTTAAAATA--T
64175624 TTTTAAAAT-T
1 TTTTAAAATAT
* *
64175634 TTTT---TTAA
1 TTTTAAAATAT
64175642 TTTTAAAATAT
1 TTTTAAAATAT
64175653 TTTTAAAATAT
1 TTTTAAAATAT
*
64175664 TTTTAAAATGCT
1 TTTTAAAAT-AT
*
64175676 TTTT-TAAT-T
1 TTTTAAAATAT
* *
64175685 TTTT---TTAA
1 TTTTAAAATAT
64175693 TTTTAAAATAT
1 TTTTAAAATAT
64175704 TTTTAAAATA
1 TTTTAAAATA
64175714 AATTTTTTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
7 2 0.03
8 8 0.10
9 5 0.06
10 14 0.18
11 37 0.47
12 5 0.06
13 8 0.10
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:64175738 original size:21 final size:22
Alignment explanation
Indices: 64175702--64175742 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
64175692 ATTTTAAAAT
*
64175702 ATTTTTAAAATAAATTTTTTTA
1 ATTTTCAAAATAAATTTTTTTA
64175724 ATTTTCAAAAT-AATTTTTT
1 ATTTTCAAAATAAATTTTTT
64175743 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTCAAAATAAATTTTTTTA
Found at i:64175741 original size:51 final size:50
Alignment explanation
Indices: 64175635--64175741 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 50
64175625 TTTAAAATTT
*** **
64175635 TTTTTAATTTTAAAATATTTTTAAAATATTTTTAAAATGCTTTTTTAATTT
1 TTTTTAATTTTAAAATATTTTTAAAATATTTTTAAAAT-CTTTCAAAATAA
**
64175686 TTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTTAAT-TTTCAAAATAA
1 TTTTTAATTTTAAAATATTTTTAAAAT--ATTTTTAAAATCTTTCAAAATAA
64175737 TTTTT
1 TTTTT
64175742 TGGTATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
51 38 0.81
53 9 0.19
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (50 bp):
TTTTTAATTTTAAAATATTTTTAAAATATTTTTAAAATCTTTCAAAATAA
Found at i:64176178 original size:18 final size:18
Alignment explanation
Indices: 64176157--64176201 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
64176147 CAAAATATAT
*
64176157 AAAAAAATA-AAAAAAAG
1 AAAAAAAAACAAAAAAAG
*
64176174 AAAAAAAAACAGAAAAAG
1 AAAAAAAAACAAAAAAAG
64176192 AAAAAAAAAC
1 AAAAAAAAAC
64176202 CTGGACTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.87, C:0.04, G:0.07, T:0.02
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAG
Found at i:64176350 original size:18 final size:17
Alignment explanation
Indices: 64176327--64176404 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
64176317 GAAGGAGAGT
64176327 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
64176345 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
64176362 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
64176378 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
64176396 GGAAAGAAA
1 GG-AAGAAA
64176405 AGGAAAGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 4 0.08
18 20 0.39
19 14 0.27
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:64176360 original size:10 final size:10
Alignment explanation
Indices: 64176329--64176400 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
64176319 AGGAGAGTGG
*
64176329 AAGAAGAAGA
1 AAGAAAAAGA
64176339 AAGAAAGGAAGA
1 AAGAAA--AAGA
64176351 AAGAAAAAGA
1 AAGAAAAAGA
* *
64176361 AGGAAAAGGA
1 AAGAAAAAGA
64176371 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
64176385 AAGAAAAAGA
1 AAGAAAAAGA
*
64176395 AGGAAA
1 AAGAAA
64176401 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:64176360 original size:22 final size:23
Alignment explanation
Indices: 64176329--64176411 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
64176319 AGGAGAGTGG
*
64176329 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
64176351 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
64176373 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
*
64176399 AAGAAAAGGAAAG
1 AAGAAAAAGAAAG
64176412 GGGAGGGGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
22 12 0.26
23 10 0.21
24 21 0.45
25 3 0.06
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:64176366 original size:14 final size:13
Alignment explanation
Indices: 64176332--64176405 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 13
64176322 AGAGTGGAAG
64176332 AAGAAGAAAG-AA
1 AAGAAGAAAGAAA
*
64176344 AGGAAGAAAGAAA
1 AAGAAGAAAGAAA
64176357 AAGAAGGAAAAGGAAA
1 AAGAA-G-AAA-GAAA
64176373 GGAGAGGAAAGAAAGAAA
1 --A-A-G-AAGAAAGAAA
64176391 AAGAAGGAAAGAAA
1 AAGAA-GAAAGAAA
64176405 A
1 A
64176406 GGAAAGGGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 11 0.22
15 4 0.08
16 5 0.10
18 5 0.10
19 4 0.08
20 2 0.04
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:64176387 original size:28 final size:28
Alignment explanation
Indices: 64176332--64176411 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
64176322 AGAGTGGAAG
64176332 AAGAA-GAAAG-AAAGG-AAGAAAGAAA
1 AAGAAGGAAAGAAAAGGAAAGAAAGAAA
64176357 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAA-G-AA--A-AGGAAAGAAAGAAA
64176391 AAGAAGGAAAGAAAAGGAAAG
1 AAGAAGGAAAGAAAAGGAAAG
64176412 GGGAGGGGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
27 3 0.07
28 8 0.17
29 1 0.02
30 1 0.02
31 2 0.04
32 2 0.04
33 6 0.13
34 17 0.37
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (28 bp):
AAGAAGGAAAGAAAAGGAAAGAAAGAAA
Found at i:64176407 original size:10 final size:10
Alignment explanation
Indices: 64176349--64176411 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
64176339 AAGAAAGGAA
*
64176349 GAAAGAAAAA
1 GAAAGAAAAG
*
64176359 GAAGGAAAAG
1 GAAAGAAAAG
* *
64176369 GAAAGGAGAG
1 GAAAGAAAAG
64176379 GAAAG-AAA-
1 GAAAGAAAAG
64176387 GAAA-AAGAAG
1 GAAAGAA-AAG
64176397 GAAAGAAAAG
1 GAAAGAAAAG
64176407 GAAAG
1 GAAAG
64176412 GGGAGGGGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 5 0.12
9 4 0.09
10 32 0.74
11 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:64176411 original size:18 final size:19
Alignment explanation
Indices: 64176363--64176411 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
64176353 GAAAAAGAAG
64176363 GAAAAGGAAAGGAGAGGAAA
1 GAAAAGGAAA-GAGAGGAAA
*
64176383 G-AAA-GAAAAAGAAGGAAA
1 GAAAAGGAAAGAG-AGGAAA
64176401 GAAAAGGAAAG
1 GAAAAGGAAAG
64176412 GGGAGGGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.08
18 11 0.46
19 6 0.25
20 5 0.21
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
GAAAAGGAAAGAGAGGAAA
Found at i:64176472 original size:18 final size:17
Alignment explanation
Indices: 64176422--64176474 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
64176412 GGGAGGGGAG
64176422 GAAAGAAAGAAAAATAAG-
1 GAAAGAAA-AAAAA-AAGA
**
64176440 GAAAGAAAAGGAAAAGA
1 GAAAGAAAAAAAAAAGA
64176457 GAAGAGAAAAAAAAAAGA
1 GAA-AGAAAAAAAAAAGA
64176475 ACGAAGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.10
17 6 0.21
18 20 0.69
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (17 bp):
GAAAGAAAAAAAAAAGA
Found at i:64176474 original size:43 final size:43
Alignment explanation
Indices: 64176384--64176475 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
64176374 GAGAGGAAAG
* * * * ** *
64176384 AAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGGGAGGAAAG
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAAAA
*
64176427 AAAGAAAAATAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAAAA
1 AAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAAAA
64176470 AAAGAA
1 AAAGAA
64176476 CGAAGAAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (43 bp):
AAAGAAAAAGAAGGAAAGAAAAGGAAAAGAGAAGAGAAAAAAA
Found at i:64177233 original size:19 final size:19
Alignment explanation
Indices: 64177185--64177236 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
64177175 AAAATATATA
**
64177185 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTT
64177204 TAATATTTTATTATTTTTT
1 TAATATTTTATTATTTTTT
*
64177223 TAATGTTTTATTAT
1 TAATATTTTATTAT
64177237 GGGTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (19 bp):
TAATATTTTATTATTTTTT
Found at i:64177324 original size:28 final size:27
Alignment explanation
Indices: 64177276--64177342 Score: 109
Period size: 28 Copynumber: 2.5 Consensus size: 27
64177266 AACCAAAATA
64177276 ACCAAAATAT-TATAACTTTTTTATTT
1 ACCAAAATATATATAACTTTTTTATTT
*
64177302 ACCAAAATATATATAATTTTTTTTATTT
1 ACCAAAATATATATAA-CTTTTTTATTT
64177330 ACCAAAATATATA
1 ACCAAAATATATA
64177343 AAAAAAGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 10 0.26
27 5 0.13
28 23 0.61
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.46
Consensus pattern (27 bp):
ACCAAAATATATATAACTTTTTTATTT
Found at i:64177375 original size:17 final size:16
Alignment explanation
Indices: 64177342--64177372 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64177332 CAAAATATAT
*
64177342 AAAAAAAGTAAAAAAC
1 AAAAAAAATAAAAAAC
64177358 AAAAAAAATAAAAAA
1 AAAAAAAATAAAAAA
64177373 ACAGAAGAAA
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:0.87, C:0.03, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAAAAAATAAAAAAC
Found at i:64183247 original size:27 final size:27
Alignment explanation
Indices: 64183171--64183237 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
64183161 TTGGCAGGAC
*
64183171 TGGTGCCGCCAACAGGGATCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
64183198 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
64183225 TGGTGCCGCCAAC
1 TGGTGCCGCCAAC
64183238 CTGCTTCCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:64188377 original size:26 final size:26
Alignment explanation
Indices: 64188328--64188379 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
64188318 TTTAAAAATA
*
64188328 TTTAAAATTATTAAAATATTATATTT
1 TTTAAAATTATTAAAATATCATATTT
*
64188354 TTTAATATTATTAAACATA-CATATTT
1 TTTAAAATTATTAAA-ATATCATATTT
64188380 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTAAAATTATTAAAATATCATATTT
Found at i:64204928 original size:6 final size:6
Alignment explanation
Indices: 64204917--64204954 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
64204907 ATCTGACATT
64204917 TAAAAA TAAAAA TAAAAA T-AAAA -AAAAA -AAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
64204955 TTTTTGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 13 0.43
6 17 0.57
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
TAAAAA
Found at i:64204934 original size:12 final size:12
Alignment explanation
Indices: 64204917--64204954 Score: 55
Period size: 10 Copynumber: 3.4 Consensus size: 12
64204907 ATCTGACATT
64204917 TAAAAATAAAAA
1 TAAAAATAAAAA
64204929 TAAAAAT-AAAA
1 TAAAAATAAAAA
64204940 -AAAAA-AAAAA
1 TAAAAATAAAAA
64204950 TAAAA
1 TAAAA
64204955 TTTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.38
11 8 0.33
12 7 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:64205074 original size:1 final size:1
Alignment explanation
Indices: 64204964--64205061 Score: 187
Period size: 1 Copynumber: 98.0 Consensus size: 1
64204954 ATTTTTGTTG
64204964 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
64205029 TTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
64205062 GTTCGTTTTT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 95 1.00
ACGTcount: A:0.00, C:0.00, G:0.01, T:0.99
Consensus pattern (1 bp):
T
Found at i:64205610 original size:98 final size:98
Alignment explanation
Indices: 64205436--64205632 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
64205426 TGTCAATAAA
*
64205436 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
64205501 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
64205534 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
64205599 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
64205632 A
1 A
64205633 TTATTTTAAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:64207750 original size:40 final size:41
Alignment explanation
Indices: 64207670--64207753 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 41
64207660 TTGTAAGTTT
64207670 AGGGAGATAAGATTATGACTTTATCTGCTCACTGCAACTTC
1 AGGGAGATAAGATTATGACTTTATCTGCTCACTGCAACTTC
* *
64207711 AGGGAGATAAGA-T-TGCCTTTAGTCTGCTCACTGCCACTTC
1 AGGGAGATAAGATTATGACTTTA-TCTGCTCACTGCAACTTC
64207751 AGG
1 AGG
64207754 AGGATAGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
39 7 0.17
40 21 0.52
41 12 0.30
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
AGGGAGATAAGATTATGACTTTATCTGCTCACTGCAACTTC
Found at i:64208242 original size:20 final size:19
Alignment explanation
Indices: 64208209--64208247 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
64208199 CACTTGTGAC
* *
64208209 CTTTTTTGTTTTTTATTTTT
1 CTTTTTTATCTTTT-TTTTT
64208229 CTTTTTTATCTTTTTTTTT
1 CTTTTTTATCTTTTTTTTT
64208248 ACACTTCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.85
Consensus pattern (19 bp):
CTTTTTTATCTTTTTTTTT
Found at i:64208423 original size:20 final size:19
Alignment explanation
Indices: 64208390--64208602 Score: 109
Period size: 19 Copynumber: 11.2 Consensus size: 19
64208380 TCTTTAGTGA
*
64208390 TTTTATTTTATTTTTTGTTT
1 TTTTGTTTT-TTTTTTGTTT
* *
64208410 TTTTGGTTTTTTTTTTATTC
1 TTTT-GTTTTTTTTTTGTTT
* * *
64208430 TTTTCTTTTTTTTTTATCT
1 TTTTGTTTTTTTTTTGTTT
*
64208449 TTCTGTTTTTTCTTTT-TTT
1 TTTTGTTTTTT-TTTTGTTT
* * *
64208468 TATATTAGTTGTATTATT-TTT
1 T-T-TT-GTTTTTTTTTTGTTT
* * *
64208489 TTATGTTTTTGTTTTCTTT
1 TTTTGTTTTTTTTTTGTTT
*
64208508 TTTT-TCTTTTTTTTGTTCT
1 TTTTGTTTTTTTTTTGTT-T
* * *
64208527 TTTT-TGTCTTTATT-TTT
1 TTTTGTTTTTTTTTTGTTT
*
64208544 TTTTGTATTTTTTTTG-TT
1 TTTTGTTTTTTTTTTGTTT
*
64208562 TTGTGTTTATTTTTTATG-TT
1 TTTTGTTT-TTTTTT-TGTTT
*
64208582 TTTTG-TTTATTTTTGTTT
1 TTTTGTTTTTTTTTTGTTT
64208600 TTT
1 TTT
64208603 ATTTTTTTCA
Statistics
Matches: 149, Mismatches: 32, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
17 7 0.05
18 44 0.30
19 51 0.34
20 30 0.20
21 12 0.08
22 5 0.03
ACGTcount: A:0.07, C:0.04, G:0.08, T:0.81
Consensus pattern (19 bp):
TTTTGTTTTTTTTTTGTTT
Found at i:64208438 original size:15 final size:13
Alignment explanation
Indices: 64208390--64208610 Score: 103
Period size: 13 Copynumber: 16.3 Consensus size: 13
64208380 TCTTTAGTGA
*
64208390 TTTTATTTTATTT
1 TTTTTTTTTATTT
*
64208403 TTTGTTTTTT-TGGT
1 TTT-TTTTTTAT-TT
64208417 TTTTTTTTTATTCT
1 TTTTTTTTTATT-T
64208431 TTTCTTTTTT-TTT
1 TTT-TTTTTTATTT
64208444 TATCTTTCTGTTT-TTT
1 T-T-TTT-T-TTTATTT
*
64208460 CTTTTTTTTATATT
1 TTTTTTTTTAT-TT
** * *
64208474 AGTTGTATTATTT
1 TTTTTTTTTATTT
64208487 TTTTATGTTTT-TGTT
1 TTTT-T-TTTTAT-TT
64208502 TTCTTTTTTT-TCTT
1 TT-TTTTTTTAT-TT
* *
64208516 TTTTTTGTTCTTT
1 TTTTTTTTTATTT
* *
64208529 TTTGTCTTTA-TT
1 TTTTTTTTTATTT
*
64208541 TTTTTTTGTATTT
1 TTTTTTTTTATTT
* *
64208554 TTTTTGTTTTGTGT
1 TTTTT-TTTTATTT
* *
64208568 TTATTTTTTATGT
1 TTTTTTTTTATTT
*
64208581 TTTTTGTTTATTT
1 TTTTTTTTTATTT
*
64208594 TTGTTTTTTATTT
1 TTTTTTTTTATTT
64208607 TTTT
1 TTTT
64208611 CATTACTTTA
Statistics
Matches: 158, Mismatches: 32, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
12 12 0.08
13 70 0.44
14 51 0.32
15 17 0.11
16 8 0.05
ACGTcount: A:0.07, C:0.04, G:0.08, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTATTT
Found at i:64208541 original size:55 final size:56
Alignment explanation
Indices: 64208481--64208585 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
64208471 ATTAGTTGTA
* *
64208481 TTATTTTTTTATGT-TTTTGTTTTCTTTT-T-TTTCTTTTTTTTGTTCTTTTTTGTCT
1 TTATTTTTTTATGTATTTT-TTTTCTTTTGTGTTTATTTTTTATGTT-TTTTTTGTCT
* *
64208536 TTATTTTTTTTTGTATTTTTTTTGTTTTGTGTTTATTTTTTATGTTTTTT
1 TTATTTTTTTATGTATTTTTTTTCTTTTGTGTTTATTTTTTATGTTTTTT
64208586 GTTTATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
55 21 0.49
56 9 0.21
57 13 0.30
ACGTcount: A:0.06, C:0.04, G:0.09, T:0.82
Consensus pattern (56 bp):
TTATTTTTTTATGTATTTTTTTTCTTTTGTGTTTATTTTTTATGTTTTTTTTGTCT
Found at i:64208543 original size:26 final size:25
Alignment explanation
Indices: 64208505--64208609 Score: 83
Period size: 27 Copynumber: 4.2 Consensus size: 25
64208495 TTTTGTTTTC
* * *
64208505 TTTT-TTTTCTTTTTTTTGT-TCTT
1 TTTTGTTTTATTTTTTTTTTATATT
*
64208528 TTTTGTCTTTATTTTTTTTTGTATTTT
1 TTTTGT-TTTATTTTTTTTT-TATATT
* *
64208555 TTTTGTTTTGTGTTTATTTTTTATGTT
1 TTTTGTTTTAT-TTT-TTTTTTATATT
64208582 TTTTG-TTTATTTTTGTTTTT-TATT
1 TTTTGTTTTATTTTT-TTTTTATATT
64208606 TTTT
1 TTTT
64208610 TCATTACTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
23 4 0.06
24 9 0.13
25 19 0.28
26 9 0.13
27 22 0.32
28 5 0.07
ACGTcount: A:0.06, C:0.03, G:0.09, T:0.83
Consensus pattern (25 bp):
TTTTGTTTTATTTTTTTTTTATATT
Found at i:64208544 original size:46 final size:43
Alignment explanation
Indices: 64208390--64208609 Score: 144
Period size: 46 Copynumber: 4.9 Consensus size: 43
64208380 TCTTTAGTGA
* *
64208390 TTTTATTTTAT-TTTTTGTTTTTTTGGTTTTTTTTTTATTCTTTTCT
1 TTTTTTTTTATCTTTTTGTTTTTTT--TTTTTTTTTT-TT-TGTTCT
* * * * *
64208436 TTTTTTTTTATCTTTCTGTTTTTTCTTTTTTTTATATTAGTTGT
1 TTTTTTTTTATCTTTTTGTTTTTT-TTTTTTTTTTTTTTGTTCT
*
64208480 ATTATTTTTTTATGTTTTTGTTTTCTTTTTTTTCTTTTTTTTGTTCT
1 -TT-TTTTTTTATCTTTTTGTTTT-TTTTTTTT-TTTTTTTTGTTCT
* * * *
64208527 TTTTTGTCTTTA--TTTTT-TTTTGTATTTTTTTTGTTTTG-TGT
1 TTTTT-T-TTTATCTTTTTGTTTTTTTTTTTTTTTTTTTTGTTCT
* *
64208568 TTATTTTTTATGTTTTTTGTTTATTTTTGTTTTTTATTTTTT
1 TTTTTTTTTAT-CTTTTTGTTT-TTTTT-TTTTTT-TTTTTT
64208610 TCATTACTTT
Statistics
Matches: 138, Mismatches: 21, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
39 4 0.03
40 1 0.01
41 6 0.04
42 13 0.09
43 9 0.07
44 10 0.07
45 18 0.13
46 50 0.36
47 26 0.19
48 1 0.01
ACGTcount: A:0.07, C:0.04, G:0.08, T:0.81
Consensus pattern (43 bp):
TTTTTTTTTATCTTTTTGTTTTTTTTTTTTTTTTTTTTGTTCT
Found at i:64208572 original size:87 final size:91
Alignment explanation
Indices: 64208395--64208607 Score: 221
Period size: 93 Copynumber: 2.3 Consensus size: 91
64208385 AGTGATTTTA
* *
64208395 TTTTAT-TTTTTGTTTTTTTGGTTTTTTTTTTATTCTTTTCTTTTTTTTTTATCTTTCTGTTTTT
1 TTTTATGTTTTTGTTTTTTT-GTTTTTTTTTTATTCTGTTCTTTTTTTTTTATCTTTCTGTTTTG
*
64208459 TCTTTTTTTTATATTAGTTGTATTATTT
65 TATTTTTTTTATATTAGTTGTATTA-TT
64208487 TTTTATGTTTTTGTTTTCTTT-TTTTTCTTTTT-TT-TGTTCTTTTTTGTCTTTAT-TTT-T-TT
1 TTTTATGTTTTTGTTTT-TTTGTTTTT-TTTTTATTCTGTTCTTTTTT-T-TTTATCTTTCTGTT
* *
64208546 TTGTATTTTTTTTGT-TTTG-TGT-TTATT
62 TTGTATTTTTTTTATATTAGTTGTATTATT
64208573 TTTTATGTTTTTTGTTTATTTTTGTTTTTTATTTT
1 TTTTATG-TTTTTG-TT-TTTTTGTTTTTT-TTTT
64208608 TTTCATTACT
Statistics
Matches: 106, Mismatches: 5, Indels: 23
0.79 0.04 0.17
Matches are distributed among these distances:
86 9 0.08
87 9 0.08
88 9 0.08
89 14 0.13
90 14 0.13
91 11 0.10
92 17 0.16
93 20 0.19
94 3 0.03
ACGTcount: A:0.07, C:0.04, G:0.08, T:0.81
Consensus pattern (91 bp):
TTTTATGTTTTTGTTTTTTTGTTTTTTTTTTATTCTGTTCTTTTTTTTTTATCTTTCTGTTTTGT
ATTTTTTTTATATTAGTTGTATTATT
Found at i:64208608 original size:87 final size:89
Alignment explanation
Indices: 64208416--64208611 Score: 219
Period size: 87 Copynumber: 2.2 Consensus size: 89
64208406 GTTTTTTTGG
* * *
64208416 TTTTTTTTTTATTCTTTTCTTTTTTTTTTATCTTTCTGTTTTTTCTTTTTTTTATATTAGTTGTA
1 TTTTTTTTTTATTTTTTTCTTTTTTTTTTATCTTTCTGTTTTGTATTTTTTTTATATTAGTTGTA
64208481 TTATTTTTTTATGTTTTTGTTTTC
66 TTATTTTTTTATGTTTTTGTTTTC
* * *
64208505 TTTTTTTTCTTTTTTTTGTTCTTTTTTGTCTTTAT-TTT-T-TTTTGTATTTTTTTTGT-TTTG-
1 TTTTTTTT-TTATTTTT-TTCTTTTTT-T-TTTATCTTTCTGTTTTGTATTTTTTTTATATTAGT
64208565 TGT-TTA-TTTTTTATGTTTTTTGTTTAT-
62 TGTATTATTTTTTTATG-TTTTTGTTT-TC
64208592 TTTTGTTTTTTATTTTTTTC
1 TTTT-TTTTTTATTTTTTTC
64208612 ATTACTTTAG
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
86 12 0.13
87 23 0.25
88 8 0.09
89 11 0.12
90 20 0.22
91 10 0.11
92 4 0.04
93 5 0.05
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.81
Consensus pattern (89 bp):
TTTTTTTTTTATTTTTTTCTTTTTTTTTTATCTTTCTGTTTTGTATTTTTTTTATATTAGTTGTA
TTATTTTTTTATGTTTTTGTTTTC
Found at i:64208626 original size:26 final size:25
Alignment explanation
Indices: 64208567--64208632 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
64208557 TTGTTTTGTG
** *
64208567 TTTA-TTTTTTATGTTTTTTGTTTAT
1 TTTAGTTTTTTAT-TTTTTTCATTAC
*
64208592 TTTTGTTTTTTATTTTTTTCATTAC
1 TTTAGTTTTTTATTTTTTTCATTAC
64208617 TTTAGTTTTTT-TTTTT
1 TTTAGTTTTTTATTTTT
64208633 GTATGATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 5 0.14
25 22 0.63
26 8 0.23
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (25 bp):
TTTAGTTTTTTATTTTTTTCATTAC
Found at i:64208630 original size:1 final size:1
Alignment explanation
Indices: 64208390--64208610 Score: 64
Period size: 1 Copynumber: 221.0 Consensus size: 1
64208380 TCTTTAGTGA
* * * ** * * * * * * *
64208390 TTTTATTTTATTTTTTGTTTTTTTGGTTTTTTTTTTATTCTTTTCTTTTTTTTTTATCTTTCTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** * * * * * * * *
64208455 TTTTTCTTTTTTTTATATTAGTTGTATTATTTTTTTATGTTTTTGTTTTCTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * * * * *
64208520 TTGTTCTTTTTTGTCTTTATTTTTTTTTGTATTTTTTTTGTTTTGTGTTTATTTTTTATGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
64208585 TGTTTATTTTTGTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
64208611 CATTACTTTA
Statistics
Matches: 139, Mismatches: 81, Indels: 0
0.63 0.37 0.00
Matches are distributed among these distances:
1 139 1.00
ACGTcount: A:0.07, C:0.04, G:0.08, T:0.81
Consensus pattern (1 bp):
T
Found at i:64218056 original size:100 final size:101
Alignment explanation
Indices: 64217883--64218090 Score: 409
Period size: 100 Copynumber: 2.1 Consensus size: 101
64217873 GCAATAAAAC
64217883 TTTAAAAGAATGTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAATGTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
64217948 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTA-
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
64217983 TTTAAAAGAATGTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAATGTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
64218048 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
64218084 TTTAAAA
1 TTTAAAA
64218091 AATCTTCATT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 100 0.93
101 7 0.07
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (101 bp):
TTTAAAAGAATGTCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
Found at i:64219620 original size:15 final size:15
Alignment explanation
Indices: 64219602--64219631 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64219592 ACACATAATG
64219602 ATAAAAAAACATAAA
1 ATAAAAAAACATAAA
*
64219617 ATAAAAAAATATAAA
1 ATAAAAAAACATAAA
64219632 TATCAACCTT
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:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
ATAAAAAAACATAAA
Found at i:64222091 original size:82 final size:82
Alignment explanation
Indices: 64222000--64222164 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
64221990 CATTTGTTTC
* *
64222000 GAAATTTAGATGTTTTTCATAGAATGAAGTTTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGAATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
64222065 TGAGTCCTTTGTTAAAA
66 TGAGTCCTTTGTTAAAA
*
64222082 GAAATTTAGATGTTTTTCATAGTATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
1 GAAATTTAGATGTTTTTCATAGAATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
64222147 TGAGTCCTTTGTTAAAA
66 TGAGTCCTTTGTTAAAA
64222164 G
1 G
64222165 GTATGAGACT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (82 bp):
GAAATTTAGATGTTTTTCATAGAATGAAATCTATACTTTCATTTGATATTGCTATCTTGATCATA
TGAGTCCTTTGTTAAAA
Found at i:64223094 original size:37 final size:38
Alignment explanation
Indices: 64223053--64223127 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 38
64223043 ATTTTTAACT
*
64223053 CATTGCCATG-GAGGTGAATTGTGGTTTTT-CTTCAACC
1 CATTGCCATGAG-GGTGAATTGTGATTTTTGCTTCAACC
* * *
64223090 CATTGTCATTAGGGTGAATTGTGATTTTTGTTTCAACC
1 CATTGCCATGAGGGTGAATTGTGATTTTTGCTTCAACC
64223128 AACTACCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 24 0.75
38 8 0.25
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (38 bp):
CATTGCCATGAGGGTGAATTGTGATTTTTGCTTCAACC
Found at i:64223191 original size:38 final size:38
Alignment explanation
Indices: 64223069--64223193 Score: 128
Period size: 37 Copynumber: 3.3 Consensus size: 38
64223059 CATGGAGGTG
* * *
64223069 AATTGTGGTTTTT-CTTCAACCCATTGTCATTAGGGTG
1 AATTGTGGTTTTTGTTTCAACCCATTGCCATTAGGGTT
* * * * * *
64223106 AATTGTGATTTTTGTTTCAACCAACTACCACTAGGATT
1 AATTGTGGTTTTTGTTTCAACCCATTGCCATTAGGGTT
* * *
64223144 -ATTGTGGTTTTTGTTTCGACCCATTGGCATTGGGGTT
1 AATTGTGGTTTTTGTTTCAACCCATTGCCATTAGGGTT
64223181 AATTGTGGTTTTT
1 AATTGTGGTTTTT
64223194 TACATTTTTC
Statistics
Matches: 68, Mismatches: 18, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
37 40 0.59
38 28 0.41
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.45
Consensus pattern (38 bp):
AATTGTGGTTTTTGTTTCAACCCATTGCCATTAGGGTT
Found at i:64224016 original size:28 final size:28
Alignment explanation
Indices: 64223964--64224038 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
64223954 TTTATATCAG
* *
64223964 ATTTATATTAAATGATAATGCAAAAT-T
1 ATTTATATTAAATAATAATGAAAAATAT
*
64223991 ATGTTATATTAAATAATAATTAAAAATAT
1 AT-TTATATTAAATAATAATGAAAAATAT
*
64224020 ATTTA-ATCTACATAATAAT
1 ATTTATAT-TAAATAATAAT
64224039 AACAATAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 34 0.83
29 3 0.07
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (28 bp):
ATTTATATTAAATAATAATGAAAAATAT
Found at i:64225628 original size:17 final size:17
Alignment explanation
Indices: 64225606--64225641 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
64225596 GTATTCAAAT
64225606 AATTATAAAAATTATTA
1 AATTATAAAAATTATTA
*
64225623 AATTATTAAAATTATTA
1 AATTATAAAAATTATTA
64225640 AA
1 AA
64225642 AACAAATGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTATAAAAATTATTA
Found at i:64225825 original size:21 final size:23
Alignment explanation
Indices: 64225785--64225826 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
64225775 GAATTATAAG
64225785 ATATTATAAATAATTATTAAATA
1 ATATTATAAATAATTATTAAATA
*
64225808 ATATTTTAAA-AA-TATTAAA
1 ATATTATAAATAATTATTAAA
64225827 AACTATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATTATAAATAATTATTAAATA
Found at i:64230547 original size:107 final size:107
Alignment explanation
Indices: 64230348--64230603 Score: 297
Period size: 107 Copynumber: 2.4 Consensus size: 107
64230338 TTTTAACCAC
64230348 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAATTTAAGATCTT
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAATTTAAGATCTT
* *
64230413 AGTCTTATACTTGAAAATTTTTTGAATCTCGCGGTTTGTCGA
66 AGACTTATACTTGAAAATTTTTCGAATCTCGCGGTTTGTCGA
* * * * * *
64230455 TTTAAGATTGCAATCTTATACTTTCAAGATATTT-C-AATCTTGGGGCTCGCCTATTTAAGAT-T
1 TTTAAGATCGCAACCTTATACTTACAAGAT-TTTCCAAATCTTGCGGCTCACCAATTTAAGATCT
* * *
64230517 GTA-ACATTATACTT-ACAGGATTTTTCGAATCTTGCGGTTTGTGGA
65 -TAGAC-TTATACTTGA-A-AATTTTTCGAATCTCGCGGTTTGTCGA
* * **
64230562 TTTAAGATCACAACCTTATACTTACATGATTTTTGAAATCTT
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTT
64230604 ATGGTTTTTC
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
105 3 0.02
106 37 0.30
107 76 0.61
108 9 0.07
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (107 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAATTTAAGATCTT
AGACTTATACTTGAAAATTTTTCGAATCTCGCGGTTTGTCGA
Found at i:64230581 original size:54 final size:54
Alignment explanation
Indices: 64230348--64230840 Score: 395
Period size: 54 Copynumber: 9.2 Consensus size: 54
64230338 TTTTAACCAC
* * *** *
64230348 TTTAAGATCGCAACCTTATACTTACAAGATTTTCCAAATCTTGCGGCTCACCAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
** ** * * *
64230402 TTTAAGATCTTAGTCTTATACTTGA-AA-ATTTTTTGAATCTCGCGGTTTGTCGA
1 TTTAAGATCGCAACCTTATACTT-ACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * * * *
64230455 TTTAAGATTGCAATCTTATACTTTCAAGATATTTC-AATCTTGGGGCTCGCCTA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * *
64230508 TTTAAGATTGTAACATTATACTTACAGGATTTTTCGAATCTTGCGGTTTGTGGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * ** * *
64230562 TTTAAGATCACAACCTTATACTTACATGATTTTT-GAAATCTTATGGTTTTTCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCG-AATCTTGCGGCTTGTCGA
* ** **
64230616 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCAAATCTTGAAGCTTAACGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* *** *
64230670 TTTAAGATC-CTAACCTTATACTTACAAGATTTTTTGAATCTTTTAGTTTGTCGA
1 TTTAAGATCGC-AACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * * **
64230724 TTTAAGATCACATCCTTATACTTTCGAGATTTTTTGAATCATGCGGCTTGTTAA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
* * * * * * *
64230778 TTTAAGATCCCAGCCATATACTTACAAGATTTCTAGAATCTTGCAG-TTGCCGA
1 TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
64230831 TTTAAGATCG
1 TTTAAGATCG
64230841 TAAATTTCTC
Statistics
Matches: 345, Mismatches: 86, Indels: 17
0.77 0.19 0.04
Matches are distributed among these distances:
53 94 0.27
54 249 0.72
55 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (54 bp):
TTTAAGATCGCAACCTTATACTTACAAGATTTTTCGAATCTTGCGGCTTGTCGA
Found at i:64231297 original size:15 final size:16
Alignment explanation
Indices: 64231278--64231315 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
64231268 GATGAAATTG
64231278 AAAAGATG-AAATAAT
1 AAAAGATGAAAATAAT
*
64231293 TAAAGATGATAAATAAT
1 AAAAGATGA-AAATAAT
64231310 AAAAGA
1 AAAAGA
64231316 AAAGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
17 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (16 bp):
AAAAGATGAAAATAAT
Found at i:64231834 original size:5 final size:5
Alignment explanation
Indices: 64231824--64231857 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
64231814 GCCAAAGATG
*
64231824 TGAAT TGAAT TGAAT TGCAT TGAAT ATGAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT -TGAAT TGA
64231858 TTTTAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:64239098 original size:25 final size:25
Alignment explanation
Indices: 64239069--64239132 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
64239059 ATTGACTCTT
*
64239069 ATGAGCTTCCCGTTATACAGCTCAA
1 ATGAGCTTCCCGTTACACAGCTCAA
* ** *
64239094 ATGAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCGTTACACAGCTCAA
64239119 ATGAGCTTCCCGTT
1 ATGAGCTTCCCGTT
64239133 TATGTACTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACACAGCTCAA
Found at i:64250902 original size:31 final size:31
Alignment explanation
Indices: 64250848--64250915 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
64250838 TTAACAGCTT
* * *
64250848 GTGACTTTAATAAGAAATTTTGAATAGTTCA
1 GTGACTTAAATAAGAAATGTTGAATAATTCA
64250879 GTGACTTAAATGAA-AAATGTTGAATAATTCA
1 GTGACTTAAAT-AAGAAATGTTGAATAATTCA
*
64250910 ATGACT
1 GTGACT
64250916 GTAACTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.35
Consensus pattern (31 bp):
GTGACTTAAATAAGAAATGTTGAATAATTCA
Found at i:64251481 original size:21 final size:21
Alignment explanation
Indices: 64251452--64251495 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
64251442 CTTTGATTTT
* * *
64251452 ATTTTATTGTTACAGTATTCA
1 ATTTCATTGCTACAGTAATCA
*
64251473 ATTTCATTGCTATAGTAATCA
1 ATTTCATTGCTACAGTAATCA
64251494 AT
1 AT
64251496 GCTGTTTGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (21 bp):
ATTTCATTGCTACAGTAATCA
Found at i:64272527 original size:3 final size:3
Alignment explanation
Indices: 64272519--64272564 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
64272509 GAAGATGGCA
64272519 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
64272565 GGGTGAAGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:64278367 original size:19 final size:17
Alignment explanation
Indices: 64278316--64278367 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
64278306 TTATATGTAA
*
64278316 TTTTTTATTTTTTTATT
1 TTTTTTATATTTTTATT
*
64278333 TATTATTATACTTTTTAGTT
1 T-TTTTTATA-TTTTTA-TT
64278353 TTTTTTATATATTTT
1 TTTTTTATAT-TTTT
64278368 CTATTTTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 7 0.25
19 17 0.61
20 3 0.11
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTTATATTTTTATT
Found at i:64278648 original size:24 final size:23
Alignment explanation
Indices: 64278615--64278677 Score: 99
Period size: 24 Copynumber: 2.7 Consensus size: 23
64278605 TTATTGATAT
64278615 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTA-A
* *
64278639 TGTTCATGAACATGTTCATTTAA
1 TGTTCGTGAACATGTTCAATTAA
64278662 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
64278678 TGATTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 16 0.44
24 20 0.56
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCAATTAA
Found at i:64279219 original size:18 final size:17
Alignment explanation
Indices: 64279196--64279260 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
64279186 ATCAGAATAT
64279196 CATTTAAAAATTATGAAA
1 CATTTAAAAATTAT-AAA
64279214 CATTTAAAAAATTA-AAA
1 CATTT-AAAAATTATAAA
*
64279231 -ATTTTAAAAATTTTAAA
1 CA-TTTAAAAATTATAAA
*
64279248 AATTTAGAAAATT
1 CATTTA-AAAATT
64279261 TTTGAAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
16 8 0.20
17 13 0.32
18 12 0.29
19 8 0.20
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
CATTTAAAAATTATAAA
Found at i:64279228 original size:26 final size:26
Alignment explanation
Indices: 64279199--64279261 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
64279189 AGAATATCAT
*
64279199 TTAAAAATTATGAAACA-TTTAAAAAA
1 TTAAAAATT-TGAAAAATTTTAAAAAA
* *
64279225 TTAAAAATTTTAAAAATTTTAAAAAT
1 TTAAAAATTTGAAAAATTTTAAAAAA
64279251 TTAGAAAATTT
1 TTA-AAAATTT
64279262 TTGAAAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 20 0.62
27 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
TTAAAAATTTGAAAAATTTTAAAAAA
Found at i:64279270 original size:10 final size:9
Alignment explanation
Indices: 64279198--64279262 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
64279188 CAGAATATCA
64279198 TTTAAAAAT
1 TTTAAAAAT
* *
64279207 TATGAAACA-
1 T-TTAAAAAT
64279216 TTTAAAAA-
1 TTTAAAAAT
*
64279224 ATTAAAAAT
1 TTTAAAAAT
64279233 TTTAAAAAT
1 TTTAAAAAT
64279242 TTTAAAAA-
1 TTTAAAAAT
64279250 TTTAGAAAAT
1 TTTA-AAAAT
64279260 TTT
1 TTT
64279263 TGAAAATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 16 0.35
9 22 0.48
10 8 0.17
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:64280978 original size:21 final size:21
Alignment explanation
Indices: 64280914--64281015 Score: 57
Period size: 21 Copynumber: 4.9 Consensus size: 21
64280904 TGGGTTTCCC
* *
64280914 TTCAGCTCTTTTGAGCTTAT-G
1 TTCAGCCCTTATGAGCTT-TCG
* * *
64280935 TTTAACCCTTATG-GGTTTCCG
1 TTCAGCCCTTATGAGCTTT-CG
*
64280956 TTCAGCTCTTATGAGCTTTCG
1 TTCAGCCCTTATGAGCTTTCG
* *
64280977 TTCAACCCTTACGAG-TTTCAG
1 TTCAGCCCTTATGAGCTTTC-G
* * *
64280998 TTTAGCACTTATGTGCTT
1 TTCAGCCCTTATGAGCTT
64281016 CTGTTTAGCC
Statistics
Matches: 59, Mismatches: 17, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.02
20 7 0.12
21 45 0.76
22 6 0.10
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (21 bp):
TTCAGCCCTTATGAGCTTTCG
Found at i:64280995 original size:42 final size:42
Alignment explanation
Indices: 64280882--64281015 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 42
64280872 TTTAACTCAC
* *
64280882 ATGAG-TTTCTGTTCAACCCTAATGGGTTTCCCTTCAGCTCTT
1 ATGAGCTTTC-GTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
* *
64280924 TTGAGCTTAT-GTTTAACCCTTATGGGTTTCCGTTCAGCTCTT
1 ATGAGCTT-TCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
* * * * *
64280966 ATGAGCTTTCGTTCAACCCTTACGAGTTTCAGTTTAGCACTT
1 ATGAGCTTTCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
*
64281008 ATGTGCTT
1 ATGAGCTT
64281016 CTGTTTAGCC
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 73 0.95
43 2 0.03
44 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
ATGAGCTTTCGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
Found at i:64284795 original size:20 final size:20
Alignment explanation
Indices: 64284749--64284795 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
64284739 TACGGACTAA
*
64284749 ATTGAAAAGATTTAAAATTT
1 ATTGAAAAAATTTAAAATTT
*
64284769 ATGGAAAAAATTCT-AAATTT
1 ATTGAAAAAATT-TAAAATTT
*
64284789 TTTGAAA
1 ATTGAAA
64284796 TACATGGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTGAAAAAATTTAAAATTT
Found at i:64285440 original size:74 final size:74
Alignment explanation
Indices: 64285323--64285462 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
64285313 CTCATGAGCA
* * * * *
64285323 TCTCGATATTTGGCTCTTATGAGCTTCCTATTATATGATTCTTACGAGCTTCCCGTTTACGGCTC
1 TCTCGATAATTGGCTCTTATGAGCTTCCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
64285388 TTCAGAGTT
66 TTCAGAGTT
* * *
64285397 TCTCGATAATTGGCTCTTCA-GAGCTTCCCGA-TAAATGGCTCTTATGAGCTTCCCGTTAATGGC
1 TCTCGATAATTGGCTCTT-ATGAGCTT-CCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGC
64285460 TCT
64 TCT
64285463 CTGGAGCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 52 0.93
75 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (74 bp):
TCTCGATAATTGGCTCTTATGAGCTTCCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
TTCAGAGTT
Found at i:64285460 original size:49 final size:48
Alignment explanation
Indices: 64285333--64285498 Score: 113
Period size: 49 Copynumber: 3.4 Consensus size: 48
64285323 TCTCGATATT
** ** **
64285333 TGGCTCTTATGAGCTTCCTATTATATGATTCTT-ACGAGCTTCCCGTTTA
1 TGGCTCTTATGAGCTTCCCGTTA-ATGGCTCTTCA-GAGCTTCCCGTAAA
* * * *
64285382 CGGCTCTTCA-GAGTTTCTCGATAATTGGCTCTTCAGAGCTTCCCGATAAA
1 TGGCTCTT-ATGAGCTTCCCGTTAA-TGGCTCTTCAGAGCTTCCCG-TAAA
* * *
64285432 TGGCTCTTATGAGCTTCCCGTTAATGGCTC-TCTGGAGCTTCCTGTTACA
1 TGGCTCTTATGAGCTTCCCGTTAATGGCTCTTC-AGAGCTTCCCG-TAAA
**
64285481 TGGCTCACATGAGCTTCC
1 TGGCTCTTATGAGCTTCC
64285499 TGCTATATGG
Statistics
Matches: 91, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
48 3 0.03
49 66 0.73
50 22 0.24
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (48 bp):
TGGCTCTTATGAGCTTCCCGTTAATGGCTCTTCAGAGCTTCCCGTAAA
Found at i:64285494 original size:25 final size:24
Alignment explanation
Indices: 64285299--64285551 Score: 109
Period size: 25 Copynumber: 10.2 Consensus size: 24
64285289 CGAAAGACCA
* * *
64285299 TCCCGTTATTAGCTCTCATGAGCA
1 TCCCGTTAATGGCTCTCATGAGCT
* * * *
64285323 TCTCGATATTTGGCTCTTATGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
** ** * *
64285348 TCCTATTATATGATTCTTACGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
* * *
64285373 TCCCGTTTACGGCTCTTCA-GAGTT
1 TCCCGTTAATGGCTC-TCATGAGCT
* *
64285397 TCTCGATAATTGGCTCTTCA-GAGCT
1 TCCCGTTAA-TGGCTC-TCATGAGCT
* *
64285422 TCCCGATAAATGGCTCTTATGAGCT
1 TCCCG-TTAATGGCTCTCATGAGCT
64285447 TCCCGTTAATGGCTCTC-TGGAGCT
1 TCCCGTTAATGGCTCTCAT-GAGCT
* *
64285471 TCCTGTTACATGGCTCACATGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
* * * ** * *
64285496 TCCTGCTATATGGATCGAAAGAACT
1 TCCCGTTA-ATGGCTCTCATGAGCT
64285521 TCCCGTTAATGTGCTCAT-ATGAGCAT
1 TCCCGTTAATG-GCTC-TCATGAGC-T
64285547 TCCCG
1 TCCCG
64285552 AATATGAATT
Statistics
Matches: 171, Mismatches: 47, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 47 0.27
25 114 0.67
26 9 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTCATGAGCT
Found at i:64288960 original size:63 final size:62
Alignment explanation
Indices: 64288873--64289011 Score: 156
Period size: 62 Copynumber: 2.2 Consensus size: 62
64288863 CGGTCTGGGT
* *
64288873 ACACGCCTGTGTCCCTGAACGTGTGGCTT-TTATACCACAAACAGTGAGTTACACGGCCTCAG-C
1 ACACGCCCGTGTCCCTGAACGTGTGG-TTCTT-TACCACAAACAGTGAATTACACGGCCT-AGAC
* * ** * * *
64288936 ACTCGCTCGTGTCCCTGGCCGTGTGGTTCTTTTCCTCAAACAGTGAATTGCACGGCCTAGAC
1 ACACGCCCGTGTCCCTGAACGTGTGGTTCTTTACCACAAACAGTGAATTACACGGCCTAGAC
64288998 ACACGCCCGTGTCC
1 ACACGCCCGTGTCC
64289012 GTTGCCTGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
61 2 0.03
62 38 0.60
63 23 0.37
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.25
Consensus pattern (62 bp):
ACACGCCCGTGTCCCTGAACGTGTGGTTCTTTACCACAAACAGTGAATTACACGGCCTAGAC
Found at i:64289953 original size:14 final size:13
Alignment explanation
Indices: 64289920--64289945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64289910 AGACTTTAAA
64289920 CACAAAACCAGAG
1 CACAAAACCAGAG
64289933 CACAAAACCAGAG
1 CACAAAACCAGAG
64289946 ATACAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.15, T:0.00
Consensus pattern (13 bp):
CACAAAACCAGAG
Found at i:64294271 original size:30 final size:30
Alignment explanation
Indices: 64294235--64294494 Score: 316
Period size: 30 Copynumber: 8.7 Consensus size: 30
64294225 GTATATGTTT
*
64294235 TATATATTGTCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
64294265 TATATATTGCCGAATTAATTT-T-TAT--A
1 TATATATTGCCGAATTGATTTGTATATGGA
*
64294291 TATATA--GCCGAATTGATTTGTATGTGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* **
64294319 TATACATTGTTGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
64294349 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
64294379 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
64294409 TATACATTACCGAATTGATTTGTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
64294439 TATATATTGCCGAAATAATTTGTATATGTATACA
1 TATATATTGCCGAATTGATTTGTATATG----GA
64294473 TATATATTGCCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
64294495 AGCATTGGAT
Statistics
Matches: 201, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
24 12 0.06
25 1 0.00
26 9 0.04
28 9 0.04
29 1 0.00
30 148 0.74
34 21 0.10
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:64294295 original size:24 final size:24
Alignment explanation
Indices: 64294264--64294309 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
64294254 TTGTATATGG
*
64294264 ATATATATTGCCGAATTAATTTTT
1 ATATATATAGCCGAATTAATTTTT
*
64294288 ATATATATAGCCGAATTGATTT
1 ATATATATAGCCGAATTAATTT
64294310 GTATGTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (24 bp):
ATATATATAGCCGAATTAATTTTT
Found at i:64303116 original size:42 final size:43
Alignment explanation
Indices: 64303057--64303191 Score: 122
Period size: 42 Copynumber: 3.2 Consensus size: 43
64303047 ATACCAACGC
* *
64303057 CCCAGAC-GTGTTCTTACATGTAATCAATATCGATGCC-ACTGT
1 CCCAGACAGGGTT-TTACATGAAATCAATATCGATGCCAACTGT
* *
64303099 CCCAGACAGGGTTTTACACGAAATCAAATAT-GATGCCGA-TGT
1 CCCAGACAGGGTTTTACATGAAATC-AATATCGATGCCAACTGT
*
64303141 CCCAGACATGGTCTTATACAT-AAATCTCAA-ATCGATGCCAAC-GT
1 CCCAGACAGGGT-TT-TACATGAAA--TCAATATCGATGCCAACTGT
64303185 CCCAGAC
1 CCCAGAC
64303192 GTGGTCTTAC
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
42 37 0.47
43 17 0.22
44 22 0.28
45 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CCCAGACAGGGTTTTACATGAAATCAATATCGATGCCAACTGT
Found at i:64303187 original size:44 final size:42
Alignment explanation
Indices: 64303078--64303200 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 42
64303068 TCTTACATGT
*
64303078 AATCAATATCGATGCCACTGTCCCAGACAGGGT-TT-TACACGA
1 AATCAA-ATCGATGCCAC-GTCCCAGACATGGTCTTATACACGA
* * *
64303120 AATCAAATATGATGCCGATGTCCCAGACATGGTCTTATACA-TA
1 AATCAAAT-CGATGCC-ACGTCCCAGACATGGTCTTATACACGA
*
64303163 AATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTA
1 AA--TCAAATCGATGCC-ACGTCCCAGACATGGTCTTA
64303201 CACGATAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.03
42 25 0.37
43 6 0.09
44 28 0.42
45 6 0.09
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
AATCAAATCGATGCCACGTCCCAGACATGGTCTTATACACGA
Found at i:64304372 original size:14 final size:15
Alignment explanation
Indices: 64304353--64304381 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64304343 TCACGAAACT
64304353 TTCACACAT-ATAAA
1 TTCACACATAATAAA
64304367 TTCACACATAATAAA
1 TTCACACATAATAAA
64304382 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:64305091 original size:30 final size:30
Alignment explanation
Indices: 64305066--64305358 Score: 316
Period size: 30 Copynumber: 9.4 Consensus size: 30
64305056 ATATATTTTT
* *
64305066 GAATTGATTTGTATATGGATATATATATTGTC
1 GAATTGATTTGTATATGG--ATATACATTGCC
* * *
64305098 GAATTAATTTGTATATAGATAAATATATATATAGCC
1 GAATTGATTTGTATAT-G---GATATACAT-T-GCC
* ***
64305134 GAATTGATTTGTATATGAATATACATTATT
1 GAATTGATTTGTATATGGATATACATTGCC
*
64305164 GAATTGATTTGTTTATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
64305194 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
*
64305224 AAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
64305254 GAATTGATTTGTATATAGATATACATTACC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
64305284 GAATTGATTTGTATATGTATATATATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
64305314 GAAATGATTTGTATATGTATACATATATATTGCC
1 GAATTGATTTGTATATG----GATATACATTGCC
64305348 GAATTGATTTG
1 GAATTGATTTG
64305359 AGCATTGGAT
Statistics
Matches: 226, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
30 152 0.67
31 1 0.00
32 23 0.10
33 1 0.00
34 30 0.13
35 2 0.01
36 17 0.08
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (30 bp):
GAATTGATTTGTATATGGATATACATTGCC
Found at i:64305580 original size:41 final size:40
Alignment explanation
Indices: 64305523--64305599 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 40
64305513 AGTGAAAAAA
**
64305523 CGTATAAGACCATGTCTGGGACATTGGCATCGTATATAATT
1 CGTATAAGACCATGTCTGGGACAGGGGCATCG-ATATAATT
64305564 CGTATAAGA-CACTGTCTGGGACAGGGGCATCGATAT
1 CGTATAAGACCA-TGTCTGGGACAGGGGCATCGATAT
64305600 GTGTTAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 6 0.18
41 27 0.82
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (40 bp):
CGTATAAGACCATGTCTGGGACAGGGGCATCGATATAATT
Found at i:64311256 original size:24 final size:24
Alignment explanation
Indices: 64311227--64311367 Score: 81
Period size: 24 Copynumber: 5.7 Consensus size: 24
64311217 TTATATAATA
*
64311227 GGAAGCTCATAAGAGCCATAATTG
1 GGAAGCTCATAAGAGCCATAATCG
**
64311251 GGAAGCTCATGCGAGCC-TATATCG
1 GGAAGCTCATAAGAGCCATA-ATCG
* *
64311275 GGAAGCTCCA-GAGAGCCATTAATCA
1 GGAAGCT-CATAAGAGCCA-TAATCG
* * **
64311300 GTAAGCTCATAAAAGAATCTTTAATCG
1 GGAAGCTCAT--AAG-AGCCATAATCG
* *
64311327 GGAAGCTC-TGGAGAGCCATATATTG
1 GGAAGCTCAT-AAGAGCCATA-ATCG
*
64311352 GGACGCTCATAAGAGC
1 GGAAGCTCATAAGAGC
64311368 TGCAGTGTGT
Statistics
Matches: 87, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
23 2 0.02
24 37 0.43
25 28 0.32
26 4 0.05
27 14 0.16
28 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:64311447 original size:24 final size:24
Alignment explanation
Indices: 64311413--64311479 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
64311403 AAATTGGGAT
*
64311413 GCTCATAAGAGCTATTAAC-GAGAA
1 GCTCATGAGAGCTATTAACAG-GAA
* **
64311437 GCTCATGAGAGCTATATATCAGGGT
1 GCTCATGAGAGCTAT-TAACAGGAA
64311462 GCTCATGAGAGCTATTAA
1 GCTCATGAGAGCTATTAA
64311480 TGGGACGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 16 0.44
25 19 0.53
26 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
GCTCATGAGAGCTATTAACAGGAA
Found at i:64316075 original size:126 final size:126
Alignment explanation
Indices: 64315850--64316088 Score: 442
Period size: 126 Copynumber: 1.9 Consensus size: 126
64315840 TTCACAATCT
*
64315850 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATTTTAATAA
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
*
64315915 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
66 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
* *
64315976 CAATATAAGATCCATTATAAATATCTTTTAAAACCAATGGATTAACCATTACAAGATATTAATAT
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
64316041 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAG
66 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAG
64316089 AATATATTTG
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (126 bp):
CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
Found at i:64320170 original size:22 final size:22
Alignment explanation
Indices: 64320145--64320216 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
64320135 TAGTAATAAT
*
64320145 ATAATAACGAAATGACAACAAA
1 ATAAAAACGAAATGACAACAAA
*
64320167 ATAAAAAAAACGAGATGACAACAAA
1 AT---AAAAACGAAATGACAACAAA
* * * *
64320192 ACAACAATGAAATGTCAACAAA
1 ATAAAAACGAAATGACAACAAA
64320214 ATA
1 ATA
64320217 GAAAGTTTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 20 0.51
25 19 0.49
ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12
Consensus pattern (22 bp):
ATAAAAACGAAATGACAACAAA
Found at i:64321289 original size:3 final size:3
Alignment explanation
Indices: 64321281--64321313 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
64321271 AGTACAAATG
64321281 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
64321314 GACAGGTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:64323044 original size:42 final size:42
Alignment explanation
Indices: 64322996--64323081 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
64322986 AAGTTTAATG
*
64322996 TATATAC-CGTGGAAGAAGAGTAATACAAATTGTTTACAACTC
1 TATATACAC-TGGAAGAAGAGGAATACAAATTGTTTACAACTC
64323038 TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
1 TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
64323080 TA
1 TA
64323082 GGAAGTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (42 bp):
TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
Found at i:64326681 original size:28 final size:28
Alignment explanation
Indices: 64326433--64326680 Score: 356
Period size: 28 Copynumber: 8.9 Consensus size: 28
64326423 GCTGTAACAA
* *
64326433 TGTGGGCCTGAGCCCAGTAACAGTA-CAG
1 TGTGGGCCTTAGCCCAAT-ACAGTATCAG
*
64326461 TGTGGGCCTTAGCCCAATACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* *
64326489 TGTGTGCCTTAGCCCAATACAATATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
*
64326517 TGTGGGCCTTAGCCTAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
64326545 TGTGGGCCTTAGCCCAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* *
64326573 TGTGGACTTTAGCCCAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* * *
64326601 TGTGGGCTTTAGCCCAATACAATATTAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
64326629 TGTGGGCCTTAGCCCAATACAGTAAT-AG
1 TGTGGGCCTTAGCCCAATACAGT-ATCAG
*
64326657 TGTGGGCCTTAACCCAATACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
64326681 ACCAATACAG
Statistics
Matches: 201, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
27 7 0.03
28 192 0.96
29 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTATCAG
Found at i:64326687 original size:12 final size:12
Alignment explanation
Indices: 64326670--64326704 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
64326660 GGGCCTTAAC
64326670 CCAATACAGTAA
1 CCAATACAGTAA
64326682 CCAATACAGTAA
1 CCAATACAGTAA
64326694 CCAATACAGTA
1 CCAATACAGTA
64326705 CAATAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.26, G:0.09, T:0.17
Consensus pattern (12 bp):
CCAATACAGTAA
Found at i:64326831 original size:26 final size:26
Alignment explanation
Indices: 64326801--64326864 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
64326791 AACACACTAA
*
64326801 TATCGCAGCATAACTGTCAGTAATAG
1 TATCGCAGCAAAACTGTCAGTAATAG
* *
64326827 TATCGCAACAAAACTGTCGGTAATAG
1 TATCGCAGCAAAACTGTCAGTAATAG
64326853 TATCGCAGCAAA
1 TATCGCAGCAAA
64326865 GCTGCCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAACTGTCAGTAATAG
Found at i:64327082 original size:26 final size:27
Alignment explanation
Indices: 64327020--64327222 Score: 220
Period size: 27 Copynumber: 7.6 Consensus size: 27
64327010 GGTATAACAA
* *
64327020 TCATTTTA-CCTGATGGGGGTATTTCGG
1 TCATTTTACCCT-TTGGGGGTATTTCAG
** *
64327047 TCATTTTACCCTTTGAAGGTATTT-TG
1 TCATTTTACCCTTTGGGGGTATTTCAG
* *
64327073 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTTTGGGGGTATTTCAG
64327100 TCATTTTA-CCTTATGGGGGTATTTCAG
1 TCATTTTACCCTT-TGGGGGTATTTCAG
* *
64327127 TCATTTTATCCTTTGGGGGTATTTCAA
1 TCATTTTACCCTTTGGGGGTATTTCAG
*
64327154 TCATTTTACCCTTTGGGGGTAGTTC-G
1 TCATTTTACCCTTTGGGGGTATTTCAG
* *
64327180 ATCATTTTACCATTT-GGGGAATTTCGAG
1 -TCATTTTACCCTTTGGGGGTATTTC-AG
64327208 -CATTTTACCCTTTGG
1 TCATTTTACCCTTTGG
64327223 CGACTTAGGT
Statistics
Matches: 151, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
26 46 0.30
27 97 0.64
28 8 0.05
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTTGGGGGTATTTCAG
Found at i:64327082 original size:53 final size:53
Alignment explanation
Indices: 64327020--64327222 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
64327010 GGTATAACAA
* ** *
64327020 TCATTTTA-CCTGATGGGGGTATTTCGGTCATTTTACCCTTTGAAGGTATTTTG
1 TCATTTTACCCT-ATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTAG
*
64327073 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTA-CCTTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTT-TGGGGGTATTT-AG
* * * * *
64327127 TCATTTTATCCTTTGGGGGTATTTCAATCATTTTACCCTTTGGGGGTAGTTCG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTAG
* * *
64327180 ATCATTTTACCAT-TTGGGGAATTTCGAG-CATTTTACCCTTTGG
1 -TCATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCCTTTGG
64327223 CGACTTAGGT
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
52 4 0.03
53 64 0.50
54 56 0.44
55 4 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTAG
Found at i:64327130 original size:80 final size:81
Alignment explanation
Indices: 64327019--64327221 Score: 245
Period size: 80 Copynumber: 2.5 Consensus size: 81
64327009 GGGTATAACA
* * **
64327019 ATCATTTTACCTGATGGGGGTATTTCGGTCATTTTACCCTTTGAAGGTATTT-TGTCATTTTACC
1 ATCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTACC
*
64327083 CTATGAGGGTATTTC-
66 CTATGAGGGTAGTTCG
* **
64327098 AGTCATTTTACCTTATGGGGGTATTTCAGTCATTTTATCCTTTGGGGGTATTTCAATCATTTTAC
1 A-TCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTAC
* *
64327163 CCTTTGGGGGTAGTTCG
65 CCTATGAGGGTAGTTCG
*
64327180 ATCATTTTACCATT-T-GGGGAATTTCGAG-CATTTTACCCTTTG
1 ATCATTTTACC-TTATGGGGGTATTTC-AGTCATTTTACCCTTTG
64327222 GCGACTTAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 68 0.64
81 35 0.33
82 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (81 bp):
ATCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTACC
CTATGAGGGTAGTTCG
Found at i:64332932 original size:22 final size:22
Alignment explanation
Indices: 64332907--64332963 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
64332897 GATTTTTATG
*
64332907 TTTTAAATATATTAATATATTA
1 TTTTAATTATATTAATATATTA
*
64332929 TTTT-ATTATA-AAATATATTA
1 TTTTAATTATATTAATATATTA
*
64332949 TATTATATTATATTA
1 TTTTA-ATTATATTA
64332964 TTATGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 12 0.43
21 5 0.18
22 10 0.36
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATTATATTAATATATTA
Found at i:64332945 original size:20 final size:22
Alignment explanation
Indices: 64332920--64332960 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
64332910 TAAATATATT
64332920 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
64332940 AATATATTATATTATATTATA
1 AATATATTATATTATATTATA
64332961 TTATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:64332956 original size:30 final size:28
Alignment explanation
Indices: 64332911--64332967 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
64332901 TTTATGTTTT
*
64332911 AAATATATTAATATATTATTTTATTATA
1 AAATATATTAATATATTATATTATTATA
64332939 AAATATATTATATTATATTATATTATTAT
1 AAATATATTA-A-TATATTATATTATTAT
64332968 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.38
29 1 0.04
30 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATATATTAATATATTATATTATTATA
Found at i:64334272 original size:45 final size:44
Alignment explanation
Indices: 64334199--64334348 Score: 171
Period size: 45 Copynumber: 3.4 Consensus size: 44
64334189 ATGTGCCGAC
* * *
64334199 TACTGTTACTGTTACCAATTTGTCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACTAATTCGT-ACTTTGTGTGTCGAATATTGT
* *
64334244 TTCTGTTACTGTTACTGATTCGATACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACTAATTCG-TACTTTGTGTGTCGAATATTGT
*
64334289 TACTGTTACTGTTAAC-AATTCGGCAC--TGTGTGTCGAATATTGT
1 TACTGTTACTGTT-ACTAATTC-GTACTTTGTGTGTCGAATATTGT
*
64334332 TACCGTTACTGATTACT
1 TACTGTTACTG-TTACT
64334349 GTTTACTGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
43 29 0.32
44 2 0.02
45 56 0.62
46 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.44
Consensus pattern (44 bp):
TACTGTTACTGTTACTAATTCGTACTTTGTGTGTCGAATATTGT
Found at i:64340357 original size:22 final size:22
Alignment explanation
Indices: 64340332--64340388 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 22
64340322 GATTTTTATG
*
64340332 TTTTAAATATATTAATATATTA
1 TTTTAATTATATTAATATATTA
*
64340354 TTTT-ATTATA-AAATATATTA
1 TTTTAATTATATTAATATATTA
*
64340374 TATTATATTATATTA
1 TTTTA-ATTATATTA
64340389 TTATGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 12 0.43
21 5 0.18
22 10 0.36
23 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAATTATATTAATATATTA
Found at i:64340370 original size:20 final size:22
Alignment explanation
Indices: 64340345--64340385 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
64340335 TAAATATATT
64340345 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
64340365 AATATATTATATTATATTATA
1 AATATATTATATTATATTATA
64340386 TTATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:64340381 original size:30 final size:28
Alignment explanation
Indices: 64340336--64340392 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
64340326 TTTATGTTTT
*
64340336 AAATATATTAATATATTATTTTATTATA
1 AAATATATTAATATATTATATTATTATA
64340364 AAATATATTATATTATATTATATTATTAT
1 AAATATATTA-A-TATATTATATTATTAT
64340393 GTAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.38
29 1 0.04
30 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AAATATATTAATATATTATATTATTATA
Found at i:64341696 original size:45 final size:45
Alignment explanation
Indices: 64341631--64341775 Score: 247
Period size: 45 Copynumber: 3.2 Consensus size: 45
64341621 ATGTGCCGAC
*
64341631 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
* *
64341676 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
64341721 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
64341766 TA-TCGTTACT
1 TACT-GTTACT
64341776 TATTACTGTT
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 1 0.01
45 93 0.99
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
Found at i:64350021 original size:11 final size:12
Alignment explanation
Indices: 64349997--64350022 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64349987 CCAAGCCCCG
64349997 TTTTTAATGTTT
1 TTTTTAATGTTT
64350009 TTTTTAATGTTT
1 TTTTTAATGTTT
64350021 TT
1 TT
64350023 AGAGTCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTAATGTTT
Found at i:64350795 original size:56 final size:50
Alignment explanation
Indices: 64350729--64351013 Score: 230
Period size: 50 Copynumber: 5.6 Consensus size: 50
64350719 GGGAATGAGA
* * * *
64350729 TCCCATGTAAGACCATGTCTGGTACATGGCATTGGCATTATTGAGGTTATGAGAAG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGC---ATTGA-G--ATGAGAGG
* * *
64350785 TCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCGAGATGAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* * *
64350835 TACCCTGTAAGACCATATCTGGGACATGGCATGGGCACTGAGATGAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* * *** * **
64350885 TCCCCCGTAAGACCGTGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
** * * ** * * * * **
64350935 TCCTATGTAAGACCATATCTGGGATATGGCATTAGCAGT-ACAAGAAACT
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
*
64350984 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCCTGTAAGACCATGTCTGGGACATGGC
64351014 TTTCGCATGT
Statistics
Matches: 191, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
49 32 0.17
50 121 0.63
52 1 0.01
53 4 0.02
56 33 0.17
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
Found at i:64350897 original size:100 final size:99
Alignment explanation
Indices: 64350777--64351021 Score: 269
Period size: 100 Copynumber: 2.5 Consensus size: 99
64350767 TATTGAGGTT
* ** *
64350777 ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCGAGATGAGAGGTACC-CT
1 ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCAAGATGAGAACT-CCTAT
* *
64350841 GTAAGACCATATCTGGGACATGGCATGGGCACTGAG
65 GTAAGACCATATCTGGGACATGGCATGAGCACT-AC
* * * * * * *
64350877 ATGAGAGGTCCCCCGTAAGACCGTGTCTGGGACATGGCATGGGCACCAATATGAGAACTCCTATG
1 ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCAAGATGAGAACTCCTATG
* * *
64350942 TAAGACCATATCTGGGATATGGCATTAGCAGTAC
66 TAAGACCATATCTGGGACATGGCATGAGCACTAC
* * * *
64350976 AAGA-AACTTCCCATGTAAGACCATGTCTGGGACATGGCTTTCGCAT
1 ATGAGAA-GTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCAT
64351022 GTTATTATCA
Statistics
Matches: 117, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
98 1 0.01
99 37 0.32
100 79 0.68
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (99 bp):
ATGAGAAGTCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCAAGATGAGAACTCCTATG
TAAGACCATATCTGGGACATGGCATGAGCACTAC
Found at i:64351230 original size:20 final size:20
Alignment explanation
Indices: 64351205--64351243 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
64351195 TGAGTTATTT
64351205 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
64351225 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
64351244 GAACAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:64355469 original size:56 final size:57
Alignment explanation
Indices: 64355383--64355496 Score: 212
Period size: 56 Copynumber: 2.0 Consensus size: 57
64355373 ACCCGGGTAA
*
64355383 GGCAAACATTGTTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAA-TTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
64355439 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
64355496 G
1 G
64355497 AATACTAGTT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 52 0.93
57 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (57 bp):
GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
Found at i:64358252 original size:50 final size:50
Alignment explanation
Indices: 64358194--64358317 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
64358184 AATTGAGGTT
* * * *
64358194 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
64358244 ATGAGAGGTCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
64358294 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCCTGTAAGACCAT
64358318 ATTTGGGATA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:64358604 original size:20 final size:20
Alignment explanation
Indices: 64358579--64358617 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
64358569 TGATTTATTT
64358579 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
64358599 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
64358618 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:64374332 original size:50 final size:50
Alignment explanation
Indices: 64374254--64374501 Score: 259
Period size: 50 Copynumber: 4.9 Consensus size: 50
64374244 GATAATAACA
* *
64374254 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATTTCTTGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTGT-ATCGG
* * * ** *
64374304 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTGTATCGG
* * * *
64374353 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTGTATCGG
* * *
64374403 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATG-ATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTCTTGTATC----GG
*
64374458 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCTCTT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
64374502 TACCCAAATG
Statistics
Matches: 166, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 39 0.23
50 79 0.48
51 2 0.01
52 4 0.02
54 5 0.03
55 2 0.01
56 34 0.20
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTTGTATCGG
Found at i:64374425 original size:99 final size:104
Alignment explanation
Indices: 64374253--64374500 Score: 346
Period size: 99 Copynumber: 2.4 Consensus size: 104
64374243 TGATAATAAC
* *
64374253 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATTTCTTGTGATGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGATGGTGCCCATGCCATGT
* *
64374318 CCCAGACATGGTCTTATA-GGGACCTCTC-ATC-T-CGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* * *
64374353 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGAT-GGTGCCCATGCCATG
64374416 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
64374458 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
64374501 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
98 1 0.01
99 74 0.57
100 10 0.08
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:64374616 original size:13 final size:13
Alignment explanation
Indices: 64374595--64374626 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64374585 GCTTGGATCA
*
64374595 TCATCAAATAAAT
1 TCATAAAATAAAT
64374608 TCATAAAATAAAT
1 TCATAAAATAAAT
64374621 TCATAA
1 TCATAA
64374627 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:64375586 original size:13 final size:13
Alignment explanation
Indices: 64375568--64375593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64375558 GCCCAAACGT
64375568 CGAAATTTTCAAA
1 CGAAATTTTCAAA
64375581 CGAAATTTTCAAA
1 CGAAATTTTCAAA
64375594 AAAATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:64381965 original size:50 final size:50
Alignment explanation
Indices: 64381841--64382089 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
64381831 GATAATAACA
* * ** * *
64381841 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
64381892 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
64381942 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
64381992 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
64382047 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
64382090 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:64382019 original size:100 final size:104
Alignment explanation
Indices: 64381840--64382089 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
64381830 TGATAATAAC
**
64381840 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
64381905 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
64381942 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
64382005 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
64382047 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
64382090 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:64382205 original size:13 final size:13
Alignment explanation
Indices: 64382184--64382215 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
64382174 GCTTGGATCA
*
64382184 TCATCAAATAAAT
1 TCATAAAATAAAT
64382197 TCATAAAATAAAT
1 TCATAAAATAAAT
64382210 TCATAA
1 TCATAA
64382216 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:64382462 original size:30 final size:30
Alignment explanation
Indices: 64382427--64382484 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
64382417 CTTCGACGCT
*
64382427 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
64382457 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
64382485 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:64383178 original size:13 final size:13
Alignment explanation
Indices: 64383160--64383185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64383150 GCCCAAACGT
64383160 CGAAATTTTCAAA
1 CGAAATTTTCAAA
64383173 CGAAATTTTCAAA
1 CGAAATTTTCAAA
64383186 AAAATCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Done.