Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 99 of 221
Found at i:30312691 original size:51 final size:50
Alignment explanation
Indices: 30312567--30312701 Score: 157
Period size: 50 Copynumber: 2.7 Consensus size: 50
30312557 CATAATGTGT
* * * *
30312567 TTTGCAT-TT-AATGAAGTCATGAATTATGAAACTCTTATGGTAGTTAAG
1 TTTGCATCTTAAATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAG
* * * * *
30312615 ATTGCATCATAAATTATGACATGCATTATGTAACTCTCATGATAGTTAATG
1 TTTGCATCTTAAATGAAGTCATGCATTATGTAACTCTCATGATAGTTAA-G
*
30312666 TTTGCATCTTAAATGAAGTCATGCATTAAGTAACTC
1 TTTGCATCTTAAATGAAGTCATGCATTATGTAACTC
30312702 ATTTGTTCAT
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
48 6 0.09
49 1 0.01
50 31 0.45
51 31 0.45
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (50 bp):
TTTGCATCTTAAATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAG
Found at i:30314157 original size:25 final size:25
Alignment explanation
Indices: 30314129--30314179 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30314119 TTGCTTCTAA
30314129 CTGACTGTTGGAAGTGTTCCTTATT
1 CTGACTGTTGGAAGTGTTCCTTATT
30314154 CTGACTGTTGGAAGTGTTCCTTATT
1 CTGACTGTTGGAAGTGTTCCTTATT
30314179 C
1 C
30314180 AGGTCCTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (25 bp):
CTGACTGTTGGAAGTGTTCCTTATT
Found at i:30314909 original size:18 final size:18
Alignment explanation
Indices: 30314876--30314910 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30314866 AAGAAATGAG
*
30314876 AGAAAAAGAAATTGAAAA
1 AGAAAAAGAAAGTGAAAA
*
30314894 AGAAAAAGAGAGTGAAA
1 AGAAAAAGAAAGTGAAA
30314911 GAAAGGAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.09
Consensus pattern (18 bp):
AGAAAAAGAAAGTGAAAA
Found at i:30314919 original size:27 final size:26
Alignment explanation
Indices: 30314854--30314919 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 26
30314844 AAAAGAATTT
* *
30314854 AAGAGAAGAAAAAAGAAATGAGAGAAA
1 AAGA-AAGGAAAAAGAAAAGAGAGAAA
* **
30314881 AAGAAATTGAAAAAGAAAAAGAGAGTGA
1 AAGAAA-GGAAAAAG-AAAAGAGAGAAA
30314909 AAGAAAGGAAA
1 AAGAAAGGAAA
30314920 GAGAGATTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.06
27 14 0.45
28 15 0.48
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (26 bp):
AAGAAAGGAAAAAGAAAAGAGAGAAA
Found at i:30317367 original size:22 final size:24
Alignment explanation
Indices: 30317342--30317386 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
30317332 CCATTAACCA
30317342 TTCAACTA-A-ATACCATTACAAG
1 TTCAACTATACATACCATTACAAG
* *
30317364 TTCACCTATACATGCCATTACAA
1 TTCAACTATACATACCATTACAA
30317387 CCTTGGGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (24 bp):
TTCAACTATACATACCATTACAAG
Found at i:30333624 original size:51 final size:50
Alignment explanation
Indices: 30333510--30333635 Score: 162
Period size: 51 Copynumber: 2.5 Consensus size: 50
30333500 TTTTGCGTTT
* * * *
30333510 AATGAATTCATGAATTATGAAACTCTCATGTTAGTTAAGTTTGCATCATA
1 AATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAGTTTGCATCATA
* * * *
30333560 AATTATGACATGCATTATGTAACTCTCATGATAGTTAATGTTTGCATCTTA
1 AATGAAGTCATGCATTATGTAACTCTCATGATAGTTAA-GTTTGCATCATA
*
30333611 AATGAAGTCATGCATTAAGTAACTC
1 AATGAAGTCATGCATTATGTAACTC
30333636 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 31 0.49
51 32 0.51
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (50 bp):
AATGAAGTCATGCATTATGTAACTCTCATGATAGTTAAGTTTGCATCATA
Found at i:30335190 original size:20 final size:20
Alignment explanation
Indices: 30335165--30335204 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30335155 AAATGCCTCT
30335165 AATGTCAAAACTTTTCAAGC
1 AATGTCAAAACTTTTCAAGC
30335185 AATGTCAAAACTTTTCAAGC
1 AATGTCAAAACTTTTCAAGC
30335205 GATTTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (20 bp):
AATGTCAAAACTTTTCAAGC
Found at i:30337807 original size:8 final size:8
Alignment explanation
Indices: 30337779--30337808 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30337769 TGATAAATTG
*
30337779 TTGAATTT
1 TTGATTTT
30337787 TTGATTTT
1 TTGATTTT
30337795 TTGATTTT
1 TTGATTTT
30337803 TTGATT
1 TTGATT
30337809 GATATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (8 bp):
TTGATTTT
Found at i:30343727 original size:4 final size:4
Alignment explanation
Indices: 30343710--30343746 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
30343700 CCAATCTTTG
*
30343710 ATTT ATTG ATTT ATTT ATCTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATTT
30343747 CTTTTATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:30343736 original size:21 final size:21
Alignment explanation
Indices: 30343710--30343755 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
30343700 CCAATCTTTG
30343710 ATTTATTGATTTATTTATCTT
1 ATTTATTGATTTATTTATCTT
* * *
30343731 ATTTATTTATTTATTTCTTTT
1 ATTTATTGATTTATTTATCTT
30343752 ATTT
1 ATTT
30343756 GACTTGGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (21 bp):
ATTTATTGATTTATTTATCTT
Found at i:30343755 original size:17 final size:17
Alignment explanation
Indices: 30343712--30343744 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30343702 AATCTTTGAT
*
30343712 TTATTGATTTATTTATC
1 TTATTTATTTATTTATC
30343729 TTATTTATTTATTTAT
1 TTATTTATTTATTTAT
30343745 TTCTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TTATTTATTTATTTATC
Found at i:30345532 original size:9 final size:9
Alignment explanation
Indices: 30345518--30345543 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30345508 CCAAGTGCTA
30345518 AAAGGTAAG
1 AAAGGTAAG
30345527 AAAGGTAAG
1 AAAGGTAAG
30345536 AAAGGTAA
1 AAAGGTAA
30345544 TAAAACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.31, T:0.12
Consensus pattern (9 bp):
AAAGGTAAG
Found at i:30367198 original size:19 final size:19
Alignment explanation
Indices: 30367170--30367211 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30367160 TGAGAGCTAA
*
30367170 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
* *
30367189 GAGAGATGAGAGGGATGAT
1 GAGAGATGAGAGAGAGGAT
30367208 GAGA
1 GAGA
30367212 TGAGGGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.48, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:30367201 original size:15 final size:16
Alignment explanation
Indices: 30367176--30367228 Score: 69
Period size: 15 Copynumber: 3.5 Consensus size: 16
30367166 CTAAGAGAGT
30367176 TGAGA-GAGAGGATGA
1 TGAGATGAGAGGATGA
30367191 -GAGATGAGAGGGATGA
1 TGAGATGAGA-GGATGA
30367207 TGAGATGAG-GGATGA
1 TGAGATGAGAGGATGA
30367222 TG-GATGA
1 TGAGATGA
30367229 TGGATAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.26
15 12 0.34
16 6 0.17
17 8 0.23
ACGTcount: A:0.36, C:0.00, G:0.47, T:0.17
Consensus pattern (16 bp):
TGAGATGAGAGGATGA
Found at i:30369325 original size:29 final size:28
Alignment explanation
Indices: 30369289--30369366 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
30369279 TCATGAGATT
30369289 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
30369319 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
30369346 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
30369367 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:30369584 original size:174 final size:174
Alignment explanation
Indices: 30369319--30369646 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
30369309 AAATTGTACA
30369319 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
30369384 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
30369449 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
30369493 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
30369558 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGTGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
30369623 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
30369647 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:30373667 original size:20 final size:19
Alignment explanation
Indices: 30373644--30373708 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
30373634 AAGCTCAAAC
30373644 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
30373664 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
30373684 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
30373704 GAGCT
1 GAGCT
30373709 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:30374996 original size:17 final size:18
Alignment explanation
Indices: 30374974--30375007 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30374964 ACAACACTCC
*
30374974 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
30374991 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
30375008 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:30376080 original size:32 final size:29
Alignment explanation
Indices: 30376033--30376109 Score: 100
Period size: 32 Copynumber: 2.6 Consensus size: 29
30376023 CTCGCAAGAC
*
30376033 TTTTCACTTTTTTTTTAACTTGATTTTTT
1 TTTTCACTTTTTTTTTAACTCGATTTTTT
**
30376062 TTTGGTCACCTTTTTTTTTTGCTCGATTTTTT
1 TTT--TCA-CTTTTTTTTTAACTCGATTTTTT
30376094 TTTTCACTTTTTTTTT
1 TTTTCACTTTTTTTTT
30376110 GAATTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 13 0.31
30 3 0.07
31 3 0.07
32 23 0.55
ACGTcount: A:0.09, C:0.13, G:0.06, T:0.71
Consensus pattern (29 bp):
TTTTCACTTTTTTTTTAACTCGATTTTTT
Found at i:30376104 original size:12 final size:12
Alignment explanation
Indices: 30376089--30376125 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
30376079 TTTGCTCGAT
*
30376089 TTTTTTTTTCAC
1 TTTTTTTTTCAA
*
30376101 TTTTTTTTTGAA
1 TTTTTTTTTCAA
30376113 TTTTTTTTTCAA
1 TTTTTTTTTCAA
30376125 T
1 T
30376126 CAAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:30377794 original size:20 final size:19
Alignment explanation
Indices: 30377771--30377835 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
30377761 AAGCTCAAAC
30377771 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
30377791 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
30377811 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
30377831 GAGCT
1 GAGCT
30377836 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:30382999 original size:24 final size:25
Alignment explanation
Indices: 30382940--30382999 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
30382930 CGATACTCAA
* * *
30382940 CTCGTATGAGCTTACCGTTATTCAG
1 CTCGAATGAGCTTACCATTATACAG
*
30382965 CTC-AGAGGAGCTTACCATTA-ACAG
1 CTCGA-ATGAGCTTACCATTATACAG
30382989 CTCGAATGAGC
1 CTCGAATGAGC
30383000 ATACATGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (25 bp):
CTCGAATGAGCTTACCATTATACAG
Found at i:30391061 original size:27 final size:27
Alignment explanation
Indices: 30391030--30391207 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30391020 TAAATTGTAC
30391030 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30391057 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30391083 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30391111 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30391139 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30391166 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30391193 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30391208 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30391144 original size:82 final size:81
Alignment explanation
Indices: 30391031--30391186 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30391021 AAATTGTACA
* *
30391031 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30391095 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30391112 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30391177 TGCGAGTTGA
65 TGCGAATTGA
30391187 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30391198 original size:82 final size:81
Alignment explanation
Indices: 30391027--30391207 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30391017 GATTAAATTG
* *
30391027 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30391092 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30391108 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30391172 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30391190 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30391208 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30413481 original size:18 final size:16
Alignment explanation
Indices: 30413458--30413513 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 16
30413448 AACTAGCTTC
30413458 TTTTTTTTTCACGAAAAT
1 TTTTTTTTTCACG--AAT
30413476 TTTTTTTTTCACGAA-
1 TTTTTTTTTCACGAAT
30413491 -TTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAT
30413506 TTTTTTTT
1 TTTTTTTT
30413514 CAACTTGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.39
16 9 0.25
18 13 0.36
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTCACGAAT
Found at i:30413585 original size:10 final size:11
Alignment explanation
Indices: 30413553--30413583 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
30413543 ATGGAAACCA
30413553 ATTTTTTTTTG
1 ATTTTTTTTTG
30413564 ATTTTTTTTTG
1 ATTTTTTTTTG
30413575 ATTTTTTTT
1 ATTTTTTTT
30413584 GAAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (11 bp):
ATTTTTTTTTG
Found at i:30416359 original size:15 final size:13
Alignment explanation
Indices: 30416331--30416370 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 13
30416321 AACTAGCTTC
30416331 TTTTTTTCACAAT
1 TTTTTTTCACAAT
30416344 TTTTTTTCACGAAAT
1 TTTTTTTCAC--AAT
30416359 TTTTTTTCACAA
1 TTTTTTTCACAA
30416371 CTTGTTATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.25, C:0.15, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTTTTTCACAAT
Found at i:30417955 original size:13 final size:13
Alignment explanation
Indices: 30417937--30417962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30417927 CGTGTATGAC
30417937 ACATGGCCATGTG
1 ACATGGCCATGTG
30417950 ACATGGCCATGTG
1 ACATGGCCATGTG
30417963 TTCCACGTAT
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCATGTG
Found at i:30421401 original size:22 final size:22
Alignment explanation
Indices: 30421373--30421438 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
30421363 AAGGTGGAAG
*
30421373 TTATGTGGTAGCTTATCTG-TGA
1 TTATGTGGTAGCTTATC-GATAA
*
30421395 TTATGTGGTCG-TTATCGATAA
1 TTATGTGGTAGCTTATCGATAA
* * *
30421416 TTATGTGGTGGCTTGTCCATAA
1 TTATGTGGTAGCTTATCGATAA
30421438 T
1 T
30421439 GTGTTATCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 17 0.46
22 19 0.51
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.44
Consensus pattern (22 bp):
TTATGTGGTAGCTTATCGATAA
Found at i:30421470 original size:48 final size:48
Alignment explanation
Indices: 30421390--30421482 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
30421380 GTAGCTTATC
* * *
30421390 TGTGATTATGTGGTCGTTATCGATAATTATGTGGTGGCTTGTCCATAA
1 TGTGATTATCTGGTCGTTATCGACAATTATGTGCTGGCTTGTCCATAA
* * *
30421438 TGTG-TTATCTGGTCGTTTATCGGCATTTATGTGCTGGTTTGTCCA
1 TGTGATTATCTGGTCG-TTATCGACAATTATGTGCTGGCTTGTCCA
30421483 CATATGGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 10 0.26
48 28 0.74
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.44
Consensus pattern (48 bp):
TGTGATTATCTGGTCGTTATCGACAATTATGTGCTGGCTTGTCCATAA
Found at i:30423388 original size:23 final size:23
Alignment explanation
Indices: 30423361--30423453 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
30423351 CAAAAGAGGT
30423361 TAATCAAAATACACCA-AACAGGC
1 TAATCAAAATACACCACAA-AGGC
* * *
30423384 TAATCAGAGTACAGCACAAAGGC
1 TAATCAAAATACACCACAAAGGC
* *** *
30423407 TAATCAGAATGTGCCACAAAGTC
1 TAATCAAAATACACCACAAAGGC
*
30423430 TAATCAAAATACGCCACAAAGGC
1 TAATCAAAATACACCACAAAGGC
30423453 T
1 T
30423454 CTATTTCGAT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 54 0.96
24 2 0.04
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (23 bp):
TAATCAAAATACACCACAAAGGC
Found at i:30425764 original size:20 final size:21
Alignment explanation
Indices: 30425729--30425767 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30425719 CAGCTCGTTG
30425729 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
30425750 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
30425768 TCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:30426175 original size:13 final size:13
Alignment explanation
Indices: 30426157--30426182 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30426147 TGTGTCCTAA
30426157 TATGAATTAAATT
1 TATGAATTAAATT
30426170 TATGAATTAAATT
1 TATGAATTAAATT
30426183 GCTTTCAGGT
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:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:30428865 original size:55 final size:54
Alignment explanation
Indices: 30428770--30428919 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
30428760 CTACTTTGTT
* ** * *
30428770 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
30428824 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
30428879 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
30428920 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:30428882 original size:27 final size:27
Alignment explanation
Indices: 30428742--30428919 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
30428732 TAAATTGTAC
30428742 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
30428769 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
30428795 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
30428823 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
30428851 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
30428878 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
30428905 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30428920 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:30428883 original size:82 final size:81
Alignment explanation
Indices: 30428743--30428898 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
30428733 AAATTGTACA
* * * *
30428743 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
30428808 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
30428824 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
30428887 TGTGCGAGTTGA
63 TGTGCGAATTGA
30428899 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:30436868 original size:55 final size:54
Alignment explanation
Indices: 30436773--30436922 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
30436763 CTACTTTGTT
* ** * *
30436773 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
30436827 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
30436882 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
30436923 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:30436885 original size:27 final size:27
Alignment explanation
Indices: 30436745--30436922 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
30436735 TAAATTGTAC
30436745 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
30436772 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
30436798 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
30436826 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
30436854 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
30436881 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
30436908 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30436923 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:30436886 original size:82 final size:81
Alignment explanation
Indices: 30436746--30436901 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
30436736 AAATTGTACA
* * * *
30436746 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
30436811 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
30436827 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
30436890 TGTGCGAGTTGA
63 TGTGCGAATTGA
30436902 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:30439198 original size:39 final size:39
Alignment explanation
Indices: 30439144--30439480 Score: 421
Period size: 39 Copynumber: 8.6 Consensus size: 39
30439134 TCTATAAACA
* * *
30439144 TGATTATATGTGTATTGTGACATATGCTTGAATTTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
*
30439183 TGATTATATGAGTATTATGATATATGCTTGAATGTT-T-
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
30439220 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* *
30439259 AGATTATATGAGTATTGTGATATATGCTTGAATGTTAAG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* *
30439298 TGATTATATGTGTATTGGTGATATATGCCT-ACATGTTATG
1 TGATTATATGAGTATT-GTGATATATGCTTGA-ATGTTATG
* *
30439338 TTATTGTATGAGTATTGTGATATATGCTTGAATGTTATG
1 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * *
30439377 TGATTATATGTGTATTAGTGATATATGCCTAAATGTTATG
1 TGATTATATGAGTATT-GTGATATATGCTTGAATGTTATG
* * * *
30439417 TGATTCTATGTA-TATTGTGATATATGCTTAAATGTTCTA
1 TGATTATATG-AGTATTGTGATATATGCTTGAATGTTATG
* * * *
30439456 CGATTATATGTGTAATGCGATATAT
1 TGATTATATGAGTATTGTGATATAT
30439481 ACTTAAAAGT
Statistics
Matches: 260, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
37 35 0.13
38 2 0.01
39 156 0.60
40 67 0.26
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (39 bp):
TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
Found at i:30439350 original size:79 final size:78
Alignment explanation
Indices: 30439144--30439480 Score: 432
Period size: 79 Copynumber: 4.3 Consensus size: 78
30439134 TCTATAAACA
* * * *
30439144 TGATTATATGTGTATTGTGACATATGCTTGAATTTTATGTGATTATATGAGTATTATGATATATG
1 TGATTATATGTGTATTGTGATATATGCCTGAATGTTATGTGATTATATGAGTATTGTGATATATG
*
30439209 CTTGAATGTT--T
66 CTTGAATGTTAAG
* * *
30439220 TGATTATATGAGTATTGTGATATATGCTTGAATGTTATGAGATTATATGAGTATTGTGATATATG
1 TGATTATATGTGTATTGTGATATATGCCTGAATGTTATGTGATTATATGAGTATTGTGATATATG
30439285 CTTGAATGTTAAG
66 CTTGAATGTTAAG
* *
30439298 TGATTATATGTGTATTGGTGATATATGCCT-ACATGTTATGTTATTGTATGAGTATTGTGATATA
1 TGATTATATGTGTATT-GTGATATATGCCTGA-ATGTTATGTGATTATATGAGTATTGTGATATA
*
30439362 TGCTTGAATGTTATG
64 TGCTTGAATGTTAAG
* *
30439377 TGATTATATGTGTATTAGTGATATATGCCTAAATGTTATGTGATTCTATGTA-TATTGTGATATA
1 TGATTATATGTGTATT-GTGATATATGCCTGAATGTTATGTGATTATATG-AGTATTGTGATATA
* *
30439441 TGCTTAAATGTTCTA-
64 TGCTTGAATGTT-AAG
* * *
30439456 CGATTATATGTGTAATGCGATATAT
1 TGATTATATGTGTATTGTGATATAT
30439481 ACTTAAAAGT
Statistics
Matches: 233, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
76 70 0.30
78 24 0.10
79 137 0.59
80 2 0.01
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (78 bp):
TGATTATATGTGTATTGTGATATATGCCTGAATGTTATGTGATTATATGAGTATTGTGATATATG
CTTGAATGTTAAG
Found at i:30439383 original size:118 final size:114
Alignment explanation
Indices: 30439144--30439480 Score: 431
Period size: 118 Copynumber: 2.9 Consensus size: 114
30439134 TCTATAAACA
* * * *
30439144 TGATTATATGTGTATTGTGACATATGCTTGAATTTTATGTGATTATATGAGTATTATGATATATG
1 TGATTATATGTGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTGTATTGTGATATATG
30439209 CTTGAATGTTTTGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
66 CTT-AATGTTTTGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * *
30439259 AGATTATATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATAT
1 TGATTATATGTGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTGTATT-GTGATATAT
* * *
30439324 GCCTACATGTTATGTTATTGTATGAGTATTGTGATATATGCTTGAATGTTATG
65 GCTTA-ATGTT-T-TGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
* * * *
30439377 TGATTATATGTGTATTAGTGATATATGCCTAAATGTTATGTGATTCTATGTATATTGTGATATAT
1 TGATTATATGTGTATT-GTGATATATGCTTGAATGTTATGTGATTATATGTGTATTGTGATATAT
* * * *
30439442 GCTTAAATGTTCTACGATTATATGTGTAATGCGATATAT
65 GCTT-AATGTT-T-TGATTATATGAGTATTGTGATATAT
30439481 ACTTAAAAGT
Statistics
Matches: 190, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
115 50 0.26
116 16 0.08
117 1 0.01
118 88 0.46
119 35 0.18
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.46
Consensus pattern (114 bp):
TGATTATATGTGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTGTATTGTGATATATG
CTTAATGTTTTGATTATATGAGTATTGTGATATATGCTTGAATGTTATG
Found at i:30442893 original size:49 final size:49
Alignment explanation
Indices: 30442774--30442960 Score: 248
Period size: 49 Copynumber: 3.8 Consensus size: 49
30442764 CAAAACTCCA
* * * *
30442774 TTTGTGGACAAGCCACCACTGATTTGCAGAGAAACTACCACTGATAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGA-AACAC
* *
30442824 TTTGTGGACAAGCCACCACTGATATGCAAATATACTGCCACTGAAGCAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
** *
30442873 TTTAAGGACAAGCCACCACTGATATGCAGATCTACTGCCACTGAAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
** * *
30442922 TTTGTGGGTAAGCCAGCACTGATATGCAGATCTACTGCC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCC
30442961 CACTTACTTC
Statistics
Matches: 121, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
49 82 0.68
50 39 0.32
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
Found at i:30448499 original size:50 final size:50
Alignment explanation
Indices: 30448441--30448580 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 50
30448431 TATTGAGGTT
* * *
30448441 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
** * *
30448491 ATGAGAGGTCCCCCGTATA-ACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTA-AGACCATGTCTGGGACATGGCATGAGCACCGAG
** * * *
30448541 ATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
30448581 TGGTAGTACA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 72 0.97
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
Found at i:30456841 original size:6 final size:6
Alignment explanation
Indices: 30456830--30456856 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30456820 GTCAAAACCA
30456830 TTCCTT TTCCTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTC
30456857 ATAGATGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCCTT
Found at i:30462320 original size:19 final size:18
Alignment explanation
Indices: 30462285--30462321 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
30462275 TGATATATAT
30462285 GTTAAATTAAATAAAAAG
1 GTTAAATTAAATAAAAAG
30462303 GTTAATATTACAATAAAAA
1 GTTAA-ATTA-AATAAAAA
30462322 CAAAAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (18 bp):
GTTAAATTAAATAAAAAG
Found at i:30466599 original size:20 final size:22
Alignment explanation
Indices: 30466561--30466600 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
30466551 AATACAAGTA
30466561 TTTTCATTATGTTTGAGTTAAG
1 TTTTCATTATGTTTGAGTTAAG
*
30466583 TTTTC-TTA-GTTTTAGTTA
1 TTTTCATTATGTTTGAGTTA
30466601 TATTCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 3 0.18
22 5 0.29
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (22 bp):
TTTTCATTATGTTTGAGTTAAG
Found at i:30470256 original size:33 final size:33
Alignment explanation
Indices: 30470214--30470487 Score: 197
Period size: 33 Copynumber: 7.5 Consensus size: 33
30470204 ATCAGTGGAT
30470214 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* * *
30470247 TCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAA
*
30470289 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* *
30470322 TCAGCACTTAGCAATCCCCTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-GGAA
* *
30470364 TCAACACTTAGCAACCACCAATGACTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* *
30470397 TCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAA
* *
30470439 TCAGAACTTAGCAACCACCAATGAATCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
30470472 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
30470488 CCCTTTATAT
Statistics
Matches: 191, Mismatches: 23, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
33 73 0.38
34 12 0.06
35 3 0.02
36 12 0.06
37 3 0.02
38 3 0.02
39 13 0.07
40 3 0.02
41 12 0.06
42 57 0.30
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
Found at i:30470345 original size:75 final size:75
Alignment explanation
Indices: 30470208--30470489 Score: 485
Period size: 75 Copynumber: 3.8 Consensus size: 75
30470198 TCCATTATCA
* *
30470208 GTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
30470273 TTAAGATACG
66 TTAAGATACG
* *
30470283 GTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAATCCCC-TTCACA
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCCTTTCACA
30470347 TTTAAGATACG
65 TTTAAGATACG
* *
30470358 GTGGAATCAACACTTAGCAACCACCAATGACTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
30470423 TTAAGATACG
66 TTAAGATACG
*
30470433 GTGGAATCAGAACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC
30470490 CTTTATATTC
Statistics
Matches: 196, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
74 4 0.02
75 188 0.96
76 4 0.02
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (75 bp):
GTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
TTAAGATACG
Found at i:30470377 original size:42 final size:41
Alignment explanation
Indices: 30470318--30470454 Score: 141
Period size: 42 Copynumber: 3.5 Consensus size: 41
30470308 AATGATTCGG
*
30470318 GGAATCAGCACTTAGCAATCCCCTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAA-CCCCTTCACATTTAAGATACGGT
*
30470360 GGAATCAACACTTAGCAACCAC--CA-A--T--GACT-CGG-
1 GGAATCAACACTTAGCAACCCCTTCACATTTAAGA-TACGGT
*
30470393 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAACACTTAGCAACCCC-TTCACATTTAAGATACGGT
30470435 GGAATCAGA-ACTTAGCAACC
1 GGAATCA-ACACTTAGCAACC
30470455 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
33 20 0.26
34 5 0.06
35 1 0.01
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 1 0.01
41 8 0.10
42 35 0.45
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCCCTTCACATTTAAGATACGGT
Found at i:30477349 original size:57 final size:57
Alignment explanation
Indices: 30477261--30477373 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
30477251 TCAAACAATA
30477261 TTCTCATTTGCTTATATTAAAAATAGACTCATTACGGAATCCAAACATATAAATTTG
1 TTCTCATTTGCTTATATTAAAAATAGACTCATTACGGAATCCAAACATATAAATTTG
30477318 TTCTCATTTGCTTATATTAAAAATAGACTCATTACGGAATCCAAACATATAAATTT
1 TTCTCATTTGCTTATATTAAAAATAGACTCATTACGGAATCCAAACATATAAATTT
30477374 AGGCCATAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (57 bp):
TTCTCATTTGCTTATATTAAAAATAGACTCATTACGGAATCCAAACATATAAATTTG
Found at i:30477853 original size:26 final size:26
Alignment explanation
Indices: 30477824--30477873 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
30477814 AAATGAGTCA
*
30477824 GGGAATCAGCACTTAGCAACCCCTCG
1 GGGAATCAGAACTTAGCAACCCCTCG
30477850 GGGAATCAGAACTTAGCAACCCCT
1 GGGAATCAGAACTTAGCAACCCCT
30477874 TTCACATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (26 bp):
GGGAATCAGAACTTAGCAACCCCTCG
Found at i:30477910 original size:42 final size:42
Alignment explanation
Indices: 30477851--30477987 Score: 175
Period size: 42 Copynumber: 3.5 Consensus size: 42
30477841 AACCCCTCGG
30477851 GGAATCAGAACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGAACTTAGCAACCCCTTTCACATTTAAGATACGGT
* * *
30477893 GGAATCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-
1 GGAATCAGAACTTAGCAACCCCTTTCACATTTAAGATACGGT
*
30477926 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGAACTTAGCAACCCCTTTCACATTTAAGATACGGT
30477968 GGAATCAGAACTTAGCAACC
1 GGAATCAGAACTTAGCAACC
30477988 ACTAATGAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
33 21 0.26
34 3 0.04
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 3 0.04
42 39 0.49
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (42 bp):
GGAATCAGAACTTAGCAACCCCTTTCACATTTAAGATACGGT
Found at i:30477935 original size:33 final size:33
Alignment explanation
Indices: 30477893--30478020 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 33
30477883 AAGATACGGT
30477893 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* *
30477926 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG
* * * *
30477967 TGGAATCAGAACTTAGCAACCACTAATGAATCAG
1 -GGAATCAGCACTTAGCAACCACCAATGAGTCGG
30478001 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
30478021 CCCTTTATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
33 40 0.52
34 2 0.03
35 1 0.01
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 1 0.01
41 3 0.04
42 20 0.26
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTCGG
Found at i:30477970 original size:75 final size:75
Alignment explanation
Indices: 30477847--30478022 Score: 307
Period size: 75 Copynumber: 2.3 Consensus size: 75
30477837 TAGCAACCCC
* *
30477847 TCGGGGAATCAGAACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGAACTTAGCAAC
*
30477912 CACCAATGAG
66 CACCAATGAA
30477922 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGAACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGAACTTAGCAAC
*
30477987 CACTAATGAA
66 CACCAATGAA
*
30477997 TCAGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
30478023 CTTTATATTC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (75 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGAACTTAGCAAC
CACCAATGAA
Found at i:30484545 original size:23 final size:23
Alignment explanation
Indices: 30484516--30484565 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
30484506 TACAGTAGTA
*
30484516 CAGATAAACTGCTAATAAATATG
1 CAGATAAACTGCCAATAAATATG
30484539 CAGATAAACTGCCAATAAATATG
1 CAGATAAACTGCCAATAAATATG
30484562 CAGA
1 CAGA
30484566 CAAGCAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (23 bp):
CAGATAAACTGCCAATAAATATG
Found at i:30484577 original size:23 final size:23
Alignment explanation
Indices: 30484529--30484577 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30484519 ATAAACTGCT
* *
30484529 AATAAATATGCAGATAAACTGCC
1 AATAAATATGCAGACAAACAGCC
* *
30484552 AATAAATATGCAGACAAGCAGTC
1 AATAAATATGCAGACAAACAGCC
30484575 AAT
1 AAT
30484578 TTCGTGGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (23 bp):
AATAAATATGCAGACAAACAGCC
Found at i:30484909 original size:41 final size:40
Alignment explanation
Indices: 30484863--30484960 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 40
30484853 GACATGTTTT
* **
30484863 ACATGCTTACGGTAACATATTCAATTCAATGGCATGGTTAA
1 ACATGCTTATGGTAACATATTCAATTCAATGGCATGCCT-A
* * * * *
30484904 ACATGCTCATAGTAACATATTCAGTTTAATGGCGTGCCTA
1 ACATGCTTATGGTAACATATTCAATTCAATGGCATGCCTA
30484944 ACATGCTTATGGTAACA
1 ACATGCTTATGGTAACA
30484961 GTTTTAGTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 16 0.34
41 31 0.66
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (40 bp):
ACATGCTTATGGTAACATATTCAATTCAATGGCATGCCTA
Found at i:30487392 original size:25 final size:24
Alignment explanation
Indices: 30487335--30487407 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
30487325 CTTCATTCAA
* *
30487335 ACGTCCCATAAAGGACTTTC--AT
1 ACGTCCCATAAAGGGCTCTCATAT
* *
30487357 ACATCCGATAAAGGGGCTCTCATAT
1 ACGTCCCATAAA-GGGCTCTCATAT
*
30487382 ACGTCCCATAAAGGGCACTCATAT
1 ACGTCCCATAAAGGGCTCTCATAT
30487406 AC
1 AC
30487408 TGGCACCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 13 0.32
25 12 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (24 bp):
ACGTCCCATAAAGGGCTCTCATAT
Found at i:30499647 original size:19 final size:20
Alignment explanation
Indices: 30499600--30499660 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
30499590 GAAAATCATT
*
30499600 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
30499620 TTGAAATCATTTTGACTTG-
1 TTAAAATCATTTTAACTTGA
**
30499639 TTAAAATCATTTGCACTTGA
1 TTAAAATCATTTTAACTTGA
30499659 TT
1 TT
30499661 TTAAAATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:30502714 original size:22 final size:22
Alignment explanation
Indices: 30502689--30502749 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
30502679 TGATAATGAA
**
30502689 ATTTTAATATAATTGTA-AAAAT
1 ATTTTAAT-TAATCATATAAAAT
*
30502711 ATTTTAATTAATCATATTAAAT
1 ATTTTAATTAATCATATAAAAT
30502733 ATTTTAATTAATCATAT
1 ATTTTAATTAATCATAT
30502750 TTTAAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 6 0.17
22 29 0.83
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTTAATTAATCATATAAAAT
Found at i:30502750 original size:22 final size:22
Alignment explanation
Indices: 30502707--30502750 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30502697 ATAATTGTAA
30502707 AAATATTTTAATTAATCATATT
1 AAATATTTTAATTAATCATATT
30502729 AAATATTTTAATTAATCATATT
1 AAATATTTTAATTAATCATATT
30502751 TTAAAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATTTTAATTAATCATATT
Found at i:30504474 original size:4 final size:4
Alignment explanation
Indices: 30504465--30504508 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
30504455 GGATCCCTTA
30504465 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
30504509 CATGCATGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:30520064 original size:27 final size:27
Alignment explanation
Indices: 30519980--30520064 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
30519970 ATTTTCAATG
* * * * *
30519980 GACTATCCCATGTTTATTGTCCCAACA
1 GACTACCCCGTGTTTACTGTCCCGATA
** ** * *
30520007 GACTACGTCGTGTTTACTGTCTTGGTG
1 GACTACCCCGTGTTTACTGTCCCGATA
30520034 GACTACCCCGTGTTTACTGTCCCGATA
1 GACTACCCCGTGTTTACTGTCCCGATA
30520061 GACT
1 GACT
30520065 TTATTGGTCT
Statistics
Matches: 41, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (27 bp):
GACTACCCCGTGTTTACTGTCCCGATA
Found at i:30521600 original size:25 final size:27
Alignment explanation
Indices: 30521572--30521621 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
30521562 ATTAAGTATT
*
30521572 AAACAATA-ACTTAA-AACACTCATAA
1 AAACAACATACTTAATAACACTCATAA
*
30521597 AAACAACATATTTAATAACACTCAT
1 AAACAACATACTTAATAACACTCAT
30521622 GCACACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (27 bp):
AAACAACATACTTAATAACACTCATAA
Found at i:30521986 original size:30 final size:30
Alignment explanation
Indices: 30521952--30522013 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
30521942 CTTAACAAGA
30521952 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
30521982 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
30522012 AA
1 AA
30522014 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:30523718 original size:20 final size:20
Alignment explanation
Indices: 30523695--30523736 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
30523685 TACAAACTAG
30523695 TTAAACCAACTAAAAACCGA
1 TTAAACCAACTAAAAACCGA
*
30523715 TTAAACCGACTAAAAACCGA
1 TTAAACCAACTAAAAACCGA
30523735 TT
1 TT
30523737 GAATTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.19
Consensus pattern (20 bp):
TTAAACCAACTAAAAACCGA
Found at i:30524252 original size:24 final size:25
Alignment explanation
Indices: 30524225--30524294 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
30524215 ATTTTAAAAT
*
30524225 TTTAAAATATAATAATA-AATGATA
1 TTTAAAATATAATAATATAATAATA
*
30524249 TTT-AAATA-ATTTAATATAATAATA
1 TTTAAAATATA-ATAATATAATAATA
* *
30524273 TCTAAAATATAAATAATCTAAT
1 TTTAAAATAT-AATAATATAAT
30524295 TTTTATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 1 0.03
23 10 0.28
24 11 0.31
25 5 0.14
26 8 0.22
27 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (25 bp):
TTTAAAATATAATAATATAATAATA
Found at i:30526609 original size:41 final size:41
Alignment explanation
Indices: 30526559--30526639 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
30526549 ATATTTTATT
*
30526559 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
*
30526600 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
30526640 TCAATTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:30530494 original size:41 final size:41
Alignment explanation
Indices: 30530419--30530501 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
30530409 ATATTTTATT
**
30530419 TTATCTTTTAGTAGTTTACTAAAAAAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAAAAAAAGAAAATTATTTTCC
* ** *
30530460 TTATCTTTTAGTAGTTTATTTGAATAAGAAAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAAAAAAAGAAAATTATTTTCC
30530501 T
1 T
30530502 AATTAGGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTACTAAAAAAAGAAAATTATTTTCC
Found at i:30539994 original size:39 final size:39
Alignment explanation
Indices: 30539940--30540016 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
30539930 TTTAGCAATA
30539940 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTTG
1 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTTG
30539979 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTT
1 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTT
30540017 TTAGGCTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.49
Consensus pattern (39 bp):
TGATAATTTTCTAATTTCCATTAACAATGTTTACATTTG
Found at i:30540016 original size:21 final size:21
Alignment explanation
Indices: 30539953--30540016 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
30539943 TAATTTTCTA
30539953 ATTTCCATTAACAATGTTTAC
1 ATTTCCATTAACAATGTTTAC
* * * *
30539974 ATTT---GTGATAATTTTCTA-
1 ATTTCCATTAACAATGTT-TAC
30539992 ATTTCCATTAACAATGTTTAC
1 ATTTCCATTAACAATGTTTAC
30540013 ATTT
1 ATTT
30540017 TTAGGCTAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 2 0.07
21 15 0.50
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.48
Consensus pattern (21 bp):
ATTTCCATTAACAATGTTTAC
Found at i:30546095 original size:33 final size:33
Alignment explanation
Indices: 30546053--30546118 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
30546043 AGGAGTTTGT
30546053 TTTCCTATTGGAATAGACTTCTACAATTTAACG
1 TTTCCTATTGGAATAGACTTCTACAATTTAACG
30546086 TTTCCTATTGGAATAGACTTCTACAATTTAACG
1 TTTCCTATTGGAATAGACTTCTACAATTTAACG
30546119 AGGGTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TTTCCTATTGGAATAGACTTCTACAATTTAACG
Found at i:30548855 original size:40 final size:40
Alignment explanation
Indices: 30548809--30548889 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
30548799 TGGTCAAATA
30548809 TCAATTTAGGTAGTTAGTAAAAATATAAATTAAATAAGGG
1 TCAATTTAGGTAGTTAGTAAAAATATAAATTAAATAAGGG
30548849 TCAATTTAGGTAGTTAGTAAAAATATAAATTAAATAAGGG
1 TCAATTTAGGTAGTTAGTAAAAATATAAATTAAATAAGGG
30548889 T
1 T
30548890 GCATTTGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.47, C:0.02, G:0.17, T:0.33
Consensus pattern (40 bp):
TCAATTTAGGTAGTTAGTAAAAATATAAATTAAATAAGGG
Found at i:30549298 original size:20 final size:20
Alignment explanation
Indices: 30549273--30549313 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30549263 TTACTATTAC
30549273 AATTTT-ATTTTAACAATAAT
1 AATTTTAATTTTAA-AATAAT
*
30549293 AATTTTAATTTTTAAATAAT
1 AATTTTAATTTTAAAATAAT
30549313 A
1 A
30549314 TTCTTAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTAATTTTAAAATAAT
Found at i:30549426 original size:23 final size:23
Alignment explanation
Indices: 30549399--30549447 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
30549389 ATAAGAAATG
30549399 TTTT-ATGATATAAAATATGAATA
1 TTTTAATGATAT-AAATATGAATA
* *
30549422 TTTTAATTATATAAATATGAGTA
1 TTTTAATGATATAAATATGAATA
30549445 TTT
1 TTT
30549448 GTTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (23 bp):
TTTTAATGATATAAATATGAATA
Found at i:30549561 original size:18 final size:17
Alignment explanation
Indices: 30549532--30549569 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
30549522 TTTATATATG
30549532 ATATTAATTATTATAAA
1 ATATTAATTATTATAAA
30549549 ATATTATATTATTATAAA
1 ATATTA-ATTATTATAAA
30549567 ATA
1 ATA
30549570 AATTTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAATTATTATAAA
Found at i:30553573 original size:50 final size:51
Alignment explanation
Indices: 30553500--30553637 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
30553490 ACATATGAAT
* * *
30553500 AGAGTTTGCCTTAGGTCGCAAGACTGGTT-TGTTAAATAGAA-ACAATAGAC
1 AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAATAGAAGACAAGA-AC
* * *
30553550 AGGGTCTGCCTTAGGTCGTAAGACTGGTTCGGTTAAATAGAAGACACGAAC
1 AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAATAGAAGACAAGAAC
* * *
30553601 AGAGTCTACCTTAGGTCACAAGACCGGTTCGGTTAAA
1 AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAA
30553638 CAAGAGTCTC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 26 0.35
51 45 0.60
52 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (51 bp):
AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAATAGAAGACAAGAAC
Found at i:30554534 original size:26 final size:26
Alignment explanation
Indices: 30554471--30554539 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
30554461 GACTATATTA
* **
30554471 TTGACTAGCGAACCC-AGTTTGCAAC
1 TTGACTGGCGAACCCTAGTTCACAAC
*
30554496 TTGACTGGTGAACCCTAGTTCACAAC
1 TTGACTGGCGAACCCTAGTTCACAAC
*
30554522 TT-ACTTGGCGAACACTAG
1 TTGAC-TGGCGAACCCTAG
30554540 CTTCCCAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (26 bp):
TTGACTGGCGAACCCTAGTTCACAAC
Found at i:30556250 original size:22 final size:24
Alignment explanation
Indices: 30556216--30556259 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
30556206 TTTTTTGGTA
30556216 AAAAACTCGTTTATTAA-GTTTGG
1 AAAAACTCGTTTATTAATGTTTGG
30556239 AAAAACTC-TTTATTAATGTTT
1 AAAAACTCGTTTATTAATGTTT
30556260 AACAGAACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (24 bp):
AAAAACTCGTTTATTAATGTTTGG
Found at i:30557176 original size:27 final size:27
Alignment explanation
Indices: 30557146--30557499 Score: 186
Period size: 27 Copynumber: 12.9 Consensus size: 27
30557136 TATAACAATT
30557146 ATTTTACCCTTCGGGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* *
30557173 ATTTTACCCTAT-GAGGGTAGTTT-GGTC
1 ATTTTACCCT-TCGGGGGTA-TTTCAGTC
** *
30557200 ATTTTA-CCTTATAGGGGTAATTCAGTC
1 ATTTTACCCTT-CGGGGGTATTTCAGTC
* *
30557227 ATTTTAACCTAT-GGGAGTATTTC-GATC
1 ATTTTACCCT-TCGGGGGTATTTCAG-TC
* * * *
30557254 ATTCTACCCTACGGAGGTATTT-TGATC
1 ATTTTACCCTTCGGGGGTATTTCAG-TC
** * *
30557281 ATTTTACCCTTCAAGGGTTTTTCAATC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* ** *
30557308 CTTTTAGTCTTC-GGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* * ** * *
30557334 ATTTTAACCTTTGAAGGTATTT-TGATT
1 ATTTTACCCTTCGGGGGTATTTCAG-TC
* *
30557361 ATTTTACCCTTTGAGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* * *
30557388 ATTTTACCCTTTGAGGGTATTTC-GATT
1 ATTTTACCCTTCGGGGGTATTTCAG-TC
* *
30557415 ATTTTACCCTTCGAGGGTAATTCGATATTTCGGTT
1 ATTTTACCCTTCG-GGG------G-TATTTCAGTC
*
30557450 ATTTTACCCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* *
30557477 ATTTTACCTTTCGAGGGTATTTC
1 ATTTTACCCTTCGGGGGTATTTC
30557500 GAGAGCTCTT
Statistics
Matches: 256, Mismatches: 47, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
25 1 0.00
26 26 0.10
27 191 0.75
28 11 0.04
29 1 0.00
34 4 0.02
35 21 0.08
36 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCAGTC
Found at i:30557204 original size:54 final size:54
Alignment explanation
Indices: 30557146--30557433 Score: 255
Period size: 54 Copynumber: 5.4 Consensus size: 54
30557136 TATAACAATT
*
30557146 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTAGTTT-GGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTA-TTTCGATC
** * *
30557200 ATTTTA-CCTTATAGGGGTAATTCAGTCATTTTAACCTATG-GGAGTATTTCGATC
1 ATTTTACCCTT-CGGGGGTATTTCAGTCATTTTACCCTATGAGG-GTATTTCGATC
* * * * * * *
30557254 ATTCTACCCTACGGAGGTATTT-TGATCATTTTACCCT-TCAAGGGTTTTTCAATC
1 ATTTTACCCTTCGGGGGTATTTCAG-TCATTTTACCCTAT-GAGGGTATTTCGATC
* ** * * * * * *
30557308 CTTTTAGTCTTC-GGGGTATTTCGGTCATTTTAACCTTTGAAGGTATTTTGATT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATC
* * * *
30557361 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCGATT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATC
*
30557415 ATTTTACCCTTCGAGGGTA
1 ATTTTACCCTTCGGGGGTA
30557434 ATTCGATATT
Statistics
Matches: 184, Mismatches: 40, Indels: 20
0.75 0.16 0.08
Matches are distributed among these distances:
53 47 0.26
54 132 0.72
55 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATC
Found at i:30557256 original size:81 final size:80
Alignment explanation
Indices: 30557159--30557433 Score: 251
Period size: 81 Copynumber: 3.4 Consensus size: 80
30557149 TTACCCTTCG
* * *
30557159 GGGGTATTTC-AGTCATTTTACCCTATGAGGGTAGTTTGGTCATTTTA-CCTTATAGGGGTAATT
1 GGGGTATTTCGA-TCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTTATAGGGGTATTT
30557222 CAGTCATTTTAACCTAT
65 CAGTCATTTTAACCT-T
* * *
30557239 GGGAGTATTTCGATCATTCTACCCTACG-GAGGTATTTTGATCATTTTACCCTTCA-A-GGGTTT
1 GGG-GTATTTCGATCATTTTACCCTATGAG-GGTATTTTGATCATTTTACCCTT-ATAGGGGTAT
* * **
30557301 TTCAATCCTTTTAGTCTT
63 TTCAGTCATTTTAACCTT
* * * * *
30557319 CGGGGTATTTCGGTCATTTTAACCTTTGAAGGTATTTTGATTATTTTACCCTT-T-GAGGGTATT
1 -GGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTTATAG-GGGTATT
*
30557382 TCAGTCATTTTACCCTTT
64 TCAGTCATTTTAACC-TT
*
30557400 GAGGGTATTTCGATTATTTTACCCT-TCGAGGGTA
1 G-GGGTATTTCGATCATTTTACCCTAT-GAGGGTA
30557434 ATTCGATATT
Statistics
Matches: 156, Mismatches: 26, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
80 65 0.42
81 84 0.54
82 6 0.04
83 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (80 bp):
GGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTTATAGGGGTATTTC
AGTCATTTTAACCTT
Found at i:30557444 original size:35 final size:35
Alignment explanation
Indices: 30557405--30557473 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
30557395 CCTTTGAGGG
30557405 TATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
1 TATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
* * *
30557440 TATTTCGGTTATTTTACCCTTCGGGGGTATTTCG
1 TATTTCGATTATTTTACCCTTCGAGGGTAATTCG
30557474 GTCATTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (35 bp):
TATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
Found at i:30557457 original size:62 final size:62
Alignment explanation
Indices: 30557378--30557501 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 62
30557368 CCTTTGAGGG
* *
30557378 TATTTCAGTCATTTTACCCTTTGAGGGTATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
1 TATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTCGA
* * * * * *
30557440 TATTTCGGTTATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTCGA
1 TATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTCGA
30557502 GAGCTCTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (62 bp):
TATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTCGA
Found at i:30561018 original size:27 final size:27
Alignment explanation
Indices: 30560985--30561163 Score: 268
Period size: 27 Copynumber: 6.6 Consensus size: 27
30560975 TAAATTGTGC
30560985 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30561012 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
30561040 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30561067 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
30561094 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
30561122 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
30561149 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30561164 GACTTAATAT
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.64
28 51 0.36
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:30561049 original size:55 final size:54
Alignment explanation
Indices: 30560985--30561163 Score: 295
Period size: 55 Copynumber: 3.3 Consensus size: 54
30560975 TAAATTGTGC
30560985 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
30561040 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
30561094 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
30561149 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30561164 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
54 26 0.22
55 92 0.78
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:30561122 original size:82 final size:82
Alignment explanation
Indices: 30560985--30561163 Score: 304
Period size: 82 Copynumber: 2.2 Consensus size: 82
30560975 TAAATTGTGC
30560985 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
30561050 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATAT
* *
30561067 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
* *
30561132 GTGCGAGTTGATTATAT
66 GTGCGAATTGACTATAT
*
30561149 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30561164 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 91 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAATTGACTATAT
Found at i:30569068 original size:27 final size:27
Alignment explanation
Indices: 30569035--30569209 Score: 253
Period size: 27 Copynumber: 6.4 Consensus size: 27
30569025 ATTGTGCAGG
30569035 ACTAAGTGTGCGAATTGACTATGTAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
*
30569062 ACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGA-ATTGACTATGTAGC
30569090 ACTAAGTGTGCGAATTGA-TATGTAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
*
30569116 ACTAAGTGTGCGAGTTGACTATGTAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
* *
30569143 ACTAAGTGTGCGAGTTTGATTATGTAGC
1 ACTAAGTGTGCGA-ATTGACTATGTAGC
* * *
30569171 ACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGAATTGACTATGTAGC
*
30569198 ACTGAGTGTGCG
1 ACTAAGTGTGCG
30569210 GACTTAATAT
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
26 25 0.18
27 61 0.45
28 51 0.37
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
ACTAAGTGTGCGAATTGACTATGTAGC
Found at i:30569099 original size:55 final size:53
Alignment explanation
Indices: 30569035--30569209 Score: 278
Period size: 55 Copynumber: 3.2 Consensus size: 53
30569025 ATTGTGCAGG
30569035 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGC
1 ACTAAGTGTGCGAATTGA-TATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGC
30569090 ACTAAGTGTGCGAATTGATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGC
1 ACTAAGTGTGCGAATTGATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGC
* * *
30569143 ACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGC
1 ACTAAGTGTGCGA-ATTGA-TATGTAGCACTAAGTGTGCGAGTTGACTATGTAGC
*
30569198 ACTGAGTGTGCG
1 ACTAAGTGTGCG
30569210 GACTTAATAT
Statistics
Matches: 114, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
53 26 0.23
54 26 0.23
55 62 0.54
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (53 bp):
ACTAAGTGTGCGAATTGATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGC
Found at i:30569170 original size:81 final size:82
Alignment explanation
Indices: 30569035--30569209 Score: 298
Period size: 81 Copynumber: 2.1 Consensus size: 82
30569025 ATTGTGCAGG
30569035 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG
1 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG
*
30569100 CGAATTGA-TATGTAGC
66 CGAATTGATTATATAGC
* *
30569116 ACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTG
1 ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG
*
30569181 CGAGTTGATTATATAGC
66 CGAATTGATTATATAGC
*
30569198 ACTGAGTGTGCG
1 ACTAAGTGTGCG
30569210 GACTTAATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
81 70 0.80
82 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
ACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTG
CGAATTGATTATATAGC
Found at i:30587101 original size:27 final size:26
Alignment explanation
Indices: 30587084--30587153 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
30587074 ATATTAAGTC
30587084 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
30587111 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
30587139 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
30587154 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:30587147 original size:28 final size:28
Alignment explanation
Indices: 30587084--30587181 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
30587074 ATATTAAGTC
*
30587084 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30587111 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30587139 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30587168 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30587182 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30599350 original size:14 final size:15
Alignment explanation
Indices: 30599328--30599356 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30599318 TTTTAATGTG
30599328 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
30599343 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
30599357 AGTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:30600559 original size:43 final size:42
Alignment explanation
Indices: 30600497--30600621 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 42
30600487 GATTTCTGAG
30600497 ATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 ATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
** *
30600541 -TGTGTTTACGTGTAAGACCTTGTCTGGGACAG-TAGCATCGAT
1 ATGTG-TTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT
* *
30600583 ACGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
30600622 TGTAAGAGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 62 0.91
44 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (42 bp):
ATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:30601489 original size:23 final size:23
Alignment explanation
Indices: 30601462--30601534 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
30601452 ATGAGTTGAA
*
30601462 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
* * * *
30601485 CCAATTTTGATGCTTACATGCTGC
1 CCAA-TTTGTTGCATATATGCTGT
*
30601509 CCAATTTGTTGCATATATGATGT
1 CCAATTTGTTGCATATATGCTGT
30601532 CCA
1 CCA
30601535 GTTTTGGTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (23 bp):
CCAATTTGTTGCATATATGCTGT
Found at i:30601605 original size:23 final size:23
Alignment explanation
Indices: 30601565--30601608 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30601555 CTCAAACTGT
30601565 TGTATATATGCTACCCAAATTGA
1 TGTATATATGCTACCCAAATTGA
* **
30601588 TGTATTTATGCTGTCCAAATT
1 TGTATATATGCTACCCAAATT
30601609 TTGGTGTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (23 bp):
TGTATATATGCTACCCAAATTGA
Found at i:30601626 original size:25 final size:24
Alignment explanation
Indices: 30601595--30601656 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 24
30601585 TGATGTATTT
*
30601595 ATGCTGTCCAAATTTTGGTGTGA-AA
1 ATGCTGT-CAAATTTTGGTAT-ATAA
*
30601620 ATGCTGTCTAA-TTTGGTATATAA
1 ATGCTGTCAAATTTTGGTATATAA
30601643 ATGCTGTTCAAATT
1 ATGCTG-TCAAATT
30601657 GATGTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 15 0.48
24 7 0.23
25 8 0.26
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (24 bp):
ATGCTGTCAAATTTTGGTATATAA
Found at i:30601664 original size:23 final size:23
Alignment explanation
Indices: 30601580--30601666 Score: 61
Period size: 23 Copynumber: 3.7 Consensus size: 23
30601570 ATATGCTACC
** *
30601580 CAAATTGATGTATTTATGCTGTC
1 CAAATTGATGTATAAATGCTGTT
*
30601603 CAAATTTTGGTGTGA-AAATGCTG-T
1 CAAA--TTGATGT-ATAAATGCTGTT
* * *
30601627 CTAATTTGGTATATAAATGCTGTT
1 C-AAATTGATGTATAAATGCTGTT
30601651 CAAATTGATGTATAAA
1 CAAATTGATGTATAAA
30601667 AGCTATCCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.02
23 30 0.61
24 3 0.06
25 14 0.29
26 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (23 bp):
CAAATTGATGTATAAATGCTGTT
Found at i:30603271 original size:75 final size:75
Alignment explanation
Indices: 30603146--30603296 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
30603136 TCCTTGTTGG
* * *
30603146 AGGAGCATGCTTTCTAAAACCCATGTGGAAGTGTGAGGAAGGAAACTGCAAGAGGTCTTCCGATA
1 AGGAGCATGCTTTATAAAACCCATGTGGAAGTGTGAGGAAGGAAAATGCAAGAGGTCTTCCAATA
30603211 TAATCAAGTA
66 TAATCAAGTA
30603221 AGGAGCATGCTTTATAAAACCCATGTGGAAGTGTGAGGAAGGAAAATGCAAGAGGTCTTCCAATA
1 AGGAGCATGCTTTATAAAACCCATGTGGAAGTGTGAGGAAGGAAAATGCAAGAGGTCTTCCAATA
30603286 TAATCAAGTA
66 TAATCAAGTA
30603296 A
1 A
30603297 TTCATGTTGC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (75 bp):
AGGAGCATGCTTTATAAAACCCATGTGGAAGTGTGAGGAAGGAAAATGCAAGAGGTCTTCCAATA
TAATCAAGTA
Found at i:30607081 original size:17 final size:16
Alignment explanation
Indices: 30607039--30607099 Score: 72
Period size: 15 Copynumber: 3.8 Consensus size: 16
30607029 TCCTAACTTG
*
30607039 TAGGTTTTTAGA-TTT
1 TAGGGTTTTAGAGTTT
30607054 TAGGG-TTTAGAGTTT
1 TAGGGTTTTAGAGTTT
*
30607069 TAGGGTTTTTAGAATTTT
1 TAGGG-TTTTAG-AGTTT
30607087 TAGGGTTTTAGAG
1 TAGGGTTTTAGAG
30607100 AAAAAAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
14 6 0.15
15 12 0.31
16 1 0.03
17 11 0.28
18 9 0.23
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (16 bp):
TAGGGTTTTAGAGTTT
Found at i:30610923 original size:24 final size:28
Alignment explanation
Indices: 30610896--30610946 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 28
30610886 ATTGAATTAG
30610896 TTAATTTTT-TA-AA-TAAAA-AAATAA
1 TTAATTTTTATATAATTAAAATAAATAA
30610920 TTAATTTTTATATAATTAAAATAAATA
1 TTAATTTTTATATAATTAAAATAAATA
30610947 TTATGATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.39
25 2 0.09
26 2 0.09
27 5 0.22
28 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAATTTTTATATAATTAAAATAAATAA
Found at i:30612434 original size:50 final size:50
Alignment explanation
Indices: 30612306--30612547 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 50
30612296 GATAATAACA
* ** * *
30612306 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT-ATAT-CGG
* * * ** *
30612355 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
* * * * * *
30612405 TGCCCATGCCATGTCCCGGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
** * *
30612455 TGCCAACGTTATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
*
30612505 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
30612548 TACCCAACAT
Statistics
Matches: 161, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 37 0.23
50 124 0.77
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
Found at i:30622580 original size:21 final size:21
Alignment explanation
Indices: 30622554--30622600 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30622544 TAAACAAATG
*
30622554 TATATACACCTCAAATACATA
1 TATATACACATCAAATACATA
** *
30622575 TATATACTTATCAAATGCATA
1 TATATACACATCAAATACATA
30622596 TATAT
1 TATAT
30622601 TTAATATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (21 bp):
TATATACACATCAAATACATA
Found at i:30622839 original size:41 final size:41
Alignment explanation
Indices: 30622783--30622913 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 41
30622773 TGATTCGGTA
* * *
30622783 CACCGGCTTTTAGCCTGCTAGACTTATAGTCCG-A-AATGTAT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAAT-T-T
*
30622824 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAATAATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
* * * * *
30622865 CACCGGCATAAAGCCTGCTAGACATAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
*
30622906 CACTGGCA
1 CACCGGCA
30622914 ATAAATCAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 74 0.94
42 2 0.03
43 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTATAGTCCGAATAATTT
Found at i:30624567 original size:25 final size:25
Alignment explanation
Indices: 30624522--30624570 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
30624512 TATTTGTTTA
*
30624522 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
30624547 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
30624571 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:30627091 original size:19 final size:19
Alignment explanation
Indices: 30627053--30627092 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30627043 GTGCATATTG
*
30627053 GCGTACAAAATGCATTCTA
1 GCGTACAAAATGCATACTA
* *
30627072 GCGTACAAAGTGCGTACTA
1 GCGTACAAAATGCATACTA
30627091 GC
1 GC
30627093 ACGTAAAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (19 bp):
GCGTACAAAATGCATACTA
Found at i:30639561 original size:23 final size:21
Alignment explanation
Indices: 30639519--30639559 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
30639509 AAAGAAAGAA
30639519 AAGAAAATAAATAAATAAATC
1 AAGAAAATAAATAAATAAATC
30639540 AAGAGAAATAAA-ATAATAAA
1 AAGA-AAATAAATA-AATAAA
30639560 ATAAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AAGAAAATAAATAAATAAATC
Found at i:30643159 original size:99 final size:99
Alignment explanation
Indices: 30642993--30643180 Score: 297
Period size: 99 Copynumber: 1.9 Consensus size: 99
30642983 AGGTAATCAA
*
30642993 TACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCAGTCAACAATAACCCAGATCGAGTCTTTC
1 TACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCAGTCAACAATAACCCAGATCGAGTCTATC
* *
30643058 TTTCTCAGTGTCATTGGAAGTCCCTAGTAATTAG
66 TTTATCAGTGCCATTGGAAGTCCCTAGTAATTAG
* * * *
30643092 TACAAATTGGAATGAAATGAGTTGATTTAGTTAGT-AGGTCAATAATAACCCAGATCGAGTCTAT
1 TACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCA-GTCAACAATAACCCAGATCGAGTCTAT
30643156 CTTTATCAGTGCCATTGGAAGTCCC
65 CTTTATCAGTGCCATTGGAAGTCCC
30643181 ATTACAACAT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 1 0.01
99 80 0.99
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.31
Consensus pattern (99 bp):
TACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCAGTCAACAATAACCCAGATCGAGTCTATC
TTTATCAGTGCCATTGGAAGTCCCTAGTAATTAG
Found at i:30648779 original size:37 final size:36
Alignment explanation
Indices: 30648728--30648842 Score: 97
Period size: 37 Copynumber: 3.1 Consensus size: 36
30648718 TCACTCAGTC
30648728 TAACAGT-AGAATTTGATCAATTAAACATCATTCATTA
1 TAACAGTAAG-ATTTGATCAATTAAAC-TCATTCATTA
* * * *
30648765 TAACAGTAAGATTTGTTCAGTTAAGCTCCATTCAATA
1 TAACAGTAAGATTTGATCAATTAAACT-CATTCATTA
* * * * * *
30648802 TAACGGTATGATTTGGTCGATTGAGATTCATTCATTA
1 TAACAGTAAGATTTGATCAATT-AAACTCATTCATTA
30648839 TAAC
1 TAAC
30648843 GATATGATTT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
36 1 0.02
37 57 0.92
38 4 0.06
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (36 bp):
TAACAGTAAGATTTGATCAATTAAACTCATTCATTA
Found at i:30648843 original size:37 final size:37
Alignment explanation
Indices: 30648755--30648860 Score: 115
Period size: 37 Copynumber: 2.8 Consensus size: 37
30648745 CAATTAAACA
* * * *
30648755 TCATTCATTATAACAGTAAGATTTGTTC-AGTTAAGCT
1 TCATTCATTATAACGGTATGATTTGGTCGA-TTAAGAT
* * *
30648792 CCATTCAATATAACGGTATGATTTGGTCGATTGAGAT
1 TCATTCATTATAACGGTATGATTTGGTCGATTAAGAT
*
30648829 TCATTCATTATAACGATATGATTTGGCTCGAT
1 TCATTCATTATAACGGTATGATTTGG-TCGAT
30648861 AAAGCGTACT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
37 51 0.89
38 6 0.11
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (37 bp):
TCATTCATTATAACGGTATGATTTGGTCGATTAAGAT
Found at i:30656873 original size:40 final size:40
Alignment explanation
Indices: 30656825--30657092 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
30656815 GCAAACACCT
* * *
30656825 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30656865 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
30656905 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30656945 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
30656985 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30657025 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
30657065 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
30657093 TTCAAATGCT
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:30665534 original size:38 final size:39
Alignment explanation
Indices: 30665374--30665623 Score: 314
Period size: 38 Copynumber: 6.7 Consensus size: 39
30665364 AAACACTTTG
* *
30665374 CTTCGGGTCTTA-CCCGGACATATCAACTTGCATAATTGC
1 CTTC-GGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
30665413 CTTCGGGTCTTAGCCCGGA-ATAT-ATCTCGCATAATTG-
1 CTTC-GGTCTTAGCCCGGATATATCAACTCGCATAATTGC
*
30665450 CTTCGGGTCATAG-CCGGATAT-T-AACTCGCATAATTGC
1 CTTC-GGTCTTAGCCCGGATATATCAACTCGCATAATTGC
30665487 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
1 CTTC-GGTCTTAGCCCGGATATATCAACTCGCATAATTGC
30665527 CTT-GGTCTTAG-CCGG--ATAT-AACTCGCATAA-TG-
1 CTTCGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
30665559 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
1 CTTC-GGTCTTAGCCCGGATATATCAACTCGCATAATTGC
30665599 CTTCGGTCTTAG-CCGGATATATCAA
1 CTTCGGTCTTAGCCCGGATATATCAA
30665624 ATGCTCATGC
Statistics
Matches: 192, Mismatches: 5, Indels: 29
0.85 0.02 0.13
Matches are distributed among these distances:
32 3 0.02
33 2 0.01
34 19 0.10
35 8 0.04
36 19 0.10
37 34 0.18
38 52 0.27
39 27 0.14
40 28 0.15
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (39 bp):
CTTCGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
Found at i:30665579 original size:72 final size:75
Alignment explanation
Indices: 30665374--30665619 Score: 360
Period size: 74 Copynumber: 3.3 Consensus size: 75
30665364 AAACACTTTG
* *
30665374 CTTCGGGTCTTACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGA-ATAT-A
1 CTTC-GGTCTTAGCCGG--ATAT-AACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCA
*
30665437 TCTCGCATAATTG-
62 ACTCGCATAATTGC
*
30665450 CTTCGGGTCATAGCCGGATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAAC
1 CTTC-GGTCTTAGCCGGATA-TAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAAC
30665515 TCGCATAATTGC
64 TCGCATAATTGC
30665527 CTT-GGTCTTAGCCGGATATAACTCGCATAA-TG-CTTCGGGTCTTAGCCCGGATATATCAACTC
1 CTTCGGTCTTAGCCGGATATAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
30665589 GCATAATTGC
66 GCATAATTGC
30665599 CTTCGGTCTTAGCCGGATATA
1 CTTCGGTCTTAGCCGGATATA
30665620 TCAAATGCTC
Statistics
Matches: 160, Mismatches: 5, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
72 43 0.27
73 19 0.12
74 48 0.30
75 19 0.12
76 28 0.17
77 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (75 bp):
CTTCGGTCTTAGCCGGATATAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
GCATAATTGC
Found at i:30689263 original size:7 final size:8
Alignment explanation
Indices: 30689246--30689279 Score: 54
Period size: 7 Copynumber: 4.5 Consensus size: 8
30689236 TTTTAGTCAA
30689246 AAAAATGG
1 AAAAATGG
30689254 AAAAAT-G
1 AAAAATGG
30689261 AAAAAT-G
1 AAAAATGG
30689268 AAAAATGG
1 AAAAATGG
30689276 AAAA
1 AAAA
30689280 GTAAAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.56
8 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (8 bp):
AAAAATGG
Found at i:30689285 original size:13 final size:14
Alignment explanation
Indices: 30689247--30689289 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30689237 TTTAGTCAAA
*
30689247 AAAATGGAAAAATGA
1 AAAAT-GAAAAATGG
30689262 AAAATGAAAAATGG
1 AAAATGAAAAATGG
*
30689276 AAAA-GTAAAATGG
1 AAAATGAAAAATGG
30689289 A
1 A
30689290 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 9 0.35
14 12 0.46
15 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (14 bp):
AAAATGAAAAATGG
Found at i:30690705 original size:44 final size:44
Alignment explanation
Indices: 30690646--30690932 Score: 210
Period size: 44 Copynumber: 6.5 Consensus size: 44
30690636 AGAATTTCAG
*
30690646 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* * * * ** *
30690690 ATCCTATCTCGCTGAGATTAAAGTGGAGCGGATT-AAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTA
* * * * * * *
30690734 ATTTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-A--A
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTA
* * ** * * *
30690775 GTCTTATCTCCTTGAGATTACAGTGGAATAGATCGAAG-AATTTCAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT--A
* *
30690821 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCTAGAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* * *
30690865 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* *
30690909 ATCCTATTTCCCTGAGATTACAGT
1 ATCTTATCTCCCTGAGATTACAGT
30690933 CGAACGGATT
Statistics
Matches: 186, Mismatches: 45, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
41 29 0.16
42 2 0.01
43 4 0.02
44 114 0.61
45 3 0.02
46 33 0.18
47 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
Found at i:30690943 original size:219 final size:219
Alignment explanation
Indices: 30690646--30691045 Score: 649
Period size: 219 Copynumber: 1.8 Consensus size: 219
30690636 AGAATTTCAG
* * *
30690646 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCGCTGAGATTAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTAA
* * * * *
30690711 AGTGGAGCGGATTAAAATAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAG
66 AGTCGAACGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAAG
* * *
30690776 TCTTATCTCCTTGAGATTACA-GTGGAATAGATCGAAGAATTTCAAATCTTATCTCCCTGAGGTT
131 TCTTATCTCCCTGAGATTACAGGT-GAATAGACCAAAGAATTTCAAATCTTATCTCCCTGAGGTT
30690840 ACAGTGGAGCAGATTGAAGCTAGAA
195 ACAGTGGAGCAGATTGAAGCTAGAA
* *
30690865 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTAA
* *
30690930 AGTCGAACGGATTAAAATAAAGGATATTGTCTCTCTGAAATTACAGTAGAGTAGATAGCATCAGG
66 AGTCGAACGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAAG
30690995 TCTTATCTCCCTGAGATTACAGGTGAATAGACCAAAGAATTTCAAATCTTA
131 TCTTATCTCCCTGAGATTACAGGTGAATAGACCAAAGAATTTCAAATCTTA
30691046 CTTCCTAGGC
Statistics
Matches: 165, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
219 163 0.99
220 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (219 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCCAGTAATCCTATCTCCCTGAGATTAA
AGTCGAACGGATTAAAATAAAGGATATTATCTCTCTGAAATTACAGTAGAGTAGATAGCATCAAG
TCTTATCTCCCTGAGATTACAGGTGAATAGACCAAAGAATTTCAAATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCTAGAA
Found at i:30691123 original size:50 final size:50
Alignment explanation
Indices: 30691069--30692233 Score: 639
Period size: 50 Copynumber: 23.3 Consensus size: 50
30691059 GCAGTGGAAC
* * *
30691069 AGATTAAATCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
30691119 AGATTAAAGCTACAGCAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAT
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
* * * * *
30691169 AGATTAAAACCACATCGGTGAATCTTGCTTCCTCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** ** *
30691219 AGATTAAAGCTACAACAGTGAATCTTAC-TCCCC-AGGTGATGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACAT--TGCAGTTAAAA
* * *
30691269 AGATTAAAGCCACATCAGTGAATCTTACTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * ** ** *
30691319 AGATTAAAGCTACAACAGCGAATCTTACTGCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* ** * *
30691369 AGATTAAAGCCACATCGGTGAATCTTGTTTCCCCAACATTGTAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* ** * * ** ** *
30691419 AGATTAAAGCTACAAT-AACAAATCTTAC-TCCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCC-GACATTGCAGTTAAAA
* * * *
30691469 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGCTGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** * ** *
30691519 AGACTAAAGCCACAGT-GGCGAGTGC-TACTTCCCTGGCGGTGCGGTGGAAT
1 AGATTAAAGCCACA-TCGGCGAAT-CTTACTTCCCCGACATTGCAGTTAAAA
** * *
30691569 AGATTAAAGCCACATCGATGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * *** ** **
30691619 AAATTAAAGCCACAGCGACGAATCCTACTTCCCTGGCGGCGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
30691669 AGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCCGATATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * ** **
30691719 AGACTAAAGCCATAGCGGCAAATCCTACTTCCCTGGCGA-TGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAAAA
* ** *
30691769 AGATTAAAGCCACATCGGTGAATCTCGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * **
30691819 AGATTAAAGCCACATCGGCTAATCTTACTTCCCTGGCGA-TACAG-TAGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AAA
* * * *
30691869 AGATTAAACCCACGAT-GGTGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
30691919 AGATTAAAGCCACATCGGCGAATCTTACTTCCCTGGCGA-TACAG--AAGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAA-A-A
* * * *
30691969 AGATTAAAGCCACGA-CAGCGTATCTTGCTTCCCCGACATTGCAATTAAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTT-AAAA
* * * ** * **
30692020 AGACTAAAGCCACAGT-GGCGAGTGTTACTTCCTTGGCGA-TGCAG-TAGAGC
1 AGATTAAAGCCACA-TCGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AAA
* * *
30692070 AGATTAAGGCCACGA-CGGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * ** **
30692120 AGACTAAAGCCACAGCGGTGAGTGTTACTTCCCTGGAGA-TGCAGTGGAGC
1 AGATTAAAGCCACATCGGCGAATCTTACTTCCC-CGACATTGCAGTTAAAA
* *
30692170 AGATTAAAGCCACAAT-GGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCAC-ATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
*
30692220 AGACTAAAGCCACA
1 AGATTAAAGCCACA
30692234 GCATCGAGTG
Statistics
Matches: 804, Mismatches: 265, Indels: 93
0.69 0.23 0.08
Matches are distributed among these distances:
48 4 0.00
49 35 0.04
50 696 0.87
51 63 0.08
52 4 0.00
53 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
Done.