Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 105 of 105
Found at i:19379546 original size:39 final size:39
Alignment explanation
Indices: 19379492--19379585 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
19379482 AGATTGGATG
* *
19379492 AGGTGGGGAGGATTGGGTGTGGTGGGGCGTTGGGAGG-A
1 AGGTGGAGAGGATTGGGTGTGGTGGGACGTTGGGAGGAA
* *
19379530 AGGTGGAGAGAGATTGGGTGTGGTGGGATGTTGGGGGGAA
1 AGGTGGAGAG-GATTGGGTGTGGTGGGACGTTGGGAGGAA
*
19379570 AGATGGAGAGGGATTG
1 AGGTGGAGA-GGATTG
19379586 ATGGGGGTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 9 0.19
39 24 0.50
40 14 0.29
41 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.59, T:0.21
Consensus pattern (39 bp):
AGGTGGAGAGGATTGGGTGTGGTGGGACGTTGGGAGGAA
Found at i:19379857 original size:20 final size:20
Alignment explanation
Indices: 19379819--19379856 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19379809 GATTGTGTTA
*
19379819 TATATTAATTTATAATTTTG
1 TATATGAATTTATAATTTTG
19379839 TATATGAATTT-TAATTTT
1 TATATGAATTTATAATTTT
19379857 TTTGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATATGAATTTATAATTTTG
Found at i:19381702 original size:16 final size:16
Alignment explanation
Indices: 19381677--19381720 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
19381667 TCTAGCATCT
*
19381677 TTTTATAATATTATTA
1 TTTTAAAATATTATTA
19381693 TTTTAAAATATTA--A
1 TTTTAAAATATTATTA
19381707 -TTTAAAATA-TATTA
1 TTTTAAAATATTATTA
19381721 CTCTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 2 0.08
13 9 0.36
14 2 0.08
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTTAAAATATTATTA
Found at i:19383057 original size:6 final size:6
Alignment explanation
Indices: 19383043--19383091 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
19383033 TTTAAGTCCA
* * *
19383043 GATGAT GATGGT GATGGA GATGGT GATGGA GATGGT GATGGT GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
19383091 G
1 G
19383092 CGAATTTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (6 bp):
GATGGT
Found at i:19383458 original size:18 final size:18
Alignment explanation
Indices: 19383435--19383490 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 18
19383425 ATGATTATTA
19383435 TCCACCTCAAATGTATCC
1 TCCACCTCAAATGTATCC
*
19383453 TCCACCTCCTCAAATATATCC
1 TCCA---CCTCAAATGTATCC
19383474 TCCACCTCAAATGTATC
1 TCCACCTCAAATGTATC
19383491 AAGAACAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 16 0.48
21 17 0.52
ACGTcount: A:0.29, C:0.39, G:0.04, T:0.29
Consensus pattern (18 bp):
TCCACCTCAAATGTATCC
Found at i:19383465 original size:21 final size:21
Alignment explanation
Indices: 19383439--19383481 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19383429 TTATTATCCA
*
19383439 CCTCAAATGTATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
19383460 CCTCAAATATATCCTCCACCT
1 CCTCAAATATATCCTCCACCT
19383481 C
1 C
19383482 AAATGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.44, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCAAATATATCCTCCACCT
Found at i:19393272 original size:34 final size:34
Alignment explanation
Indices: 19393228--19393305 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
19393218 GATAATCGTC
* *
19393228 ATTAAATTAACGACATTTGTATTATAAAAAAATT
1 ATTAATTTAACGACATTTGTATGATAAAAAAATT
* * *
19393262 ATTAATTTAACGATATTTTTATGATAAAAATATT
1 ATTAATTTAACGACATTTGTATGATAAAAAAATT
*
19393296 GTTAATTTAA
1 ATTAATTTAA
19393306 TGATGTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (34 bp):
ATTAATTTAACGACATTTGTATGATAAAAAAATT
Found at i:19393557 original size:2 final size:2
Alignment explanation
Indices: 19393550--19393575 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19393540 CTGGTAGTTG
19393550 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19393576 GTAAAAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19403486 original size:31 final size:32
Alignment explanation
Indices: 19403446--19403506 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
19403436 ATTACTCAAC
* *
19403446 AAAAGTAAAT-AAATAATAAAAATTAGTAAAAT
1 AAAAGTAAATGAAACAA-AAAAATAAGTAAAAT
19403478 AAAA-TAAATGAAACAAAAAAATAAGTAAA
1 AAAAGTAAATGAAACAAAAAAATAAGTAAA
19403507 GAAAGAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (32 bp):
AAAAGTAAATGAAACAAAAAAATAAGTAAAAT
Found at i:19404710 original size:12 final size:12
Alignment explanation
Indices: 19404693--19404722 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19404683 ATACTATACC
19404693 ATAGTAAAAATA
1 ATAGTAAAAATA
*
19404705 ATAGTAACAATA
1 ATAGTAAAAATA
19404717 ATAGTA
1 ATAGTA
19404723 GTAGTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (12 bp):
ATAGTAAAAATA
Found at i:19405707 original size:114 final size:113
Alignment explanation
Indices: 19405458--19405714 Score: 266
Period size: 114 Copynumber: 2.3 Consensus size: 113
19405448 GTTAAAGATG
* * ** ** *
19405458 AATGATCGAGATGATGTCGTGAGTTTGAAAGCAACCAAGATTGAGTCGAGGTTGAAGATAAATGA
1 AATGATCGAGATGATGTCATGAGTTTGAAAGCAACCAAGATTGAGTCAAAATAAAAAATAAATGA
** * *
19405523 TCGAAATGAGCCACGGGTCAGAAAATGATCTAACTTGAGCCAAGATCA
66 TCGAAATGAGCCACAAGTCAGAAAATGATCGAACTTAAGCCAAGATCA
* * * * * * *
19405571 AATGATTGGGATAATGTTATGAGTTTGAAAG-TATCAAGATTGAGTCAAAATAAAAAATGAATGA
1 AATGATCGAGATGATGTCATGAGTTTGAAAGCAACCAAGATTGAGTCAAAATAAAAAATAAATGA
* * *
19405635 TTGGAATGATGCCACAAGTTAGGAAAATGATTCGAAC-TAAGCCAAGATCA
66 TCGAAATGA-GCCACAAGTCA-GAAAATGA-TCGAACTTAAGCCAAGATCA
* *
19405685 AATGATCGAGATGATATCATGAGTCTGAAA
1 AATGATCGAGATGATGTCATGAGTTTGAAA
19405715 ATGACCAAAA
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
112 31 0.27
113 34 0.30
114 44 0.39
115 5 0.04
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (113 bp):
AATGATCGAGATGATGTCATGAGTTTGAAAGCAACCAAGATTGAGTCAAAATAAAAAATAAATGA
TCGAAATGAGCCACAAGTCAGAAAATGATCGAACTTAAGCCAAGATCA
Found at i:19406058 original size:115 final size:116
Alignment explanation
Indices: 19405935--19406149 Score: 265
Period size: 115 Copynumber: 1.9 Consensus size: 116
19405925 TGATACTACA
* * ** *
19405935 AGTCTAAAAGTGACCAGGATCAAGTCGAA-ATCAAAGATGAATGACCA-AAATGATGCCATGAGT
1 AGTCTAAAAATAACCAAAATCAAGTC-AAGATCAAAGATGAATGA-CAGAAATGATGCCACGAGT
*
19405998 CAAGAAAATGATCTGAACTGAGTCAAGATC-AAATGATCGGGATGATGTCGCG
64 CAAAAAAATGATCTGAACTGAGTCAAGATCGAAATGATCGGGATGATGTCGCG
* * * * *
19406050 AGTCTAAAAATAATCAAAATCAAGTCAAGGTCGAAGATGAATGACAGAAATGATGTCGCGAGTCA
1 AGTCTAAAAATAACCAAAATCAAGTCAAGATCAAAGATGAATGACAGAAATGATGCCACGAGTCA
* * *
19406115 AAAAAATGATTTGAATTGAGTCGAGATCGAAATGA
66 AAAAAATGATCTGAACTGAGTCAAGATCGAAATGA
19406150 ATGATAAGTG
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
114 4 0.05
115 73 0.88
116 6 0.07
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (116 bp):
AGTCTAAAAATAACCAAAATCAAGTCAAGATCAAAGATGAATGACAGAAATGATGCCACGAGTCA
AAAAAATGATCTGAACTGAGTCAAGATCGAAATGATCGGGATGATGTCGCG
Found at i:19406899 original size:20 final size:20
Alignment explanation
Indices: 19406876--19406936 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
19406866 TTAGGTATTC
19406876 CTTTTTCCTTTTTTTTTTCT
1 CTTTTTCCTTTTTTTTTTCT
*
19406896 CTTTTTCCTTCTTTTTTCTTTTT
1 CTTTTTCC-T-TTTTTT-TTTCT
* *
19406919 TTTTTTGCTTTTTTTTTT
1 CTTTTTCCTTTTTTTTTT
19406937 TTTTTGCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 11 0.31
21 7 0.20
22 7 0.20
23 10 0.29
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (20 bp):
CTTTTTCCTTTTTTTTTTCT
Found at i:19406900 original size:10 final size:9
Alignment explanation
Indices: 19406886--19406951 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
19406876 CTTTTTCCTT
19406886 TTTTTTTTC
1 TTTTTTTTC
19406895 TCTTTTTCCTTC
1 T-TTTTT--TTC
*
19406907 TTTTTTCTTT
1 TTTTTT-TTC
19406917 TTTTTTTTGC
1 TTTTTTTT-C
19406927 TTTTTTTT-
1 TTTTTTTTC
*
19406935 TTTTTTTGC
1 TTTTTTTTC
19406944 TTTTTTTT
1 TTTTTTTT
19406952 ATACATTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
8 7 0.15
9 10 0.21
10 22 0.46
11 5 0.10
12 4 0.08
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:19406910 original size:30 final size:30
Alignment explanation
Indices: 19406876--19406951 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
19406866 TTAGGTATTC
19406876 CTTTTTCCTTTTTTTTTTCT-CTTTTTCCTT
1 CTTTTTCCTTTTTTTTTT-TGCTTTTTCCTT
* **
19406906 CTTTTTTCTTTTTTTTTTTGCTTTTTTTTT
1 CTTTTTCCTTTTTTTTTTTGCTTTTTCCTT
* *
19406936 TTTTTTGCTTTTTTTT
1 CTTTTTCCTTTTTTTT
19406952 ATACATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 39 0.98
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (30 bp):
CTTTTTCCTTTTTTTTTTTGCTTTTTCCTT
Found at i:19406934 original size:17 final size:17
Alignment explanation
Indices: 19406909--19406951 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
19406899 TTTCCTTCTT
19406909 TTTTCTTTTTTTTTTTGC
1 TTTT-TTTTTTTTTTTGC
19406927 TTTTTTTTTTTTTTTGC
1 TTTTTTTTTTTTTTTGC
19406944 TTTTTTTT
1 TTTTTTTT
19406952 ATACATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTGC
Found at i:19406937 original size:13 final size:12
Alignment explanation
Indices: 19406907--19406941 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
19406897 TTTTTCCTTC
19406907 TTTTTTCTTTTT
1 TTTTTTCTTTTT
19406919 TTTTTTGCTTTTT
1 TTTTTT-CTTTTT
19406932 TTTTTT-TTTT
1 TTTTTTCTTTT
19406942 GCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.18
12 6 0.27
13 12 0.55
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.91
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:19406947 original size:13 final size:12
Alignment explanation
Indices: 19406877--19406951 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
19406867 TAGGTATTCC
*
19406877 TTTTTCCTTTTT
1 TTTTTCTTTTTT
*
19406889 TTTTTCTCTTTT
1 TTTTTCTTTTTT
**
19406901 TCCTTCTTTTTT
1 TTTTTCTTTTTT
19406913 CTTTTT-TTTTTT
1 -TTTTTCTTTTTT
19406925 GCTTTTT-TTTTTT
1 --TTTTTCTTTTTT
*
19406938 TTTTGCTTTTTT
1 TTTTTCTTTTTT
19406950 TT
1 TT
19406952 ATACATTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
11 4 0.08
12 33 0.63
13 15 0.29
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:19406951 original size:20 final size:19
Alignment explanation
Indices: 19406877--19406941 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
19406867 TAGGTATTCC
*
19406877 TTTTTCCTTTTTTTTTTCTCT
1 TTTTTTCTTTTTTTTTT-T-T
19406898 TTTTCCTTCTTTTTTCTTTTTT
1 TTTT--TTCTTTTTT-TTTTTT
*
19406920 TTTTTGCTTTTTTTTTTTT
1 TTTTTTCTTTTTTTTTTTT
19406939 TTT
1 TTT
19406942 GCTTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 9 0.23
20 8 0.21
21 4 0.10
22 5 0.13
23 9 0.23
24 4 0.10
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.85
Consensus pattern (19 bp):
TTTTTTCTTTTTTTTTTTT
Found at i:19407253 original size:17 final size:17
Alignment explanation
Indices: 19407233--19407269 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
19407223 GTCCCGTTAA
*
19407233 TTTTTTTTCTT-CTTTT
1 TTTTTTTTTTTGCTTTT
19407249 TTTTTTTTTTTGCTTTT
1 TTTTTTTTTTTGCTTTT
19407266 TTTT
1 TTTT
19407270 GGGTGGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTTGCTTTT
Found at i:19411065 original size:31 final size:31
Alignment explanation
Indices: 19411030--19411089 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
19411020 TTACTCAACA
*
19411030 AAAATAAAT-AAATAATAAAAATTAGTAAAAT
1 AAAATAAATGAAATAA-AAAAATAAGTAAAAT
*
19411061 AAAATAAATGAAATAAAAAAGTAAGTAAA
1 AAAATAAATGAAATAAAAAAATAAGTAAA
19411090 GAAAAAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (31 bp):
AAAATAAATGAAATAAAAAAATAAGTAAAAT
Found at i:19411083 original size:27 final size:25
Alignment explanation
Indices: 19411030--19411119 Score: 69
Period size: 25 Copynumber: 3.5 Consensus size: 25
19411020 TTACTCAACA
19411030 AAAATAAATAAATAATAAAAATTAGT
1 AAAATAAATAAATAATAAAAA-TAGT
19411056 AAAATAAAATAAATGAAATAAAAA-AGT
1 AAAAT-AAATAAAT--AATAAAAATAGT
* * * *
19411083 -AAGTAAAGAAAAAACTCAAAATA-T
1 AAAATAAATAAATAA-TAAAAATAGT
*
19411107 AAAATAAAAAAAT
1 AAAATAAATAAAT
19411120 GCCTACAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
23 2 0.04
24 6 0.12
25 16 0.31
26 8 0.16
27 11 0.22
29 8 0.16
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAATAAATAAATAATAAAAATAGT
Found at i:19412349 original size:12 final size:12
Alignment explanation
Indices: 19412332--19412361 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19412322 ATATTATACC
19412332 ATAGTAAAAATA
1 ATAGTAAAAATA
*
19412344 ATAGTAATAATA
1 ATAGTAAAAATA
19412356 ATAGTA
1 ATAGTA
19412362 GTAGTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (12 bp):
ATAGTAAAAATA
Found at i:19413607 original size:17 final size:17
Alignment explanation
Indices: 19413574--19413606 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19413564 AAGTCAACTA
19413574 AACATAATATATATTTT
1 AACATAATATATATTTT
*
19413591 AACAT-ATATATCTTTT
1 AACATAATATATATTTT
19413607 TTAGGCTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
AACATAATATATATTTT
Found at i:19433782 original size:27 final size:27
Alignment explanation
Indices: 19433729--19433785 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
19433719 AAATAATTCA
* *
19433729 AAGCCAATACATTGATCAACCCGTAAC
1 AAGCCAATAAATTGATCAACCCATAAC
**
19433756 AAGCCAATAAATTGATCAATTCATAAC
1 AAGCCAATAAATTGATCAACCCATAAC
19433783 AAG
1 AAG
19433786 TGAACCAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.21
Consensus pattern (27 bp):
AAGCCAATAAATTGATCAACCCATAAC
Found at i:19434009 original size:2 final size:2
Alignment explanation
Indices: 19434004--19434028 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19433994 AAACACACAC
19434004 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
19434029 CAAATGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19439571 original size:16 final size:15
Alignment explanation
Indices: 19439550--19439597 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
19439540 CAAGAAAAAG
19439550 GAAAAAAAAAAAGAA
1 GAAAAAAAAAAAGAA
* *
19439565 GCCAAAAAAAATAG-A
1 G-AAAAAAAAAAAGAA
19439580 GAAAAAGAAAAAAGAA
1 GAAAAA-AAAAAAGAA
19439596 GA
1 GA
19439598 GTTGGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 4 0.15
15 9 0.35
16 13 0.50
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (15 bp):
GAAAAAAAAAAAGAA
Found at i:19454072 original size:22 final size:22
Alignment explanation
Indices: 19454047--19454090 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19454037 ATTTTTTGTC
* *
19454047 CTTAATTCTAGGGATACAAATA
1 CTTAATTATAGAGATACAAATA
*
19454069 CTTAATTATATAGATACAAATA
1 CTTAATTATAGAGATACAAATA
19454091 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTATAGAGATACAAATA
Found at i:19454888 original size:45 final size:46
Alignment explanation
Indices: 19454768--19454888 Score: 122
Period size: 49 Copynumber: 2.6 Consensus size: 46
19454758 ATCTATCACA
** *
19454768 TTTTATTA-CCTTTTTCAAATCTT-TCATGTGAAGTCTAAGATTTCTT
1 TTTTATTATCC-TTTTCAAAT-TTATCACCTGAAGCCTAAGATTTCTT
* * *
19454814 TCTATTATCCATCCTTTCCAAATCTATCACCTGAAGCCTAAGATTT-TT
1 T-T-TTAT-TATCCTTTTCAAATTTATCACCTGAAGCCTAAGATTTCTT
19454862 TTTTATTATCCTTTTCAAATTTATCAC
1 TTTTATTATCCTTTTCAAATTTATCAC
19454889 TTCCTGTTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
45 18 0.30
46 5 0.08
47 2 0.03
48 8 0.13
49 26 0.43
50 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.48
Consensus pattern (46 bp):
TTTTATTATCCTTTTCAAATTTATCACCTGAAGCCTAAGATTTCTT
Found at i:19455777 original size:27 final size:28
Alignment explanation
Indices: 19455725--19455787 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
19455715 GTTGTTAAGG
* *
19455725 ATTTAA-TT-TTTTTATTTTATATATTT
1 ATTTAATTTATTTTTATTATATAAATTT
19455751 ATTTAATTTATTTTTATTATA-AAATTT
1 ATTTAATTTATTTTTATTATATAAATTT
19455778 ATTTAATTTA
1 ATTTAATTTA
19455788 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 6 0.18
27 17 0.52
28 10 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
ATTTAATTTATTTTTATTATATAAATTT
Found at i:19455825 original size:16 final size:15
Alignment explanation
Indices: 19455786--19455826 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
19455776 TTATTTAATT
19455786 TAAAAATAA-AAAGA
1 TAAAAATAAGAAAGA
*
19455800 TGAAAA-AAGAAAGA
1 TAAAAATAAGAAAGA
19455814 TAATAAATAAGAA
1 TAA-AAATAAGAA
19455827 TTAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 3 0.14
16 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
TAAAAATAAGAAAGA
Found at i:19460189 original size:2 final size:2
Alignment explanation
Indices: 19460182--19460208 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19460172 AGTTAAATAA
19460182 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
19460209 TGATCCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19469305 original size:3 final size:3
Alignment explanation
Indices: 19469299--19469328 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19469289 ACCGCCCCAA
19469299 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
19469329 GAGACCAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19476044 original size:150 final size:151
Alignment explanation
Indices: 19475875--19476167 Score: 421
Period size: 150 Copynumber: 1.9 Consensus size: 151
19475865 CGGTTATACC
19475875 GATAAATGATCTAACAGTAAACGGTTTAATAATATAAAATAAGATCGATTATCT-TTGTAAAACT
1 GATAAATGATCTAACAGTAAACGGTTTAATAATATAAAATAAGATCGATTAT-TGTTGTAAAACT
* * * *
19475939 TAATTATAATGTATTTATTTTTATGAAATCCATAAATTCAAACAT-AC-ATAAGTTTTTGAAATT
65 TAATTATAAGGT-TTTATTTTTATGAAATCCATAAATTCAAACATAACAATAAGTCTTTAAAACT
19476002 TAATATATATAAATATGCTATAT
129 TAATATATATAAATATGCTATAT
* * * *
19476025 GATAAATGATTTAATAGTAAACGGTTTAATAATATAAAATAAGATTGATTATTGTTGTGAAACTT
1 GATAAATGATCTAACAGTAAACGGTTTAATAATATAAAATAAGATCGATTATTGTTGTAAAACTT
* * * * *
19476090 AATTATGAGGTTTTTTTTTTATGAAATTCATATATTCAAACATAACTAATCAGTCTTTAAAACTT
66 AATTATAAGGTTTTATTTTTATGAAATCCATAAATTCAAACATAAC-AATAAGTCTTTAAAACTT
19476155 AATATATATAAAT
130 AATATATATAAAT
19476168 TTACTATAAC
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
149 30 0.24
150 70 0.56
152 26 0.21
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (151 bp):
GATAAATGATCTAACAGTAAACGGTTTAATAATATAAAATAAGATCGATTATTGTTGTAAAACTT
AATTATAAGGTTTTATTTTTATGAAATCCATAAATTCAAACATAACAATAAGTCTTTAAAACTTA
ATATATATAAATATGCTATAT
Found at i:19477517 original size:198 final size:198
Alignment explanation
Indices: 19477179--19477603 Score: 647
Period size: 198 Copynumber: 2.1 Consensus size: 198
19477169 GAGAACAAGC
* *
19477179 CAGAATGAGAGCAACATGGCTCAATCTGAGAAAAGTACCGATGAAGAAGATAAAATGAAGATGAG
1 CAGAATGAGAGCAACGTGACTCAATCTGAGAAAAGTACCGATGAAGAAGATAAAATGAAGATGAG
* *
19477244 TCATGGTGGTAATGATCAAGAGAAGATAGGGCAAAATAAGAACAACGTGACTCAAGCCGAGGGTG
66 TCAGGGTGGTAATGATCAAGAGAAAATAGGGCAAAATAAGAACAACGTGACTCAAGCCGAGGGTG
* * * *
19477309 ATGCTGAGACAGAAGGAAGTGGAGGAGACAATATGAAGGGTCAGGCTGACCTTGAGAATGATGGC
131 ATGCTGAGACAGAAGGAAGTGGAGCAGACAATATGAAGGGCCAGGCTGACCTAGAGAATGAAGGC
*
19477374 GGG
196 CGG
* * * *
19477377 CAGAATGAGAGCAACGTGACTCAATCTGAGAAAAGTACTGATGATGGAGATACAATGAAGATGAG
1 CAGAATGAGAGCAACGTGACTCAATCTGAGAAAAGTACCGATGAAGAAGATAAAATGAAGATGAG
* ** *
19477442 TCAGGGTGGTGATGATCAAGCTAAAATAGGGCAAAATAAGAACAACGTGACTCAAGCTGAGGGTG
66 TCAGGGTGGTAATGATCAAGAGAAAATAGGGCAAAATAAGAACAACGTGACTCAAGCCGAGGGTG
*
19477507 ATGCTGAGACAGAGGGAAGTGGAGCAGACAATATGAAGGGCCAGGCTGACCTAGAGAATGAAGGC
131 ATGCTGAGACAGAAGGAAGTGGAGCAGACAATATGAAGGGCCAGGCTGACCTAGAGAATGAAGGC
19477572 CGG
196 CGG
*
19477575 CAGAATGA-A-CAAAACGTGACTCAAACTGA
1 CAGAATGAGAGC--AACGTGACTCAATCTGA
19477604 TCATCAGGGT
Statistics
Matches: 206, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
196 1 0.00
197 1 0.00
198 204 0.99
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.16
Consensus pattern (198 bp):
CAGAATGAGAGCAACGTGACTCAATCTGAGAAAAGTACCGATGAAGAAGATAAAATGAAGATGAG
TCAGGGTGGTAATGATCAAGAGAAAATAGGGCAAAATAAGAACAACGTGACTCAAGCCGAGGGTG
ATGCTGAGACAGAAGGAAGTGGAGCAGACAATATGAAGGGCCAGGCTGACCTAGAGAATGAAGGC
CGG
Found at i:19478326 original size:2 final size:2
Alignment explanation
Indices: 19478309--19478347 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
19478299 CTACCGCATC
* * *
19478309 AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT CT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19478348 CATAATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:19482525 original size:12 final size:12
Alignment explanation
Indices: 19482510--19482534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19482500 GAGTTTTTTT
19482510 TTTTTTTTTTGG
1 TTTTTTTTTTGG
19482522 TTTTTTTTTTGG
1 TTTTTTTTTTGG
19482534 T
1 T
19482535 ATGATTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTGG
Found at i:19483147 original size:12 final size:11
Alignment explanation
Indices: 19483125--19483150 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19483115 AGAAAACTGA
19483125 TTTTCTTTTTT
1 TTTTCTTTTTT
19483136 TTTTCTTTTTT
1 TTTTCTTTTTT
19483147 TTTT
1 TTTT
19483151 ATTATATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:19492909 original size:5 final size:5
Alignment explanation
Indices: 19492899--19492927 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19492889 AAGGTAAGTA
19492899 GGGAT GGGAT GGGAT GGGAT GGGAT GGGA
1 GGGAT GGGAT GGGAT GGGAT GGGAT GGGA
19492928 CGCATAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.62, T:0.17
Consensus pattern (5 bp):
GGGAT
Found at i:19493971 original size:24 final size:24
Alignment explanation
Indices: 19493939--19493987 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19493929 AGCACATTGC
19493939 TTTTTAATGTTGCACATCAGCACA
1 TTTTTAATGTTGCACATCAGCACA
19493963 TTTTTAATGTTGCACATCAGCACA
1 TTTTTAATGTTGCACATCAGCACA
19493987 T
1 T
19493988 GGCCACCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (24 bp):
TTTTTAATGTTGCACATCAGCACA
Found at i:19497205 original size:18 final size:18
Alignment explanation
Indices: 19497179--19497225 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
19497169 TTATAGTTTC
*
19497179 TTTTCCTTTTTAAAACTA
1 TTTTTCTTTTTAAAACTA
*
19497197 TTTTTC--TTTAAAACTG
1 TTTTTCTTTTTAAAACTA
*
19497213 TTTTTTTTTTTAA
1 TTTTTCTTTTTAA
19497226 TATTAGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 14 0.58
18 10 0.42
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTCTTTTTAAAACTA
Found at i:19503572 original size:3 final size:3
Alignment explanation
Indices: 19503564--19503609 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
19503554 ACATGAACGG
19503564 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19503610 CGTAATGGAT
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:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19504793 original size:77 final size:78
Alignment explanation
Indices: 19504706--19504863 Score: 282
Period size: 78 Copynumber: 2.0 Consensus size: 78
19504696 AATCATATAC
*
19504706 TTAATTTTTTTCATCTAAAATAAATTTTTTT-CTAGTCAGATAACGTATATATATACATATTTGT
1 TTAATTTTTTTCATCTAAAATAAATTTTTTTCCTAGTCAGATAACGAATATATATACATATTTGT
19504770 AGTTCATTTTAAT
66 AGTTCATTTTAAT
* *
19504783 TTAATTTTTTTCGTCTAAAATAAATTTTTTTCCTAGTCAGATAATGAATATATATACATATTTGT
1 TTAATTTTTTTCATCTAAAATAAATTTTTTTCCTAGTCAGATAACGAATATATATACATATTTGT
19504848 AGTTCATTTTAAT
66 AGTTCATTTTAAT
19504861 TTA
1 TTA
19504864 TATCTCCCAG
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 30 0.39
78 47 0.61
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.51
Consensus pattern (78 bp):
TTAATTTTTTTCATCTAAAATAAATTTTTTTCCTAGTCAGATAACGAATATATATACATATTTGT
AGTTCATTTTAAT
Found at i:19512275 original size:2 final size:2
Alignment explanation
Indices: 19512268--19512295 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19512258 ACCAACTGCT
19512268 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19512296 AGCCCTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19514206 original size:144 final size:142
Alignment explanation
Indices: 19513947--19514218 Score: 431
Period size: 144 Copynumber: 1.9 Consensus size: 142
19513937 TTTCTCTAGA
* *
19513947 GCCCTCTGCTGATGGTGTTATTTCGATTGAAGGTACACCTATGTGGAAATGCCAGGATTTCAAGG
1 GCCCTCTGCTGATGGTGTTATTTCAATTGAAGGTACACCTATCTGGAAATGCCAGGATTTCAAGG
*
19514012 CTCCTGCATGTGTCAAACAGAAAAAAGTCATCCAATCATAATGTTAAGTTCCTATTCTTATAACG
66 CTCCTGCATGTATCAAACAGAAAAAAGTCATCCAATCATAATGTTAAGTTCCTATTCTTATAACG
19514077 GATGGCTTTAAT
131 GATGGCTTTAAT
* *
19514089 GCCCTCTGCTGATGGTGTTATTTCAATTGAATGTACACCTATATCTGGAAATGCCTGGATTTCAA
1 GCCCTCTGCTGATGGTGTTATTTCAATTGAAGGTACACC--TATCTGGAAATGCCAGGATTTCAA
* *
19514154 GGC-CCTTGCATGTATCAAACA-AAACAAAGTCATGCAATCATAATGTTCAGTTCCTATTCTTAT
64 GGCTCC-TGCATGTATCAAACAGAAA-AAAGTCATCCAATCATAATGTTAAGTTCCTATTCTTAT
19514217 AA
127 AA
19514219 TAGGTGGCTT
Statistics
Matches: 119, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
142 37 0.31
143 5 0.04
144 77 0.65
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (142 bp):
GCCCTCTGCTGATGGTGTTATTTCAATTGAAGGTACACCTATCTGGAAATGCCAGGATTTCAAGG
CTCCTGCATGTATCAAACAGAAAAAAGTCATCCAATCATAATGTTAAGTTCCTATTCTTATAACG
GATGGCTTTAAT
Found at i:19520161 original size:6 final size:6
Alignment explanation
Indices: 19520150--19520178 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19520140 AAATATTTAT
19520150 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
19520179 TGTATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:19524044 original size:99 final size:99
Alignment explanation
Indices: 19523873--19524071 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
19523863 ATCATTCTGG
19523873 TGGATTCAAAGTAACTTGGACTATAATATTCTTCACCCTTATCCAACCTCAAGCACTTGATAAAA
1 TGGATTCAAAGTAACTTGGACTATAATATTCTTCACCCTTATCCAACCTCAAGCACTTGATAAAA
19523938 GATTCACACTGAAGTTCAACTTCAAATTTATATA
66 GATTCACACTGAAGTTCAACTTCAAATTTATATA
19523972 TGGATTCAAAGTAACTTGGACTATAATATTCTTCACCCTTATCCAACCTCAAGCACTTGATAAAA
1 TGGATTCAAAGTAACTTGGACTATAATATTCTTCACCCTTATCCAACCTCAAGCACTTGATAAAA
19524037 GATTCACACTGAAGTTCAACTTCAAATTTATATA
66 GATTCACACTGAAGTTCAACTTCAAATTTATATA
19524071 T
1 T
19524072 ATTTTAAACT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (99 bp):
TGGATTCAAAGTAACTTGGACTATAATATTCTTCACCCTTATCCAACCTCAAGCACTTGATAAAA
GATTCACACTGAAGTTCAACTTCAAATTTATATA
Found at i:19535546 original size:69 final size:69
Alignment explanation
Indices: 19535439--19535727 Score: 285
Period size: 69 Copynumber: 4.2 Consensus size: 69
19535429 TACTTTCACT
* * *** * *
19535439 GATTCTGTTCCAAGCACCCCTTCCTACT-CAGGTGACATGTTCCATGGGAAGAGCTCATCTATTT
1 GATTCTGTTCCAAGCACTCCTGCCTA-TGCAGAAAACATGTTCAAGGGGAAGAGCTCATCTATTT
19535503 TTGCA
65 TTGCA
* * * ** * * * *
19535508 GATTCTGTTTCAAACACCCCTGTTTATACAGATAACATGTTCAAGGGGAAGAGCTCCTCTGTTTT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGAAAACATGTTCAAGGGGAAGAGCTCATCTATTTT
19535573 TG-A
66 TGCA
* * * * *
19535576 TGATTCTGTTCCAAGCACTCCTGCCCATGCAGAAAACTTGTTCAAGGGGAAGAGTTCATCCATAT
1 -GATTCTGTTCCAAGCACTCCTGCCTATGCAGAAAACATGTTCAAGGGGAAGAGCTCATCTATTT
19535641 TTGCA
65 TTGCA
** * * * * *
19535646 GATTCCATTCCAAGCACTCCTGCCTATGCAGACAATATGTTCAAGGGAAAGAGCTCGTCTAATTT
1 GATTCTGTTCCAAGCACTCCTGCCTATGCAGAAAACATGTTCAAGGGGAAGAGCTCATCTATTTT
*
19535711 TGCT
66 TGCA
19535715 GATTCTGTTCCAA
1 GATTCTGTTCCAA
19535728 TTACACCTGC
Statistics
Matches: 177, Mismatches: 40, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
68 2 0.01
69 174 0.98
70 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (69 bp):
GATTCTGTTCCAAGCACTCCTGCCTATGCAGAAAACATGTTCAAGGGGAAGAGCTCATCTATTTT
TGCA
Found at i:19535737 original size:138 final size:138
Alignment explanation
Indices: 19535484--19535737 Score: 319
Period size: 138 Copynumber: 1.8 Consensus size: 138
19535474 CATGTTCCAT
* * ** * ** *
19535484 GGGAAGAGCTCATCTATTTTTGCAGATTCTGTTTCAAACACCCCTGTTTATACAGATAACATGTT
1 GGGAAGAGCTCATCCATATTTGCAGATTCCATTCCAAACACCCCTGCCTATACAGACAACATGTT
* ** *
19535549 CAAGGGGAAGAGCTCCTCTGTTTTTGATGATTCTGTTCCAAGCACTCCTGCCCATGCAGAAAACT
66 CAAGGGAAAGAGCTCCTCTAATTTTGATGATTCTGTTCCAAGCACACCTGCCCATGCAGAAAACT
19535614 TGTTCAAG
131 TGTTCAAG
* * * * *
19535622 GGGAAGAGTTCATCCATATTTGCAGATTCCATTCCAAGCACTCCTGCCTATGCAGACAATATGTT
1 GGGAAGAGCTCATCCATATTTGCAGATTCCATTCCAAACACCCCTGCCTATACAGACAACATGTT
* * **
19535687 CAAGGGAAAGAGCTCGTCTAATTTTGCTGATTCTGTTCCAATTACACCTGC
66 CAAGGGAAAGAGCTCCTCTAATTTTGATGATTCTGTTCCAAGCACACCTGC
19535738 TTATCACTAT
Statistics
Matches: 95, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
138 95 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (138 bp):
GGGAAGAGCTCATCCATATTTGCAGATTCCATTCCAAACACCCCTGCCTATACAGACAACATGTT
CAAGGGAAAGAGCTCCTCTAATTTTGATGATTCTGTTCCAAGCACACCTGCCCATGCAGAAAACT
TGTTCAAG
Found at i:19537757 original size:2 final size:2
Alignment explanation
Indices: 19537750--19537798 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
19537740 CCATCAGCTG
*
19537750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19537792 TA TA TA T
1 TA TA TA T
19537799 TTATGCAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19538785 original size:19 final size:19
Alignment explanation
Indices: 19538746--19538812 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
19538736 TGCATAGATG
* *
19538746 TGTATATATGTTTATACATA
1 TGTATATAT-ATTATATATA
*
19538766 TGTGTATATATTATATATA
1 TGTATATATATTATATATA
19538785 --TATATATATTATATATA
1 TGTATATATATTATATATA
*
19538802 TATATATATAT
1 TGTATATATAT
19538813 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 16 0.39
19 17 0.41
20 8 0.20
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (19 bp):
TGTATATATATTATATATA
Found at i:19538790 original size:17 final size:17
Alignment explanation
Indices: 19538770--19538810 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
19538760 TACATATGTG
19538770 TATATATTATATATATA
1 TATATATTATATATATA
19538787 TATATATTATATATATA
1 TATATATTATATATATA
19538804 TATATAT
1 TATATAT
19538811 ATGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATATTATATATATA
Found at i:19538832 original size:2 final size:2
Alignment explanation
Indices: 19538770--19538812 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
19538760 TACATATGTG
19538770 TA TA TA T- TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19538810 TA T
1 TA T
19538813 GTGTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19539049 original size:7 final size:7
Alignment explanation
Indices: 19539029--19541523 Score: 4474
Period size: 7 Copynumber: 363.0 Consensus size: 7
19539019 TTAATATGCA
19539029 TAGGGTT
1 TAGGGTT
19539036 TAGGGGTT
1 TA-GGGTT
19539044 TAGGGTT
1 TAGGGTT
19539051 TAGGGTT
1 TAGGGTT
19539058 TAGGGTT
1 TAGGGTT
19539065 TAGGGTT
1 TAGGGTT
19539072 TAGGGTT
1 TAGGGTT
19539079 TAGGGTT
1 TAGGGTT
19539086 TAGGGTT
1 TAGGGTT
19539093 TAGGGTT
1 TAGGGTT
19539100 TAGGGTT
1 TAGGGTT
19539107 TAGGGTT
1 TAGGGTT
19539114 TAGGG-T
1 TAGGGTT
19539120 TA-GGTT
1 TAGGGTT
19539126 TAGGGTT
1 TAGGGTT
19539133 TAGGGTT
1 TAGGGTT
19539140 TAGGGTT
1 TAGGGTT
19539147 TA-GGTT
1 TAGGGTT
19539153 TAGGGTT
1 TAGGGTT
19539160 TA-GGTT
1 TAGGGTT
19539166 TAGGGTT
1 TAGGGTT
19539173 TAGGGTT
1 TAGGGTT
19539180 TAGGGTT
1 TAGGGTT
19539187 TAGGGTT
1 TAGGGTT
19539194 TAGGGTT
1 TAGGGTT
19539201 TAGGGTT
1 TAGGGTT
19539208 TAGGGTT
1 TAGGGTT
19539215 TAGGGTT
1 TAGGGTT
19539222 TAGGGTTTT
1 TAGGG--TT
19539231 TA-GGTT
1 TAGGGTT
19539237 TA-GGTT
1 TAGGGTT
19539243 TAGGTGTT
1 TAGG-GTT
19539251 TAGGGTT
1 TAGGGTT
19539258 TAGGGTT
1 TAGGGTT
19539265 TAGGGTT
1 TAGGGTT
19539272 TAGGGTT
1 TAGGGTT
19539279 TAGGGTT
1 TAGGGTT
19539286 TAGGGTT
1 TAGGGTT
19539293 TAGGGTT
1 TAGGGTT
19539300 TAGGGTT
1 TAGGGTT
19539307 TA-GGTT
1 TAGGGTT
19539313 TAGGG-T
1 TAGGGTT
19539319 TAGGGTT
1 TAGGGTT
19539326 TAGGGTT
1 TAGGGTT
19539333 TAGGGTT
1 TAGGGTT
19539340 TAGGGTT
1 TAGGGTT
19539347 TAGGGTT
1 TAGGGTT
19539354 TAGGGTT
1 TAGGGTT
19539361 TAGGGTT
1 TAGGGTT
19539368 TAGGGTT
1 TAGGGTT
19539375 TAGGGTT
1 TAGGGTT
19539382 TAGGGTT
1 TAGGGTT
19539389 TA-GGTT
1 TAGGGTT
19539395 TAGGGTT
1 TAGGGTT
19539402 TAGGGTT
1 TAGGGTT
19539409 TAGGGTT
1 TAGGGTT
19539416 TAGGGTT
1 TAGGGTT
19539423 TAGGG-T
1 TAGGGTT
19539429 TAGGGTT
1 TAGGGTT
19539436 TAGGGTT
1 TAGGGTT
19539443 TAGGGTT
1 TAGGGTT
19539450 TAGGGTT
1 TAGGGTT
19539457 TAGGGTT
1 TAGGGTT
19539464 TAGGGTT
1 TAGGGTT
19539471 TAGGGTT
1 TAGGGTT
19539478 TAGGGTT
1 TAGGGTT
19539485 TAGGGTT
1 TAGGGTT
19539492 TAGGGTT
1 TAGGGTT
19539499 TAGGGTT
1 TAGGGTT
19539506 TAGGGTT
1 TAGGGTT
19539513 TAGGGTTT
1 TAGGG-TT
19539521 TAGGGTT
1 TAGGGTT
19539528 TAGGGTT
1 TAGGGTT
19539535 TAGGGTT
1 TAGGGTT
19539542 TAGGGTT
1 TAGGGTT
19539549 TAGGGTT
1 TAGGGTT
19539556 TAGGGTTT
1 TAGGG-TT
19539564 TAGGGTT
1 TAGGGTT
19539571 TAGGGTT
1 TAGGGTT
19539578 TAGGGTT
1 TAGGGTT
19539585 TA-GGTT
1 TAGGGTT
19539591 TAGGGTT
1 TAGGGTT
19539598 TAGGGTT
1 TAGGGTT
19539605 TA-GGTT
1 TAGGGTT
19539611 TAGGGTT
1 TAGGGTT
19539618 TAGGGTT
1 TAGGGTT
19539625 TAGGGTT
1 TAGGGTT
19539632 TAGGGTT
1 TAGGGTT
19539639 TAGGGTT
1 TAGGGTT
19539646 TAGGGTT
1 TAGGGTT
19539653 TA-GGTT
1 TAGGGTT
19539659 TAGGGTT
1 TAGGGTT
19539666 TA-GGTT
1 TAGGGTT
19539672 TAGGGTT
1 TAGGGTT
19539679 TAGGGTT
1 TAGGGTT
19539686 TAGGGTT
1 TAGGGTT
19539693 TAGGGTT
1 TAGGGTT
19539700 TAGGGTT
1 TAGGGTT
19539707 TAGGGTT
1 TAGGGTT
19539714 TAGGGTT
1 TAGGGTT
19539721 TAGGGTT
1 TAGGGTT
19539728 TAGGGTT
1 TAGGGTT
19539735 TAGGGTT
1 TAGGGTT
19539742 TAGGGTT
1 TAGGGTT
19539749 T-GGGTT
1 TAGGGTT
19539755 TA-GGTT
1 TAGGGTT
19539761 TAGGGTT
1 TAGGGTT
19539768 TAGGGTT
1 TAGGGTT
19539775 TAGGGTT
1 TAGGGTT
19539782 TAGGGTT
1 TAGGGTT
19539789 TA-GGTT
1 TAGGGTT
19539795 TA-GGTT
1 TAGGGTT
19539801 TAGGGTT
1 TAGGGTT
19539808 TAGGGTT
1 TAGGGTT
19539815 TAGGGTT
1 TAGGGTT
19539822 TAGGGTT
1 TAGGGTT
19539829 TAGGGTT
1 TAGGGTT
19539836 TAGGG-T
1 TAGGGTT
19539842 TAGGGTT
1 TAGGGTT
19539849 TAGGGTT
1 TAGGGTT
19539856 TA-GGTT
1 TAGGGTT
19539862 TAGGGTT
1 TAGGGTT
19539869 TAGGGTT
1 TAGGGTT
19539876 TAGGGTAGGT
1 TAGGGT---T
19539886 TAGGGTT
1 TAGGGTT
19539893 TAGGGTT
1 TAGGGTT
19539900 TAGGGTT
1 TAGGGTT
19539907 TAGGG-T
1 TAGGGTT
19539913 TAGGGTT
1 TAGGGTT
19539920 TAGGG-T
1 TAGGGTT
19539926 TAGGGTT
1 TAGGGTT
19539933 TAGGGTT
1 TAGGGTT
19539940 TAGGGTT
1 TAGGGTT
19539947 TAGGGTT
1 TAGGGTT
19539954 TAGGGTT
1 TAGGGTT
19539961 TAGGGTT
1 TAGGGTT
19539968 TA-GG-T
1 TAGGGTT
19539973 TA-GGTT
1 TAGGGTT
19539979 TAGGGTT
1 TAGGGTT
19539986 TAGGGTT
1 TAGGGTT
19539993 T--GGTT
1 TAGGGTT
19539998 TAGGGTT
1 TAGGGTT
19540005 TAGGGTT
1 TAGGGTT
19540012 TAGGGTT
1 TAGGGTT
19540019 TAGGGTT
1 TAGGGTT
19540026 TAGGGTT
1 TAGGGTT
19540033 TAGGGTT
1 TAGGGTT
19540040 TAGGGTT
1 TAGGGTT
19540047 TA-GG-T
1 TAGGGTT
19540052 TAGGG-T
1 TAGGGTT
*
19540058 TAGTGTT
1 TAGGGTT
19540065 TAGGGTT
1 TAGGGTT
19540072 TA-GGTT
1 TAGGGTT
19540078 TA-GGTT
1 TAGGGTT
19540084 TAGGGTT
1 TAGGGTT
19540091 TAGGGTT
1 TAGGGTT
19540098 TAGGGTT
1 TAGGGTT
19540105 TAGGGTT
1 TAGGGTT
19540112 TAGGGTT
1 TAGGGTT
19540119 TAGGGTT
1 TAGGGTT
19540126 TAGGGTT
1 TAGGGTT
19540133 TAGGGTT
1 TAGGGTT
19540140 TA-GGTT
1 TAGGGTT
19540146 TAGGGTT
1 TAGGGTT
19540153 TAGGG-T
1 TAGGGTT
19540159 TA-GG-T
1 TAGGGTT
19540164 TAGGGTT
1 TAGGGTT
19540171 TA-GGTT
1 TAGGGTT
19540177 TAGGGTT
1 TAGGGTT
19540184 TAGGGTT
1 TAGGGTT
19540191 TAGGGTT
1 TAGGGTT
19540198 TAGGG-T
1 TAGGGTT
19540204 TA-GG-T
1 TAGGGTT
19540209 TA-GGTT
1 TAGGGTT
19540215 TAGGGTT
1 TAGGGTT
19540222 TA-GGTT
1 TAGGGTT
19540228 TAGGGTT
1 TAGGGTT
*
19540235 TAGGTTTT
1 TAGG-GTT
19540243 TAGGGTT
1 TAGGGTT
19540250 TAGGGTT
1 TAGGGTT
19540257 TAGGGTT
1 TAGGGTT
19540264 TAGGGTT
1 TAGGGTT
19540271 TAGGGTT
1 TAGGGTT
19540278 TAGGGTT
1 TAGGGTT
19540285 TAGGGTT
1 TAGGGTT
19540292 TA-GGTT
1 TAGGGTT
19540298 TAGGG-T
1 TAGGGTT
19540304 TA-GGTT
1 TAGGGTT
19540310 TAGGGTTT
1 TAGGG-TT
19540318 TAGGGTT
1 TAGGGTT
19540325 TAGGGTT
1 TAGGGTT
19540332 TAGGGTT
1 TAGGGTT
19540339 TAGGGTT
1 TAGGGTT
19540346 TA-GGTT
1 TAGGGTT
19540352 TAGGGTT
1 TAGGGTT
19540359 TAGGGTT
1 TAGGGTT
19540366 TAGGGTT
1 TAGGGTT
19540373 TAGGGTT
1 TAGGGTT
19540380 TAGGGTT
1 TAGGGTT
19540387 TAGGG-T
1 TAGGGTT
19540393 TAGGGTT
1 TAGGGTT
19540400 TAGGGTT
1 TAGGGTT
19540407 TAGGG-T
1 TAGGGTT
19540413 TAGGGTT
1 TAGGGTT
19540420 TAGGGTT
1 TAGGGTT
19540427 TAGGGTT
1 TAGGGTT
19540434 TAGGGTT
1 TAGGGTT
19540441 TAGGGTT
1 TAGGGTT
19540448 TAGGGTT
1 TAGGGTT
19540455 TAGGGTT
1 TAGGGTT
19540462 TAGGGTT
1 TAGGGTT
19540469 TAGGGTT
1 TAGGGTT
19540476 TAGGGTT
1 TAGGGTT
19540483 TAGGGTT
1 TAGGGTT
19540490 TAGGGTT
1 TAGGGTT
19540497 TAGGGTT
1 TAGGGTT
19540504 TAGGGTT
1 TAGGGTT
19540511 TAGGGTT
1 TAGGGTT
19540518 TAGGGTT
1 TAGGGTT
19540525 TAGGGTT
1 TAGGGTT
19540532 TAGGGTT
1 TAGGGTT
19540539 TAGGGTT
1 TAGGGTT
19540546 TAGGGTT
1 TAGGGTT
19540553 TAGGGTT
1 TAGGGTT
19540560 TAGGGTT
1 TAGGGTT
19540567 TAGGGTT
1 TAGGGTT
19540574 TAGGGTT
1 TAGGGTT
19540581 TAGGGTT
1 TAGGGTT
19540588 TAGGGTT
1 TAGGGTT
19540595 TAGGGTT
1 TAGGGTT
19540602 TAGGGTT
1 TAGGGTT
19540609 TAGGGTT
1 TAGGGTT
19540616 TAGGGTT
1 TAGGGTT
19540623 TAGGGTT
1 TAGGGTT
19540630 TAGGGTT
1 TAGGGTT
19540637 TAGGGTT
1 TAGGGTT
19540644 TAGGGTT
1 TAGGGTT
19540651 TAGGGTT
1 TAGGGTT
19540658 TAGGGTT
1 TAGGGTT
19540665 TAGGGTT
1 TAGGGTT
19540672 TAGGGTT
1 TAGGGTT
19540679 TAGGGTT
1 TAGGGTT
19540686 TAGGGTT
1 TAGGGTT
19540693 TAGGGTT
1 TAGGGTT
19540700 TAGGGTT
1 TAGGGTT
19540707 TAGGGTT
1 TAGGGTT
19540714 TAGGG-T
1 TAGGGTT
19540720 TA-GG-T
1 TAGGGTT
19540725 TAGGGTT
1 TAGGGTT
19540732 TAGGGTT
1 TAGGGTT
19540739 TAGGGTT
1 TAGGGTT
19540746 TAGGGTT
1 TAGGGTT
19540753 TAGGGTT
1 TAGGGTT
19540760 TAGGGTT
1 TAGGGTT
19540767 TAGGGTT
1 TAGGGTT
19540774 TAGGGTT
1 TAGGGTT
19540781 TAGGGTT
1 TAGGGTT
19540788 TAGGGTT
1 TAGGGTT
19540795 TAGGGTT
1 TAGGGTT
19540802 TAGGGTT
1 TAGGGTT
19540809 TAGGGTT
1 TAGGGTT
19540816 TAGGGTT
1 TAGGGTT
19540823 TAGGGTT
1 TAGGGTT
19540830 TAGGGTT
1 TAGGGTT
19540837 TAGGGTT
1 TAGGGTT
19540844 TAGGGTT
1 TAGGGTT
19540851 TAGGGTT
1 TAGGGTT
19540858 TA--GTT
1 TAGGGTT
19540863 TAGGGTT
1 TAGGGTT
19540870 TAGGGTT
1 TAGGGTT
19540877 TAGGGTT
1 TAGGGTT
19540884 TAGGGTT
1 TAGGGTT
19540891 TAGGGTT
1 TAGGGTT
19540898 TAGGGTT
1 TAGGGTT
19540905 TAGGGTT
1 TAGGGTT
19540912 TAGGGTT
1 TAGGGTT
19540919 TAGGGTT
1 TAGGGTT
19540926 TAGGGTT
1 TAGGGTT
19540933 TAGGGTT
1 TAGGGTT
19540940 TAGGGTT
1 TAGGGTT
19540947 TAGGGTT
1 TAGGGTT
19540954 TAGGGTT
1 TAGGGTT
19540961 TAGGGTT
1 TAGGGTT
19540968 TAGGGTT
1 TAGGGTT
19540975 TAGGGTT
1 TAGGGTT
19540982 TAGGGTT
1 TAGGGTT
19540989 TAGGGTT
1 TAGGGTT
19540996 TAGGGTT
1 TAGGGTT
19541003 TAGGGTT
1 TAGGGTT
19541010 TAGGGTT
1 TAGGGTT
19541017 TAGGGTT
1 TAGGGTT
19541024 TAGGGTT
1 TAGGGTT
19541031 TAGGGTT
1 TAGGGTT
19541038 TAGGG-T
1 TAGGGTT
19541044 TAGGGTT
1 TAGGGTT
19541051 TAGGGTT
1 TAGGGTT
19541058 TAGGGTT
1 TAGGGTT
19541065 TAGGGTT
1 TAGGGTT
19541072 TAGGGTT
1 TAGGGTT
19541079 TAGGGTT
1 TAGGGTT
19541086 TAGGGTT
1 TAGGGTT
19541093 TAGGGTT
1 TAGGGTT
19541100 TAGGGTT
1 TAGGGTT
19541107 TAGGGTT
1 TAGGGTT
19541114 TAGGGTT
1 TAGGGTT
19541121 TAGGGTT
1 TAGGGTT
19541128 TAGGGTT
1 TAGGGTT
19541135 TAGGGTT
1 TAGGGTT
19541142 TAGGGTT
1 TAGGGTT
19541149 TAGGGTT
1 TAGGGTT
19541156 TAGGGTT
1 TAGGGTT
19541163 TAGGGTT
1 TAGGGTT
19541170 TAGGGTT
1 TAGGGTT
19541177 TAGGGTT
1 TAGGGTT
19541184 TAGGGTT
1 TAGGGTT
19541191 TAGGGTT
1 TAGGGTT
19541198 TAGGGTT
1 TAGGGTT
19541205 TAGGGTT
1 TAGGGTT
19541212 TAGGGTT
1 TAGGGTT
19541219 TAGGGTT
1 TAGGGTT
19541226 TAGGGTT
1 TAGGGTT
19541233 TAGGGTT
1 TAGGGTT
19541240 TAGGGTT
1 TAGGGTT
19541247 TAGGGTT
1 TAGGGTT
19541254 TAGGGTT
1 TAGGGTT
19541261 TAGGGTT
1 TAGGGTT
19541268 TAGGGTT
1 TAGGGTT
19541275 TAGGGTT
1 TAGGGTT
19541282 TAGGGTT
1 TAGGGTT
19541289 TAGGGTT
1 TAGGGTT
19541296 TAGGGTT
1 TAGGGTT
19541303 TAGGGTT
1 TAGGGTT
19541310 TAGGGTT
1 TAGGGTT
19541317 TAGGGTT
1 TAGGGTT
19541324 TAGGGTT
1 TAGGGTT
19541331 TAGGGTT
1 TAGGGTT
19541338 TAGGGTT
1 TAGGGTT
19541345 TAGGGTT
1 TAGGGTT
19541352 TAGGGTT
1 TAGGGTT
19541359 TAGGGTT
1 TAGGGTT
19541366 TAGGGTT
1 TAGGGTT
19541373 TAGGGTT
1 TAGGGTT
19541380 TAGGGTT
1 TAGGGTT
19541387 TAGGGTT
1 TAGGGTT
19541394 TAGGGTT
1 TAGGGTT
19541401 TAGGGTT
1 TAGGGTT
19541408 TAGGGTT
1 TAGGGTT
19541415 TAGGGTT
1 TAGGGTT
19541422 TAGGGTT
1 TAGGGTT
19541429 TA-GGTT
1 TAGGGTT
19541435 TAGGGTT
1 TAGGGTT
19541442 TA-GGTT
1 TAGGGTT
19541448 TAGGGTT
1 TAGGGTT
19541455 TAGGGTT
1 TAGGGTT
19541462 TAGGGTT
1 TAGGGTT
19541469 TAGGGTT
1 TAGGGTT
19541476 TAGGGTT
1 TAGGGTT
19541483 TAGGGTT
1 TAGGGTT
19541490 TAGGGTT
1 TAGGGTT
19541497 TAGGGTT
1 TAGGGTT
19541504 TAGGGTT
1 TAGGGTT
19541511 TA-GGTT
1 TAGGGTT
19541517 TAGGGTT
1 TAGGGTT
19541524 NNNNNNNNNN
Statistics
Matches: 2425, Mismatches: 4, Indels: 118
0.95 0.00 0.05
Matches are distributed among these distances:
5 39 0.02
6 238 0.10
7 2094 0.86
8 43 0.02
9 4 0.00
10 7 0.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.43
Consensus pattern (7 bp):
TAGGGTT
Found at i:19542939 original size:27 final size:28
Alignment explanation
Indices: 19542904--19543005 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 28
19542894 CACATGATAA
*
19542904 AAATTTTTA-TATTAATATAAATATATT
1 AAATGTTTATTATTAATATAAATATATT
*
19542931 AAATGTTTATTAATAATATATTAATTTATGTATT
1 AAATGTTTATTATTAATATA--AA--TA--TATT
*
19542965 AAATG-TAATTATTAATATAAATATATT
1 AAATGTTTATTATTAATATAAATATATT
19542992 AAATGTTTA-TATTA
1 AAATGTTTATTATTA
19543006 TTTTTTATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
27 22 0.35
28 11 0.18
29 2 0.03
30 2 0.03
31 2 0.03
32 2 0.03
33 12 0.19
34 9 0.15
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
AAATGTTTATTATTAATATAAATATATT
Found at i:19542951 original size:36 final size:35
Alignment explanation
Indices: 19542911--19542981 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
19542901 TAAAAATTTT
19542911 TATATTAATATAAATATATTAAATGT-TTATTAATAA
1 TATATTAAT-T-AATATATTAAATGTATTATTAATAA
* *
19542947 TATATTAATTTATGTATTAAATGTAATTATTAATA
1 TATATTAATTAATATATTAAATGT-ATTATTAATA
19542982 TAAATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 12 0.39
35 1 0.03
36 18 0.58
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (35 bp):
TATATTAATTAATATATTAAATGTATTATTAATAA
Found at i:19543897 original size:3 final size:3
Alignment explanation
Indices: 19543889--19543926 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19543879 CCATTTGCGT
19543889 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
19543927 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:19543931 original size:3 final size:3
Alignment explanation
Indices: 19543925--19543957 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
19543915 AATAATAATA
19543925 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19543958 TTAAAAAGTG
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19545366 original size:35 final size:35
Alignment explanation
Indices: 19545327--19545393 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
19545317 TAATTTCATC
* * * *
19545327 AATTTGATATATTATTATTATTATTTATTAATAAA
1 AATTTGATATAATATAAATATAATTTATTAATAAA
* *
19545362 AATTTTATTTAATATAAATATAATTTATTAAT
1 AATTTGATATAATATAAATATAATTTATTAAT
19545394 TATTAATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (35 bp):
AATTTGATATAATATAAATATAATTTATTAATAAA
Found at i:19545746 original size:26 final size:26
Alignment explanation
Indices: 19545712--19545763 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19545702 AATTGGAATT
19545712 TTTAAGGAATAATTGAAACCCTATAA
1 TTTAAGGAATAATTGAAACCCTATAA
*
19545738 TTTAAGGAATAATTGAAACCGTATAA
1 TTTAAGGAATAATTGAAACCCTATAA
19545764 CTATTAGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (26 bp):
TTTAAGGAATAATTGAAACCCTATAA
Found at i:19547132 original size:14 final size:13
Alignment explanation
Indices: 19547110--19547143 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
19547100 TGTCAATAAT
19547110 TTTATTAAAAATA
1 TTTATTAAAAATA
19547123 TTTATATAAAAATA
1 TTTAT-TAAAAATA
*
19547137 TATATTA
1 TTTATTA
19547144 CAATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTATTAAAAATA
Found at i:19555620 original size:17 final size:17
Alignment explanation
Indices: 19555587--19555620 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19555577 AATGTTTGGG
*
19555587 TTCAAGATTTGACTAAA
1 TTCAAGATTTAACTAAA
*
19555604 TTCAAGATTTAATTAAA
1 TTCAAGATTTAACTAAA
19555621 ACCTTGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (17 bp):
TTCAAGATTTAACTAAA
Found at i:19558973 original size:18 final size:15
Alignment explanation
Indices: 19558937--19558983 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 15
19558927 AAATGGCATA
19558937 AAATATTTATTATAT
1 AAATATTTATTATAT
19558952 -AATATTTATGTATTATT
1 AAATATTTAT-TA-TA-T
*
19558969 AAATAATTATTATAT
1 AAATATTTATTATAT
19558984 TTTGTGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
14 9 0.33
15 3 0.11
16 4 0.15
17 3 0.11
18 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AAATATTTATTATAT
Found at i:19561962 original size:42 final size:41
Alignment explanation
Indices: 19561904--19562411 Score: 214
Period size: 44 Copynumber: 11.9 Consensus size: 41
19561894 TCCTCTAAGT
** *
19561904 AGAGGCTCAATGACTTTGAGAAACATAAATGCTCATCTAAAC
1 AGAGGCTCAACAACTTTGA-AAAAATAAATGCTCATCTAAAC
*
19561946 AGAGGCTCAACAACTTT-AAAAAATAAATAAGGCT-ATTTTAAAC
1 AGAGGCTCAACAACTTTGAAAAAATAAAT---GCTCA-TCTAAAC
* * * *
19561989 AGAAGCTCAACAACTTT-AAAAAATAAACAAAGCTCCTCTAATC
1 AGAGGCTCAACAACTTTGAAAAAAT--A-AATGCTCATCTAAAC
*
19562032 AGAGGCTCAACAACTTTTG-AAAAATAAATAAGGCTCTTCTAAAC
1 AGAGGCTCAACAAC-TTTGAAAAAATAAAT---GCTCATCTAAAC
19562076 AGAGGCTCAACAACTTTGAAAATAAATAAA-GCTTC-TCTAAAC
1 AGAGGCTCAACAACTTTG-AAA-AAATAAATGC-TCATCTAAAC
** * * *
19562118 AGAGGCTCAATGACTTTTGAAAAATTAACAAGGCTTC-TCTAATC
1 AGAGGCTCAACAAC-TTTGAAAAAAT-A-AATGC-TCATCTAAAC
* * * *
19562162 AGAGGCAT-AACGACTTTGAAAAATAAAACAAAGCTCCTCTAAAC
1 AGAGGC-TCAACAACTTTG-AAAA-AATA-AATGCTCATCTAAAC
* * * * *
19562206 AAAGGCTCAACGACTTTTG-AAAAATGAACAAGGCTCTTCTAATC
1 AGAGGCTCAACAAC-TTTGAAAAAAT--A-AATGCTCATCTAAAC
* * * * * * **
19562250 AGAGGCACAACGACTTTGAAAAATAAAACAAAGCTCTTATTGAC
1 AGAGGCTCAACAACTTTG-AAAA-AATA-AATGCTCATCTAAAC
* * * * *
19562294 ATA-GTTACTAA-AACTTTGGAAAAGTAAATTACTTC-TCTAAAC
1 AGAGGCT-C-AACAACTTTGAAAAAATAAA-TGC-TCATCTAAAC
* * * * *
19562336 AGAGGCACTACAACTTTG-AAAAGTAAATTGTTCCTCTAAAC
1 AGAGGCTCAACAACTTTGAAAAAATAAA-TGCTCATCTAAAC
* * *
19562377 AGAGGCACCACAACTTTAAAAAAATAAATGCTCAT
1 AGAGGCTCAACAACTTTGAAAAAATAAATGCTCAT
19562412 TGACAATCAT
Statistics
Matches: 368, Mismatches: 58, Indels: 81
0.73 0.11 0.16
Matches are distributed among these distances:
40 11 0.03
41 48 0.13
42 69 0.19
43 86 0.23
44 129 0.35
45 14 0.04
46 11 0.03
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (41 bp):
AGAGGCTCAACAACTTTGAAAAAATAAATGCTCATCTAAAC
Found at i:19562073 original size:44 final size:43
Alignment explanation
Indices: 19561934--19562287 Score: 365
Period size: 44 Copynumber: 8.1 Consensus size: 43
19561924 AAACATAAAT
* * *
19561934 GCTCATCTAAACAGAGGCTCAACAACTTTAAAAAATAAATAAG
1 GCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAG
* * * * *
19561977 GCTATTTTAAACAGAAGCTCAACAACTTTAAAAAATAAACAAA
1 GCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAG
* * *
19562020 GCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAAG
1 GCTCTTCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAACAAG
* *
19562064 GCTCTTCTAAACAGAGGCTCAACAACTTTG-AAAATAAATAAA
1 GCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAG
** *
19562106 GCT-TCTCTAAACAGAGGCTCAATGACTTTTGAAAAATTAACAAG
1 GCTCT-TCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAACAAG
* * *
19562150 GCT-TCTCTAATCAGAGGCAT-AACGACTTTGAAAAATAAAACAAA
1 GCTCT-TCTAAACAGAGGC-TCAACAACTTTGAAAAAT-AAACAAG
* * * *
19562194 GCTCCTCTAAACAAAGGCTCAACGACTTTTGAAAAATGAACAAG
1 GCTCTTCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAACAAG
* * * *
19562238 GCTCTTCTAATCAGAGGCACAACGACTTTGAAAAATAAAACAAA
1 GCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAAT-AAACAAG
19562282 GCTCTT
1 GCTCTT
19562288 ATTGACATAG
Statistics
Matches: 264, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 33 0.12
43 87 0.33
44 132 0.50
45 11 0.04
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.23
Consensus pattern (43 bp):
GCTCTTCTAAACAGAGGCTCAACAACTTTGAAAAATAAACAAG
Found at i:19562091 original size:130 final size:126
Alignment explanation
Indices: 19561888--19562285 Score: 435
Period size: 130 Copynumber: 3.1 Consensus size: 126
19561878 TTGTTTTAGT
*
19561888 CAAAGCTCCTCTAAGT-AGAGGCTCAATGACTTTGAGAAACATAAAT--GCTCATCTAAACAGAG
1 CAAAGCTCCTCTAA-TCAGAGGCTCAACGACTTTGA-AAA-ATAAATAAGCTCATCTAAACAGAG
* * * *
19561950 GCTCAACAACTTTAAAAAATAAATAAGGCTATTTTAAACAGAAGCTCAACAACTTTAAAAAATAA
63 GCTCAACAACTTT-AAAAATAAATAAGGCT-TTCTAAACAGAGGCTCAACGACTTTGAAAAATAA
19562015 A
126 A
* *
19562016 CAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATAAGGCTCTTCTAAACAGAGG
1 CAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAATAAATAA-GCTCATCTAAACAGAGG
* * * *
19562081 CTCAACAACTTTGAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAATGACTTTTGAAAAATTAA
64 CTCAACAACTTTAAAAATAAATAAGGCTT-TCTAAACAGAGGCTCAACGAC-TTTGAAAAATAAA
* * * * *
19562146 CAAGGCTTCTCTAATCAGAGGCAT-AACGACTTTGAAAAATAAAACAAAGCTCCTCTAAACAAAG
1 CAAAGCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAAT-AAA-TAAGCTCATCTAAACAGAG
* * * * *
19562210 GCTCAACGACTTTTGAAAAATGAACAAGGCTCTTCTAATCAGAGGCACAACGACTTTGAAAAATA
63 GCTCAACAAC-TTT-AAAAATAAATAAGGCT-TTCTAAACAGAGGCTCAACGACTTTGAAAAAT-
19562275 AAA
124 AAA
19562278 CAAAGCTC
1 CAAAGCTC
19562286 TTATTGACAT
Statistics
Matches: 228, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
127 7 0.03
128 30 0.13
129 46 0.20
130 90 0.39
131 16 0.07
132 38 0.17
133 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.23
Consensus pattern (126 bp):
CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAGCTCATCTAAACAGAGGCT
CAACAACTTTAAAAATAAATAAGGCTTTCTAAACAGAGGCTCAACGACTTTGAAAAATAAA
Found at i:19562107 original size:86 final size:86
Alignment explanation
Indices: 19561904--19562285 Score: 430
Period size: 86 Copynumber: 4.4 Consensus size: 86
19561894 TCCTCTAAGT
* * * * * *
19561904 AGAGGCTCAATGACTTTGAGAAACATA-AATGCTCATCTAAACAGAGGCTCAACAAC-TTTAAAA
1 AGAGGCTCAACGACTTTGA-AAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAA
* * *
19561967 AATAAATAAGGCTATTTTAAAC
65 AATAAACAAGGCTCTTCTAAAC
* * * *
19561989 AGAAGCTCAACAACTTTAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTTGAAA
1 AGAGGCTCAACGACTTT-GAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAA
*
19562054 AATAAATAAGGCTCTTCTAAAC
65 AATAAACAAGGCTCTTCTAAAC
* * * **
19562076 AGAGGCTCAACAACTTTGAAAATAAATAAAGCTTCTCTAAACAGAGGCTCAATGACTTTTGAAAA
1 AGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAA
* *
19562141 ATTAACAAGGCT-TCTCTAATC
66 ATAAACAAGGCTCT-TCTAAAC
* *
19562162 AGAGGCAT-AACGACTTTGAAAAATAAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTTGA
1 AGAGGC-TCAACGACTTTG-AAAAT-AAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGA
* *
19562226 AAAATGAACAAGGCTCTTCTAATC
63 AAAATAAACAAGGCTCTTCTAAAC
*
19562250 AGAGGCACAACGACTTTGAAAAATAAAACAAAGCTC
1 AGAGGCTCAACGACTTTG-AAAAT-AAACAAAGCTC
19562286 TTATTGACAT
Statistics
Matches: 259, Mismatches: 29, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
85 20 0.08
86 100 0.39
87 48 0.19
88 90 0.35
89 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (86 bp):
AGAGGCTCAACGACTTTGAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAA
ATAAACAAGGCTCTTCTAAAC
Found at i:19562331 original size:174 final size:174
Alignment explanation
Indices: 19561984--19562362 Score: 414
Period size: 174 Copynumber: 2.2 Consensus size: 174
19561974 AAGGCTATTT
* * * * * *
19561984 TAAACAGAAGCTCAACAACTTTAAAAAAT-AAACAAAGCTCCTCTAATCAGAGGCTCAACAACTT
1 TAAACAGAGGCACTACAACTTTGAAAAATAAAACAAAGCTCCTCTAAACAAAGGCTCAACAACTT
* * *
19562048 TTGAAAAATAAATAAGGCTCTTCTAAACAGAGGCTCAACAACTTTGAAAATAAATAAAGCTTCTC
66 TTGAAAAATAAACAAGGCTCTTCTAAACAGAGGCACAACAACTTTGAAAATAAACAAAGCTTCTC
* * * *
19562113 TAAACAGAGGCTCAATGACTTTTGAAAAATTAACAAGGCTTCTC
131 TAAACAGAGACTCAATAACTTTTGAAAAAGTAACAAGACTTCTC
* * *
19562157 TAATCAGAGGCA-TAACGACTTTGAAAAATAAAACAAAGCTCCTCTAAACAAAGGCTCAACGACT
1 TAAACAGAGGCACT-ACAACTTTGAAAAATAAAACAAAGCTCCTCTAAACAAAGGCTCAACAACT
* * *
19562221 TTTGAAAAATGAACAAGGCTCTTCTAATCAGAGGCACAACGACTTTGAAAAATAAAACAAAGC-T
65 TTTGAAAAATAAACAAGGCTCTTCTAAACAGAGGCACAACAACTTTG-AAAAT-AAACAAAGCTT
* * * **
19562285 CT-TATTGACATAGTTACT-AA-AAC-TTTGGAAAAGTAA-ATTACTTCTC
128 CTCTA--AACAGAG--ACTCAATAACTTTTGAAAAAGTAACAAGACTTCTC
*
19562331 TAAACAGAGGCACTACAACTTTGAAAAGTAAA
1 TAAACAGAGGCACTACAACTTTGAAAAATAAA
19562363 TTGTTCCTCT
Statistics
Matches: 170, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
173 22 0.13
174 109 0.64
175 20 0.12
176 15 0.09
177 2 0.01
178 2 0.01
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (174 bp):
TAAACAGAGGCACTACAACTTTGAAAAATAAAACAAAGCTCCTCTAAACAAAGGCTCAACAACTT
TTGAAAAATAAACAAGGCTCTTCTAAACAGAGGCACAACAACTTTGAAAATAAACAAAGCTTCTC
TAAACAGAGACTCAATAACTTTTGAAAAAGTAACAAGACTTCTC
Found at i:19562359 original size:41 final size:41
Alignment explanation
Indices: 19562300--19562398 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
19562290 TGACATAGTT
*
19562300 ACTAAAACTTTGGAAAAGTAAATTACTT-CTCTAAACAGAGGC
1 ACTACAACTTT-GAAAAGTAAATT-CTTCCTCTAAACAGAGGC
*
19562342 ACTACAACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGGC
1 ACTACAACTTTGAAAAGTAAATTCTTCCTCTAAACAGAGGC
* *
19562383 ACCACAACTTTAAAAA
1 ACTACAACTTTGAAAA
19562399 AATAAATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.04
41 40 0.77
42 10 0.19
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.25
Consensus pattern (41 bp):
ACTACAACTTTGAAAAGTAAATTCTTCCTCTAAACAGAGGC
Found at i:19564026 original size:18 final size:18
Alignment explanation
Indices: 19564005--19564059 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
19563995 AATTTGAGTC
19564005 TTTTTTTTATTTTTCTCT
1 TTTTTTTTATTTTTCTCT
*
19564023 TTTTATTTATTTTT-TC-
1 TTTTTTTTATTTTTCTCT
*
19564039 --CTTTTTATTTTTCTCT
1 TTTTTTTTATTTTTCTCT
19564055 TTTTT
1 TTTTT
19564060 CATACATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
17 2 0.07
18 15 0.52
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTTATTTTTCTCT
Found at i:19564027 original size:14 final size:14
Alignment explanation
Indices: 19564008--19564058 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
19563998 TTGAGTCTTT
19564008 TTTTTATTTTTCTC
1 TTTTTATTTTTCTC
*
19564022 TTTTTATTTATTTTTTCC
1 TTTTTA--T-TTTTCT-C
19564040 TTTTTATTTTTCTC
1 TTTTTATTTTTCTC
19564054 TTTTT
1 TTTTT
19564059 TCATACATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 12 0.39
15 5 0.16
16 2 0.06
17 5 0.16
18 7 0.23
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTTCTC
Found at i:19578096 original size:11 final size:11
Alignment explanation
Indices: 19578080--19578192 Score: 56
Period size: 11 Copynumber: 10.0 Consensus size: 11
19578070 TAATAACAAG
19578080 ATATAAATATA
1 ATATAAATATA
*
19578091 ATATAAAAAATAA
1 ATAT-AAATAT-A
*
19578104 ATATAAAAATA
1 ATATAAATATA
* *
19578115 ATATAATTTAAA
1 ATATAA-ATATA
* *
19578127 ATTTTAATAATAA
1 ATATAAAT-AT-A
*
19578140 TATATAAATTTA
1 -ATATAAATATA
19578152 ATA-AAAT-TA
1 ATATAAATATA
19578161 AT-TAAGAT-T-
1 ATATAA-ATATA
19578170 ATATAAAATATA
1 ATAT-AAATATA
19578182 ATATAAATATA
1 ATATAAATATA
19578193 TAAATTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
9 8 0.10
10 10 0.13
11 25 0.32
12 23 0.29
13 7 0.09
14 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (11 bp):
ATATAAATATA
Found at i:19578108 original size:13 final size:13
Alignment explanation
Indices: 19578084--19578120 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
19578074 AACAAGATAT
19578084 AAATATAATATAAA
1 AAATA-AATATAAA
19578098 AAATAAATAT-AA
1 AAATAAATATAAA
19578110 AAAT-AATATAA
1 AAATAAATATAA
19578121 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 7 0.32
13 5 0.23
14 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAATATAAA
Found at i:19578147 original size:43 final size:42
Alignment explanation
Indices: 19578086--19578197 Score: 97
Period size: 41 Copynumber: 2.7 Consensus size: 42
19578076 CAAGATATAA
* * *
19578086 ATATAATATAAAAAATAAATATAAAAATAATATAATTTAAAATT
1 ATATAAAATATAATATAAATATAAAAATAAT-TAA-TTAAAATT
* * *
19578130 -T-TAATAATA-ATATATAAATTTAATAA-AATTAATTAAGATT
1 ATATAA-AATATA-ATATAAATATAAAAATAATTAATTAAAATT
*
19578170 ATATAAAATATAATATAAATATATAAAT
1 ATATAAAATATAATATAAATATAAAAAT
19578198 TTAAATATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
40 7 0.13
41 20 0.37
42 11 0.20
43 16 0.30
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.38
Consensus pattern (42 bp):
ATATAAAATATAATATAAATATAAAAATAATTAATTAAAATT
Found at i:19578177 original size:20 final size:19
Alignment explanation
Indices: 19578141--19578201 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
19578131 TAATAATAAT
*
19578141 ATATAAATTTAATAAAATTA
1 ATATAAATAT-ATAAAATTA
19578161 AT-TAAGATTATATAAAATATA
1 ATATAA-A-TATATAAAAT-TA
*
19578182 ATATAAATATATAAATTTA
1 ATATAAATATATAAAATTA
19578201 A
1 A
19578202 ATATTTTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 6 0.17
20 19 0.54
21 7 0.20
22 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATAAATATATAAAATTA
Found at i:19579231 original size:29 final size:29
Alignment explanation
Indices: 19579173--19579252 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
19579163 TGTAAATTTA
* *
19579173 TATAATATAAAATAT-TAAAATTTATATAT
1 TATAATTTAAATTATATAAAA-TTATATAT
* *
19579202 T-T-ATATTATATTTATATAAAATTATGTAT
1 TATAAT-TTA-AATTATATAAAATTATATAT
19579231 TATAATTTAAATTATATAAAAT
1 TATAATTTAAATTATATAAAAT
19579253 ATAAAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
27 2 0.05
28 3 0.07
29 25 0.61
30 9 0.22
31 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TATAATTTAAATTATATAAAATTATATAT
Found at i:19579347 original size:13 final size:13
Alignment explanation
Indices: 19579314--19579347 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19579304 AAATTATATC
* *
19579314 ATTTTTAAATTTT
1 ATTTTTATATTAT
19579327 ATTTTTATATTAT
1 ATTTTTATATTAT
19579340 ATTTTTAT
1 ATTTTTAT
19579348 TGTATCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTATATTAT
Found at i:19579815 original size:19 final size:19
Alignment explanation
Indices: 19579777--19579817 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19579767 TTAAAATCTA
* * *
19579777 AATAAAAATAATAGAGATT
1 AATAAAAATAAAAAAAATT
19579796 AATAAAAATAAAAAAAATT
1 AATAAAAATAAAAAAAATT
19579815 AAT
1 AAT
19579818 TTTATATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAAAAATAAAAAAAATT
Found at i:19580535 original size:16 final size:16
Alignment explanation
Indices: 19580516--19580546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19580506 AAAAAAATCG
19580516 TATTTTAAAAATAAAA
1 TATTTTAAAAATAAAA
*
19580532 TATTTTGAAAATAAA
1 TATTTTAAAAATAAA
19580547 GTAAACATAT
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:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TATTTTAAAAATAAAA
Found at i:19583428 original size:3 final size:3
Alignment explanation
Indices: 19583389--19583416 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19583379 CCATGTTGGC
19583389 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
19583417 TTGGCGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:19583936 original size:92 final size:92
Alignment explanation
Indices: 19583833--19584015 Score: 242
Period size: 92 Copynumber: 2.0 Consensus size: 92
19583823 CCCTTGTGAG
* * *
19583833 ATAAAACCTTTCACCATCCCTACAAAATTATAGAGCAAAACATAAACAAAGAAACCCATAACACA
1 ATAAAACCTTTCACAATCCCGACAAAATTATAGAACAAAACATAAACAAAGAAACCC-TAACACA
*
19583898 AGAAAAAAGAAACATAGAC-AAACATAT
65 AGAAAAAAGAAACAGAGACAAAACATAT
* * * * * * * *
19583925 ATAAAATCTTTCACAATCCCGGCAAAATTATAGAATAAAACATAAATAAAGGAACCCTGACATAG
1 ATAAAACCTTTCACAATCCCGACAAAATTATAGAACAAAACATAAACAAAGAAACCCTAACACAA
19583990 GAAAAAAGAAACAGAGACAAAACATA
66 GAAAAAAGAAACAGAGACAAAACATA
19584016 CTTGGGAAGA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
91 22 0.28
92 56 0.72
ACGTcount: A:0.56, C:0.19, G:0.09, T:0.16
Consensus pattern (92 bp):
ATAAAACCTTTCACAATCCCGACAAAATTATAGAACAAAACATAAACAAAGAAACCCTAACACAA
GAAAAAAGAAACAGAGACAAAACATAT
Found at i:19584936 original size:13 final size:14
Alignment explanation
Indices: 19584918--19584946 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19584908 GGATAAATTA
19584918 TTTTATTTTT-TAT
1 TTTTATTTTTGTAT
19584931 TTTTATTTTTGTAT
1 TTTTATTTTTGTAT
19584945 TT
1 TT
19584947 AAAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTGTAT
Found at i:19585258 original size:25 final size:27
Alignment explanation
Indices: 19585221--19585270 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
19585211 TTTTGGATAA
*
19585221 TTTTTATTATTTATA-TAAAAATATAT
1 TTTTTAATATTTATATTAAAAATATAT
19585247 TTTTTAAT-TTTATATTAAAAATAT
1 TTTTTAATATTTATATTAAAAATAT
19585271 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTAATATTTATATTAAAAATATAT
Found at i:19585336 original size:32 final size:33
Alignment explanation
Indices: 19585294--19585361 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
19585284 AATAAATACC
* * *
19585294 TAATTCAATAATATTTTTCATACACCAATTATA
1 TAATTCAATAATAATTATCAAACACCAATTATA
**
19585327 TAATT-AATAATAATTATCAAACGTCAATTATA
1 TAATTCAATAATAATTATCAAACACCAATTATA
19585359 TAA
1 TAA
19585362 ACTTATGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 25 0.83
33 5 0.17
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (33 bp):
TAATTCAATAATAATTATCAAACACCAATTATA
Found at i:19585395 original size:21 final size:21
Alignment explanation
Indices: 19585371--19585410 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19585361 AACTTATGCG
19585371 ATTAACAAGATTAAAATTTGA
1 ATTAACAAGATTAAAATTTGA
* * *
19585392 ATTATCATGATTATAATTT
1 ATTAACAAGATTAAAATTT
19585411 AATATTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
ATTAACAAGATTAAAATTTGA
Found at i:19586687 original size:23 final size:23
Alignment explanation
Indices: 19586661--19586705 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
19586651 GTAAACCGAT
*
19586661 TTATCGAACAAATTAAATTTAAA
1 TTATCAAACAAATTAAATTTAAA
* * *
19586684 TTATTAAACGAGTTAAATTTAA
1 TTATCAAACAAATTAAATTTAA
19586706 GTTTTTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (23 bp):
TTATCAAACAAATTAAATTTAAA
Found at i:19586760 original size:15 final size:16
Alignment explanation
Indices: 19586740--19586773 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
19586730 AATTTAATCG
19586740 ATTTTTTA-TATTTTA
1 ATTTTTTATTATTTTA
19586755 ATTTTTTATTATTTTA
1 ATTTTTTATTATTTTA
19586771 ATT
1 ATT
19586774 AATAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTATTATTTTA
Found at i:19586838 original size:26 final size:25
Alignment explanation
Indices: 19586803--19586858 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
19586793 TATATATATT
*
19586803 TTAAA-TTTAAATTCAAATATAAATAA
1 TTAAACTTAAAATT-AAATATAAA-AA
19586829 TTAAACTTAAAATTAAATATAAAAA
1 TTAAACTTAAAATTAAATATAAAAA
19586854 TTAAA
1 TTAAA
19586859 TTATTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 7 0.25
26 14 0.50
27 7 0.25
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
TTAAACTTAAAATTAAATATAAAAA
Found at i:19586842 original size:12 final size:13
Alignment explanation
Indices: 19586811--19586859 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
19586801 TTTTAAATTT
19586811 AAATTCAAATATAA
1 AAATT-AAATATAA
19586825 ATAATTAAACT-T-A
1 A-AATTAAA-TATAA
19586838 AAATTAAATATAA
1 AAATTAAATATAA
19586851 AAATTAAAT
1 AAATTAAAT
19586860 TATTTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
11 1 0.03
12 8 0.26
13 12 0.39
14 5 0.16
15 5 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAAATATAA
Found at i:19587676 original size:22 final size:22
Alignment explanation
Indices: 19587642--19587688 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19587632 TTCCAAATTA
19587642 TAATATTTGATTTAATTTAAAT
1 TAATATTTGATTTAATTTAAAT
* * * *
19587664 TAATTTTTTATTTGATTTATAT
1 TAATATTTGATTTAATTTAAAT
19587686 TAA
1 TAA
19587689 AATTAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TAATATTTGATTTAATTTAAAT
Done.