Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167856.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_126, 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: 75425
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Found at i:1703 original size:2 final size:2
Alignment explanation
Indices: 1696--1736 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1686 GAGCTCTTAA
1696 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT A
1737 AAGCTGTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1819 original size:23 final size:23
Alignment explanation
Indices: 1793--1844 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1783 TTGGGAATAG
1793 ATTTGAAAATT-AATACTATAGGA
1 ATTTGAAAATTGAA-ACTATAGGA
* * *
1816 ATTTGACATTTGCAACTATAGGA
1 ATTTGAAAATTGAAACTATAGGA
1839 ATTTGA
1 ATTTGA
1845 CATTTGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (23 bp):
ATTTGAAAATTGAAACTATAGGA
Found at i:1845 original size:23 final size:23
Alignment explanation
Indices: 1807--1853 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1797 GAAAATTAAT
1807 ACTATAGGAATTTGACATTTGCA
1 ACTATAGGAATTTGACATTTGCA
1830 ACTATAGGAATTTGACATTTGCA
1 ACTATAGGAATTTGACATTTGCA
1853 A
1 A
1854 ACAGGCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (23 bp):
ACTATAGGAATTTGACATTTGCA
Found at i:3384 original size:25 final size:26
Alignment explanation
Indices: 3328--3384 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
3318 TGAAAAAAAT
3328 TAATAAA-TTTGATAGATATTTTTAA
1 TAATAAATTTTGATAGATATTTTTAA
3353 TAA-AAATTTTGATAGA-ATTTTT-A
1 TAATAAATTTTGATAGATATTTTTAA
3376 TAATTAAAT
1 TAA-TAAAT
3385 AAGTACTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.14
24 9 0.31
25 16 0.55
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (26 bp):
TAATAAATTTTGATAGATATTTTTAA
Found at i:12916 original size:11 final size:10
Alignment explanation
Indices: 12894--12932 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
12884 TAAAACATTT
12894 ATAACATAATA
1 ATAA-ATAATA
12905 ATAAATACATA
1 ATAAATA-ATA
12916 ATAATATAATA
1 ATAA-ATAATA
12927 ATAAAT
1 ATAAAT
12933 TATTGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.19
11 18 0.69
12 3 0.12
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (10 bp):
ATAAATAATA
Found at i:12916 original size:14 final size:15
Alignment explanation
Indices: 12897--12930 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
12887 AACATTTATA
12897 ACATAATAATA-AAT
1 ACATAATAATATAAT
12911 ACATAATAATATAAT
1 ACATAATAATATAAT
12926 A-ATAA
1 ACATAA
12931 ATTATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ACATAATAATATAAT
Found at i:13143 original size:18 final size:19
Alignment explanation
Indices: 13106--13142 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13096 ATAAATTAAT
*
13106 TTAAATTTTTACTAAAAAA
1 TTAAATTTTTAATAAAAAA
13125 TTAAATTTTTAATAAAAA
1 TTAAATTTTTAATAAAAA
13143 TATGTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAAATTTTTAATAAAAAA
Found at i:14079 original size:31 final size:30
Alignment explanation
Indices: 14044--14116 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
14034 GTTATAATAA
* *
14044 TATTTTTATTTTACAATTTTATGTGTTTGGT
1 TATTTTTATTGTA-AATTTTATGTGCTTGGT
* *
14075 TATTTTTATCAGTATATTTTATGTGCTTGGT
1 TATTTTTAT-TGTAAATTTTATGTGCTTGGT
14106 TAATTTTTATT
1 T-ATTTTTATT
14117 AATATATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (30 bp):
TATTTTTATTGTAAATTTTATGTGCTTGGT
Found at i:14123 original size:32 final size:31
Alignment explanation
Indices: 14059--14123 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
14049 TTATTTTACA
* *
14059 ATTTTATGTGTTTGGTTATTTTTATCAGTAT
1 ATTTTATGTGCTTGGTTATTTTTATCAATAT
*
14090 ATTTTATGTGCTTGGTTAATTTTTATTAATAT
1 ATTTTATGTGCTTGGTT-ATTTTTATCAATAT
14122 AT
1 AT
14124 ATATGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (31 bp):
ATTTTATGTGCTTGGTTATTTTTATCAATAT
Found at i:14262 original size:24 final size:22
Alignment explanation
Indices: 14235--14285 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
14225 GTTATCGAAG
*
14235 ATTTACTACTAAGTTATATCAATA
1 ATTTACTACTAAATTATA--AATA
* *
14259 ATTTATTATTAAATTATAAATA
1 ATTTACTACTAAATTATAAATA
14281 ATTTA
1 ATTTA
14286 TTATTGAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
24 15 0.62
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTTACTACTAAATTATAAATA
Found at i:14297 original size:22 final size:23
Alignment explanation
Indices: 14235--14301 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
14225 GTTATCGAAG
* *
14235 ATTTACTACTAAGTTATATCAATA
1 ATTTATTATTAAGTTATA-CAATA
*
14259 ATTTATTATTAAATTATA-AATA
1 ATTTATTATTAAGTTATACAATA
*
14281 ATTTATTATTGAGTTAT-CAAT
1 ATTTATTATTAAGTTATACAAT
14302 GATTAACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 22 0.59
24 15 0.41
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (23 bp):
ATTTATTATTAAGTTATACAATA
Found at i:14372 original size:22 final size:22
Alignment explanation
Indices: 14347--14417 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
14337 ATTATCTATA
14347 ATTTACTATTAAGTTATCCA-TG
1 ATTTACTATTAAGTTAT-CATTG
*
14369 ATTTAATATTAAGTTAAT-ATTG
1 ATTTACTATTAAGTT-ATCATTG
*
14391 ATTTACTAATAAGTTATCATTG
1 ATTTACTATTAAGTTATCATTG
14413 ATTTA
1 ATTTA
14418 TTGTTATCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
21 3 0.07
22 38 0.88
23 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTG
Found at i:15026 original size:8 final size:8
Alignment explanation
Indices: 15013--15051 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
15003 CATCATCATC
15013 ATTTTTTT
1 ATTTTTTT
15021 ATTTTTTT
1 ATTTTTTT
15029 A-TTTTTT
1 ATTTTTTT
15036 ATTTTTTTT
1 A-TTTTTTT
15045 ATTTTTT
1 ATTTTTT
15052 GGTTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.24
8 15 0.52
9 7 0.24
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
ATTTTTTT
Found at i:15067 original size:24 final size:24
Alignment explanation
Indices: 15016--15068 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15006 CATCATCATT
* * *
15016 TTTTTATTTTTTTATTTTTTATTT
1 TTTTTATTTTTTGATTTCTTATTC
* *
15040 TTTTTATTTTTTGGTTTCTTCTTC
1 TTTTTATTTTTTGATTTCTTATTC
15064 TTTTT
1 TTTTT
15069 TAGTTCGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.83
Consensus pattern (24 bp):
TTTTTATTTTTTGATTTCTTATTC
Found at i:16743 original size:22 final size:22
Alignment explanation
Indices: 16689--16858 Score: 130
Period size: 22 Copynumber: 7.8 Consensus size: 22
16679 TGCTACTATA
*
16689 TTATCAATGATTTATTATTAA-
1 TTATCAATGATTTACTATTAAG
16710 TTA-CTAATGATTTACTATTAAG
1 TTATC-AATGATTTACTATTAAG
*
16732 TTATGAATGATTTA-TCATTAAG
1 TTATCAATGATTTACT-ATTAAG
* ** *
16754 TTATAAATGATTTACTGCTAAA
1 TTATCAATGATTTACTATTAAG
** * * *
16776 TTATTGATAATTTATTATAAAG
1 TTATCAATGATTTACTATTAAG
* **
16798 TTATCACTGATTTACTACGAAG
1 TTATCAATGATTTACTATTAAG
* * * *
16820 TTATTAATGATTTATTATAAAA
1 TTATCAATGATTTACTATTAAG
*
16842 TTATCAATGATTAACTA
1 TTATCAATGATTTACTA
16859 ATTTACTACT
Statistics
Matches: 114, Mismatches: 30, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
20 1 0.01
21 19 0.17
22 93 0.82
23 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAG
Found at i:16789 original size:44 final size:43
Alignment explanation
Indices: 16676--16858 Score: 145
Period size: 44 Copynumber: 4.2 Consensus size: 43
16666 GTTATCACCA
* * * *
16676 ATTTGCTACTATATTATCAATGATTTATTATTAA-TTACTAATG
1 ATTTACTACTAAATTATGAATAATTTATTATTAAGTTA-TAATG
* * * *
16719 ATTTACTATTAAGTTATGAATGATTTATCATTAAGTTATAAATG
1 ATTTACTACTAAATTATGAATAATTTATTATTAAGTTAT-AATG
* * *
16763 ATTTACTGCTAAATTATTG-ATAATTTATTATAAAGTTATCACTG
1 ATTTACTACTAAATTA-TGAATAATTTATTATTAAGTTAT-AATG
* * * * * *
16807 ATTTACTACGAAGTTATTAATGATTTATTATAAAATTATCAATG
1 ATTTACTACTAAATTATGAATAATTTATTATTAAGTTAT-AATG
*
16851 ATTAACTA
1 ATTTACTA
16859 ATTTACTACT
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
43 30 0.26
44 82 0.72
45 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTTACTACTAAATTATGAATAATTTATTATTAAGTTATAATG
Found at i:16843 original size:66 final size:65
Alignment explanation
Indices: 16689--16845 Score: 154
Period size: 66 Copynumber: 2.4 Consensus size: 65
16679 TGCTACTATA
* * * * * * **
16689 TTATCAATGATTTATTATTAATTACTAATGATTTACTATTAAGTTATGAATGATTTATCATTAAG
1 TTATAAATGATTTATTATAAATTATTAATAATTTACTATAAAGTTATCAATGATTTATCACGAAG
** * * *
16754 TTATAAATGATTTACTGCTAAATTATTGATAATTTATTATAAAGTTATCACTGATTTA-CTACGA
1 TTATAAATGATTTA-TTATAAATTATTAATAATTTACTATAAAGTTATCAATGATTTATC-ACGA
16818 AG
64 AG
*
16820 TTATTAATGATTTATTATAAAATTAT
1 TTATAAATGATTTATTAT-AAATTAT
16846 CAATGATTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
65 16 0.22
66 57 0.78
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (65 bp):
TTATAAATGATTTATTATAAATTATTAATAATTTACTATAAAGTTATCAATGATTTATCACGAAG
Found at i:16902 original size:39 final size:39
Alignment explanation
Indices: 16859--16973 Score: 108
Period size: 44 Copynumber: 2.9 Consensus size: 39
16849 TGATTAACTA
* *
16859 ATTTACTACTAAATTATCATTAATTTACAATTATTATTG
1 ATTTACTACTAAATTATAATTAATTTACAATTATTAGTG
** * * *
16898 ATTTAGAACTAAATTATAAGTGATTTATTACTACCTTATTAGTG
1 ATTTACTACTAAATTATAA-TTA-AT-TTAC-A-ATTATTAGTG
16942 ATTTACTACTAAATT-TAATT-ATTTACAATTAT
1 ATTTACTACTAAATTATAATTAATTTACAATTAT
16974 ATTTCATTCA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
37 4 0.07
38 1 0.02
39 20 0.34
40 3 0.05
41 1 0.02
42 5 0.08
43 4 0.07
44 21 0.36
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (39 bp):
ATTTACTACTAAATTATAATTAATTTACAATTATTAGTG
Found at i:16913 original size:22 final size:22
Alignment explanation
Indices: 16887--16956 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
16877 ATTAATTTAC
* **
16887 AATTATTATTGATTTAGAACTA
1 AATTATTAGTGATTTACTACTA
* *
16909 AATTATAAGTGATTTATTACTA
1 AATTATTAGTGATTTACTACTA
**
16931 CCTTATTAGTGATTTACTACTA
1 AATTATTAGTGATTTACTACTA
16953 AATT
1 AATT
16957 TAATTATTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
AATTATTAGTGATTTACTACTA
Found at i:16967 original size:20 final size:21
Alignment explanation
Indices: 16942--16990 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
16932 CTTATTAGTG
16942 ATTTACTACTAAATTTAATT-
1 ATTTACTACTAAATTTAATTC
* * * *
16962 ATTTACAATTATATTTCATTC
1 ATTTACTACTAAATTTAATTC
16983 ATTTACTA
1 ATTTACTA
16991 TGATTTTATC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTACTACTAAATTTAATTC
Found at i:17029 original size:22 final size:22
Alignment explanation
Indices: 17004--17069 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
16994 TTTTATCATG
*
17004 AATTTATTACTAAGTTTTTAAT
1 AATTTATTACTAAGTTTTCAAT
* *
17026 AATTAACTT--TAAGTTTTCATT
1 AATTTA-TTACTAAGTTTTCAAT
*
17047 AATTTACTACTAAGTTTATCAAT
1 AATTTATTACTAAGTTT-TCAAT
17070 TACATACTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 15 0.44
22 12 0.35
23 6 0.18
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
AATTTATTACTAAGTTTTCAAT
Found at i:17292 original size:22 final size:22
Alignment explanation
Indices: 17267--17452 Score: 122
Period size: 22 Copynumber: 8.5 Consensus size: 22
17257 TTGATTGATA
* *
17267 ATTAAGTTATCACTAATTTACT
1 ATTAAATTATCAATAATTTACT
** * * *
17289 ATTATCTTATTATTGATTTACT
1 ATTAAATTATCAATAATTTACT
* * **
17311 ACTAAATTATTAACGATTTACT
1 ATTAAATTATCAATAATTTACT
* *
17333 ATTAAATTATCATTAATCTACT
1 ATTAAATTATCAATAATTTACT
* * * *
17355 ACTAAATTATAAATTATTTACC
1 ATTAAATTATCAATAATTTACT
* * *
17377 ACTAAATTGTGAATAATTTACT
1 ATTAAATTATCAATAATTTACT
* * *
17399 ATTAAATTGTTAATAATTTATT
1 ATTAAATTATCAATAATTTACT
* *
17421 A-TAAAGTTATCATTCATTTACT
1 ATTAAA-TTATCAATAATTTACT
*
17443 ATGAAATTAT
1 ATTAAATTAT
17453 TGATTATTTA
Statistics
Matches: 127, Mismatches: 35, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
21 4 0.03
22 120 0.94
23 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTAAATTATCAATAATTTACT
Found at i:17374 original size:44 final size:44
Alignment explanation
Indices: 17282--17465 Score: 165
Period size: 44 Copynumber: 4.2 Consensus size: 44
17272 GTTATCACTA
** * * **
17282 ATTTACTATTATCTTATTATTGATTTACTACTAAATTATTAACG
1 ATTTACTATTAAATTATCATTAATTTACTACTAAATTATTAATT
* *
17326 ATTTACTATTAAATTATCATTAATCTACTACTAAATTATAAATT
1 ATTTACTATTAAATTATCATTAATTTACTACTAAATTATTAATT
* * * * * * * *
17370 ATTTACCACTAAATTGTGAATAATTTACTATTAAATTGTTAATA
1 ATTTACTATTAAATTATCATTAATTTACTACTAAATTATTAATT
* * *
17414 ATTTATTA-TAAAGTTATCATTCATTTACTA-TGAAATTATTGATT
1 ATTTACTATTAAA-TTATCATTAATTTACTACT-AAATTATTAATT
17458 ATTTACTA
1 ATTTACTA
17466 CAAAATATTC
Statistics
Matches: 110, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
43 5 0.05
44 105 0.95
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (44 bp):
ATTTACTATTAAATTATCATTAATTTACTACTAAATTATTAATT
Found at i:17461 original size:22 final size:21
Alignment explanation
Indices: 17295--17474 Score: 105
Period size: 22 Copynumber: 8.2 Consensus size: 21
17285 TACTATTATC
17295 TTATT-ATTGATTTACTACTAAA
1 TTATTAATT-ATTTACTA-TAAA
**
17317 TTATTAACGATTTACTATTAAA
1 TTATTAATTATTTACTA-TAAA
* *
17339 TTA-TCATTAATCTACTACTAAA
1 TTATTAATT-ATTTACTA-TAAA
* *
17361 TTATAAATTATTTACCACTAAA
1 TTATTAATTATTTACTA-TAAA
* * *
17383 TTGTGAATAATTTACTATTAAA
1 TTATTAATTATTTACTA-TAAA
* * *
17405 TTGTTAATAATTTATTATAAA
1 TTATTAATTATTTACTATAAA
*
17426 GTTA-TCATTCATTTACTATGAAA
1 -TTATTAATT-ATTTACTAT-AAA
* *
17449 TTATTGATTATTTACTACAAA
1 TTATTAATTATTTACTATAAA
*
17470 ATATT
1 TTATT
17475 CAAAGATAAC
Statistics
Matches: 125, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
21 16 0.13
22 98 0.78
23 11 0.09
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.46
Consensus pattern (21 bp):
TTATTAATTATTTACTATAAA
Found at i:17520 original size:19 final size:19
Alignment explanation
Indices: 17496--17532 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17486 AATTTACAAT
*
17496 TAAATTATCACTGATTTGC
1 TAAATTATCAATGATTTGC
17515 TAAATTATCAATGATTTG
1 TAAATTATCAATGATTTG
17533 TTATTACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (19 bp):
TAAATTATCAATGATTTGC
Found at i:17581 original size:22 final size:22
Alignment explanation
Indices: 17550--17736 Score: 102
Period size: 22 Copynumber: 8.5 Consensus size: 22
17540 ATTCTTAGTG
*
17550 ATTTACTACTAAATTATCATTA
1 ATTTATTACTAAATTATCATTA
* * *
17572 ATTTATTACTAAATCATTAATA
1 ATTTATTACTAAATTATCATTA
* * * *
17594 ATTTACTACTATATTTTTATGTA
1 ATTTATTACTAAATTATCAT-TA
*
17617 GTTCCTATTA-T--ATTATCATTA
1 ATT--TATTACTAAATTATCATTA
*
17638 ATTTATTACTAAGTT-T--TTA
1 ATTTATTACTAAATTATCATTA
*
17657 ATTTAACTACTAAATTATCAATT-
1 ATTT-ATTACTAAATTATC-ATTA
* *
17680 ATTTATTACTAAGTTATTTATT-
1 ATTTATTACTAAATTA-TCATTA
*
17702 ATTTACTACTAAATTTATCAATTA
1 ATTTATTACTAAA-TTATC-ATTA
* *
17726 CTTAATTACTA
1 ATTTATTACTA
17737 TTAAACTAGA
Statistics
Matches: 124, Mismatches: 26, Indels: 28
0.70 0.15 0.16
Matches are distributed among these distances:
19 12 0.10
20 10 0.08
21 6 0.05
22 66 0.53
23 15 0.12
24 11 0.09
25 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTATTACTAAATTATCATTA
Found at i:17686 original size:42 final size:43
Alignment explanation
Indices: 17628--17736 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 43
17618 TTCCTATTAT
17628 ATTATC-ATTAATTTATTACTAAGTT-TTTA-ATTTAACTACTAA
1 ATTATCAATT-ATTTATTACTAAGTTATTTATATTT-ACTACTAA
17670 ATTATCAATTATTTATTACTAAGTTATTTATTATTTACTACTAA
1 ATTATCAATTATTTATTACTAAGTTATTTA-TATTTACTACTAA
*
17714 ATTTATCAATTACTTAATTACTA
1 A-TTATCAATTA-TTTATTACTA
17737 TTAAACTAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
42 21 0.35
43 7 0.12
44 9 0.15
45 14 0.23
46 9 0.15
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (43 bp):
ATTATCAATTATTTATTACTAAGTTATTTATATTTACTACTAA
Found at i:17923 original size:44 final size:44
Alignment explanation
Indices: 17875--17965 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
17865 TACTATGCAT
* * *
17875 TTATGCATTTACAACTATATTA-TATTTGATTTACTATTAAGTTA
1 TTATGCATTTACAACTATATTATTA-CTGATTTACTACTAAATTA
* * * *
17919 TTATGTATTTACTATTATATTGTTACTGATTTACTACTAAATTA
1 TTATGCATTTACAACTATATTATTACTGATTTACTACTAAATTA
17963 TTA
1 TTA
17966 ACTATTTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (44 bp):
TTATGCATTTACAACTATATTATTACTGATTTACTACTAAATTA
Found at i:17972 original size:22 final size:22
Alignment explanation
Indices: 17903--18008 Score: 79
Period size: 22 Copynumber: 4.8 Consensus size: 22
17893 ATTATATTTG
* * **
17903 ATTTACTATTAAGTTATTATGT
1 ATTTACTACTAAATTATTAACT
* * *
17925 ATTTACTATTATATTGTT-ACT
1 ATTTACTACTAAATTATTAACT
17946 GATTTACTACTAAATTATTAACT
1 -ATTTACTACTAAATTATTAACT
** * **
17969 ATTTGTTGCTAAATTATTATTT
1 ATTTACTACTAAATTATTAACT
*
17991 ATTTATTACTAAATTATT
1 ATTTACTACTAAATTATT
18009 TATAATTTAT
Statistics
Matches: 67, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
21 1 0.01
22 63 0.94
23 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.54
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAACT
Found at i:18016 original size:22 final size:22
Alignment explanation
Indices: 17941--18020 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
17931 TATTATATTG
*
17941 TTACTGATTTACTACTAAATTAT
1 TTACT-ATTTATTACTAAATTAT
* * *
17964 TAACTATTTGTTGCTAAATTA-
1 TTACTATTTATTACTAAATTAT
*
17985 TTATTTATTTATTACTAAATTAT
1 TTA-CTATTTATTACTAAATTAT
18008 TTA-TAATTTATTA
1 TTACT-ATTTATTA
18021 TGAAAATTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 3 0.07
22 36 0.78
23 7 0.15
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (22 bp):
TTACTATTTATTACTAAATTAT
Found at i:18033 original size:22 final size:21
Alignment explanation
Indices: 17947--18033 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 21
17937 ATTGTTACTG
*
17947 ATTTACTACTAAATTATTA-A
1 ATTTATTACTAAATTATTATA
* * *
17967 CTATTTGTTGCTAAATTATTATTT
1 --ATTTATTACTAAATTATTA-TA
17991 ATTTATTACTAAATTATTTATA
1 ATTTATTACTAAATTA-TTATA
18013 ATTTATTA-TGAAAATTATTAT
1 ATTTATTACT--AAATTATTAT
18034 TTAATTACTA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.02
22 43 0.81
23 9 0.17
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTATTACTAAATTATTATA
Found at i:18164 original size:22 final size:21
Alignment explanation
Indices: 18119--18165 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18109 AGCTACTAAG
18119 TTATCACTTATTTTTATTAAA
1 TTATCACTTATTTTTATTAAA
*
18140 TTATC-CTTAATTTATTATTATA
1 TTATCACTT-ATTT-TTATTAAA
18162 TTAT
1 TTAT
18166 TATGCAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 9 0.39
22 11 0.48
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATCACTTATTTTTATTAAA
Found at i:18254 original size:22 final size:22
Alignment explanation
Indices: 18191--18461 Score: 142
Period size: 22 Copynumber: 12.3 Consensus size: 22
18181 CTATTTTAAT
* *
18191 TGATTTACTACTAAAATATCCA
1 TGATTTACTACTAAATTATTCA
* *
18213 TGATTTACAACTAAAATATTCA
1 TGATTTACTACTAAATTATTCA
* *
18235 TGATTTACTATTATATTATT-A
1 TGATTTACTACTAAATTATTCA
* ** *
18256 TGCATTTACTATTATGTTATTAA
1 TG-ATTTACTACTAAATTATTCA
* ** *
18279 TAATTTACTACTATTTTATTAA
1 TGATTTACTACTAAATTATTCA
*
18301 TTATTTACTACTAAATTATT-A
1 TGATTTACTACTAAATTATTCA
* * *
18322 TTTATTTATTATTAAATTATTCA
1 -TGATTTACTACTAAATTATTCA
* *
18345 TAATTTACTACAAAATTA-TCA
1 TGATTTACTACTAAATTATTCA
* * **
18366 TTAATTTAGTA-TAAAGTTATTTT
1 -TGATTTACTACTAAA-TTATTCA
* ** * *
18389 TAATTTTGTTCTAAGTTATT-A
1 TGATTTACTACTAAATTATTCA
*
18410 TTGATTTACAACTAAATTA-TCAA
1 -TGATTTACTACTAAATTATTC-A
* *
18433 TGATTTACTATTATATTATT-A
1 TGATTTACTACTAAATTATTCA
18454 TGTATTTA
1 TG-ATTTA
18462 TTATTATGTT
Statistics
Matches: 200, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
21 14 0.07
22 177 0.88
23 9 0.05
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.50
Consensus pattern (22 bp):
TGATTTACTACTAAATTATTCA
Found at i:18263 original size:44 final size:44
Alignment explanation
Indices: 18149--18342 Score: 110
Period size: 44 Copynumber: 4.4 Consensus size: 44
18139 ATTATCCTTA
* * ** *
18149 ATTTATTATTATATTATTATGCAGTTACAACTCTATTTTAATTG
1 ATTTACTATTATATTATTATGCATTTACAACTAAATATTAATTG
* * * * *
18193 ATTTACTACTAAAATATCCATG-ATTTACAACTAAAATATTCA-TG
1 ATTTACTATTATATTAT-TATGCATTTACAACT-AAATATTAATTG
* * ** *
18237 ATTTACTATTATATTATTATGCATTTACTATTATGTTATTAA-TA
1 ATTTACTATTATATTATTATGCATTTACAACTA-AATATTAATTG
* * * * *
18281 ATTTACTACTATTTTATTAAT-TATTTACTACTAAATTATT-ATTT
1 ATTTACTATTATATTATT-ATGCATTTACAACTAAA-TATTAATTG
* *
18325 ATTTATTATTAAATTATT
1 ATTTACTATTATATTATT
18343 CATAATTTAC
Statistics
Matches: 112, Mismatches: 31, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
43 5 0.04
44 97 0.87
45 10 0.09
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (44 bp):
ATTTACTATTATATTATTATGCATTTACAACTAAATATTAATTG
Found at i:18465 original size:14 final size:15
Alignment explanation
Indices: 18441--18470 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18431 AATGATTTAC
18441 TATTATATTATTATG
1 TATTATATTATTATG
18456 TATT-TATTATTATG
1 TATTATATTATTATG
18470 T
1 T
18471 TATAAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATTATATTATTATG
Found at i:18492 original size:66 final size:66
Alignment explanation
Indices: 18215--18484 Score: 226
Period size: 66 Copynumber: 4.1 Consensus size: 66
18205 AATATCCATG
* * * * * *
18215 ATTTACAACTAAAATATTC-ATGATTTACTATTATATTATTATGCATTTACTATTATGTTATTAA
1 ATTTACTACTAAATTA-TCAATGATTTACTATTAAATTATTATGTATTTATTATTAAGTTATTAA
18279 TA
65 TA
** * * * * * *
18281 ATTTACTACTATTTTATTAATTATTTACTACTAAATTATTATTTATTTATTATTAAATTATTCAT
1 ATTTACTACTAAATTATCAATGATTTACTATTAAATTATTATGTATTTATTATTAAGTTATTAAT
18346 A
66 A
* * * * *
18347 ATTTACTACAAAATTATCATTAATTTAGTA-TAAAGTTATT-TTTAATTT-TGT-TCTAAGTTAT
1 ATTTACTACTAAATTATCAATGATTTACTATTAAA-TTATTATGT-ATTTAT-TAT-TAAGTTAT
* *
18408 TATTG
62 TAATA
* * * * *
18413 ATTTACAACTAAATTATCAATGATTTACTATTATATTATTATGTATTTATTATTATGTTATAAAC
1 ATTTACTACTAAATTATCAATGATTTACTATTAAATTATTATGTATTTATTATTAAGTTATTAAT
18478 A
66 A
18479 ATTTAC
1 ATTTAC
18485 CATTAAATCA
Statistics
Matches: 158, Mismatches: 37, Indels: 18
0.74 0.17 0.08
Matches are distributed among these distances:
65 10 0.06
66 141 0.89
67 7 0.04
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (66 bp):
ATTTACTACTAAATTATCAATGATTTACTATTAAATTATTATGTATTTATTATTAAGTTATTAAT
A
Found at i:18685 original size:26 final size:25
Alignment explanation
Indices: 18639--18689 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
18629 ATTAACCAAG
18639 AAAAACTATTTAATAAGAAAATAAAT
1 AAAAACTATTTAATAAGAAAA-AAAT
* *
18665 AAAAAGTACTTTAATGA-AAAAAAAT
1 AAAAACTA-TTTAATAAGAAAAAAAT
18690 TAAATAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 4 0.18
26 11 0.50
27 7 0.32
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (25 bp):
AAAAACTATTTAATAAGAAAAAAAT
Found at i:19145 original size:21 final size:21
Alignment explanation
Indices: 19081--19130 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
19071 TTTTTTATCT
* **
19081 AAATTTATACTCTCGCTCTAA
1 AAATTCATACTCTTTCTCTAA
*
19102 AAATTCATACTCTTTTTCTAA
1 AAATTCATACTCTTTCTCTAA
19123 AAATTCAT
1 AAATTCAT
19131 TATTTCTCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTCATACTCTTTCTCTAA
Found at i:22058 original size:57 final size:57
Alignment explanation
Indices: 21967--22076 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 57
21957 GTTTGGGAAA
*
21967 TTTCCAAATAACTCTTTCCTACTCAGGAAAGAACTTGGCATTTGCTTCATTTAACTC
1 TTTCCAAATAACTCTTTCCTACTCAGGAAAGAACTCGGCATTTGCTTCATTTAACTC
*
22024 TTTCCAAATAACTCTTTCCTACTCAGGAAGGAACTCGGCATTTGCTTCATTTA
1 TTTCCAAATAACTCTTTCCTACTCAGGAAAGAACTCGGCATTTGCTTCATTTA
22077 TTATTTAAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (57 bp):
TTTCCAAATAACTCTTTCCTACTCAGGAAAGAACTCGGCATTTGCTTCATTTAACTC
Found at i:23418 original size:18 final size:19
Alignment explanation
Indices: 23387--23423 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23377 CATTTAACAT
*
23387 AAAAAAATTCAAGAAAAAG
1 AAAAAAAATCAAGAAAAAG
23406 AAAAAAAAT-AAGAAAAAG
1 AAAAAAAATCAAGAAAAAG
23424 GAATAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (19 bp):
AAAAAAAATCAAGAAAAAG
Found at i:23599 original size:54 final size:53
Alignment explanation
Indices: 23535--23871 Score: 178
Period size: 60 Copynumber: 5.9 Consensus size: 53
23525 ATCTTTTTTT
* * *
23535 TTTGAAATTTTATTTTTTAAAAAAAATGATACTTTCAACTTTTATTTAAA-GCA
1 TTTGAAATTTTA-TTTTTAAGAAAAATGATACTTTCAACTTTTACTAAAATGCA
* * * * *
23588 TTTGAAAATTTTATTTTCAAGAGAAATCAATACTTTCAACTTTTCCTAAAATGCT
1 TTTG-AAATTTTATTTTTAAGAAAAAT-GATACTTTCAACTTTTACTAAAATGCA
* * ***
23643 TTTGGAAATTTTATTTTTAAGGAAAATTGATACTTTCAA-TTTTTCTCCAAAAATATTTTT
1 TTT-GAAATTTTATTTTTAA-GAAAAATGATACTTTCAACTTTTACT----AAA-A-TGCA
* * * * * **
23703 TTTGAAAATTTTGTTTTCAAGGAAAATTGATATTTTCAAC-TTTCCTTCAAAATGTT
1 TTTG-AAATTTTATTTTTAA-GAAAAATGATACTTTCAACTTTTAC-T-AAAATGCA
* * * *
23759 TTTGAAACTTTTACTTTTCAGGAAAATTGATACTTTCAACTTTTCCTTAAAA-GCA
1 TTTGAAA-TTTTA-TTTTTAAGAAAAATGATACTTTCAACTTTTAC-TAAAATGCA
* *
23814 TTTTTTTTTGAAATTTTACTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAT
1 ------TTTGAAATTTTATTTTTAAGAAAAA-TGATACTTTCAACTTTTAC-TAAAAT
23872 TTTTTTAAAG
Statistics
Matches: 228, Mismatches: 31, Indels: 42
0.76 0.10 0.14
Matches are distributed among these distances:
53 15 0.07
54 33 0.14
55 33 0.14
56 39 0.17
57 14 0.06
58 6 0.03
59 11 0.05
60 69 0.30
61 8 0.04
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (53 bp):
TTTGAAATTTTATTTTTAAGAAAAATGATACTTTCAACTTTTACTAAAATGCA
Found at i:23728 original size:60 final size:61
Alignment explanation
Indices: 23588--23946 Score: 257
Period size: 60 Copynumber: 6.2 Consensus size: 61
23578 ATTTAAAGCA
** * **
23588 TTTGAAAATTTTA-TTTTCAA-GAGAAATCAATACTTTCAAC-TTT-TCC-TAAA-A-TGCT
1 TTTGAAAATTTTACTTTTCAAGGA-AAATTGATACTTTCAACTTTTCTCCAAAAATATTTTT
* * *
23643 TTTGGAAATTTTA-TTTTTAAGGAAAATTGATACTTTCAATTTTTCTCCAAAAATATTTTT
1 TTTGAAAATTTTACTTTTCAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTT
* * * * *
23703 TTTGAAAATTTT-GTTTTCAAGGAAAATTGATATTTTCAACTTTCCTTC--AAA-A-TGTT
1 TTTGAAAATTTTACTTTTCAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTT
* *
23759 TTTGAAACTTTTACTTTTC-AGGAAAATTGATACTTTCAACTTTTC-CTTAAAAGCAT-TTTTT
1 TTTGAAAATTTTACTTTTCAAGGAAAATTGATACTTTCAACTTTTCTC-CAAAA--ATATTTTT
* **
23820 TTTG-AAATTTTACTTTT-AAGAAAAATTGATACTTTCAACTTTT-T-CTTAAA-A-TTTT
1 TTTGAAAATTTTACTTTTCAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTT
* * * * * *
23875 TTT-AAAGTCTTTTTATTTTTC-AGGGAAAGTGATACTTTCAAC-TTTCCCCAAAAATATATTT
1 TTTGAAA---ATTTTACTTTTCAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTT
23936 TTT-AAAATTTT
1 TTTGAAAATTTT
23947 TATTTTAGAA
Statistics
Matches: 240, Mismatches: 37, Indels: 51
0.73 0.11 0.16
Matches are distributed among these distances:
55 41 0.17
56 44 0.18
57 12 0.05
58 41 0.17
59 5 0.02
60 81 0.34
61 16 0.07
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (61 bp):
TTTGAAAATTTTACTTTTCAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTT
Found at i:23791 original size:116 final size:114
Alignment explanation
Indices: 23588--23952 Score: 397
Period size: 116 Copynumber: 3.1 Consensus size: 114
23578 ATTTAAAGCA
** *
23588 TTTGAAAATTTTATTTTCAA-GAGAAATCAATACTTTCAACTTTTCC-TAAAATGCTTTTGGAAA
1 TTTGAAAATTTTATTTTCAAGGA-AAATTGATACTTTCAACTTTTCCTTAAAATG-TTTTTGAAA
*
23651 -TTTTATTTTTAAGGAAAATTGATACTTTCAATTTTTCTCCAAAAATATTTTT
64 CTTTTATTTTTCAGGAAAATTGATACTTTCAA-TTTTC-CCAAAAATATTTTT
* *
23703 TTTGAAAATTTTGTTTTCAAGGAAAATTGATATTTTCAAC-TTTCCTTCAAAATGTTTTTGAAAC
1 TTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAATGTTTTTGAAAC
* *
23767 TTTTACTTTTCAGGAAAATTGATACTTTCAACTTTTCCTTAAAAGCAT-TTTTT
65 TTTTATTTTTCAGGAAAATTGATACTTTCAA-TTTTCC-CAAAA--ATATTTTT
* * *
23820 TTTG-AAATTTTACTTTT-AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAT-TTTTTTAAAG
1 TTTGAAAATTTTA-TTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGAAA-
* * * *
23882 TCTTTTTATTTTTCAGGGAAAGTGATACTTTCAACTTTCCCCAAAAATATATTT
64 -C-TTTTATTTTTCAGGAAAATTGATACTTTCAA-TTTTCCCAAAAATATTTTT
23936 TTT-AAAATTTTTATTTT
1 TTTGAAAA-TTTTATTTT
23953 AGAAAAATCA
Statistics
Matches: 215, Mismatches: 20, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
114 5 0.02
115 53 0.25
116 92 0.43
117 29 0.13
118 36 0.17
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (114 bp):
TTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTGAAACT
TTTATTTTTCAGGAAAATTGATACTTTCAATTTTCCCAAAAATATTTTT
Found at i:24557 original size:15 final size:15
Alignment explanation
Indices: 24537--24566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24527 AAAATTTTTG
*
24537 AAAAATTTTCAAAAA
1 AAAAATCTTCAAAAA
24552 AAAAATCTTCAAAAA
1 AAAAATCTTCAAAAA
24567 TTCTCAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATCTTCAAAAA
Found at i:24839 original size:25 final size:24
Alignment explanation
Indices: 24811--24940 Score: 105
Period size: 25 Copynumber: 5.5 Consensus size: 24
24801 CTCAATAATC
24811 AAATAATAATAATAATATAATAGAT
1 AAATAATAATAAT-ATATAATAGAT
* *
24836 AAATAACAACAATATATTAATAGAT
1 AAATAATAATAATATA-TAATAGAT
24861 AAGGATAA-AA-AATATATATATAGAT
1 AA--ATAATAATAATATATA-ATAGAT
24886 ACAA-AAT-AT-ATAT-TAATAGAT
1 A-AATAATAATAATATATAATAGAT
* * *
24907 AACTAATAAAAATATAT-ATAAAT
1 AAATAATAATAATATATAATAGAT
24930 AAATAA-AATAA
1 AAATAATAATAA
24941 AAAATACAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 25
0.73 0.06 0.21
Matches are distributed among these distances:
20 1 0.01
21 10 0.11
22 7 0.08
23 21 0.24
24 7 0.08
25 34 0.39
26 3 0.03
27 4 0.05
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (24 bp):
AAATAATAATAATATATAATAGAT
Found at i:24896 original size:21 final size:19
Alignment explanation
Indices: 24864--24908 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
24854 AATAGATAAG
24864 GATAAAAAATATA-TATATA
1 GATAAAAAATATATTA-ATA
24883 GATACAAAATATATATTAATA
1 GATA-AAAA-ATATATTAATA
24904 GATAA
1 GATAA
24909 CTAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 12 0.52
22 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
GATAAAAAATATATTAATA
Found at i:24938 original size:46 final size:45
Alignment explanation
Indices: 24813--24939 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 45
24803 CAATAATCAA
* * *
24813 ATAATAATAATAATATA-ATAGATAAATAACAACAATATATTAATAG
1 ATAATAATAAAAATATATATAAATAAATAA-AA-TATATATTAATAG
** * *
24859 ATAAGGATAAAAA-ATATATATATAGATACAAAATATATATTAATAG
1 ATAATAATAAAAATATATATAAATA-A-ATAAAATATATATTAATAG
24905 ATAACTAATAAAAATATATATAAATAAATAAAATA
1 ATAA-TAATAAAAATATATATAAATAAATAAAATA
24940 AAAAATACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
45 3 0.05
46 39 0.59
47 11 0.17
48 13 0.20
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (45 bp):
ATAATAATAAAAATATATATAAATAAATAAAATATATATTAATAG
Found at i:24941 original size:25 final size:26
Alignment explanation
Indices: 24888--24943 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
24878 ATATAGATAC
* *
24888 AAAATATATATTAATAGATAACTAATA
1 AAAATATATATAAATAAATAAC-AATA
24915 AAAATATATATAAATAAATAA-AATA
1 AAAATATATATAAATAAATAACAATA
24940 AAAA
1 AAAA
24944 ATACAAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 8 0.30
27 19 0.70
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAATATATATAAATAAATAACAATA
Found at i:25121 original size:19 final size:21
Alignment explanation
Indices: 25097--25138 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
25087 TCACTTGACC
25097 TTTTTTTTTG-TTTTTTT-TA
1 TTTTTTTTTGCTTTTTTTGTA
25116 TTTTTTTTTGCTTTTTTTGTA
1 TTTTTTTTTGCTTTTTTTGTA
25137 TT
1 TT
25139 AAAATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.05, C:0.02, G:0.07, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTGCTTTTTTTGTA
Found at i:25292 original size:44 final size:44
Alignment explanation
Indices: 25155--25369 Score: 303
Period size: 43 Copynumber: 4.9 Consensus size: 44
25145 TTAATCAAAA
** * *
25155 CTCCTCTAAGTAGAGGCCCAA-AGACTTTTGAAAAAATAAACAAAG
1 CTCCTCTAAACAGAGGCTCAACA-AC-TTTGAAAAAATAAATAAAG
* *
25200 CTCCTCTAATCAGAAGCTCAACAACTTTG-AAAAATAAATAAAG
1 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAG
25243 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGAAA-
1 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT-AAAG
* *
25287 CTCCTCTAAACATAGACTCAACAACTTTG-AAAAATAAATAAAG
1 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAG
25330 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
1 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAAT
25370 GGCTCCCTTA
Statistics
Matches: 154, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.02
43 77 0.50
44 51 0.33
45 22 0.14
46 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.22
Consensus pattern (44 bp):
CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAG
Found at i:25307 original size:87 final size:88
Alignment explanation
Indices: 25155--25370 Score: 323
Period size: 87 Copynumber: 2.5 Consensus size: 88
25145 TTAATCAAAA
** * * *
25155 CTCCTCTAAGTAGAGGCCCAA-AGACTTTTGAAAAAATAAA-CAAAGCTCCTCTAATCAGAAGCT
1 CTCCTCTAAACAGAGGCTCAACA-AC-TTTGAAAAAATAAATGAAAGCTCCTCTAAACAGAAGCT
25218 CAACAACTTTGAAAAATAAATAAAG
64 CAACAACTTTGAAAAATAAATAAAG
*
25243 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGAAA-CTCCTCTAAACA-TAGACTC
1 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGAAAGCTCCTCTAAACAGAAG-CTC
25306 AACAACTTTGAAAAATAAATAAAG
65 AACAACTTTGAAAAATAAATAAAG
25330 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATG
1 CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATG
25371 GCTCCCTTAA
Statistics
Matches: 119, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
86 2 0.02
87 93 0.78
88 23 0.19
89 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (88 bp):
CTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGAAAGCTCCTCTAAACAGAAGCTCA
ACAACTTTGAAAAATAAATAAAG
Found at i:25402 original size:43 final size:43
Alignment explanation
Indices: 25355--25538 Score: 187
Period size: 43 Copynumber: 4.3 Consensus size: 43
25345 GCTCAACAAC
* *
25355 TTTGAAAAAATAAATGGCTCCCTTAATTAAAGGCAATAGAACT
1 TTTGAGAAAATAAATGGCTCCCTTAATTAAAGGCAACAGAACT
* * * *
25398 TTTGAGAAAATAAATGGCTCCCATAATCAGAGGTAACAGAACT
1 TTTGAGAAAATAAATGGCTCCCTTAATTAAAGGCAACAGAACT
* * *
25441 TTTGGGAAAATAAATGGCTCCCCTAA-TAAGAGGCAATAGAACT
1 TTTGAGAAAATAAATGGCTCCCTTAATTAA-AGGCAACAGAACT
* * * * *
25484 TTTGGGAAAATAAATAGC-CCCTCTAAATAGATGCAACAGAA-T
1 TTTGAGAAAATAAATGGCTCCCT-TAATTAAAGGCAACAGAACT
*
25526 TTT-AAAAAATAAA
1 TTTGAGAAAATAAA
25539 ATACTCCTTG
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
41 8 0.07
42 8 0.07
43 101 0.85
44 2 0.02
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (43 bp):
TTTGAGAAAATAAATGGCTCCCTTAATTAAAGGCAACAGAACT
Found at i:25408 original size:87 final size:85
Alignment explanation
Indices: 25225--25499 Score: 276
Period size: 87 Copynumber: 3.2 Consensus size: 85
25215 GCTCAACAAC
*
25225 TTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGAAACTC
1 TTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATG--GCTC
* * * * * *
25290 CTCTAAACATAGACTCA-ACAAC-
64 C-CTTAATAAAGGC-AATAGAACT
25312 TTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGGCTCCC
1 TTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGGCTCCC
25377 TTAATTAAAGGCAATAGAACT
66 TTAA-TAAAGGCAATAGAACT
* * **
25398 TTTGAGAAAATAAAT--GGCTCC-CATAATCAGAGG-T-AACAGAACTTTTGGGAAAATAAATGG
1 TTTGA-AAAATAAATAAAGCTCCTC-TAAACAGAGGCTCAAC--AAC-TTTGAAAAAATAAATGG
*
25458 CTCCCCTAATAAGAGGCAATAGAACT
61 CTCCCTTAATAA-AGGCAATAGAACT
*
25484 TTTGGGAAAATAAATA
1 TTT-GAAAAATAAATA
25500 GCCCCTCTAA
Statistics
Matches: 164, Mismatches: 13, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
83 3 0.02
84 7 0.04
85 32 0.20
86 53 0.32
87 69 0.42
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (85 bp):
TTTGAAAAATAAATAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATGGCTCCC
TTAATAAAGGCAATAGAACT
Found at i:25522 original size:86 final size:85
Alignment explanation
Indices: 25361--25528 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 85
25351 CAACTTTGAA
* * *
25361 AAAATAAATGGCTCCCTTAATTAAAGGCAATAGAACTTTTGAGAAAATAAATGGCTCCCATAATC
1 AAAATAAATGGCTCCCCTAATTAAAGGCAATAGAACTTTTGAGAAAATAAATAGCCCCCATAATC
*
25426 AGAGGTAACAGAACTTTTGGG
66 AGAGGCAACAGAA-TTTTGGG
*
25447 AAAATAAATGGCTCCCCTAA-TAAGAGGCAATAGAACTTTTGGGAAAATAAATAGCCCCTC-TAA
1 AAAATAAATGGCTCCCCTAATTAA-AGGCAATAGAACTTTTGAGAAAATAAATAGCCCC-CAT-A
*
25510 AT-AGATGCAACAGAATTTT
63 ATCAGAGGCAACAGAATTTT
25529 AAAAAATAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
85 7 0.10
86 62 0.85
87 4 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (85 bp):
AAAATAAATGGCTCCCCTAATTAAAGGCAATAGAACTTTTGAGAAAATAAATAGCCCCCATAATC
AGAGGCAACAGAATTTTGGG
Found at i:26463 original size:3 final size:3
Alignment explanation
Indices: 26447--26497 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
26437 TTTTGTGTAT
* *
26447 TTA TTA ATA ATA TTA TTTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
26493 TTA TT
1 TTA TT
26498 TATCTGTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:26488 original size:16 final size:16
Alignment explanation
Indices: 26444--26500 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
26434 TATTTTTGTG
* *
26444 TATTTATTAATAATAT
1 TATTTATTATTATTAT
26460 TATTTATTATTATTAT
1 TATTTATTATTATTAT
26476 TA-TTATTATTTATTTTAT
1 TATTTATTA-TTA--TTAT
26494 TATTTAT
1 TATTTAT
26501 CTGTTAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 6 0.17
16 19 0.54
18 6 0.17
19 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTATTATTAT
Found at i:26498 original size:12 final size:12
Alignment explanation
Indices: 26457--26526 Score: 65
Period size: 12 Copynumber: 5.8 Consensus size: 12
26447 TTATTAATAA
26457 TATTATTTA--T
1 TATTATTTATTT
26467 TATTA-TTATTAT
1 TATTATTTATT-T
26479 TATTATTTATTT
1 TATTATTTATTT
26491 TATTATTTATCTGT
1 TATTATTTAT-T-T
* *
26505 TAATGTTTATTT
1 TATTATTTATTT
*
26517 TATCATTTAT
1 TATTATTTAT
26527 CTATTAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
9 3 0.06
10 5 0.10
12 25 0.51
13 7 0.14
14 9 0.18
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:26513 original size:26 final size:26
Alignment explanation
Indices: 26484--26534 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
26474 ATTATTATTA
* *
26484 TTTATTTTATTATTTATCTGTTAATG
1 TTTATTTTATCATTTATCTATTAATG
26510 TTTATTTTATCATTTATCTATTAAT
1 TTTATTTTATCATTTATCTATTAAT
26535 ATTTTTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
TTTATTTTATCATTTATCTATTAATG
Found at i:34204 original size:18 final size:16
Alignment explanation
Indices: 34183--34245 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 16
34173 AAATGGATGA
34183 AAAAAAAAGAGAAAAGAG
1 AAAAAAAA-AGAAAA-AG
*
34201 AAAAAATGAAAAAAAAAAG
1 -AAAAA--AAAAGAAAAAG
34220 AAAAAAAAAGGCAAAAAG
1 AAAAAAAAA-G-AAAAAG
34238 AAAAAAAA
1 AAAAAAAA
34246 TAAAATAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 4 0.11
18 19 0.50
19 7 0.18
20 5 0.13
21 3 0.08
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:34213 original size:38 final size:37
Alignment explanation
Indices: 34181--34269 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 37
34171 AAAAATGGAT
34181 GAAAAAAAAAGAG-AAAAGAGAAAAAATGAAAAAAAAAA
1 GAAAAAAAAAG-GCAAAA-AGAAAAAATGAAAAAAAAAA
34219 GAAAAAAAAAGGCAAAAAGAAAAAAAAT-AAAATAAAAATA
1 GAAAAAAAAAGGCAAAAAG--AAAAAATGAAAA-AAAAA-A
34259 TGAAAAAAAAA
1 -GAAAAAAAAA
34270 AAGAAGACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
37 3 0.07
38 19 0.42
39 12 0.27
40 1 0.02
41 10 0.22
ACGTcount: A:0.81, C:0.01, G:0.12, T:0.06
Consensus pattern (37 bp):
GAAAAAAAAAGGCAAAAAGAAAAAATGAAAAAAAAAA
Found at i:34226 original size:29 final size:28
Alignment explanation
Indices: 34182--34271 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 28
34172 AAAATGGATG
* *
34182 AAAAAAAAAGAGAAAAGA-GAAAAAATGA
1 AAAAAAAAAGAAAAAAAAGGAAAAAA-GA
*
34210 AAAAAAAAAGAAAAAAAAAGGCAAAAAGA
1 AAAAAAAAAG-AAAAAAAAGGAAAAAAGA
*
34239 AAAAAAATAA-AATAAAAATATGAAAAAA-A
1 AAAAAAA-AAGAA-AAAAA-AGGAAAAAAGA
34268 AAAA
1 AAAA
34272 GAAGACTCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
28 12 0.23
29 25 0.48
30 15 0.29
ACGTcount: A:0.82, C:0.01, G:0.11, T:0.06
Consensus pattern (28 bp):
AAAAAAAAAGAAAAAAAAGGAAAAAAGA
Found at i:34235 original size:12 final size:11
Alignment explanation
Indices: 34181--34274 Score: 57
Period size: 11 Copynumber: 8.3 Consensus size: 11
34171 AAAAATGGAT
34181 GAAAAAAAAAGA
1 GAAAAAAAAA-A
34193 GAAAAGAGAAAAAA
1 G-AAA-A-AAAAAA
34207 TGAAAAAAAAAA
1 -GAAAAAAAAAA
*
34219 GAAAAAAAAAG
1 GAAAAAAAAAA
* *
34230 GCAAAAAGAAA
1 GAAAAAAAAAA
*
34241 -AAAAATAAAA
1 GAAAAAAAAAA
* * **
34251 TAAAAATATGA
1 GAAAAAAAAAA
34262 -AAAAAAAAAA
1 GAAAAAAAAAA
34272 GAA
1 GAA
34275 GACTCAAATT
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
10 14 0.22
11 28 0.44
12 7 0.11
13 4 0.06
14 5 0.08
15 6 0.09
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.05
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:34244 original size:39 final size:40
Alignment explanation
Indices: 34179--34274 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 40
34169 AAAAAAATGG
34179 ATGAAAAAAAAAGAGAAAAGAGAAAAAATGAAAA-AAAAA-
1 ATGAAAAAAAAAGAGAAAAGAGAAAAAAT-AAAATAAAAAT
*
34218 A-GAAAAAAAAAG-GCAAAAAGAAAAAAAATAAAATAAAAAT
1 ATGAAAAAAAAAGAG--AAAAGAGAAAAAATAAAATAAAAAT
*
34258 ATGAAAAAAAAAAAGAA
1 ATGAAAAAAAAAGAGAA
34275 GACTCAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
37 1 0.02
38 15 0.31
39 19 0.39
40 3 0.06
41 10 0.20
42 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.12, T:0.06
Consensus pattern (40 bp):
ATGAAAAAAAAAGAGAAAAGAGAAAAAATAAAATAAAAAT
Found at i:36230 original size:84 final size:84
Alignment explanation
Indices: 36113--36380 Score: 421
Period size: 84 Copynumber: 3.2 Consensus size: 84
36103 GTTCTGTTGC
* *
36113 CTCTGTTTAGAGGAGCAATTTA-ATTTTCAAAGTCGTGGTTGCCTCTGTTTAGAGGAGCAATTTA
1 CTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTGTTTAGAGGAGCAATTTA
36177 ATTTTCAAAGTCATGGTGT
66 ATTTTCAAAGTCATGGTGT
*
36196 CTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTATTTAGAGGAGCAATTTA
1 CTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTGTTTAGAGGAGCAATTTA
36261 ATTTTCAAAGTCATGGTGT
66 ATTTTCAAAGTCATGGTGT
* *
36280 CTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTGTTTAGAAGAGTAATTTA
1 CTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTGTTTAGAGGAGCAATTTA
* * * *
36345 TTTTTCAAAAGTCGTTGAGT
66 ATTTTC-AAAGTCATGGTGT
**
36365 CTCTGCTTAGAGGAGC
1 CTCTATTTAGAGGAGC
36381 TTTGTTATTT
Statistics
Matches: 171, Mismatches: 12, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
83 21 0.12
84 126 0.74
85 24 0.14
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (84 bp):
CTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTGTTTAGAGGAGCAATTTA
ATTTTCAAAGTCATGGTGT
Found at i:36369 original size:42 final size:41
Alignment explanation
Indices: 36081--36467 Score: 362
Period size: 42 Copynumber: 9.1 Consensus size: 41
36071 ATGACTGTCA
* * *
36081 AGGAGTAATTTATTTTCCTAAAGTTC-TGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAG-TCGTGGTGCCTCTGTTTAG
*
36123 AGGAGCAATTTAATTTTCAAAGTCGTGGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGG-TGCCTCTGTTTAG
* * * *
36165 AGGAGCAATTTAATTTTCAAAGTCATGGTGTCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
36206 AGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTATTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGG-TGCCTCTGTTTAG
* * * *
36249 AGGAGCAATTTAATTTTCAAAGTCATGGTGTCTCTATTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
36290 AGGAGCAATTTACTTTTTCAAAGTCGTGGTTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGG-TGCCTCTGTTTAG
* * * * * *
36333 AAGAGTAATTTATTTTTCAAAAGTCGTTGAGTCTCTGCTTAG
1 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
** * * * * **
36375 AGGAGCTTTGTTATTTTTCAAAAGTAGTTGAGCCTTTAATTAG
1 AGGAGCAAT-TTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * * *
36418 AGGAGCTTTATTTATCTTTCCAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGC--AATTTAT-TTTTCAAAGTCGTGGTGCCTCTGTTTAG
36462 AGGAGC
1 AGGAGC
36468 TTTGATCAAA
Statistics
Matches: 296, Mismatches: 38, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
40 2 0.01
41 53 0.18
42 118 0.40
43 88 0.30
44 29 0.10
45 6 0.02
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:36452 original size:44 final size:44
Alignment explanation
Indices: 36297--36470 Score: 185
Period size: 43 Copynumber: 4.0 Consensus size: 44
36287 TAGAGGAGCA
* * * * *
36297 ATTTACTTTTTC-AAAGTCGTGGTTGCCTCTGTTTAGAAGAG--TA
1 ATTTA-TTTTTCAAAAGTCGTTG-AGCCTCTGCTTAGAGGAGCTTT
*
36340 ATTTATTTTTCAAAAGTCGTTGAGTCTCTGCTTAGAGGAGCTTT
1 ATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTT
* * * **
36384 -GTTATTTTTCAAAAGTAGTTGAGCCTTTAATTAGAGGAGCTTT
1 ATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTT
* *
36427 ATTTATCTTTCCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTT
1 ATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTT
36471 GATCAAAATT
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 20 0.19
43 51 0.47
44 37 0.34
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (44 bp):
ATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTT
Found at i:36717 original size:26 final size:26
Alignment explanation
Indices: 36667--36759 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 26
36657 TTATTAATAA
*
36667 TATTATTTATTTATT--TATTTA--T
1 TATTATTTATCTATTAATATTTATTT
* *
36689 TATTATTTATCTGTTAATGTTTATTT
1 TATTATTTATCTATTAATATTTATTT
* *
36715 TATCATTTATCTATTAATA-TT-TCT
1 TATTATTTATCTATTAATATTTATTT
36739 T-TTATTTATCTATTAATATTT
1 TATTATTTATCTATTAATATTT
36760 TTATCTATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 13 0.22
23 16 0.28
24 10 0.17
25 2 0.03
26 17 0.29
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTATTTATCTATTAATATTTATTT
Found at i:36760 original size:19 final size:20
Alignment explanation
Indices: 36654--36763 Score: 73
Period size: 23 Copynumber: 5.2 Consensus size: 20
36644 TATTTTTGTA
*
36654 TATTTAT-TAATAATATTATT
1 TATTTATCTATTAATATT-TT
* *
36674 TATTTATTTATT--TATTAT
1 TATTTATCTATTAATATTTT
*
36692 TATTTATCTGTTAATGTTTATTTT
1 TATTTATCTATTAA----TATTTT
36716 ATCATTTATCTATTAATATTTCTTT
1 -T-ATTTATCTATTAATA--T-TTT
36741 TATTTATCTATTAATATTTT
1 TATTTATCTATTAATATTTT
36761 TAT
1 TAT
36764 CTATTTTTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 24
0.71 0.06 0.24
Matches are distributed among these distances:
18 11 0.15
19 4 0.06
20 13 0.18
21 4 0.06
22 2 0.03
23 15 0.21
24 7 0.10
25 4 0.06
26 12 0.17
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTTATCTATTAATATTTT
Found at i:37011 original size:21 final size:21
Alignment explanation
Indices: 36981--37025 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36971 TTAAAACAAC
36981 TTTAGGAATTTGTGAGAATTTT
1 TTTAGGAATTTGTGA-AATTTT
* *
37003 TTTA-GAATTTTTGAAGTTTT
1 TTTAGGAATTTGTGAAATTTT
37023 TTT
1 TTT
37026 TCTGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (21 bp):
TTTAGGAATTTGTGAAATTTT
Found at i:37968 original size:203 final size:200
Alignment explanation
Indices: 37652--38027 Score: 456
Period size: 202 Copynumber: 1.9 Consensus size: 200
37642 AATAATATAA
** * *
37652 ATAAAAATTTTGGGAATAAATATTAATTATCCAATGATGAAATTCATAAAAATTTCAAATGGCAA
1 ATAAAAATTTTGGGAATAAATACAAATTACCCAATGATGAAATTCATAAAAATTTCAAATGACAA
* *
37717 ATTTTTATAAAATTCCTAAGTGAAAATTTTATCTAAATTTATCCCAAAT-GATGGAATAATATAG
66 ATTTCTATAAAATTCCTAAGTGAAAATTTTATCTAAATTTAGCCCAAATAG-TGGAATAATATAG
*
37781 ATAAAATTTCAATAACAA-TAATTAATATT-TATTTTCAAATAAAAAAATTAAAAACATAAAAAG
130 ATAAAATTTCAAT-ACAAGTAATT-ATATTCT-TTTCCAAATAAAAAAATTAAAAACATAAAAAG
37844 CATAAAAAT
192 CATAAAAAT
* * * * *
37853 ATAAAAATTTTTGGAATTAAATACAAATTACCCAATGATGAGATTCTTAGAAATTTCAAATGATA
1 ATAAAAATTTTGGGAA-TAAATACAAATTACCCAATGATGAAATTCATAAAAATTTCAAATGACA
* * * * * *
37918 AATTTCTA-AGAAA-TCTGTAGGTGAGAAATTTTCTCTAAATTTGGCCCAAATAGTGGAATGATT
65 AATTTCTATA-AAATTC-CTAAGTGA-AAATTTTATCTAAATTTAGCCCAAATAGTGGAATAATA
* * *
37981 TTGATGAAATTTCAATACAAGTAATTGTATTCTTTTCCAAATAAAAA
127 TAGATAAAATTTCAATACAAGTAATTATATTCTTTTCCAAATAAAAA
38028 TTTGGATTGA
Statistics
Matches: 147, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
201 18 0.12
202 77 0.52
203 51 0.35
204 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.35
Consensus pattern (200 bp):
ATAAAAATTTTGGGAATAAATACAAATTACCCAATGATGAAATTCATAAAAATTTCAAATGACAA
ATTTCTATAAAATTCCTAAGTGAAAATTTTATCTAAATTTAGCCCAAATAGTGGAATAATATAGA
TAAAATTTCAATACAAGTAATTATATTCTTTTCCAAATAAAAAAATTAAAAACATAAAAAGCATA
AAAAT
Found at i:38951 original size:8 final size:8
Alignment explanation
Indices: 38929--38988 Score: 72
Period size: 8 Copynumber: 7.8 Consensus size: 8
38919 TGAGTCTTTC
*
38929 TTTTCATT
1 TTTTTATT
38937 TTTTT-TT
1 TTTTTATT
*
38944 TTCATT-TT
1 TT-TTTATT
38952 TTTTTATT
1 TTTTTATT
38960 TTTTTA-T
1 TTTTTATT
38967 TTTTTATT
1 TTTTTATT
38975 TTTTTATT
1 TTTTTATT
38983 TTTTTA
1 TTTTTA
38989 AAGCATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
7 13 0.28
8 33 0.72
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:38955 original size:15 final size:14
Alignment explanation
Indices: 38929--38987 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
38919 TGAGTCTTTC
*
38929 TTTTCATTTTTTTT
1 TTTTTATTTTTTTT
*
38943 TTTCATTTTTTTTTATT
1 TTT--TTATTTTTT-TT
38960 TTTTTATTTTTTATT
1 TTTTTATTTTTT-TT
38975 TTTTTATTTTTTT
1 TTTTTATTTTTTT
38988 AAAGCATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
14 4 0.10
15 23 0.59
16 7 0.18
17 5 0.13
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTTTT
Found at i:39004 original size:1 final size:1
Alignment explanation
Indices: 38935--38987 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
38925 TTTCTTTTCA
** * * * *
38935 TTTTTTTTTTTCATTTTTTTTTATTTTTTTATTTTTTATTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38988 AAAGCATAGT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.09, C:0.02, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:46234 original size:15 final size:15
Alignment explanation
Indices: 46214--46244 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46204 TGTTAGGTGT
*
46214 AATGAATGAGAATGC
1 AATGAATGAAAATGC
46229 AATGAATGAAAATGC
1 AATGAATGAAAATGC
46244 A
1 A
46245 TGTATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (15 bp):
AATGAATGAAAATGC
Found at i:49672 original size:55 final size:55
Alignment explanation
Indices: 49510--49883 Score: 211
Period size: 55 Copynumber: 6.7 Consensus size: 55
49500 TGCTTATATA
* * * *
49510 CAAGGAAAATTGATATTTTTAACTTTTTCCCAAAAATATCGTTTTTTGAAATTTTATTTT
1 CAAGGAAAATTGATACTTTCAAC--TTTCCCTAAAATA---TTTTTGGAAATTTTATTTT
* * * * * *
49570 TAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAGCA--TTTGAAAATTTTATTTT
1 CAAGGAAAATTGATACTTTCAAC-TTTCCCTAAAA-TATTTTTGGAAATTTTATTTT
*
49625 CAAGGGAAATTGATACTTTCAACTTTCCCTAAAATATTTTTGGAAATTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTCCCTAAAATATTTTTGGAAATTTTATTTT
* * * * *
49680 TAAGG-AAA---CTA-TTT----TTTCCCAAAAATATTTTTTTGAAAGTTTTGTTTT
1 CAAGGAAAATTGATACTTTCAACTTTCCCTAAAATA-TTTTTGGAAA-TTTTATTTT
* *
49728 CAAAGG-AAATTGATACTTTCAACTTTCCCTCAAAATGTTTTAT-GAACTTTTATTTTT
1 C-AAGGAAAATTGATACTTTCAACTTTCCCT-AAAATATTTT-TGGAAATTTTA-TTTT
* * * * * **
49785 CAA-AAAAATTAATACTTTCAACTTTTTCTTAAAAATTTTTTTATAAAGTCTTT-TTTT
1 CAAGGAAAATTGATACTTTCAAC-TTTCCCT-AAAATATTTTTGGAAA-T-TTTATTTT
** * * *
49842 TTAGAAAAATTGATACTTTCAATTTTCCCAAAAAATATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTCCC-TAAAATATTTTT
49884 TTTTGAAATT
Statistics
Matches: 246, Mismatches: 44, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
46 12 0.05
47 9 0.04
48 8 0.03
49 7 0.03
50 3 0.01
51 2 0.01
52 2 0.01
53 4 0.02
54 12 0.05
55 55 0.22
56 23 0.09
57 53 0.22
58 24 0.10
59 12 0.05
60 20 0.08
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (55 bp):
CAAGGAAAATTGATACTTTCAACTTTCCCTAAAATATTTTTGGAAATTTTATTTT
Found at i:49804 original size:56 final size:57
Alignment explanation
Indices: 49694--49877 Score: 164
Period size: 57 Copynumber: 3.2 Consensus size: 57
49684 GAAACTATTT
* * *
49694 TTTCCC-AAAAATAT-TTTTTTGAAAG-TTTTGTTTTCAAAGGAAATTGATACTTTCAAC
1 TTTCCCTAAAAAT-TGTTTTAT-AAAGCTTTTTTTTTCAAA-AAAATTGATACTTTCAAC
* * *
49751 TTTCCCTCAAAA-TGTTTTATGAA-CTTTTATTTTTCAAAAAAATTAATACTTTCAAC
1 TTTCCCTAAAAATTGTTTTATAAAGCTTTT-TTTTTCAAAAAAATTGATACTTTCAAC
* * * * *
49807 TTTTTCTTAAAAATTTTTTTATAAAGTCTTTTTTTTT-AGAAAAATTGATACTTTCAAT
1 -TTTCCCTAAAAATTGTTTTATAAAG-CTTTTTTTTTCAAAAAAATTGATACTTTCAAC
*
49865 TTTCCCAAAAAAT
1 TTTCCCTAAAAAT
49878 ATTTTTTTTT
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
56 23 0.23
57 38 0.37
58 31 0.30
59 5 0.05
60 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (57 bp):
TTTCCCTAAAAATTGTTTTATAAAGCTTTTTTTTTCAAAAAAATTGATACTTTCAAC
Found at i:49896 original size:57 final size:56
Alignment explanation
Indices: 49693--49908 Score: 165
Period size: 58 Copynumber: 3.8 Consensus size: 56
49683 GGAAACTATT
* *
49693 TTTTCCCAAAAATATTTTTT-TGAAAGTTTTGTTTTCA-AAGGAAATTGATACTTTCAA
1 TTTTCCCAAAAA-ATTTTTTATGAAAGTTTTATTTTTAGAA--AAATTGATACTTTCAA
* ** * * * *
49750 CTTTCCCTCAAAATGTTTTATG-AACTTTTATTTTTCAAAAAAATTAATACTTTCAA
1 TTTTCCCAAAAAATTTTTTATGAAAGTTTTATTTTT-AGAAAAATTGATACTTTCAA
** * *
49806 CTTTTTCTTAAAAATTTTTTTAT-AAAGTCTTTTTTTTTAGAAAAATTGATACTTTCAA
1 --TTTTCCCAAAAAATTTTTTATGAAAGT-TTTATTTTTAGAAAAATTGATACTTTCAA
* *
49864 TTTTCCCAAAAAATATTTTTTTTTGAAA-TTTT-TATTTAGAAAAAT
1 TTTTCCC-AAAAA-A-TTTTTTATGAAAGTTTTATTTTTAGAAAAAT
49909 CATTAAAAAA
Statistics
Matches: 124, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
56 36 0.29
57 29 0.23
58 40 0.32
59 16 0.13
60 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (56 bp):
TTTTCCCAAAAAATTTTTTATGAAAGTTTTATTTTTAGAAAAATTGATACTTTCAA
Found at i:50853 original size:3 final size:3
Alignment explanation
Indices: 50845--50881 Score: 56
Period size: 3 Copynumber: 11.7 Consensus size: 3
50835 TAATTAATCA
50845 AAT AAT AAT AAT AAT AAT AAT AAT AGAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AA
50882 AAAAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 27 0.84
4 4 0.12
5 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:50900 original size:27 final size:27
Alignment explanation
Indices: 50844--50981 Score: 84
Period size: 28 Copynumber: 5.4 Consensus size: 27
50834 CTAATTAATC
* *
50844 AAATAATAATAATAATAATAATAATAGAT
1 AAATAATAA-AAAAAT-ATATTAATAGAT
50873 AAATAATAAAAAAATATATTAATAGAT
1 AAATAATAAAAAAATATATTAATAGAT
**
50900 -AAGCAT--AAAAA-ATA-T-AT--AT
1 AAATAATAAAAAAATATATTAATAGAT
*
50919 AAAT-A-AAAAATATATATTAATAGAT
1 AAATAATAAAAAAATATATTAATAGAT
* * * *
50944 AACTAATAAAAATTATATATAAATAAAT
1 AAATAATAAAAA-AATATATTAATAGAT
50972 -AA-AATAAAAA
1 AAATAATAAAAA
50982 TACAAATGGG
Statistics
Matches: 88, Mismatches: 10, Indels: 25
0.72 0.08 0.20
Matches are distributed among these distances:
19 3 0.03
20 6 0.07
21 5 0.06
22 2 0.02
23 5 0.06
24 5 0.06
25 5 0.06
26 13 0.15
27 17 0.19
28 18 0.20
29 9 0.10
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
AAATAATAAAAAAATATATTAATAGAT
Found at i:50938 original size:44 final size:43
Alignment explanation
Indices: 50877--50977 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 43
50867 ATAGATAAAT
50877 AATAAAAAAATATATTAATAGATAAGC-ATAAAAAATATATATA
1 AATAAAAAAATATATTAATAGATAA-CAATAAAAAATATATATA
*
50920 AATAAAAAATATATATTAATAGATAACTAATAAAAATTATATATA
1 AATAAAAAA-ATATATTAATAGATAAC-AATAAAAAATATATATA
50965 AATAAATAAAATA
1 AATAAA-AAAATA
50978 AAAATACAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
43 10 0.19
44 16 0.30
45 24 0.45
46 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (43 bp):
AATAAAAAAATATATTAATAGATAACAATAAAAAATATATATA
Found at i:50941 original size:71 final size:72
Alignment explanation
Indices: 50848--50981 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 72
50838 TTAATCAAAT
* * *
50848 AATAATAATAATAATAATAATAGATAAATAATAAAAA-AATATATTAATAGATAAGCATAAAAAA
1 AATAATAATAATAATAATAATAGATAAATAATAAAAATAATATATAAATAAATAA-AATAAAAAA
50912 TATATATA
65 TATATATA
* * *
50920 AATAA-AA-AATATATATTAATAGATAACTAATAAAAATTATATATAAATAAATAAAATAAAAA
1 AATAATAATAATA-ATAATAATAGATAAATAATAAAAATAATATATAAATAAATAAAATAAAAA
50982 TACAAATGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
70 4 0.07
71 31 0.57
72 19 0.35
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (72 bp):
AATAATAATAATAATAATAATAGATAAATAATAAAAATAATATATAAATAAATAAAATAAAAAAT
ATATATA
Found at i:50958 original size:21 final size:21
Alignment explanation
Indices: 50857--50975 Score: 62
Period size: 23 Copynumber: 5.3 Consensus size: 21
50847 TAATAATAAT
* *
50857 AATAATAATAATAGATAAATA
1 AATAAAAATTATAGATAAATA
* *
50878 ATAAAAAAATATATTA-ATAGATA
1 A-ATAAAAAT-TA-TAGATAAATA
* *
50901 AGCATAAAAAATATATATAAATA
1 A--ATAAAAATTATAGATAAATA
* *
50924 AAAAATATATATTAATAGATAACT-
1 AATAA-A-A-ATT-ATAGATAAATA
*
50948 AATAAAAATTATATATAAATA
1 AATAAAAATTATAGATAAATA
50969 AATAAAA
1 AATAAAA
50976 TAAAAATACA
Statistics
Matches: 73, Mismatches: 15, Indels: 20
0.68 0.14 0.19
Matches are distributed among these distances:
20 8 0.11
21 14 0.19
22 10 0.14
23 19 0.26
24 14 0.19
25 8 0.11
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
AATAAAAATTATAGATAAATA
Found at i:50970 original size:17 final size:17
Alignment explanation
Indices: 50904--50940 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
50894 ATAGATAAGC
50904 ATAAAAAATATATATAA
1 ATAAAAAATATATATAA
*
50921 ATAAAAAATATATATTA
1 ATAAAAAATATATATAA
50938 ATA
1 ATA
50941 GATAACTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATATATATAA
Found at i:53791 original size:183 final size:182
Alignment explanation
Indices: 53459--53809 Score: 551
Period size: 183 Copynumber: 1.9 Consensus size: 182
53449 TATAGTTCTA
* *
53459 ATAATTCTTGTCATCCCTATCATTCCATTAAATTTTCCAATAAAATTCTAAAAAAATCAAAAAAT
1 ATAACTCTTCTCATCCCTATCATTCCATTAAATTTTCCAATAAAATTCTAAAAAAATCAAAAAAT
* *
53524 ATATTATTATTCAAAATCTGCTATAATGGGAAAGCAAATAGTATCAAATCAAATGGTATTCGATT
66 ATATTATTATTCAAAATCTGATATAATGGGAAAGCAAATAGTATCAAATCAAATGGTATCCGATT
*
53589 AAAAAGGATTACATGTCTAAAATGTGACACCAAAACTACCTGCTTTTATCCC
131 AAAAAGGATTACATGTCTAAAATGTGAAACCAAAACTACCTGCTTTTATCCC
* * * *
53641 ATAACTCTTCTCATCCTTATTATTTCATTAAATTTTTCAATAAAATTCTACAAAAAATCAAAAAA
1 ATAACTCTTCTCATCCCTATCATTCCATTAAATTTTCCAATAAAATTCTA-AAAAAATCAAAAAA
* * *
53706 TATTTTCTTATTCAAAAGT-TGATATAATGTGAAAGCAAATAGTATCAAATCAAATGGTATCCGA
65 TATATTATTATTCAAAA-TCTGATATAATGGGAAAGCAAATAGTATCAAATCAAATGGTATCCGA
* *
53770 TTTAAAAGGATTACATGTCTAAAATGTGAAACCCAAACTA
129 TTAAAAAGGATTACATGTCTAAAATGTGAAACCAAAACTA
53810 ATTGGTGTAG
Statistics
Matches: 153, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
182 44 0.29
183 108 0.71
184 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (182 bp):
ATAACTCTTCTCATCCCTATCATTCCATTAAATTTTCCAATAAAATTCTAAAAAAATCAAAAAAT
ATATTATTATTCAAAATCTGATATAATGGGAAAGCAAATAGTATCAAATCAAATGGTATCCGATT
AAAAAGGATTACATGTCTAAAATGTGAAACCAAAACTACCTGCTTTTATCCC
Found at i:56287 original size:2 final size:2
Alignment explanation
Indices: 56280--56305 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56270 TTCACATAAA
56280 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
56306 AGAGAGAGAG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:62094 original size:15 final size:16
Alignment explanation
Indices: 62051--62095 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
62041 AAATTCAAAC
*
62051 TATTTTGGATTTAAAT
1 TATTTTAGATTTAAAT
62067 TATTTTA-ATTTTAAAT
1 TATTTTAGA-TTTAAAT
62083 T-TTTTAGATTTAA
1 TATTTTAGATTTAA
62096 TACTCTAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
TATTTTAGATTTAAAT
Found at i:63186 original size:74 final size:74
Alignment explanation
Indices: 63037--63187 Score: 171
Period size: 75 Copynumber: 2.0 Consensus size: 74
63027 TATGATTAAT
* * * *
63037 AACATAATTTTTATTAAAAAGATGAAAAAAATTAGTTTTTATAATTCAACAAAAACGATATTTGT
1 AACATAATCTTTATTAAAAAGATGAAAAAAATTAGTTTTTAAAATTCAACAAAAACAACATTTGT
63102 AAAATAAAA
66 AAAATAAAA
* * * * *
63111 AACATAATCTTTGTTAAAAATATG-AAAAAATTATTTTTTTTAAAATTTAACAAATACAACATAT
1 AACATAATCTTTATTAAAAAGATGAAAAAAATTA--GTTTTTAAAATTCAACAAAAACAACAT-T
*
63175 T-TAAGATAAAA
63 TGTAAAATAAAA
63186 AA
1 AA
63188 ACGCAATTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
73 9 0.14
74 21 0.33
75 32 0.50
76 2 0.03
ACGTcount: A:0.54, C:0.06, G:0.05, T:0.35
Consensus pattern (74 bp):
AACATAATCTTTATTAAAAAGATGAAAAAAATTAGTTTTTAAAATTCAACAAAAACAACATTTGT
AAAATAAAA
Found at i:65785 original size:84 final size:87
Alignment explanation
Indices: 65639--65816 Score: 227
Period size: 84 Copynumber: 2.1 Consensus size: 87
65629 TCCAAATATT
* * *
65639 TTGACCCAAAAAAAAATCCCTAATCTGTTACCCTTTTAAAATCCCTAATTGTCGAATCTGAAATT
1 TTGACCCAAAAAAAAATCCCTAATCAGTTACCCTTTTAAAATCCCTAATTGTCAAATATGAAATT
*
65704 CCCTAAAAGTAATTAA-CCAAA
66 CCCTAAAAGCAATTAAGCCAAA
* * * * *
65725 TTGACCC-AAAAAAAATCCTTAATCAGTTA-CCTTTTGAGATCTCTAATTTTCAAATATGAAATT
1 TTGACCCAAAAAAAAATCCCTAATCAGTTACCCTTTTAAAATCCCTAATTGTCAAATATGAAATT
** *
65788 TTCTAAAAGCAATTAAGCTAAA
66 CCCTAAAAGCAATTAAGCCAAA
65810 TTGACCC
1 TTGACCC
65817 TAAACGTTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
84 41 0.52
85 31 0.39
86 7 0.09
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (87 bp):
TTGACCCAAAAAAAAATCCCTAATCAGTTACCCTTTTAAAATCCCTAATTGTCAAATATGAAATT
CCCTAAAAGCAATTAAGCCAAA
Found at i:66320 original size:89 final size:89
Alignment explanation
Indices: 66219--66516 Score: 400
Period size: 89 Copynumber: 3.4 Consensus size: 89
66209 TTCTTGTGTC
* * * * * * *
66219 TGTA-TAATATATTCAATGTTTGTCTGCTTATGCATTATTCAATTTTTTTTGTTTATGTATGATA
1 TGTATTAAGATATTCATTGTTTGTCTGCTTATGCATTATTCAGTATTTTCTATTTATGCATGATA
* * *
66283 AAGTTTTCTATTTTACATGGTTTC
66 AAGTTTTATGTTTTACATGGTTTA
* * * * * *
66307 TATATTAAGATATTCCTTGTTTGTTTGTTTATGCATAATTCAGTATGTTCTATTTATGCATGATA
1 TGTATTAAGATATTCATTGTTTGTCTGCTTATGCATTATTCAGTATTTTCTATTTATGCATGATA
*
66372 AAATTTTATGTTTTACATGGTTTA
66 AAGTTTTATGTTTTACATGGTTTA
* *
66396 TGTATTAAGATATTCATTGTTTGTCTGTTTATGCATTATTCAGTGTTTTCTATTTATGCATGATA
1 TGTATTAAGATATTCATTGTTTGTCTGCTTATGCATTATTCAGTATTTTCTATTTATGCATGATA
*
66461 AAGTTTTATGTTTTATATGGTTTA
66 AAGTTTTATGTTTTACATGGTTTA
*
66485 TGTATTAAGATATTCATTATTTGTCTGCTTAT
1 TGTATTAAGATATTCATTGTTTGTCTGCTTAT
66517 ATATTTTTTT
Statistics
Matches: 182, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
88 3 0.02
89 179 0.98
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (89 bp):
TGTATTAAGATATTCATTGTTTGTCTGCTTATGCATTATTCAGTATTTTCTATTTATGCATGATA
AAGTTTTATGTTTTACATGGTTTA
Found at i:66435 original size:26 final size:25
Alignment explanation
Indices: 66406--66456 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
66396 TGTATTAAGA
* *
66406 TATTCATTGTTTGTCTGTTTATGCAT
1 TATTCAGTGTTT-TCTATTTATGCAT
66432 TATTCAGTGTTTTCTATTTATGCAT
1 TATTCAGTGTTTTCTATTTATGCAT
66457 GATAAAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.18, C:0.12, G:0.14, T:0.57
Consensus pattern (25 bp):
TATTCAGTGTTTTCTATTTATGCAT
Found at i:72398 original size:26 final size:26
Alignment explanation
Indices: 72331--72412 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
72321 GTAGGTATGA
* * *
72331 AATTGATTTTATCTTATGATAGGTAA
1 AATTGATTTTATCTTTTGATAAGTAG
* *
72357 AATTGATTTTCTCTTTTGATACGTAG
1 AATTGATTTTATCTTTTGATAAGTAG
* *
72383 AATTGACTTTATCTTTTAATAAGTAG
1 AATTGATTTTATCTTTTGATAAGTAG
72409 AATT
1 AATT
72413 TGCCCATTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (26 bp):
AATTGATTTTATCTTTTGATAAGTAG
Done.