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 52 of 105
Found at i:9960077 original size:20 final size:20
Alignment explanation
Indices: 9960052--9960091 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9960042 TATCGTAAAG
9960052 TCTGATAATTTCATATGCAC
1 TCTGATAATTTCATATGCAC
9960072 TCTGATAATTTCATATGCAC
1 TCTGATAATTTCATATGCAC
9960092 CTCATATGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
TCTGATAATTTCATATGCAC
Found at i:9961322 original size:354 final size:354
Alignment explanation
Indices: 9960566--9961667 Score: 1386
Period size: 354 Copynumber: 3.1 Consensus size: 354
9960556 GTGCAATAAC
* * * *
9960566 AAAAGTTTTTTGGATTATTAAAAGCATCTTTTATTATGAAACGCCTTCAATATACCACAATGATT
1 AAAAATTTTTTGGATTATTAAAAGCATCTTTTATTATGAAATGCCTTCAATATACCACGATGGTT
* *
9960631 ATGGAAA-GCGTTTATTCAAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGA
66 AT-GAAAGGCATTTATTCAAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGA
* *
9960695 AGGTATTTGTTAATAATAGATG-TCTTCAAAA-TTTTCTCACTAAAAATTTTGAGAATAATTAAA
130 AGGTATTTGTTAATAACA-A-GCCCTTCAAAATTTTTC-CACTAAAAATTTTGAGAATAATTAAA
* ** *
9960758 GGCGTCTTCTACTGTAAAATACGTTCTATATGCCGCCATACAAATTTTAACACGGTTATTGAAGG
192 GGCGTCTTCTACTGTAAAATACCTTCTATATATCGCCACACAAA-TTTAACA-GGTTATTGAAGG
*
9960823 TGTATATCCAAGAAAGACT-CCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCA
255 CGTATATCCAAGAAAGA-TGCCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCA
*
9960887 GTTGCAGATAACAACGCCTTCAATAATTTCTTTAAA
319 ATTGCAGATAACAACGCCTTCAATAATTTCTTTAAA
* *
9960923 AAAAA-ATTTTGGATTATTAAAAGCATCTTTTATTATGAAATGCCTTCAATATACCATGATGGTT
1 AAAAATTTTTTGGATTATTAAAAGCATCTTTTATTATGAAATGCCTTCAATATACCACGATGGTT
* * *
9960987 ATGAAAGGCATTTATTCAAAAAAGCGCCTTCAATATACCTTTAAACTTAATAATCCATTATTGAA
66 ATGAAAGGCATTTATTCAAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
* * *
9961052 GGTGTTTGTTAATAACAAGCCCTTTAAAATTTTTCCACTAAAAATTTT-AGGAATCATTAAAGGC
131 GGTATTTGTTAATAACAAGCCCTTCAAAATTTTTCCACTAAAAATTTTGA-GAATAATTAAAGGC
* * * *
9961116 ATTTTCTACTATAAAATACCTTCTATATATCGCCACACAAATTTAATAGGGTTATTGAAGGCGTA
195 GTCTTCTACTGTAAAATACCTTCTATATATCGCCACACAAATTTAACA-GGTTATTGAAGGCGTA
* * *
9961181 TATCCAAGAAATATGCCTTTAATAA-TTCTTATCACAGTTTGTATATAATTAGTGAATGCAATTG
259 TATCCAAGAAAGATGCCTTTAATAATTTC-TATCACAGTTTGTAGATAATTAGTGAAGGCAATTG
9961245 CAGATAACAAC-CCTTCAATAATTT-TCTTAAA
323 CAGATAACAACGCCTTCAATAATTTCT-TTAAA
* * *
9961276 AAAAATTTTTTGAATTATTAAAGGCATCTTTTATTATGACATGCCTTCAATATACCACGATGGTT
1 AAAAATTTTTTGGATTATTAAAAGCATCTTTTATTATGAAATGCCTTCAATATACCACGATGGTT
* *
9961341 ATAAAAGGCTTTTATTCAAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
66 ATGAAAGGCATTTATTCAAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
* * * * * *
9961406 AGCATTTGTTAATAACAAACGCCTTCAAAATTTTTCCATTAAAAACTTTGAGAATTATTAAAGGC
131 GGTATTTGTTAATAACAAGC-CCTTCAAAATTTTTCCACTAAAAATTTTGAGAATAATTAAAGGC
* ** *
9961471 GCCTTCTACTGTAAAATGTCATCTATATATACCGCCACACAAATTCTAACA-G-TA-T--A--C-
195 GTCTTCTACTGTAAAATACCTTCTATATAT--CGCCACACAAATT-TAACAGGTTATTGAAGGCG
* *
9961528 -----CTAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCGATT
257 TATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCAATT
* **
9961588 GCAGATAACAACGCCTTCAATAGTTTC-CCAAA
322 GCAGATAACAACGCCTTCAATAATTTCTTTAAA
** ** * ** * *
9961620 AAAAAAATTTCAGATTATTAAATGTGTCTTTTATTATAAAACGCCTTC
1 AAAAATTTTTTGGATTATTAAAAGCATCTTTTATTATGAAATGCCTTC
9961668 GATAATTTGT
Statistics
Matches: 654, Mismatches: 75, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
344 103 0.16
345 15 0.02
350 1 0.00
352 2 0.00
353 27 0.04
354 219 0.33
355 135 0.21
356 131 0.20
357 17 0.03
358 4 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (354 bp):
AAAAATTTTTTGGATTATTAAAAGCATCTTTTATTATGAAATGCCTTCAATATACCACGATGGTT
ATGAAAGGCATTTATTCAAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAA
GGTATTTGTTAATAACAAGCCCTTCAAAATTTTTCCACTAAAAATTTTGAGAATAATTAAAGGCG
TCTTCTACTGTAAAATACCTTCTATATATCGCCACACAAATTTAACAGGTTATTGAAGGCGTATA
TCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAATTAGTGAAGGCAATTGCAG
ATAACAACGCCTTCAATAATTTCTTTAAA
Found at i:9970021 original size:22 final size:21
Alignment explanation
Indices: 9969993--9970034 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
9969983 CTCTGATATT
9969993 TATAAAAATATTAATATAATAA
1 TATAAAAATATTAATA-AATAA
9970015 TATAAAAATATTAATAAATA
1 TATAAAAATATTAATAAATA
9970035 TTATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TATAAAAATATTAATAAATAA
Found at i:9970049 original size:9 final size:9
Alignment explanation
Indices: 9970035--9970061 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
9970025 TTAATAAATA
9970035 TTATTATAT
1 TTATTATAT
9970044 TTATTATAT
1 TTATTATAT
9970053 TTATTATAT
1 TTATTATAT
9970062 AAATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTATTATAT
Found at i:9970344 original size:14 final size:14
Alignment explanation
Indices: 9970327--9970380 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
9970317 TTATTTTTTA
9970327 AAAAAATAAAAATG
1 AAAAAATAAAAATG
* *
9970341 AAAACA-AAAAA-C
1 AAAAAATAAAAATG
*
9970353 AAAAAATAAAAATT
1 AAAAAATAAAAATG
*
9970367 AAAAAATGAAAATG
1 AAAAAATAAAAATG
9970381 TTACCTAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 5 0.16
13 10 0.31
14 17 0.53
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAATG
Found at i:9970351 original size:20 final size:20
Alignment explanation
Indices: 9970326--9970380 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
9970316 TTTATTTTTT
9970326 AAAAAAATAAAAATGAAAAC
1 AAAAAAATAAAAATGAAAAC
* *
9970346 AAAAAACA-AAAAATAAAAAT
1 AAAAAA-ATAAAAATGAAAAC
* *
9970366 TAAAAAATGAAAATG
1 AAAAAAATAAAAATG
9970381 TTACCTAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (20 bp):
AAAAAAATAAAAATGAAAAC
Found at i:9979005 original size:25 final size:24
Alignment explanation
Indices: 9978956--9979012 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
9978946 TTAAAAATTA
9978956 AAAATAATTTTATTAATTTAAAAT
1 AAAATAATTTTATTAATTTAAAAT
*
9978980 AAAATAAATTTTATT-ATTATATAAT
1 AAAAT-AATTTTATTAATT-TAAAAT
*
9979005 AAATTAAT
1 AAAATAAT
9979013 AAATAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAATAATTTTATTAATTTAAAAT
Found at i:9979099 original size:29 final size:29
Alignment explanation
Indices: 9979035--9979099 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
9979025 TGTATTTTAT
* * **
9979035 TTTTATTATTATTTAATAAATTAATTAATA
1 TTTT-TTATTATATAATAAACTAAAAAATA
**
9979065 AATTTTATTATATAATAAACTAAAAAATA
1 TTTTTTATTATATAATAAACTAAAAAATA
9979094 TTTTTT
1 TTTTTT
9979100 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTTTTATTATATAATAAACTAAAAAATA
Found at i:9984673 original size:107 final size:105
Alignment explanation
Indices: 9984546--9984752 Score: 267
Period size: 107 Copynumber: 2.0 Consensus size: 105
9984536 AAATTTTCAC
* *
9984546 AATTTTTTTAAAACAATCATTAAACCTTCCAATAATTTGGTAAGA-TTTAATTACGATATTTAAA
1 AATTTTTTTAAAACAATCATTAAACCTTCCAATAATTTGGTAA-ATTTTAATTACAAGATTTAAA
* *
9984610 TCC-CCTGATAGTTAGGTAGGATGAAAAAAATTATTTTCAATT
65 ACCTCC-AATAGTTAGGTAGGAT-AAAAAAATTATTTTCAATT
* * *
9984652 AATTTTCTTTAAAA-AGATCATTAAATCTTCTAATAGTTTGGTAAATTTTAATTACAAGATTTAA
1 AATTTT-TTTAAAACA-ATCATTAAACCTTCCAATAATTTGGTAAATTTTAATTACAAGATTTAA
* *
9984716 AACCTCCAATAGTTTGGTAGGATTAAAAAATTATTTT
64 AACCTCCAATAGTTAGGTAGGATAAAAAAATTATTTT
9984753 AAAATTTTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
106 21 0.24
107 65 0.74
108 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (105 bp):
AATTTTTTTAAAACAATCATTAAACCTTCCAATAATTTGGTAAATTTTAATTACAAGATTTAAAA
CCTCCAATAGTTAGGTAGGATAAAAAAATTATTTTCAATT
Found at i:9993396 original size:18 final size:18
Alignment explanation
Indices: 9993373--9993416 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
9993363 AAATTTTCCA
*
9993373 AAAAAAT-TCAAAAATTTT
1 AAAAAATATCAAAAA-TAT
*
9993391 AAAAAATATGAAAAATAT
1 AAAAAATATCAAAAATAT
9993409 AAAAAATA
1 AAAAAATA
9993417 ATCCTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATATCAAAAATAT
Found at i:9994044 original size:15 final size:15
Alignment explanation
Indices: 9994026--9994059 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9994016 GTTCATTTTT
9994026 TTTTTATTTTTCATA
1 TTTTTATTTTTCATA
*
9994041 TTTTTCTTTTTCATA
1 TTTTTATTTTTCATA
9994056 TTTT
1 TTTT
9994060 GTAATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTTCATA
Found at i:9994176 original size:19 final size:18
Alignment explanation
Indices: 9994154--9994199 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
9994144 TCTATTAAAA
9994154 TTTTTTAACTGTTTTAGAT
1 TTTTTTAA-TGTTTTAGAT
*
9994173 TTTTTTCAATTTTTTAGAT
1 TTTTTT-AATGTTTTAGAT
9994192 TTTTTTAA
1 TTTTTTAA
9994200 AATTTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTTAATGTTTTAGAT
Found at i:9994205 original size:19 final size:19
Alignment explanation
Indices: 9994165--9994205 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9994155 TTTTTAACTG
* *
9994165 TTTTAGATTTTTTTCAATT
1 TTTTAGATTTTTTTAAAAT
9994184 TTTTAGATTTTTTTAAAAT
1 TTTTAGATTTTTTTAAAAT
9994203 TTT
1 TTT
9994206 CTTCTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTAGATTTTTTTAAAAT
Found at i:9994802 original size:14 final size:15
Alignment explanation
Indices: 9994778--9994807 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9994768 AAAAGAAGTG
9994778 AAATGAAAAAAAGAA
1 AAATGAAAAAAAGAA
9994793 AAAT-AAAAAAAGAA
1 AAATGAAAAAAAGAA
9994807 A
1 A
9994808 TACACAAAAA
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:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (15 bp):
AAATGAAAAAAAGAA
Found at i:9998304 original size:20 final size:20
Alignment explanation
Indices: 9998276--9998318 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9998266 GTTAATTATT
*
9998276 TATAGCATTAAGAGATGAGA
1 TATAGCATTAAGAGATAAGA
* *
9998296 TATATCATTAATAGATAAGA
1 TATAGCATTAAGAGATAAGA
9998316 TAT
1 TAT
9998319 CTTTTTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (20 bp):
TATAGCATTAAGAGATAAGA
Found at i:10001526 original size:52 final size:54
Alignment explanation
Indices: 10001461--10001596 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
10001451 TTTTGTAAAA
* *
10001461 AAAGACTACGTTTCTA-TTTACAAAAACGTAGTCTTTGT-AA-TTTTTTTCAATT
1 AAAGACTACGTTTCTACTTT-CAAAAACATAGTCTTTGTAAATTTTTTTTCAATC
*
10001513 AAAGACTACGTTTCTACTTTCAAAAACATAGTTTTTGTAAATTTTTTTTCAATC
1 AAAGACTACGTTTCTACTTTCAAAAACATAGTCTTTGTAAATTTTTTTTCAATC
** * * *
10001567 AAAGAGAAAGTTTCTACTTTTATAAACATA
1 AAAGACTACGTTTCTACTTTCAAAAACATA
10001597 CCAATAGACA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
52 32 0.44
53 5 0.07
54 36 0.49
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (54 bp):
AAAGACTACGTTTCTACTTTCAAAAACATAGTCTTTGTAAATTTTTTTTCAATC
Found at i:10003735 original size:23 final size:23
Alignment explanation
Indices: 10003709--10003753 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10003699 AATACCATAA
10003709 AAACAGTTTTAATTGTAGGTATG
1 AAACAGTTTTAATTGTAGGTATG
10003732 AAACAGTTTTAATTGTAGGTAT
1 AAACAGTTTTAATTGTAGGTAT
10003754 AGATTTGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (23 bp):
AAACAGTTTTAATTGTAGGTATG
Found at i:10006378 original size:37 final size:37
Alignment explanation
Indices: 10006328--10006401 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
10006318 CTTTCATCTA
*
10006328 TAGAAAGAAATGATAC-ATTAAGGCATTTATTAATGTG
1 TAGAAAGAAATGATACGATCAA-GCATTTATTAATGTG
10006365 TAGAAAGAAATGATACGATCAAGCATTTATTAATGTG
1 TAGAAAGAAATGATACGATCAAGCATTTATTAATGTG
10006402 CATATTGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (37 bp):
TAGAAAGAAATGATACGATCAAGCATTTATTAATGTG
Found at i:10023711 original size:19 final size:20
Alignment explanation
Indices: 10023671--10023715 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
10023661 ATTGAAATTA
10023671 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTT-AAAT
10023692 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
10023711 ATAAA
1 ATAAA
10023716 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:10023749 original size:11 final size:11
Alignment explanation
Indices: 10023733--10023758 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10023723 TTAAATATAT
10023733 ATAATTAAAAA
1 ATAATTAAAAA
10023744 ATAATTAAAAA
1 ATAATTAAAAA
10023755 ATAA
1 ATAA
10023759 ATTTTTATAT
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATTAAAAA
Found at i:10028960 original size:30 final size:30
Alignment explanation
Indices: 10028921--10029008 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
10028911 ATACTTAACC
*
10028921 TGGATATAACCAATAACACGATTCCTTAAA
1 TGGACATAACCAATAACACGATTCCTTAAA
** *
10028951 TGGACATAACCAATGTCAC-A---CTTAACC
1 TGGACATAACCAATAACACGATTCCTTAA-A
*
10028978 TGGACATAACCAATAACATGATTCCTTAAA
1 TGGACATAACCAATAACACGATTCCTTAAA
10029008 T
1 T
10029009 TTAAGCCACC
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
26 5 0.11
27 16 0.36
28 1 0.02
29 1 0.02
30 17 0.38
31 5 0.11
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (30 bp):
TGGACATAACCAATAACACGATTCCTTAAA
Found at i:10028986 original size:27 final size:28
Alignment explanation
Indices: 10028902--10028991 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 28
10028892 ATCAAATTTT
*
10028902 CAATGTCACATACTTAACCTGGATATAAC
1 CAATGTCACA-ACTTAACCTGGACATAAC
** * *
10028931 CAATAACACGATTCCTTAA-ATGGACATAAC
1 CAATGTCAC-A--ACTTAACCTGGACATAAC
10028961 CAATGTCAC-ACTTAACCTGGACATAAC
1 CAATGTCACAACTTAACCTGGACATAAC
10028988 CAAT
1 CAAT
10028992 AACATGATTC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 5 0.10
27 14 0.29
29 7 0.14
30 17 0.35
31 6 0.12
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (28 bp):
CAATGTCACAACTTAACCTGGACATAAC
Found at i:10033105 original size:133 final size:134
Alignment explanation
Indices: 10032873--10033119 Score: 358
Period size: 133 Copynumber: 1.9 Consensus size: 134
10032863 ATTTTAGATC
* * * * *
10032873 ATCAATTCAAAAAATTCTATAAACTTTATATCATACCATTCACCTACCCTACTTTACAAATTCTA
1 ATCAATTCAAAAAATTCTACAAACTTTAGATCAAACCATTCACCTACACTACTCTACAAATTCTA
*
10032938 GATCTATCTAGATTTAAGACTATATAACTCTAGATCTTTTCATTCAAGAGATTACACAACTCTAG
66 GATCTATCTAGATTTAAGACTATACAACTCTAGATCTTTTCATTCAAGAGATTACACAACTCTAG
10033003 ATTT
131 ATTT
* * *
10033007 ATCAATTC-AAGAATTCTACAAA-TTCTAGATCAAACCATTCACTTGCACTACTCTACAAATTCT
1 ATCAATTCAAAAAATTCTACAAACTT-TAGATCAAACCATTCACCTACACTACTCTACAAATTCT
10033070 AGATCTATCTAGATTTGAA-A-TGATACAACTCTAGATCTTTTCATTCAAGA
65 AGATCTATCTAGATTT-AAGACT-ATACAACTCTAGATCTTTTCATTCAAGA
10033120 ACTATACATT
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
132 3 0.03
133 88 0.87
134 10 0.10
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (134 bp):
ATCAATTCAAAAAATTCTACAAACTTTAGATCAAACCATTCACCTACACTACTCTACAAATTCTA
GATCTATCTAGATTTAAGACTATACAACTCTAGATCTTTTCATTCAAGAGATTACACAACTCTAG
ATTT
Found at i:10035740 original size:18 final size:18
Alignment explanation
Indices: 10035717--10035756 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
10035707 ATTAATATTT
10035717 TTACTAAAATCAAGACCC
1 TTACTAAAATCAAGACCC
10035735 TTACTAAAATCAAGACCC
1 TTACTAAAATCAAGACCC
10035753 TTAC
1 TTAC
10035757 CTCTGGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (18 bp):
TTACTAAAATCAAGACCC
Found at i:10038867 original size:3 final size:3
Alignment explanation
Indices: 10038859--10038886 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10038849 TCAAATTTCA
10038859 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10038887 CAAGTCAAAC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10040125 original size:2 final size:2
Alignment explanation
Indices: 10040118--10040162 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
10040108 TGTTTTAGTT
* *
10040118 TA TA TA TA TA TA TA TA TA -A TG T- TA TA TA TA TA AA 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
10040158 TA TA T
1 TA TA T
10040163 TCACTTGCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10040695 original size:17 final size:16
Alignment explanation
Indices: 10040644--10040699 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
10040634 ATTTAAATTG
* *
10040644 CATGAATCTAACTATT
1 CATGAATCTTAGTATT
10040660 CATGAA-CTTAGTCATT
1 CATGAATCTTAGT-ATT
*
10040676 CATGAATCTATGGTATT
1 CATGAATCT-TAGTATT
10040693 CATGAAT
1 CATGAAT
10040700 GACAATTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 4 0.12
16 15 0.44
17 12 0.35
18 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (16 bp):
CATGAATCTTAGTATT
Found at i:10045798 original size:160 final size:160
Alignment explanation
Indices: 10045511--10045843 Score: 377
Period size: 160 Copynumber: 2.1 Consensus size: 160
10045501 CGCCCGTTAA
* * * **
10045511 TATAGACTTATAATTTTTTTTTTACCTATACTGACGCTTAAAGTCAGTCAGTATAGATTTGTATG
1 TATAGACTTATAA-TTTTTTCTTACCTATACCGACACTTAAAGTCAGTCAGTATAGATTTACATG
* * * * *
10045576 TTTTAATTTTCTTACCTATACCAATGACTAGTGCCCGTCAGTATAGACTTATATGTTTTAATTTT
65 TTTTAATTTTCTTACCTATACCAATGACTAGAGACCGTCAATATAGAATTATATGCTTTAA-TTT
* * * *
10045641 TTTTACTTAC-ATCGACGGTTAATGCTTGTCAG
129 TTTTACTT-CTACCGACGATTAAAGATTGTCAG
* * * *
10045673 TATAGACTTGTAA-TTTTTCTTACCTATACCGACACTTAGCA-TCCGTCAGTATAGATTTACATT
1 TATAGACTTATAATTTTTTCTTACCTATACCGACACTTA-AAGTCAGTCAGTATAGATTTACATG
* ** * * *
10045736 TTTTAATTTTCTTACTTATACTGAT-AGTTAGAGACTGTCAATATAGAATTGTATGCTTTAATTT
65 TTTTAATTTTCTTACCTATACCAATGA-CTAGAGACCGTCAATATAGAATTATATGCTTTAATTT
10045800 TTTTACTTCTACCGACGATTAAAGATTGTCAG
129 TTTTACTTCTACCGACGATTAAAGATTGTCAG
10045832 TATAGACTTATA
1 TATAGACTTATA
10045844 TGTTTTAACT
Statistics
Matches: 143, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
158 1 0.01
159 41 0.29
160 88 0.62
161 1 0.01
162 12 0.08
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (160 bp):
TATAGACTTATAATTTTTTCTTACCTATACCGACACTTAAAGTCAGTCAGTATAGATTTACATGT
TTTAATTTTCTTACCTATACCAATGACTAGAGACCGTCAATATAGAATTATATGCTTTAATTTTT
TTACTTCTACCGACGATTAAAGATTGTCAG
Found at i:10046153 original size:15 final size:15
Alignment explanation
Indices: 10046133--10046168 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10046123 TACCAAGTTT
* *
10046133 GATAAAACAAATATC
1 GATAAAACAAACATA
10046148 GATAAAACAAACATA
1 GATAAAACAAACATA
10046163 GATAAA
1 GATAAA
10046169 GAATTATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (15 bp):
GATAAAACAAACATA
Found at i:10046494 original size:36 final size:36
Alignment explanation
Indices: 10046425--10046494 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
10046415 TACAAAAAAA
*
10046425 TAAAAAACTAAAATTATTTTTTCTTTTTATTATTGT
1 TAAAAAACTAAAATTATTTTTTATTTTTATTATTGT
*
10046461 TAAAAAA-TAAATTTAGTTTTTTATTATTT-TTATT
1 TAAAAAACTAAAATTA-TTTTTTATT-TTTATTATT
10046495 TTGAAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 7 0.23
36 20 0.67
37 3 0.10
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (36 bp):
TAAAAAACTAAAATTATTTTTTATTTTTATTATTGT
Found at i:10046505 original size:17 final size:18
Alignment explanation
Indices: 10046485--10046522 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10046475 AGTTTTTTAT
10046485 TATTTTT-A-TTTTGAAAA
1 TATTTTTAAGTTTT-AAAA
10046502 TATTTTTAAGTTTTAAAA
1 TATTTTTAAGTTTTAAAA
10046520 TAT
1 TAT
10046523 CACATTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TATTTTTAAGTTTTAAAA
Found at i:10049701 original size:13 final size:12
Alignment explanation
Indices: 10049683--10049718 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
10049673 AGAAGTAAAG
10049683 TATAATATATATA
1 TATAATATATA-A
10049696 TATAATATATAA
1 TATAATATATAA
10049708 TAATAATATAT
1 T-ATAATATAT
10049719 TGTACCCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATATATAA
Found at i:10052504 original size:18 final size:18
Alignment explanation
Indices: 10052481--10052516 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10052471 TGATTTTTGA
10052481 TTTTATAAAAATAAAAAT
1 TTTTATAAAAATAAAAAT
* *
10052499 TTTTATTAAATTAAAAAT
1 TTTTATAAAAATAAAAAT
10052517 ATTGAAGTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTATAAAAATAAAAAT
Found at i:10056714 original size:18 final size:18
Alignment explanation
Indices: 10056691--10056734 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
10056681 GAAATGTGGA
10056691 TGCTGCATTAGTGATGTT
1 TGCTGCATTAGTGATGTT
*
10056709 TGCTGCATTAGTGGTGTT
1 TGCTGCATTAGTGATGTT
10056727 TGCTGCAT
1 TGCTGCAT
10056735 AAAGTGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.14, G:0.30, T:0.43
Consensus pattern (18 bp):
TGCTGCATTAGTGATGTT
Found at i:10068635 original size:22 final size:22
Alignment explanation
Indices: 10068607--10068653 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
10068597 TTAATTCTGC
10068607 AATTGATATTCATTATATTGTT
1 AATTGATATTCATTATATTGTT
*
10068629 AATTGATATTGATTATATTGTT
1 AATTGATATTCATTATATTGTT
10068651 AAT
1 AAT
10068654 CATACACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.53
Consensus pattern (22 bp):
AATTGATATTCATTATATTGTT
Found at i:10071133 original size:12 final size:12
Alignment explanation
Indices: 10071116--10071142 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10071106 ACATGGTTGA
10071116 TGAACTCAAACT
1 TGAACTCAAACT
10071128 TGAACTCAAACT
1 TGAACTCAAACT
10071140 TGA
1 TGA
10071143 TCCTCAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (12 bp):
TGAACTCAAACT
Found at i:10079023 original size:19 final size:17
Alignment explanation
Indices: 10078988--10079029 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
10078978 TTACAAAAAT
10078988 ATAAATCCATATATTAC
1 ATAAATCCATATATTAC
10079005 -TAAATCCATTATATTTTAC
1 ATAAATCCA-TATA--TTAC
10079024 ATAAAT
1 ATAAAT
10079030 GAATATCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
19 4 0.19
20 5 0.24
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAATCCATATATTAC
Found at i:10082066 original size:25 final size:27
Alignment explanation
Indices: 10082013--10082067 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
10082003 TGAAAGTTCT
* *
10082013 TAAGGTTAGAGACAAGGCAAAGAAATC
1 TAAGGCTAGAGACAAGGAAAAGAAATC
*
10082040 TAAGGCTAGAGA-AA-GAAAAGAATTC
1 TAAGGCTAGAGACAAGGAAAAGAAATC
10082065 TAA
1 TAA
10082068 AAAATCGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.48
26 2 0.08
27 11 0.44
ACGTcount: A:0.51, C:0.09, G:0.24, T:0.16
Consensus pattern (27 bp):
TAAGGCTAGAGACAAGGAAAAGAAATC
Found at i:10082250 original size:19 final size:19
Alignment explanation
Indices: 10082229--10082264 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
10082219 TTATTTTCCT
10082229 TTTTGTTTT-TGTTTTTAG
1 TTTTGTTTTATGTTTTTAG
10082247 TTTTGTTTTATGTTTTTA
1 TTTTGTTTTATGTTTTTA
10082265 TTTATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (19 bp):
TTTTGTTTTATGTTTTTAG
Found at i:10082343 original size:6 final size:6
Alignment explanation
Indices: 10082332--10082362 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
10082322 TGACATATTA
10082332 AAAAAT AAAAAT AAAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
10082363 TTACGTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:10082348 original size:13 final size:13
Alignment explanation
Indices: 10082330--10082361 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
10082320 TTTGACATAT
10082330 TAAAAAATAAAAA
1 TAAAAAATAAAAA
10082343 TAAAAAATAAAAA
1 TAAAAAATAAAAA
10082356 TAAAAA
1 TAAAAA
10082362 TTTACGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:10083150 original size:25 final size:25
Alignment explanation
Indices: 10083122--10083169 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10083112 TTAGACAAAA
*
10083122 TTTTAAG-AAAAAAATTAATAATTAT
1 TTTTAAGTAAAAAAAATAA-AATTAT
10083147 TTTTAAGTAAAAAAAATAAAATT
1 TTTTAAGTAAAAAAAATAAAATT
10083170 TAGCTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TTTTAAGTAAAAAAAATAAAATTAT
Found at i:10084468 original size:66 final size:63
Alignment explanation
Indices: 10084338--10084468 Score: 165
Period size: 66 Copynumber: 2.0 Consensus size: 63
10084328 AACCTAAGGT
* * * *
10084338 TAGGACACATGAAAGAACATGTCTCTCACATTCTTTTTTTAATTTATGTCTTCTCTATTGTTA
1 TAGGAAACATGAAAGAACATGTCTCTCACATTCTTTGTTAAATTTATGTCTTCTCTATCGTTA
* *
10084401 TAGGAAACATGAAATAACATGTCTTGCTCACATTGTCTTGTTAAATTT-TAGTCTTCTCTATCGT
1 TAGGAAACATGAAAGAACATGTC-T-CTCACATTCT-TTGTTAAATTTAT-GTCTTCTCTATCGT
10084465 TA
62 TA
10084467 TA
1 TA
10084469 AGTCATAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 21 0.36
64 1 0.02
65 10 0.17
66 26 0.45
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (63 bp):
TAGGAAACATGAAAGAACATGTCTCTCACATTCTTTGTTAAATTTATGTCTTCTCTATCGTTA
Found at i:10084875 original size:15 final size:14
Alignment explanation
Indices: 10084833--10084877 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
10084823 TCCATAATAG
*
10084833 TTTTATTTTATTTTT
1 TTTTATTTT-TTTAT
10084848 TTTTA-TTTTTTAT
1 TTTTATTTTTTTAT
10084861 TTTTATTTTTGTTAT
1 TTTTATTTTT-TTAT
10084876 TT
1 TT
10084878 CTTGGTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
14 7 0.26
15 11 0.41
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTATTTTTTTAT
Found at i:10084875 original size:22 final size:22
Alignment explanation
Indices: 10084833--10084877 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10084823 TCCATAATAG
*
10084833 TTTTATTTTATTTTTTTTTATT
1 TTTTATTTTATTTTTTGTTATT
10084855 TTTTATTTT-TATTTTTGTTATT
1 TTTTATTTTAT-TTTTTGTTATT
10084877 T
1 T
10084878 CTTGGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTATTTTATTTTTTGTTATT
Found at i:10097380 original size:20 final size:21
Alignment explanation
Indices: 10097355--10097395 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10097345 TTATGTGAAA
*
10097355 AATTAATA-TTAAAATTTATT
1 AATTAAAATTTAAAATTTATT
*
10097375 AATTAAAATTTGAAATTTATT
1 AATTAAAATTTAAAATTTATT
10097396 GTACTACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AATTAAAATTTAAAATTTATT
Found at i:10097975 original size:10 final size:11
Alignment explanation
Indices: 10097956--10098015 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 11
10097946 GAAAAATGAG
10097956 AAAAGAAAAAA
1 AAAAGAAAAAA
10097967 AAAAGAAAAAAA
1 AAAAG-AAAAAA
10097979 AAAAGAGAAAAA
1 AAAAGA-AAAAA
**
10097991 ATGAGAAAATGAA
1 AAAAGAAAA--AA
*
10098004 AAAATAAAAAA
1 AAAAGAAAAAA
10098015 A
1 A
10098016 GAGATCCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 12 0.30
12 20 0.50
13 8 0.20
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:10099311 original size:40 final size:40
Alignment explanation
Indices: 10099260--10099875 Score: 884
Period size: 40 Copynumber: 15.0 Consensus size: 40
10099250 GTCTAGGAGT
10099260 ATTTACTTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
10099301 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
10099341 ATTTATTTTTCCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10099384 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
10099425 ATTTACTTTTCCAAAGTCGTGATACATCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
10099467 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
10099507 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
10099548 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10099590 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
10099630 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
10099671 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10099713 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
10099753 ATTTACTTTTCCAAGTTCGT-TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
10099793 ATTTACTTTCCAAAGTCGTGGTACCTCTGGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCT-GTTTAGAGGAGCA
*
10099835 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGC
10099876 TTTGGTAAAA
Statistics
Matches: 536, Mismatches: 20, Indels: 37
0.90 0.03 0.06
Matches are distributed among these distances:
39 12 0.02
40 179 0.33
41 131 0.24
42 169 0.32
43 45 0.08
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:10099455 original size:42 final size:42
Alignment explanation
Indices: 10099260--10099875 Score: 907
Period size: 42 Copynumber: 15.0 Consensus size: 42
10099250 GTCTAGGAGT
*
10099260 ATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
10099301 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
10099341 ATTTATTTTTCCCAAAGTCGTAGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
10099384 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
10099425 ATTTACTTTTCCAAAGTCGTGATACATCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
10099467 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
10099507 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
10099548 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
10099590 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
10099630 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
10099671 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
10099713 ATTTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
10099753 ATTTACTTTTCC-AAGTTCGT--TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
10099793 ATTTAC-TTTCCAAAGTCGTGGTACCTCTGGTTTAGAGGAGCA
1 ATTTACTTTTCCAAAGTCGTGGTGCCTCT-GTTTAGAGGAGCA
10099835 ATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
10099876 TTTGGTAAAA
Statistics
Matches: 538, Mismatches: 16, Indels: 41
0.90 0.03 0.07
Matches are distributed among these distances:
39 20 0.04
40 167 0.31
41 132 0.25
42 174 0.32
43 45 0.08
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (42 bp):
ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:10099517 original size:123 final size:123
Alignment explanation
Indices: 10099260--10099875 Score: 982
Period size: 123 Copynumber: 5.0 Consensus size: 123
10099250 GTCTAGGAGT
10099260 ATTTACTTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT-
1 ATTTAC-TTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTG
* *
10099321 -TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCCAAAG-TCGTAGTGCCTCTGTTTAGAGGAGCA
63 GTACCTCTGTTTAGAGGAGCAATTTACTTTT--CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
*
10099384 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGATA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
*
10099449 CATCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
66 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
10099507 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
10099572 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
66 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
10099630 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
10099695 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
66 CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
10099753 ATTTACTTTTCCAAGTTCGT--TGCCTCTATTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
*
10099815 ACCTCTGGTTTAGAGGAGCAATTTACTTTCCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
65 ACCTCT-GTTTAGAGGAGCAATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGC
10099876 TTTGGTAAAA
Statistics
Matches: 471, Mismatches: 10, Indels: 22
0.94 0.02 0.04
Matches are distributed among these distances:
121 22 0.05
122 56 0.12
123 289 0.61
124 68 0.14
125 9 0.02
126 27 0.06
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (123 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTA
CCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:10099942 original size:7 final size:7
Alignment explanation
Indices: 10099883--10099949 Score: 86
Period size: 7 Copynumber: 9.9 Consensus size: 7
10099873 AGCTTTGGTA
*
10099883 AAAAAAA
1 AAAAAAC
10099890 AAAAAAC
1 AAAAAAC
10099897 AAAAAAC
1 AAAAAAC
10099904 AAAAAAC
1 AAAAAAC
*
10099911 AAAAAAT
1 AAAAAAC
10099918 AAAAAAC
1 AAAAAAC
10099925 --AAAA-
1 AAAAAAC
10099929 AAAAAAC
1 AAAAAAC
10099936 AAAAAACC
1 AAAAAA-C
10099944 AAAAAA
1 AAAAAA
10099950 TGTTGAGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.08
6 4 0.08
7 38 0.72
8 7 0.13
ACGTcount: A:0.88, C:0.10, G:0.00, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Found at i:10099949 original size:1 final size:1
Alignment explanation
Indices: 10099882--10099941 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
10099872 GAGCTTTGGT
* * * * * *
10099882 AAAAAAAAAAAAAACAAAAAACAAAAAACAAAAAATAAAAAACAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10099942 CCAAAAAATG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:10100169 original size:16 final size:19
Alignment explanation
Indices: 10100148--10100196 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
10100138 TTTTATGTAT
10100148 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
10100165 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
10100183 TGTATATATTTATT
1 TGTAT-TATTTATT
10100197 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:10100270 original size:15 final size:18
Alignment explanation
Indices: 10100250--10100289 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 18
10100240 TATATATATA
10100250 TATTTTTA-TC-TTTTT-
1 TATTTTTATTCATTTTTG
10100265 TA-TTTTATTCATTTTTG
1 TATTTTTATTCATTTTTG
10100282 TATTTTTA
1 TATTTTTA
10100290 CTTATCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 4 0.19
16 5 0.24
17 2 0.10
18 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (18 bp):
TATTTTTATTCATTTTTG
Found at i:10100773 original size:31 final size:31
Alignment explanation
Indices: 10100692--10100780 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
10100682 ATTTTTCTGG
** *
10100692 AAATTTCTGG-GAAATTTCCAGATTCCGACGA
1 AAATTTC-GGCGAAATTTGAAGTTTCCGACGA
*
10100723 AAATTTCGGCGAAATTTGAATTTTCCGAC-A
1 AAATTTCGGCGAAATTTGAAGTTTCCGACGA
10100753 ACAATTTCGGCGAACA-TTGAAGTTTCCG
1 A-AATTTCGGCGAA-ATTTGAAGTTTCCG
10100781 CGCGACCAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
30 4 0.08
31 45 0.90
32 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
AAATTTCGGCGAAATTTGAAGTTTCCGACGA
Found at i:10100871 original size:20 final size:20
Alignment explanation
Indices: 10100846--10100883 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10100836 ACTTCCGACG
*
10100846 AAATTTCCAGATTCCGGCGA
1 AAATTTCCAGAATCCGGCGA
10100866 AAATTTCCAGAATCCGGC
1 AAATTTCCAGAATCCGGC
10100884 ACCGGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGGCGA
Found at i:10101251 original size:19 final size:19
Alignment explanation
Indices: 10101207--10101259 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
10101197 TCAGGTTTTT
*
10101207 TTTTTTTTTTTTTCTCTTTG
1 TTTTTTTTTTATT-TCTTTG
**
10101227 AATTTTTTTTATTTCTTTG
1 TTTTTTTTTTATTTCTTTG
*
10101246 TTTTTTGTTTATTT
1 TTTTTTTTTTATTT
10101260 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTTATTTCTTTG
Found at i:10101381 original size:27 final size:27
Alignment explanation
Indices: 10101351--10101439 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
10101341 CAAAAAAAAT
10101351 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
** * * **
10101378 ATTTTCCTTAGAAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
10101408 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
10101435 ATTTT
1 ATTTT
10101440 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:10101481 original size:121 final size:117
Alignment explanation
Indices: 10101338--10101743 Score: 595
Period size: 121 Copynumber: 3.4 Consensus size: 117
10101328 AAATAAAAAA
10101338 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
*
10101403 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
66 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG-AAAATAAAT
10101459 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
* *
10101524 AAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAG-AAATAAAT
66 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAT
*
10101575 TTCGAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTCA-AAATCAAAATTT
1 TTC-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT--AAATTT
* * *
10101639 CAAAAAAATATTTTTTTGGGGAAAAGTTAAAAGTGTCAATTTTCCTT-GAAAATCGAAAT
62 CCAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT--AAAT
* *
10101698 TTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
10101744 CTACAAAAAA
Statistics
Matches: 264, Mismatches: 12, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
116 11 0.04
117 49 0.19
118 3 0.01
119 15 0.06
120 1 0.00
121 179 0.68
123 6 0.02
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (117 bp):
TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAA
AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAT
Found at i:10101663 original size:178 final size:180
Alignment explanation
Indices: 10101343--10101743 Score: 591
Period size: 178 Copynumber: 2.2 Consensus size: 180
10101333 AAAAATTCCA
* * *
10101343 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAT
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAT
10101408 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAATA
66 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAATA
*
10101473 TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT-AAA-TTTC
131 TTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTGA-AAATCAAATTTTC
* *
10101521 CAAAAAATATTTTTGGGGAAGAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCGAAAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC---AAAAA
* **
10101586 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-CAA-AATCA-AAATTT-CAAAAAAA
63 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAA
* * *
10101647 TATTTTTTTGGGGAAAAGTTAAAAGTGTCAATTTTCCTTGAAAATCGAAATTTTC
128 -ATATTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATC-AAATTTTC
10101702 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
10101744 CTACAAAAAA
Statistics
Matches: 201, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
177 8 0.04
178 97 0.48
179 4 0.02
180 5 0.02
181 87 0.43
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (180 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAT
ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAATA
TTTTTAGGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAATTTTC
Found at i:10104082 original size:38 final size:40
Alignment explanation
Indices: 10104040--10104128 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 40
10104030 TATAGTGACG
* *
10104040 ATATAATTGTGA-AAAAGTAATAAT-CATCACAATT-ATTA
1 ATATAATTGTGACAAAA-TAACAATACATAACAATTAATTA
*
10104078 ATAT-ATTAGTGACCAAATAACAATACATAACAATTAATTA
1 ATATAATT-GTGACAAAATAACAATACATAACAATTAATTA
*
10104118 TTATAATTGTG
1 ATATAATTGTG
10104129 TCATAGGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 3 0.07
38 14 0.33
39 12 0.29
40 10 0.24
41 3 0.07
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (40 bp):
ATATAATTGTGACAAAATAACAATACATAACAATTAATTA
Found at i:10104292 original size:19 final size:19
Alignment explanation
Indices: 10104268--10104304 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10104258 TTTGGCATGA
10104268 TTTAA-TCATAATACAAAAT
1 TTTAATTCATAATA-AAAAT
10104287 TTTAATTCATAATAAAAA
1 TTTAATTCATAATAAAAA
10104305 GCAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTAATTCATAATAAAAAT
Found at i:10105589 original size:15 final size:16
Alignment explanation
Indices: 10105569--10105601 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10105559 CTGAAGATAA
10105569 AAATAT-ATAATAGTT
1 AAATATAATAATAGTT
*
10105584 AAATATAATAATATTT
1 AAATATAATAATAGTT
10105600 AA
1 AA
10105602 TAAAGTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAATATAATAATAGTT
Found at i:10107406 original size:19 final size:20
Alignment explanation
Indices: 10107378--10107416 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10107368 TAGGGGTTAA
10107378 GGTTTAGATTTA-GGTTTAG
1 GGTTTAGATTTATGGTTTAG
*
10107397 GGTTTTGATTTATGGTTTAG
1 GGTTTAGATTTATGGTTTAG
10107417 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (20 bp):
GGTTTAGATTTATGGTTTAG
Found at i:10107463 original size:7 final size:7
Alignment explanation
Indices: 10107451--10107475 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10107441 TTAGGGTTTT
10107451 GTTTAAG
1 GTTTAAG
10107458 GTTTAAG
1 GTTTAAG
10107465 GTTTAAG
1 GTTTAAG
10107472 GTTT
1 GTTT
10107476 GGGATTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (7 bp):
GTTTAAG
Found at i:10107474 original size:26 final size:26
Alignment explanation
Indices: 10107426--10107475 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10107416 GAATTTAAAA
** *
10107426 TTTAAGGTTTGGGGCTTAGGGTTTTG
1 TTTAAGGTTTAAGGCTTAAGGTTTTG
*
10107452 TTTAAGGTTTAAGGTTTAAGGTTT
1 TTTAAGGTTTAAGGCTTAAGGTTT
10107476 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (26 bp):
TTTAAGGTTTAAGGCTTAAGGTTTTG
Found at i:10109947 original size:49 final size:49
Alignment explanation
Indices: 10109888--10110062 Score: 164
Period size: 49 Copynumber: 3.6 Consensus size: 49
10109878 GAAGAGCTCA
10109888 TATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACTCT
1 TATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACTCT
* * * * * *
10109937 TATAAGCATAGGCAAGT-GACTTTAAAAATTTCTA-TCTGGAAAGGGCTCT
1 TATAAACATAGGCAAGTAG-CTTTAAAAA-ATCAATTTTGAAAAGGACTCT
* * * *
10109986 TATAAACATAGGCAGGTAGGTTT-AAAAATCAATTTTTAAAAGGGCTAC-
1 TATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACT-CT
*
10110034 TATGAAA-ATAGGCAA-TGAACTTTAAAAAA
1 TAT-AAACATAGGCAAGT-AGCTTTAAAAAA
10110063 AATCTCTATG
Statistics
Matches: 101, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
47 4 0.04
48 29 0.29
49 64 0.63
50 4 0.04
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (49 bp):
TATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACTCT
Found at i:10110056 original size:97 final size:98
Alignment explanation
Indices: 10109883--10110061 Score: 249
Period size: 97 Copynumber: 1.8 Consensus size: 98
10109873 TCTTAGAAGA
*
10109883 GCTCATATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACTCTTATAAGCATAG
1 GCTCATATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACTCTTATAAGAATAG
10109948 GCAAGTGACTTTAAAAATTTCTATCTGGAAAGG
66 GCAAGTGACTTTAAAAATTTCTATCTGGAAAGG
* * * * *
10109981 GCTCTTATAAACATAGGCAGGTAGGTTT-AAAAATCAATTTTTAAAAGGGCTAC-TATGAA-AAT
1 GCTCATATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACT-CTTAT-AAGAAT
10110043 AGGCAA-TGAACTTTAAAAA
64 AGGCAAGTG-ACTTTAAAAA
10110062 AAATCTCTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
96 2 0.03
97 42 0.58
98 28 0.39
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (98 bp):
GCTCATATAAACATAGGCAAGTAGCTTTAAAAAATCAATTTTGAAAAGGACTCTTATAAGAATAG
GCAAGTGACTTTAAAAATTTCTATCTGGAAAGG
Found at i:10110146 original size:49 final size:49
Alignment explanation
Indices: 10110023--10110232 Score: 208
Period size: 49 Copynumber: 4.2 Consensus size: 49
10110013 ATCAATTTTT
* ** * * *
10110023 AAAAGGGCTACTATGAAAATAGGCAATGAACTTTAAAAAAAATCTCTATGG
1 AAAA-GGCTCCTATGAAAATAGGCAACAAACTTT-TAAAAAATCTTTTTGG
*
10110074 AAAATGGCTCCTATGAAAATAGGCAACAAACTTTTAAGAAATCTTTTTGG
1 AAAA-GGCTCCTATGAAAATAGGCAACAAACTTTTAAAAAATCTTTTTGG
* * **
10110124 AAATGGCTCTTATGAAAATAGGCAACAAA-TTTT-AAAAATCTTTTTTTTTTAA
1 AAAAGGCTCCTATGAAAATAGGCAACAAACTTTTAAAAAATC-----TTTTTGG
** *
10110176 AAAAGGCTCCTATGAAAATATACAACAAACTTTTAAAAAATATTTTTGG
1 AAAAGGCTCCTATGAAAATAGGCAACAAACTTTTAAAAAATCTTTTTGG
10110225 AAAAGGCT
1 AAAAGGCT
10110233 TTTATTAAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
47 6 0.05
48 4 0.03
49 37 0.28
50 15 0.11
51 30 0.23
52 30 0.23
53 4 0.03
54 6 0.05
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (49 bp):
AAAAGGCTCCTATGAAAATAGGCAACAAACTTTTAAAAAATCTTTTTGG
Found at i:10110204 original size:101 final size:101
Alignment explanation
Indices: 10110074--10110295 Score: 282
Period size: 101 Copynumber: 2.2 Consensus size: 101
10110064 ATCTCTATGG
* * * * *
10110074 AAAATGGCTCCTATGAAAATAGGCAACAAACTTTTAAGAAATCTTTTTGGAAATGGCTCTTATGA
1 AAAAAGGCTCCTATGAAAATAGACAACAAACTTTTAAAAAATATTTTTGGAAAAGGCTCTTATGA
* * *
10110139 AAATAGGCAACAAATTTTAAAAATCTTTTTTTTTTA
66 AAAAAGGCAACAAACTTCAAAAATCTTTTTTTTTTA
* * *
10110175 AAAAAGGCTCCTATGAAAATATACAACAAACTTTTAAAAAATATTTTTGGAAAAGGCTTTTATTA
1 AAAAAGGCTCCTATGAAAATAGACAACAAACTTTTAAAAAATATTTTTGGAAAAGGCTCTTATGA
** ** *
10110240 AAAAAGGCAATGAACTTCAAATTTTTTTTTTTTTTA
66 AAAAAGGCAACAAACTTCAAAAATCTTTTTTTTTTA
*
10110276 AAAAAGGGTTCCTATGAAAA
1 AAAAA-GGCTCCTATGAAAA
10110296 AAAAAAGCTC
Statistics
Matches: 103, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
101 90 0.87
102 13 0.13
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (101 bp):
AAAAAGGCTCCTATGAAAATAGACAACAAACTTTTAAAAAATATTTTTGGAAAAGGCTCTTATGA
AAAAAGGCAACAAACTTCAAAAATCTTTTTTTTTTA
Found at i:10110299 original size:19 final size:18
Alignment explanation
Indices: 10110275--10110331 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
10110265 TTTTTTTTTT
*
10110275 AAAAAAGGGTTCCTATGAA
1 AAAAAAAGGTTCCTATG-A
* *
10110294 AAAAAAAAGCTCCTATG-
1 AAAAAAAGGTTCCTATGA
*
10110311 AAAAAAAGGTTCTTATGA
1 AAAAAAAGGTTCCTATGA
10110329 AAA
1 AAA
10110332 TAGACAACAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.45
18 3 0.10
19 14 0.45
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.21
Consensus pattern (18 bp):
AAAAAAAGGTTCCTATGA
Found at i:10110493 original size:49 final size:47
Alignment explanation
Indices: 10110376--10110493 Score: 139
Period size: 47 Copynumber: 2.4 Consensus size: 47
10110366 GTAATGAACT
* * * *
10110376 TTTTAAAAAATCTTTGTGGAAATGGCTCTTATGGAAATAGGCAACAAA
1 TTTTAAAAAATCTTT-TGGAAAGGGCTCCTATGAAAATAGGCAAAAAA
* *
10110424 CTTT-AAAAATCTCGTTGGAAAGGGCTCCTATGAAAATAGGCAATAAAA
1 TTTTAAAAAATCT-TTTGGAAAGGGCTCCTATGAAAATAGGCAA-AAAA
10110472 TTTTAAAAAATCTTATTGGAAA
1 TTTTAAAAAATCTT-TTGGAAA
10110494 AGACTAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
47 33 0.57
48 10 0.17
49 15 0.26
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (47 bp):
TTTTAAAAAATCTTTTGGAAAGGGCTCCTATGAAAATAGGCAAAAAA
Found at i:10121474 original size:26 final size:25
Alignment explanation
Indices: 10121444--10121511 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 25
10121434 GAACAATTTC
*
10121444 TTTTATTCTATTTTTTAGTGATTTTA
1 TTTTATTTTATTTTTTAG-GATTTTA
*
10121470 TTTTATTTTTATTTTTTTAGGTTTTTA
1 TTTTA-TTTTA-TTTTTTAGGATTTTA
10121497 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
10121512 GGTCATTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
25 5 0.13
26 10 0.26
27 15 0.39
28 8 0.21
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTATTTTATTTTTTAGGATTTTA
Found at i:10121495 original size:27 final size:27
Alignment explanation
Indices: 10121444--10121511 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
10121434 GAACAATTTC
*
10121444 TTTTATTCTA-TTTTTTAGTGATTTTA
1 TTTTATTTTATTTTTTTAGTGATTTTA
*
10121470 TTTTATTTTTATTTTTTTAG-GTTTTTA
1 TTTTA-TTTTATTTTTTTAGTGATTTTA
10121497 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
10121512 GGTCATTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 15 0.39
27 15 0.39
28 8 0.21
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.76
Consensus pattern (27 bp):
TTTTATTTTATTTTTTTAGTGATTTTA
Found at i:10122070 original size:25 final size:25
Alignment explanation
Indices: 10122042--10122152 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
10122032 AATATATAAT
*
10122042 AAATGACATAATTTAAATATGCATA
1 AAATGACATAATTAAAATATGCATA
* *
10122067 AAATAACCTAATTAAAATATGCA-A
1 AAATGACATAATTAAAATATGCATA
*
10122091 GAAACGACATAATTAAAATATG----
1 -AAATGACATAATTAAAATATGCATA
* *
10122113 AAATGACACAATTAAAAATATGCATG
1 AAATGACATAATT-AAAATATGCATA
10122139 AAATGACATAATTA
1 AAATGACATAATTA
10122153 GCACATGCAT
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
21 11 0.15
22 8 0.11
24 1 0.01
25 39 0.55
26 12 0.17
ACGTcount: A:0.55, C:0.10, G:0.09, T:0.26
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATA
Found at i:10122133 original size:22 final size:21
Alignment explanation
Indices: 10122091--10122134 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
10122081 AAATATGCAA
*
10122091 GAAACGACATAATTAAAATAT
1 GAAACGACACAATTAAAATAT
*
10122112 GAAATGACACAATTAAAAATAT
1 GAAACGACACAATT-AAAATAT
10122134 G
1 G
10122135 CATGAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (21 bp):
GAAACGACACAATTAAAATAT
Found at i:10122277 original size:16 final size:16
Alignment explanation
Indices: 10122236--10122280 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
10122226 AAAGCATTTT
*
10122236 TTTTCATTTTTTCAAA
1 TTTTAATTTTTTCAAA
*
10122252 TTTTAAATTTTTTTAAA
1 TTTT-AATTTTTTCAAA
*
10122269 TTTTGATTTTTT
1 TTTTAATTTTTT
10122281 AAGAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTAATTTTTTCAAA
Found at i:10123278 original size:7 final size:7
Alignment explanation
Indices: 10123260--10123336 Score: 81
Period size: 7 Copynumber: 11.6 Consensus size: 7
10123250 TGGGGTCTAA
10123260 GTTTAGG
1 GTTTAGG
* *
10123267 TTTTAAG
1 GTTTAGG
10123274 GTTTA-G
1 GTTTAGG
10123280 GTTTAGG
1 GTTTAGG
10123287 GTTT--G
1 GTTTAGG
*
10123292 GTTTAAG
1 GTTTAGG
*
10123299 GCTTAGG
1 GTTTAGG
*
10123306 GGTTAGG
1 GTTTAGG
10123313 GTTTA-G
1 GTTTAGG
10123319 GTTTAGG
1 GTTTAGG
10123326 GTTTAGG
1 GTTTAGG
10123333 GTTT
1 GTTT
10123337 TATGGACTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
5 5 0.08
6 12 0.20
7 42 0.71
ACGTcount: A:0.16, C:0.01, G:0.38, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:10123284 original size:13 final size:13
Alignment explanation
Indices: 10123260--10123332 Score: 85
Period size: 13 Copynumber: 5.5 Consensus size: 13
10123250 TGGGGTCTAA
*
10123260 GTTTAGGTTTTAAG
1 GTTTAGG-TTTAGG
10123274 GTTTAGGTTTAGG
1 GTTTAGGTTTAGG
*
10123287 GTTT-GGTTTAAG
1 GTTTAGGTTTAGG
* *
10123299 GCTTAGGGGTTAGG
1 GTTTA-GGTTTAGG
10123313 GTTTAGGTTTAGG
1 GTTTAGGTTTAGG
10123326 GTTTAGG
1 GTTTAGG
10123333 GTTTTATGGA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.20
13 23 0.46
14 17 0.34
ACGTcount: A:0.16, C:0.01, G:0.38, T:0.44
Consensus pattern (13 bp):
GTTTAGGTTTAGG
Found at i:10123285 original size:20 final size:20
Alignment explanation
Indices: 10123231--10123336 Score: 105
Period size: 20 Copynumber: 5.5 Consensus size: 20
10123221 CATGATTGGT
10123231 TTTAGGGTTTAGG-TT--GG
1 TTTAGGGTTTAGGTTTAGGG
* * * *
10123248 TTTGGGGTCTAAGTTTAGGT
1 TTTAGGGTTTAGGTTTAGGG
*
10123268 TTTAAGGTTTAGGTTTAGGG
1 TTTAGGGTTTAGGTTTAGGG
*
10123288 TTT--GGTTTAAGGCTTAGGG
1 TTTAGGGTTT-AGGTTTAGGG
*
10123307 GTTAGGGTTTAGGTTTAGGG
1 TTTAGGGTTTAGGTTTAGGG
10123327 TTTAGGGTTT
1 TTTAGGGTTT
10123337 TATGGACTAA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
17 10 0.14
18 7 0.10
19 11 0.16
20 37 0.53
21 5 0.07
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.45
Consensus pattern (20 bp):
TTTAGGGTTTAGGTTTAGGG
Found at i:10123494 original size:7 final size:7
Alignment explanation
Indices: 10123484--10123539 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
10123474 GTTTAGGGTT
10123484 AGGTTTA
1 AGGTTTA
10123491 AGGTTTA
1 AGGTTTA
* *
10123498 ATGTTTG
1 AGGTTTA
10123505 AGGTTTA
1 AGGTTTA
*
10123512 AAGTTTA
1 AGGTTTA
*
10123519 GGGTTTA
1 AGGTTTA
*
10123526 GGGTTTA
1 AGGTTTA
*
10123533 GGGTTTA
1 AGGTTTA
10123540 CTTTATGGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (7 bp):
AGGTTTA
Found at i:10123508 original size:14 final size:13
Alignment explanation
Indices: 10123464--10123539 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 13
10123454 ATTAGCTGGC
*
10123464 TAGGTTTTATGTT
1 TAGGTTTAATGTT
* *
10123477 TAGGGTT-AGGTT
1 TAGGTTTAATGTT
10123489 TAAGGTTTAATGTT
1 T-AGGTTTAATGTT
*
10123503 TGAGGTTTAAAGTT
1 T-AGGTTTAATGTT
**
10123517 TAGGGTTTAGGGTT
1 TA-GGTTTAATGTT
10123531 TAGGGTTTA
1 TA-GGTTTA
10123540 CTTTATGGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
12 5 0.10
13 12 0.23
14 35 0.67
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (13 bp):
TAGGTTTAATGTT
Found at i:10123524 original size:21 final size:20
Alignment explanation
Indices: 10123464--10123625 Score: 93
Period size: 21 Copynumber: 8.1 Consensus size: 20
10123454 ATTAGCTGGC
* *
10123464 TAGGTTTTATGTTTAGGG-T
1 TAGGTTTAAAGTTTAGGGTT
* **
10123483 TAGGTTTAAGGTTTAATGTT
1 TAGGTTTAAAGTTTAGGGTT
10123503 TGAGGTTTAAAGTTTAGGGTT
1 T-AGGTTTAAAGTTTAGGGTT
** *
10123524 TAGGGTTTAGGGTTTA--CTT
1 TA-GGTTTAAAGTTTAGGGTT
* *
10123543 TATGGTGT-CAGTTTAGGGTT
1 TA-GGTTTAAAGTTTAGGGTT
* ** *
10123563 TGGAGTTTAGCGTTTAGCGTT
1 TAG-GTTTAAAGTTTAGGGTT
10123584 TAAGGTTTAAAGTTTAGGGTT
1 T-AGGTTTAAAGTTTAGGGTT
10123605 T-GGATTTAGAA-TTTAGGGTT
1 TAGG-TTTA-AAGTTTAGGGTT
10123625 T
1 T
10123626 CATGGAATTT
Statistics
Matches: 109, Mismatches: 24, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
18 5 0.05
19 25 0.23
20 23 0.21
21 55 0.50
22 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.46
Consensus pattern (20 bp):
TAGGTTTAAAGTTTAGGGTT
Found at i:10123571 original size:14 final size:14
Alignment explanation
Indices: 10123513--10123613 Score: 68
Period size: 14 Copynumber: 7.5 Consensus size: 14
10123503 TGAGGTTTAA
10123513 AGTTTAGGGTTTAGG
1 AGTTTAGGGTTT-GG
10123528 -GTTTAGGGTTT--
1 AGTTTAGGGTTTGG
* * * *
10123539 ACTTTATGGTGT-C
1 AGTTTAGGGTTTGG
10123552 AGTTTAGGGTTTGG
1 AGTTTAGGGTTTGG
* *
10123566 AGTTTAGCGTTTAG
1 AGTTTAGGGTTTGG
* * **
10123580 CGTTTAAGGTTTAA
1 AGTTTAGGGTTTGG
10123594 AGTTTAGGGTTTGG
1 AGTTTAGGGTTTGG
10123608 A-TTTAG
1 AGTTTAG
10123614 AATTTAGGGT
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
12 8 0.12
13 14 0.21
14 44 0.67
ACGTcount: A:0.19, C:0.04, G:0.33, T:0.45
Consensus pattern (14 bp):
AGTTTAGGGTTTGG
Found at i:10132358 original size:17 final size:17
Alignment explanation
Indices: 10132336--10132368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10132326 AAATTTTGCA
*
10132336 AAGATTCTAAGTTTCAG
1 AAGATTCCAAGTTTCAG
10132353 AAGATTCCAAGTTTCA
1 AAGATTCCAAGTTTCA
10132369 TAGAGGTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (17 bp):
AAGATTCCAAGTTTCAG
Found at i:10132857 original size:22 final size:22
Alignment explanation
Indices: 10132772--10133029 Score: 112
Period size: 22 Copynumber: 11.5 Consensus size: 22
10132762 TTCTCATTCA
* *
10132772 AAAAATTTCAAGGTTTCACATC
1 AAAAATTTCAAAGATTCACATC
* * * *
10132794 CAAAAGTT-AAAGATTTTACTTC
1 AAAAATTTCAAAGA-TTCACATC
* * *
10132816 AAAAAACTT-AGAGATACACATC
1 -AAAAATTTCAAAGATTCACATC
*
10132838 AAAAATTTCAAAAATTCACATTC
1 AAAAATTTCAAAGATTCACA-TC
* *
10132861 AAAAACTTT-AATA-TTTCACAAC
1 AAAAA-TTTCAA-AGATTCACATC
* * * *
10132883 CAAAATTTCAAATATACTCATTC
1 AAAAATTTCAAAGATTCACA-TC
** * *
10132906 GAAAAA-TTCTGAGTTTTACATC
1 -AAAAATTTCAAAGATTCACATC
* * *
10132928 CATAATTTCAAAGATTCACATT
1 AAAAATTTCAAAGATTCACATC
* *
10132950 AAAAATTTTAGAGATTCACATC
1 AAAAATTTCAAAGATTCACATC
* * *
10132972 CAAAATTTTAAAAATTCACATTC
1 AAAAATTTCAAAGATTCACA-TC
* *
10132995 AAAAAATTTTAGAGATTCACATC
1 -AAAAATTTCAAAGATTCACATC
* *
10133018 TAAAATCTCAAA
1 AAAAATTTCAAA
10133030 TGTTAAAATT
Statistics
Matches: 170, Mismatches: 53, Indels: 26
0.68 0.21 0.10
Matches are distributed among these distances:
21 17 0.10
22 91 0.54
23 37 0.22
24 25 0.15
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAAATTTCAAAGATTCACATC
Found at i:10132862 original size:45 final size:45
Alignment explanation
Indices: 10132758--10133029 Score: 207
Period size: 45 Copynumber: 6.0 Consensus size: 45
10132748 GTGTACAGCT
* * * *
10132758 AAAATTCTCATTCAAAAAATTTCA-AGGTTTCACATCCAAAAGTT-A
1 AAAATTCACATTCAAAAAACTT-AGA-GATTCACATCCAAAATTTCA
* * * *
10132803 AAGATTTTAC-TTCAAAAAACTTAGAGATACACATCAAAAATTTCA
1 AA-AATTCACATTCAAAAAACTTAGAGATTCACATCCAAAATTTCA
* *
10132848 AAAATTCACATTC-AAAAACTTTA-ATATTTCACAACCAAAATTTCA
1 AAAATTCACATTCAAAAAAC-TTAGAGA-TTCACATCCAAAATTTCA
* * * * * * * *
10132893 AATATACTCATTCGAAAAA-TTCTGAGTTTTACATCCATAATTTCA
1 AAAATTCACATTCAAAAAACTT-AGAGATTCACATCCAAAATTTCA
* ** *
10132938 AAGATTCACATT-AAAAATTTTAGAGATTCACATCCAAAATTTTA
1 AAAATTCACATTCAAAAAACTTAGAGATTCACATCCAAAATTTCA
* * *
10132982 AAAATTCACATTCAAAAAATTTTAGAGATTCACATCTAAAATCTCA
1 AAAATTCACATTCAAAAAA-CTTAGAGATTCACATCCAAAATTTCA
10133028 AA
1 AA
10133030 TGTTAAAATT
Statistics
Matches: 177, Mismatches: 38, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
44 63 0.36
45 79 0.45
46 35 0.20
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (45 bp):
AAAATTCACATTCAAAAAACTTAGAGATTCACATCCAAAATTTCA
Found at i:10134474 original size:18 final size:19
Alignment explanation
Indices: 10134441--10134476 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10134431 TAATTAAATC
10134441 AAGGATCATTTCTCTTTTT
1 AAGGATCATTTCTCTTTTT
*
10134460 AAGGA-CATTTGTCTTTT
1 AAGGATCATTTCTCTTTT
10134477 CCATTTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.50
Consensus pattern (19 bp):
AAGGATCATTTCTCTTTTT
Found at i:10134509 original size:8 final size:8
Alignment explanation
Indices: 10134496--10134540 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
10134486 AGAACATGCA
10134496 TTTTCATT
1 TTTTCATT
10134504 TTTTCATT
1 TTTTCATT
10134512 TTTTCATT
1 TTTTCATT
*
10134520 CTTTC-TCT
1 TTTTCAT-T
*
10134528 TTCTCATT
1 TTTTCATT
10134536 TTTTC
1 TTTTC
10134541 TTCTTTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 1 0.03
8 29 0.94
9 1 0.03
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTCATT
Found at i:10134515 original size:16 final size:16
Alignment explanation
Indices: 10134496--10134549 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
10134486 AGAACATGCA
10134496 TTTTCATTTTTTCAT-T
1 TTTTCATTTTTTC-TCT
*
10134512 TTTTCATTCTTTCTCT
1 TTTTCATTTTTTCTCT
*
10134528 TTCTCATTTTTTCTTCT
1 TTTTCATTTTTTC-TCT
10134545 TTTTC
1 TTTTC
10134550 TTCATGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 1 0.03
16 24 0.75
17 7 0.22
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTCATTTTTTCTCT
Found at i:10134544 original size:23 final size:24
Alignment explanation
Indices: 10134507--10134551 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
10134497 TTTCATTTTT
10134507 TCATTTTTTCATTCTTTCTCTTTC
1 TCATTTTTTCATTCTTTCTCTTTC
*
10134531 TCATTTTTTC-TTCTTTTTCTT
1 TCATTTTTTCATTCTTTCTCTT
10134552 CATGTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (24 bp):
TCATTTTTTCATTCTTTCTCTTTC
Found at i:10134549 original size:19 final size:20
Alignment explanation
Indices: 10134522--10134560 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10134512 TTTTCATTCT
*
10134522 TTCTCTTTC-TCATTTTTTC
1 TTCTCTTTCTTCATGTTTTC
*
10134541 TTCTTTTTCTTCATGTTTTC
1 TTCTCTTTCTTCATGTTTTC
10134561 ACATCTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (20 bp):
TTCTCTTTCTTCATGTTTTC
Found at i:10135384 original size:14 final size:15
Alignment explanation
Indices: 10135359--10135387 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10135349 TTGGCTTACA
10135359 AAGAATTTTTCAAAC
1 AAGAATTTTTCAAAC
10135374 AAGAA-TTTTCAAAC
1 AAGAATTTTTCAAAC
10135388 TTTATTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
AAGAATTTTTCAAAC
Found at i:10136317 original size:20 final size:20
Alignment explanation
Indices: 10136272--10136346 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
10136262 AAATGGAATA
* *
10136272 ATGCATGAATGAAT-CATGA
1 ATGCATGAATTAATACATGT
10136291 ATGCATGAATTAATACATGT
1 ATGCATGAATTAATACATGT
* *
10136311 ATACATGAATTAATGCATGT
1 ATGCATGAATTAATACATGT
10136331 ATGCATGAATGTAATA
1 ATGCATGAAT-TAATA
10136347 AGAAGGATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.27
20 31 0.65
21 4 0.08
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGCATGAATTAATACATGT
Found at i:10136430 original size:21 final size:21
Alignment explanation
Indices: 10136404--10136443 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10136394 AGTAAAGATG
10136404 ATATATACAAAGAACAACATA
1 ATATATACAAAGAACAACATA
*
10136425 ATATATAGAAAGAACAACA
1 ATATATACAAAGAACAACA
10136444 CAAAAGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.17
Consensus pattern (21 bp):
ATATATACAAAGAACAACATA
Found at i:10137640 original size:102 final size:101
Alignment explanation
Indices: 10137527--10137747 Score: 273
Period size: 102 Copynumber: 2.2 Consensus size: 101
10137517 ATAAATTTTA
* * * *
10137527 TTTTAAGAAAATTCATTAAACCTTCCAATTGTTTAATAAGA-TCTAATTCGATATTTAAATTCTC
1 TTTTAAAAAAATTCATTAAACCTTCCAATAGTTTAATAAGACT-TAATTCAAAATTTAAATTCTC
* *
10137591 TAATAGTTTGATAAAATTAAAAATTTTATTGTTATTAT
65 CAATAGTTTGATAAAATTAAAAATTTTATTATTATT-T
** * * *
10137629 TTTTAAAAAAATTCATTAAGTCTTCTAGTAGTTTAGTAAGACTTAATTCAAAATTTAAATTCTCC
1 TTTTAAAAAAATTCATTAAACCTTCCAATAGTTTAATAAGACTTAATTCAAAATTTAAATTCTCC
* ** *
10137694 AATAGTTTGGTAGGATTGAAAATTTTATTATTATTT
66 AATAGTTTGATAAAATTAAAAATTTTATTATTATTT
*
10137730 TTTTCAAAAAATTCATTA
1 TTTTAAAAAAATTCATTA
10137748 TAAAATTCTC
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
101 18 0.18
102 83 0.81
103 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (101 bp):
TTTTAAAAAAATTCATTAAACCTTCCAATAGTTTAATAAGACTTAATTCAAAATTTAAATTCTCC
AATAGTTTGATAAAATTAAAAATTTTATTATTATTT
Found at i:10138395 original size:15 final size:15
Alignment explanation
Indices: 10138375--10138406 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10138365 CATTAGGACT
10138375 AAAATTAAAACTAAA
1 AAAATTAAAACTAAA
10138390 AAAATTAAAACTAAA
1 AAAATTAAAACTAAA
10138405 AA
1 AA
10138407 TTAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATTAAAACTAAA
Found at i:10138405 original size:13 final size:14
Alignment explanation
Indices: 10138375--10138412 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
10138365 CATTAGGACT
10138375 AAAATTAAAACTAAA
1 AAAATTAAAACT-AA
10138390 AAAATTAAAACT-A
1 AAAATTAAAACTAA
10138403 AAAATTAAAA
1 AAAATTAAAA
10138413 TTTTTGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATTAAAACTAA
Found at i:10141688 original size:21 final size:21
Alignment explanation
Indices: 10141664--10141741 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
10141654 TGTACAACTT
*
10141664 ACCATAATGCCCGCACACCAC
1 ACCAGAATGCCCGCACACCAC
* **
10141685 ACCAGGATGCTTGCACACCAC
1 ACCAGAATGCCCGCACACCAC
* ** *
10141706 ACCAGGATGCTTGCACACCAT
1 ACCAGAATGCCCGCACACCAC
* *
10141727 ACCAGGATGCTCGCA
1 ACCAGAATGCCCGCA
10141742 TGCAAGTCCC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.29, C:0.38, G:0.18, T:0.14
Consensus pattern (21 bp):
ACCAGAATGCCCGCACACCAC
Found at i:10143669 original size:19 final size:20
Alignment explanation
Indices: 10143630--10143669 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10143620 AGTGATAGTG
* *
10143630 ATGAAAGGATGAAAGAGAAA
1 ATGAAAGGATGAAAAAAAAA
10143650 ATGAAA-GATGAAAAAAAAA
1 ATGAAAGGATGAAAAAAAAA
10143669 A
1 A
10143670 GAGAGAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (20 bp):
ATGAAAGGATGAAAAAAAAA
Found at i:10145100 original size:131 final size:134
Alignment explanation
Indices: 10144909--10145225 Score: 354
Period size: 131 Copynumber: 2.4 Consensus size: 134
10144899 TATTTTAGTG
* * * ** * * ****
10144909 GCATTTCTATCTTTGAGATGTCATTAAATTAGTGGCATTTTTATGAAAAAAATGTTGTTGCTTTG
1 GCATTTGTATCTTTGAGACGCCGCTAATTTAGTGGCATTTTTATGAGAAAAACACCGTTGCTTTG
* *
10144974 GTGGCA-TTTGTAACTGAAAATGCCATTACTTTAGAGGCATTTGTATCTAAAAAAGCCTTTATAT
66 GTGG-AGTTTGTAACTGAAAATGCCACTACTTTAGAGACATTTGTATCTAAAAAAGCCTTTATAT
10145038 TAGCA
130 TAGCA
* * *
10145043 GTATTT-T-T-TTTTAGATGCCGCTAATTTAGTGGCATTTTTATGAGAAAAACACCGTTGCTTTG
1 GCATTTGTATCTTTGAGACGCCGCTAATTTAGTGGCATTTTTATGAGAAAAACACCGTTGCTTTG
* ** * *
10145105 GTGGAGTTTGTAATTGAAAATGCCACTACTTTAGAGATGTTTGTATTTAAAAATGCCTTTATATT
66 GTGGAGTTTGTAACTGAAAATGCCACTACTTTAGAGACATTTGTATCTAAAAAAGCCTTTATATT
**
10145170 AGTG
131 AGCA
* * **
10145174 GCATTTGTATCTTTGAGACGCTGCTAATTTAGTAGTGTTTTTATGAGAAAAA
1 GCATTTGTATCTTTGAGACGCCGCTAATTTAGTGGCATTTTTATGAGAAAAA
10145226 TGCTATTACT
Statistics
Matches: 152, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
130 1 0.01
131 107 0.70
132 2 0.01
133 2 0.01
134 40 0.26
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (134 bp):
GCATTTGTATCTTTGAGACGCCGCTAATTTAGTGGCATTTTTATGAGAAAAACACCGTTGCTTTG
GTGGAGTTTGTAACTGAAAATGCCACTACTTTAGAGACATTTGTATCTAAAAAAGCCTTTATATT
AGCA
Found at i:10145850 original size:21 final size:21
Alignment explanation
Indices: 10145826--10145878 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10145816 CTGAAAATTT
*
10145826 GCATGCTCTTGCTCCATTCTA
1 GCATGCTCTTGCTCAATTCTA
* * * *
10145847 GCATGTTCTTCCTCAATTTTG
1 GCATGCTCTTGCTCAATTCTA
10145868 GCATGCTCTTG
1 GCATGCTCTTG
10145879 TTCTCTTTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.42
Consensus pattern (21 bp):
GCATGCTCTTGCTCAATTCTA
Found at i:10153823 original size:172 final size:173
Alignment explanation
Indices: 10153497--10153825 Score: 389
Period size: 172 Copynumber: 1.9 Consensus size: 173
10153487 CACGGTAATT
* ** ** * * *
10153497 GAAGGTGTATATTCAAGAAAAATGCCTTTAATAATTCCTTTTAAATTTTGTAGATAATTAGTGAA
1 GAAGGTGTATATTCAAGAAAAACGCCTTTAATAATTCAATTTAAACATAGTACATAATTACTGAA
* * * **
10153562 GGCATTTGCAAATAACAACCGCCGTTAATAATTTCCTTTAAAAAAGTTTTGGGATTATTAAAGGC
66 GGCATTTGCAAATAACAAACACCGTTAATAATTTCCTCTAAAAAAGTTTTGAAATTATTAAAGGC
*
10153627 GTTTTCTACTAGAAAACACCTTTAATATACCACTATAGTTATA
131 ATTTTCTACTAGAAAACACCTTTAATATACCACTATAGTTATA
*
10153670 GAAGGTGTTTATTTCAA-AAAAACGCCTTTAATAATT-AATTTAAACATAGTACATAATTACTGA
1 GAAGGTGTATA-TTCAAGAAAAACGCCTTTAATAATTCAATTTAAACATAGTACATAATTACTGA
** ** *
10153733 AGGTGTTTGTTAATAACAAACACCTTTAATAATTTCCCTCTAAAAAA-TTTTGAAATTATTAAAG
65 AGGCATTTGCAAATAACAAACACCGTTAATAATTT-CCTCTAAAAAAGTTTTGAAATTATTAAAG
* *
10153797 GCATCTTT-TA-TTGACAAACGCCTTTAATA
129 GCAT-TTTCTACTAGA-AAACACCTTTAATA
10153826 ATTCCTTTTA
Statistics
Matches: 130, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
171 3 0.02
172 81 0.62
173 41 0.32
174 5 0.04
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (173 bp):
GAAGGTGTATATTCAAGAAAAACGCCTTTAATAATTCAATTTAAACATAGTACATAATTACTGAA
GGCATTTGCAAATAACAAACACCGTTAATAATTTCCTCTAAAAAAGTTTTGAAATTATTAAAGGC
ATTTTCTACTAGAAAACACCTTTAATATACCACTATAGTTATA
Found at i:10154938 original size:80 final size:80
Alignment explanation
Indices: 10154792--10155121 Score: 398
Period size: 80 Copynumber: 4.1 Consensus size: 80
10154782 CCTTAAAATT
* * * * *
10154792 ATGGTTTGTTGAACCTTGTTGTCTGATATT-T-TTTTACTGAATGGTATTGTATGATATTGGGGG
1 ATGGTTTGCTAAACCTTATTGTCTGATATTGTATTGT-C-GAATGGTATTGTATGATATTGGGAG
**
10154855 GCTGAATTGTATGCTGA
64 GCTGAATCATATGCTGA
* * * * *
10154872 ATGATTTACTGAACCTTATTGTCTAATATTGTATTGTCAAATGGTATTGTATGATATTGGGAGGC
1 ATGGTTTGCTAAACCTTATTGTCTGATATTGTATTGTCGAATGGTATTGTATGATATTGGGAGGC
10154937 TGAATCATATGCTGA
66 TGAATCATATGCTGA
* * *
10154952 ATGGTTTGCTAAACCTTGTTGTCTGATATTGTATTATCGAATGGTATTGTATGATATTGGGGGGC
1 ATGGTTTGCTAAACCTTATTGTCTGATATTGTATTGTCGAATGGTATTGTATGATATTGGGAGGC
* *
10155017 TAAATTATATGCTGA
66 TGAATCATATGCTGA
* * * * *
10155032 ATGGTTTGCTAAACCTTATTGTCTGATATTATTTTG-CTGAATAGTTTTGTATGATATT-AGAGG
1 ATGGTTTGCTAAACCTTATTGTCTGATATTGTATTGTC-GAATGGTATTGTATGATATTGGGA-G
10155095 GCTGAATCATATGCTGA
64 GCTGAATCATATGCTGA
10155112 ATGGTTTGCT
1 ATGGTTTGCT
10155122 GAATGGTGTT
Statistics
Matches: 216, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
79 2 0.01
80 209 0.97
81 2 0.01
82 3 0.01
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (80 bp):
ATGGTTTGCTAAACCTTATTGTCTGATATTGTATTGTCGAATGGTATTGTATGATATTGGGAGGC
TGAATCATATGCTGA
Found at i:10154969 original size:160 final size:160
Alignment explanation
Indices: 10154792--10155121 Score: 468
Period size: 160 Copynumber: 2.1 Consensus size: 160
10154782 CCTTAAAATT
* * * *
10154792 ATGGTTTGTTGAACCTTGTTGTCTGATATTTTTTTA-CTGAATGGTATTGTATGATATTGGGGGG
1 ATGGTTTGCTAAACCTTGTTGTCTGATATTGTATTATC-GAATGGTATTGTATGATATTGGGGGG
* * * * *
10154856 CTGAATTGTATGCTGAATGATTTACTGAACCTTATTGTCTAATATTGTATTG-TCAAATGGTATT
65 CTAAATTATATGCTGAATGATTTACTAAACCTTATTGTCTAATATTATATTGCT-AAATAGTATT
*
10154920 GTATGATATT-GGGAGGCTGAATCATATGCTGA
129 GTATGATATTAGAG-GGCTGAATCATATGCTGA
10154952 ATGGTTTGCTAAACCTTGTTGTCTGATATTGTATTATCGAATGGTATTGTATGATATTGGGGGGC
1 ATGGTTTGCTAAACCTTGTTGTCTGATATTGTATTATCGAATGGTATTGTATGATATTGGGGGGC
* * * * * *
10155017 TAAATTATATGCTGAATGGTTTGCTAAACCTTATTGTCTGATATTATTTTGCTGAATAGTTTTGT
66 TAAATTATATGCTGAATGATTTACTAAACCTTATTGTCTAATATTATATTGCTAAATAGTATTGT
10155082 ATGATATTAGAGGGCTGAATCATATGCTGA
131 ATGATATTAGAGGGCTGAATCATATGCTGA
10155112 ATGGTTTGCT
1 ATGGTTTGCT
10155122 GAATGGTGTT
Statistics
Matches: 151, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
160 147 0.97
161 4 0.03
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (160 bp):
ATGGTTTGCTAAACCTTGTTGTCTGATATTGTATTATCGAATGGTATTGTATGATATTGGGGGGC
TAAATTATATGCTGAATGATTTACTAAACCTTATTGTCTAATATTATATTGCTAAATAGTATTGT
ATGATATTAGAGGGCTGAATCATATGCTGA
Found at i:10164591 original size:25 final size:22
Alignment explanation
Indices: 10164563--10164623 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 22
10164553 GCATACCAAT
*
10164563 TTTTCTTTTTTATTTGCTTTTCTTA
1 TTTTCTTTTTTAATT--TTTTC-TA
10164588 TTTTCTTATTTTTAATTTTTTCTA
1 TTTTC-T-TTTTTAATTTTTTCTA
10164612 TATTTCTTTTTT
1 T-TTTCTTTTTT
10164624 CCTTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
23 5 0.16
24 4 0.12
25 14 0.44
26 1 0.03
27 8 0.25
ACGTcount: A:0.11, C:0.10, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTCTTTTTTAATTTTTTCTA
Found at i:10165616 original size:32 final size:32
Alignment explanation
Indices: 10165580--10165682 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
10165570 ATTATATTGT
10165580 TATATAATTAAGATATAATGCATTCAACCATC
1 TATATAATTAAGATATAATGCATTCAACCATC
* * * ** ***
10165612 TATATAAATT-TGACTCATTAT-AATTTTATTGT-
1 TATAT-AATTAAGA-T-ATAATGCATTCAACCATC
10165644 TATATAATTAAGATATAATGCATTCAACCATC
1 TATATAATTAAGATATAATGCATTCAACCATC
10165676 TATATAA
1 TATATAA
10165683 ATTTGACTCA
Statistics
Matches: 49, Mismatches: 16, Indels: 12
0.64 0.21 0.16
Matches are distributed among these distances:
30 4 0.08
31 10 0.20
32 21 0.43
33 10 0.20
34 4 0.08
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.41
Consensus pattern (32 bp):
TATATAATTAAGATATAATGCATTCAACCATC
Found at i:10165647 original size:64 final size:64
Alignment explanation
Indices: 10165574--10165702 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
10165564 AAAAATATTA
10165574 TATTGTTATATAATTAAGATATAATGCATTCAACCATCTATATAAATTTGACTCATTATAATTT
1 TATTGTTATATAATTAAGATATAATGCATTCAACCATCTATATAAATTTGACTCATTATAATTT
10165638 TATTGTTATATAATTAAGATATAATGCATTCAACCATCTATATAAATTTGACTCATTATAATTT
1 TATTGTTATATAATTAAGATATAATGCATTCAACCATCTATATAAATTTGACTCATTATAATTT
10165702 T
1 T
10165703 TTTTTTTACT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (64 bp):
TATTGTTATATAATTAAGATATAATGCATTCAACCATCTATATAAATTTGACTCATTATAATTT
Found at i:10165995 original size:12 final size:13
Alignment explanation
Indices: 10165978--10166025 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
10165968 TCCTAATGAG
10165978 TTTTTT-TTTCCT
1 TTTTTTCTTTCCT
*
10165990 TTTTTTCTTTCTT
1 TTTTTTCTTTCCT
*
10166003 TTTTTCTCTTTTCT
1 TTTTT-TCTTTCCT
10166017 TTTTTTCTT
1 TTTTTTCTT
10166026 GTCTTTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 6 0.19
13 14 0.45
14 11 0.35
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTCTTTCCT
Found at i:10166014 original size:19 final size:18
Alignment explanation
Indices: 10165980--10166032 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
10165970 CTAATGAGTT
10165980 TTTTTTTCCTT-T-TTTTC
1 TTTTTTT-CTTCTCTTTTC
*
10165997 TTTCTTTTTTTCTCTTTTC
1 TTT-TTTTCTTCTCTTTTC
*
10166016 TTTTTTTCTTGTCTTTT
1 TTTTTTTCTTCTCTTTT
10166033 TAATTAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.17
18 17 0.57
19 8 0.27
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTCTTCTCTTTTC
Found at i:10166015 original size:15 final size:15
Alignment explanation
Indices: 10165983--10166024 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
10165973 ATGAGTTTTT
*
10165983 TTTTCCTTTTTT-TC
1 TTTTCTTTTTTTCTC
10165997 -TTTCTTTTTTTCTC
1 TTTTCTTTTTTTCTC
10166011 TTTTCTTTTTTTCT
1 TTTTCTTTTTTTCT
10166025 TGTCTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTTTTCTC
Found at i:10166023 original size:23 final size:21
Alignment explanation
Indices: 10165980--10166025 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
10165970 CTAATGAGTT
10165980 TTTTTTTCCTTTTTTTCTTTC
1 TTTTTTTCCTTTTTTTCTTTC
*
10166001 TTTTTTTCTCTTTTCTTTTTTTC
1 TTTTTTTC-CTTTT-TTTCTTTC
10166024 TT
1 TT
10166026 GTCTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 5 0.23
23 9 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTCCTTTTTTTCTTTC
Found at i:10166030 original size:13 final size:12
Alignment explanation
Indices: 10165978--10166033 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 12
10165968 TCCTAATGAG
*
10165978 TTTTTTT-TTCC
1 TTTTTTTCTTTC
10165989 TTTTTTTCTTTC
1 TTTTTTTCTTTC
10166001 TTTTTTTCTCTTTTC
1 -TTTTTT-TC-TTTC
10166016 TTTTTTTCTTGTC
1 TTTTTTTCTT-TC
10166029 TTTTT
1 TTTTT
10166034 AATTAAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 7 0.18
12 5 0.13
13 15 0.38
14 8 0.21
15 4 0.10
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:10167347 original size:21 final size:20
Alignment explanation
Indices: 10167323--10167365 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
10167313 AGTACATGGG
10167323 TAGATAATTACGTTCACATTA
1 TAGATAATTACGTTCAC-TTA
* **
10167344 TAGATTATTGTGTTCACTTA
1 TAGATAATTACGTTCACTTA
10167364 TA
1 TA
10167366 AATCTCATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
TAGATAATTACGTTCACTTA
Found at i:10176727 original size:34 final size:33
Alignment explanation
Indices: 10176689--10176753 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
10176679 TTGGAAATCA
* * *
10176689 ATTTCTAAGAAGACTTGAGGACTCTCGAAAAACT
1 ATTTCCAAGAAAACTTGAAGACTCTC-AAAAACT
*
10176723 ATTTCCAAGAAAATTTGAAGACTCTCAAAAA
1 ATTTCCAAGAAAACTTGAAGACTCTCAAAAA
10176754 GCCATTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 5 0.19
34 22 0.81
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (33 bp):
ATTTCCAAGAAAACTTGAAGACTCTCAAAAACT
Found at i:10177165 original size:15 final size:15
Alignment explanation
Indices: 10177145--10177175 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10177135 ATATTGCATT
10177145 CCAAATTTGGAATGG
1 CCAAATTTGGAATGG
10177160 CCAAATTTGGAATGG
1 CCAAATTTGGAATGG
10177175 C
1 C
10177176 TAGGTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (15 bp):
CCAAATTTGGAATGG
Found at i:10186024 original size:16 final size:16
Alignment explanation
Indices: 10185999--10186036 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10185989 GTTTATACCA
10185999 TTTT-ATTTTCT-TTAT
1 TTTTAATTTTCTATT-T
10186014 TTTTAATTTTCTATTT
1 TTTTAATTTTCTATTT
10186030 TTTTAAT
1 TTTTAAT
10186037 GAAAGATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAATTTTCTATTT
Found at i:10188048 original size:18 final size:18
Alignment explanation
Indices: 10188025--10188060 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10188015 TGAAGTTAAA
*
10188025 ATCTCTGCTTACAAATCG
1 ATCTCTACTTACAAATCG
*
10188043 ATCTCTACTTACACATCG
1 ATCTCTACTTACAAATCG
10188061 CCTTTAAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (18 bp):
ATCTCTACTTACAAATCG
Found at i:10189460 original size:15 final size:15
Alignment explanation
Indices: 10189433--10189473 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10189423 GATAAATGTC
*
10189433 TAAAATTAA-AATAA
1 TAAAAATAATAATAA
10189447 -AAAAATGAATAATAA
1 TAAAAAT-AATAATAA
10189462 TAAAAATAATAA
1 TAAAAATAATAA
10189474 AAATGTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 5 0.22
14 2 0.09
15 10 0.43
16 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:10195535 original size:137 final size:136
Alignment explanation
Indices: 10195299--10195558 Score: 409
Period size: 137 Copynumber: 1.9 Consensus size: 136
10195289 GTTTTCAAAG
** *
10195299 TTTTCGGTGGTGATATCCGGGTATTAACGTATGAATTTCATTTTCTCGTAGTGATATCCAAGACA
1 TTTTCGGTGGTGATATCCAAGTATTAAAGTATGAATTTCATTTTCTCGTAGTGATATCCAAGACA
10195364 TTTTCAAAATCACTCGATGGTGATATCTAAGTTTAAAGTTTGAATTTGCATTCTTTCTTTACGTT
66 TTTTCAAAATCACTCGATGGTGATATCTAAGTTTAAAGTTTGAATTTGCATTCTTTCTTTACGTT
10195429 TTCATT
131 TTCATT
*
10195435 TTTTCAGG-GGTGATATCCAAGTATTAAAGTATGAATTTCATTTTCTTGGT-GATGATATCCAAG
1 TTTTC-GGTGGTGATATCCAAGTATTAAAGTATGAATTTCATTTTC-TCGTAG-TGATATCCAAG
* *
10195498 ACATTTTCAAAATCACTCGATGGTGATAT-TCGAGTTTAAAGTTTGAATTTGTATTCTTTCT
63 ACATTTTCAAAATCACTCGATGGTGATATCT-AAGTTTAAAGTTTGAATTTGCATTCTTTCT
10195559 CTACATTTGT
Statistics
Matches: 114, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
136 41 0.36
137 73 0.64
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (136 bp):
TTTTCGGTGGTGATATCCAAGTATTAAAGTATGAATTTCATTTTCTCGTAGTGATATCCAAGACA
TTTTCAAAATCACTCGATGGTGATATCTAAGTTTAAAGTTTGAATTTGCATTCTTTCTTTACGTT
TTCATT
Done.