Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 128 of 160
Found at i:23963593 original size:21 final size:21
Alignment explanation
Indices: 23963567--23963616 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
23963557 TATTTTTTTA
23963567 GATAATAATGATGATTAAAAT
1 GATAATAATGATGATTAAAAT
*
23963588 GATAATAATGATGATTATAAT
1 GATAATAATGATGATTAAAAT
*
23963609 AATAATAA
1 GATAATAA
23963617 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (21 bp):
GATAATAATGATGATTAAAAT
Found at i:23964368 original size:20 final size:20
Alignment explanation
Indices: 23964326--23964368 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
23964316 GAGCCGTTTC
* *
23964326 TATTTTTTGGTATTTTTTAT
1 TATTTTTTAGTATTTTATAT
23964346 TATTTATTTAGTATTTTAT-T
1 TATTT-TTTAGTATTTTATAT
23964366 TAT
1 TAT
23964369 GTGCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (20 bp):
TATTTTTTAGTATTTTATAT
Found at i:23964480 original size:78 final size:79
Alignment explanation
Indices: 23964334--23964489 Score: 269
Period size: 79 Copynumber: 2.0 Consensus size: 79
23964324 TCTATTTTTT
* *
23964334 GGTATTTTTTATTATTTATTTAGTATTTTATTTATGTGCTTTTTTTAGTCTTTTTACGATTAAGT
1 GGTATTTTTTATTATTTATTTAGTATTTTATTTATGTGCTTTTTTAAGTCTTTTTACGATTAAAT
23964399 TTAGAAAAAAAATA
66 TTAGAAAAAAAATA
*
23964413 GGTATTTTTTATTATTTATTTAGTATTTTATTTATGTG-TTTTTTAAGTCTTTTTATGATTAAAT
1 GGTATTTTTTATTATTTATTTAGTATTTTATTTATGTGCTTTTTTAAGTCTTTTTACGATTAAAT
*
23964477 TTAGGAAAAAAAT
66 TTAGAAAAAAAAT
23964490 TAATAAAGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 35 0.48
79 38 0.52
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (79 bp):
GGTATTTTTTATTATTTATTTAGTATTTTATTTATGTGCTTTTTTAAGTCTTTTTACGATTAAAT
TTAGAAAAAAAATA
Found at i:23964708 original size:16 final size:17
Alignment explanation
Indices: 23964679--23964717 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
23964669 TTGTTTTCAA
*
23964679 AAAAAAGAAGAAAAAAT
1 AAAAATGAAGAAAAAAT
*
23964696 AAAAATGAA-AAAACAT
1 AAAAATGAAGAAAAAAT
23964712 AAAAAT
1 AAAAAT
23964718 TTAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAATGAAGAAAAAAT
Found at i:23964951 original size:24 final size:27
Alignment explanation
Indices: 23964913--23964963 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
23964903 ATAATTATCT
*
23964913 AATGATGAGATTTTTAA-AAAT-TTTA
1 AATGATGAAATTTTTAAGAAATCTTTA
23964938 AATGAT-AAATTTTTAAGAAATCTTTA
1 AATGATGAAATTTTTAAGAAATCTTTA
23964964 GGTGAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 10 0.43
26 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (27 bp):
AATGATGAAATTTTTAAGAAATCTTTA
Found at i:23964973 original size:26 final size:24
Alignment explanation
Indices: 23964913--23964975 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
23964903 ATAATTATCT
*
23964913 AATGATGAGATTTTTAAAAATTTTA
1 AATGA-GAAATTTTTAAAAATTTTA
*
23964938 AATGATAAATTTTTAAGAAATCTTTA
1 AATGAGAAATTTTTAA-AAAT-TTTA
**
23964964 GGTGAGAAATTT
1 AATGAGAAATTT
23964976 AAATGAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 9 0.29
25 9 0.29
26 13 0.42
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
AATGAGAAATTTTTAAAAATTTTA
Found at i:23976556 original size:13 final size:13
Alignment explanation
Indices: 23976508--23976556 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
23976498 AGTGTTTTAC
23976508 AAAA-AAAAAATA
1 AAAAGAAAAAATA
*
23976520 AAAACAAAAAATA
1 AAAAGAAAAAATA
* *
23976533 AAAGGAGAAAAAGA
1 AAAAGA-AAAAATA
23976547 AAAAGAAAAA
1 AAAAGAAAAA
23976557 GATGTTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 4 0.13
13 16 0.52
14 11 0.35
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (13 bp):
AAAAGAAAAAATA
Found at i:23976783 original size:15 final size:15
Alignment explanation
Indices: 23976765--23976797 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23976755 AATTGGTCTA
23976765 GGCCTAAGCCCATTG
1 GGCCTAAGCCCATTG
*
23976780 GGCCTAAGCCTATTG
1 GGCCTAAGCCCATTG
23976795 GGC
1 GGC
23976798 TTGATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.30, T:0.21
Consensus pattern (15 bp):
GGCCTAAGCCCATTG
Found at i:23976844 original size:6 final size:6
Alignment explanation
Indices: 23976833--23976916 Score: 72
Period size: 6 Copynumber: 14.7 Consensus size: 6
23976823 GGCCCAACTG
* **
23976833 TTTATT TTTA-T TTTA-T TTTA-T TTTA-T TTTATT TTTATT ATGGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
23976877 TTTATT TTT-TAT TTTATT ATTATT ATTTA-T TTTATT TTTA
1 TTTATT TTTAT-T TTTATT TTTATT -TTTATT TTTATT TTTA
23976917 AATAATAGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 25 0.38
6 36 0.55
7 4 0.06
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:23976848 original size:5 final size:5
Alignment explanation
Indices: 23976833--23976914 Score: 71
Period size: 5 Copynumber: 15.6 Consensus size: 5
23976823 GGCCCAACTG
*
23976833 TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-T ATTAT GGTTT-T
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT --TTTAT
23976879 TATT-T TTTAT TTTAT TATTATT ATTTAT TTTAT TTT
1 T-TTAT TTTAT TTTAT T-TTA-T -TTTAT TTTAT TTT
23976915 TAAATAATAG
Statistics
Matches: 66, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
4 6 0.09
5 44 0.67
6 9 0.14
7 6 0.09
8 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:23976889 original size:30 final size:30
Alignment explanation
Indices: 23976833--23976915 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
23976823 GGCCCAACTG
*
23976833 TTTATTTTTATT-T-TATTTTA--TTTTAT
1 TTTATTATTATTATGTATTTTATTTTTTAT
*
23976859 TTTATTTTTATTATGGT-TTTTATTTTTTAT
1 TTTATTATTATTAT-GTATTTTATTTTTTAT
*
23976889 TTTATTATTATTATTTATTTTATTTTT
1 TTTATTATTATTATGTATTTTATTTTT
23976916 AAATAATAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
26 12 0.24
27 1 0.02
28 5 0.10
29 2 0.04
30 29 0.59
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.78
Consensus pattern (30 bp):
TTTATTATTATTATGTATTTTATTTTTTAT
Found at i:23976899 original size:18 final size:17
Alignment explanation
Indices: 23976833--23976914 Score: 82
Period size: 18 Copynumber: 4.8 Consensus size: 17
23976823 GGCCCAACTG
23976833 TTTATTTTTATTTTA--T
1 TTTA-TTTTATTTTATTT
23976849 TTTATTTTATTTTA-TT
1 TTTATTTTATTTTATTT
23976865 TTTATTATGGT-TTTTATTT
1 TTTATT-T--TATTTTATTT
*
23976884 TTTATTTTATTATTATTA
1 TTTATTTTATT-TTATTT
23976902 TTTATTTTATTTT
1 TTTATTTTATTTT
23976915 TAAATAATAG
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
15 10 0.17
16 12 0.21
17 5 0.09
18 22 0.38
19 9 0.16
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTATTT
Found at i:23978900 original size:15 final size:14
Alignment explanation
Indices: 23978878--23978918 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
23978868 TCATTTAGTT
23978878 TTATTATTTATTTA
1 TTATTATTTATTTA
*
23978892 TTGATTATTT-TTTC
1 TT-ATTATTTATTTA
23978906 TT-TTATTTATTTA
1 TTATTATTTATTTA
23978919 ATGACTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 6 0.26
13 3 0.13
14 7 0.30
15 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (14 bp):
TTATTATTTATTTA
Found at i:23979063 original size:57 final size:57
Alignment explanation
Indices: 23978978--23979208 Score: 222
Period size: 57 Copynumber: 4.1 Consensus size: 57
23978968 TCAATAATCT
* * *
23978978 CTTTAAAATGAAAATTTGAAAAAAATATTTTTGAAGAAAAGTTGAATGTATCAA-TTTC
1 CTTTGAAATAAAAA-TT-AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
*
23979036 CTTTGAACATAAAAATTAAAAAAATATTTTTGACGAAAAGTTGAAAGTATCAATTTTC
1 CTTTGAA-ATAAAAATTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
** ** * * *
23979094 C-TTGAAA-AAAAA--AAAAAGCGT-TCCTTGAGGAAAAGTTGGAAGTATCAATTTTT
1 CTTTGAAATAAAAATTAAAAA-AATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
** * * *
23979147 CTTAAAAATAAAATTTGAAGAAAAATATTTTTAAAGAAGAGTTGAAAGTATCAATTTTC
1 CTTTGAAATAAAAATT-AA-AAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
23979206 CTT
1 CTT
23979209 AAAAACAAAA
Statistics
Matches: 140, Mismatches: 23, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
53 33 0.24
54 5 0.04
55 9 0.06
56 1 0.01
57 39 0.28
58 16 0.11
59 37 0.26
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (57 bp):
CTTTGAAATAAAAATTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTC
Found at i:23979127 original size:110 final size:111
Alignment explanation
Indices: 23979008--23979219 Score: 288
Period size: 112 Copynumber: 1.9 Consensus size: 111
23978998 AAAAATATTT
* * *
23979008 TTGAAGAAAAGTT-GAATGTATCAATTTC-CTTTGAACATAAAAATT-AA-AAAAATATTTTTGA
1 TTGAAGAAAAGTTGGAA-GTATCAATTTCTC-TTAAAAATAAAAATTGAAGAAAAATATTTTTAA
*
23979069 CGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAAAAAAAAGCGTTCC
64 AGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAAAAAAAAAGCGTTCC
* * *
23979118 TTGAGGAAAAGTTGGAAGTATCAATTTTTCTTAAAAATAAAATTTGAAGAAAAATATTTTTAAAG
1 TTGAAGAAAAGTTGGAAGTATCAATTTCTCTTAAAAATAAAAATTGAAGAAAAATATTTTTAAAG
* *
23979183 AAGAGTTGAAAGTATCAATTTTCCTTAAAAACAAAAA
66 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAAAA
23979220 CCTTAAAATG
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
110 34 0.38
111 16 0.18
112 39 0.44
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (111 bp):
TTGAAGAAAAGTTGGAAGTATCAATTTCTCTTAAAAATAAAAATTGAAGAAAAATATTTTTAAAG
AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAAAAAAGCGTTCC
Found at i:23979271 original size:112 final size:109
Alignment explanation
Indices: 23979013--23979263 Score: 260
Period size: 112 Copynumber: 2.2 Consensus size: 109
23979003 TATTTTTGAA
* * * * * * *
23979013 GAAAAGTTGAATGTATCAATTTCCTT-TGAACATAAAAATT-AA-AAAAATATTTTTGACGAAAA
1 GAAAAGTTGAAAGTATAAATTT--TTCTTAAAATAAAATTTGAAGAAAAATATTTTTAAAGAAAA
* *
23979075 GTTGAAAGTATCAATTTTCCTTGAAAAAAAAAAAAAGCGTTCCTTGAG
64 GTTGAAAGTATCAATTTTCCTTAAAAAAAAAAAAAAGCG-T-CTTAAG
* * *
23979123 GAAAAGTTGGAAGTATCAATTTTTCTTAAAAATAAAATTTGAAGAAAAATATTTTTAAAGAAGAG
1 GAAAAGTTGAAAGTATAAATTTTTCTT-AAAATAAAATTTGAAGAAAAATATTTTTAAAGAAAAG
23979188 TTGAAAGTATCAATTTTCCTTAAAAACAAAAACCTTAAAATGC-T-TTAAG
65 TTGAAAGTATCAATTTTCCTTAAAAA-AAAAA----AAAA-GCGTCTTAAG
23979237 GAAAAGTTGAAAGTATAAATTTTTCTT
1 GAAAAGTTGAAAGTATAAATTTTTCTT
23979264 GTATAAAAGC
Statistics
Matches: 119, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
108 2 0.02
109 1 0.01
110 30 0.25
111 2 0.02
112 43 0.36
113 5 0.04
114 29 0.24
116 1 0.01
117 4 0.03
118 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (109 bp):
GAAAAGTTGAAAGTATAAATTTTTCTTAAAATAAAATTTGAAGAAAAATATTTTTAAAGAAAAGT
TGAAAGTATCAATTTTCCTTAAAAAAAAAAAAAAGCGTCTTAAG
Found at i:23980007 original size:19 final size:18
Alignment explanation
Indices: 23979979--23980015 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
23979969 TTCTCTTTCC
23979979 TTTTTGTAATTTAATTTT
1 TTTTTGTAATTTAATTTT
23979997 TTTTGTGTAATTTAATTTT
1 TTTT-TGTAATTTAATTTT
23980016 GTAATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (18 bp):
TTTTTGTAATTTAATTTT
Found at i:23980047 original size:39 final size:39
Alignment explanation
Indices: 23979987--23980109 Score: 108
Period size: 39 Copynumber: 3.1 Consensus size: 39
23979977 CCTTTTTGTA
* *
23979987 ATTTAATTT-TTTTTGTGTAATTTAATT-TTGTAATTAA-T
1 ATTT-ATTTATTTTTTTGTAATTTAATTAAT-TAATTAATT
* *
23980025 ATTTATTTTATTTTTTTATAATTTGATTAATTAATTAATT
1 ATTTA-TTTATTTTTTTGTAATTTAATTAATTAATTAATT
* *
23980065 ATTTATATATGTTTTTGTAATTTTTGAATTAATTAAATTAATT
1 ATTTATTTATTTTTTTGTAA--TTT-AATTAATT-AATTAATT
23980108 AT
1 AT
23980110 AAATGATAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 7 0.10
39 34 0.49
40 7 0.10
41 3 0.04
42 7 0.10
43 10 0.14
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.62
Consensus pattern (39 bp):
ATTTATTTATTTTTTTGTAATTTAATTAATTAATTAATT
Found at i:23981061 original size:21 final size:22
Alignment explanation
Indices: 23981026--23981066 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
23981016 CAAAAAGAGT
**
23981026 ATTCACATTTGCA-TTACTTGC
1 ATTCACATTCACATTTACTTGC
23981047 ATTCACATTCACATTTACTT
1 ATTCACATTCACATTTACTT
23981067 CATCATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.24, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTCACATTCACATTTACTTGC
Found at i:23981371 original size:14 final size:14
Alignment explanation
Indices: 23981348--23981382 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23981338 TTTGCATTAA
*
23981348 ACATTCGCATTCTT
1 ACATTTGCATTCTT
23981362 ACATTTGCATTCTT
1 ACATTTGCATTCTT
*
23981376 GCATTTG
1 ACATTTG
23981383 TATAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (14 bp):
ACATTTGCATTCTT
Found at i:23981555 original size:14 final size:14
Alignment explanation
Indices: 23981536--23981570 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23981526 AGAAAAGCCA
* *
23981536 AAAAAAATTTTGAG
1 AAAAAAAGTTTAAG
23981550 AAAAAAAGTTTAAG
1 AAAAAAAGTTTAAG
23981564 AAAAAAA
1 AAAAAAA
23981571 AGAAAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (14 bp):
AAAAAAAGTTTAAG
Found at i:23981994 original size:32 final size:32
Alignment explanation
Indices: 23981953--23982094 Score: 160
Period size: 32 Copynumber: 4.5 Consensus size: 32
23981943 GTCAAGTTGG
*
23981953 TAGTCAAGTTGGCACCTAGATCAAATAAAGCC
1 TAGTCAAGTTGGCACCTAGATCAAACAAAGCC
* * * *
23981985 TAGTGAAGTTGGCATCTATATCAAATAAAG-C
1 TAGTCAAGTTGGCACCTAGATCAAACAAAGCC
* * * *
23982016 TAGTCAAGTTAGCACATAGATAAAACAAAGCT
1 TAGTCAAGTTGGCACCTAGATCAAACAAAGCC
*
23982048 TAGTCAAGTTGGCACCCAGATCAAACAAAGCC
1 TAGTCAAGTTGGCACCTAGATCAAACAAAGCC
* * *
23982080 CAATCAAGCTGGCAC
1 TAGTCAAGTTGGCAC
23982095 TTAAATCTTT
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
31 24 0.27
32 66 0.73
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (32 bp):
TAGTCAAGTTGGCACCTAGATCAAACAAAGCC
Found at i:23982071 original size:63 final size:63
Alignment explanation
Indices: 23981953--23982078 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
23981943 GTCAAGTTGG
* * * * * * * * *
23981953 TAGTCAAGTTGGCACCTAGATCAAATAAAGCCTAGTGAAGTTGGCATCTATATCAAATAAAGC
1 TAGTCAAGTTAGCACATAGATAAAACAAAGCCTAGTCAAGTTGGCACCCAGATCAAACAAAGC
*
23982016 TAGTCAAGTTAGCACATAGATAAAACAAAGCTTAGTCAAGTTGGCACCCAGATCAAACAAAGC
1 TAGTCAAGTTAGCACATAGATAAAACAAAGCCTAGTCAAGTTGGCACCCAGATCAAACAAAGC
23982079 CCAATCAAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (63 bp):
TAGTCAAGTTAGCACATAGATAAAACAAAGCCTAGTCAAGTTGGCACCCAGATCAAACAAAGC
Found at i:23982126 original size:22 final size:22
Alignment explanation
Indices: 23982098--23982152 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
23982088 CTGGCACTTA
*
23982098 AATCTTTAAGACTTTCAAGCAT
1 AATCTTTAAGAATTTCAAGCAT
23982120 AATCTTTAAGAATTTCAAGCAT
1 AATCTTTAAGAATTTCAAGCAT
*
23982142 AATCTCTAAGA
1 AATCTTTAAGA
23982153 TCTCCGAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (22 bp):
AATCTTTAAGAATTTCAAGCAT
Found at i:23982162 original size:22 final size:22
Alignment explanation
Indices: 23982098--23982170 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
23982088 CTGGCACTTA
* * *
23982098 AATCTTTAAGACTTTCAAGCAT
1 AATCTCTAAGAATTCCAAGCAT
* *
23982120 AATCTTTAAGAATTTCAAGCAT
1 AATCTCTAAGAATTCCAAGCAT
*
23982142 AATCTCTAAG-ATCTCCGAGCAT
1 AATCTCTAAGAAT-TCCAAGCAT
23982164 AATCTCT
1 AATCTCT
23982171 GAGTCTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 2 0.04
22 44 0.96
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (22 bp):
AATCTCTAAGAATTCCAAGCAT
Found at i:23982813 original size:19 final size:18
Alignment explanation
Indices: 23982781--23982843 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
23982771 TTAAAGACTA
*
23982781 AATTAAAATA-AATACAAT
1 AATTAAAAAATAATA-AAT
23982799 AATTAAAAAATAATAATAT
1 AATTAAAAAATAATAA-AT
* *
23982818 AATTAAATAATAAAAAATT
1 AATTAAAAAATAATAAA-T
23982837 AATTAAA
1 AATTAAA
23982844 GTTTAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.28
19 28 0.72
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AATTAAAAAATAATAAAT
Found at i:23986274 original size:25 final size:25
Alignment explanation
Indices: 23986241--23986289 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
23986231 TTCTTCATTT
* *
23986241 TTTTGTTTTTCATCTTTTGTTTTTC
1 TTTTATTTTTCATCTTTTATTTTTC
* *
23986266 TTTTATTTTTTATTTTTTATTTTT
1 TTTTATTTTTCATCTTTTATTTTT
23986290 TAATTAGATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTTATTTTTCATCTTTTATTTTTC
Found at i:23986278 original size:7 final size:7
Alignment explanation
Indices: 23986266--23986291 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23986256 TTTGTTTTTC
23986266 TTTTATT
1 TTTTATT
23986273 TTTTATT
1 TTTTATT
23986280 TTTTATT
1 TTTTATT
23986287 TTTTA
1 TTTTA
23986292 ATTAGATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:23986806 original size:7 final size:7
Alignment explanation
Indices: 23986805--23986837 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
23986795 TTTTTACATT
23986805 TTTTTCA
1 TTTTTCA
23986812 TTTTTCA
1 TTTTTCA
23986819 TTTTTCA
1 TTTTTCA
23986826 TTTTTCA
1 TTTTTCA
23986833 TTTTT
1 TTTTT
23986838 TTGACTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:23986808 original size:16 final size:16
Alignment explanation
Indices: 23986795--23986839 Score: 67
Period size: 14 Copynumber: 2.9 Consensus size: 16
23986785 ACTTTTTTTT
23986795 TTTTTACATTTTTTTCA
1 TTTTT-CATTTTTTTCA
23986812 TTTTTCA--TTTTTCA
1 TTTTTCATTTTTTTCA
23986826 TTTTTCATTTTTTT
1 TTTTTCATTTTTTT
23986840 GACTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 14 0.54
16 7 0.27
17 5 0.19
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:23989308 original size:34 final size:34
Alignment explanation
Indices: 23989270--23989356 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
23989260 AAGTAATATA
* *
23989270 ATTCTCGAAAATA-GATTTTCGAGAATTATATTAC
1 ATTCTCGAAAATACAATTAT-GAGAATTATATTAC
* *
23989304 ATTCTTGAAAATACAATTATGAGAATTATATTAT
1 ATTCTCGAAAATACAATTATGAGAATTATATTAC
*
23989338 TTTCTCGAAAATA-AATTAT
1 ATTCTCGAAAATACAATTAT
23989357 CAAGAACACA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 6 0.13
34 36 0.78
35 4 0.09
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.40
Consensus pattern (34 bp):
ATTCTCGAAAATACAATTATGAGAATTATATTAC
Found at i:23997684 original size:20 final size:20
Alignment explanation
Indices: 23997648--23997685 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23997638 GAACCTCAAC
*
23997648 CCAATTCAATTCAATTTGGG
1 CCAATTCAATGCAATTTGGG
23997668 CCAATTCAAATGC-ATTTG
1 CCAATTC-AATGCAATTTG
23997686 AATTTGGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
CCAATTCAATGCAATTTGGG
Found at i:23999123 original size:60 final size:60
Alignment explanation
Indices: 23999058--23999219 Score: 202
Period size: 59 Copynumber: 2.7 Consensus size: 60
23999048 TAAATATATG
23999058 ACCAAAACCTAAACAAATTTCAACAAATATATAAAAAAAAAAAAACTCAACAAATTGGTA
1 ACCAAAACCTAAACAAATTTCAACAAATATATAAAAAAAAAAAAACTCAACAAATTGGTA
* * * ** * *
23999118 ACCAAAACC-AAATTAAATTTCATCAAATAT-TTAACTAACAAAAACTCAACATATTGGTA
1 ACCAAAACCTAAA-CAAATTTCAACAAATATATAAAAAAAAAAAAACTCAACAAATTGGTA
* * * *
23999177 ACCAAAACTTAAACAAATTTTAACAAATTTATAACAAAAAAAA
1 ACCAAAACCTAAACAAATTTCAACAAATATATAAAAAAAAAAA
23999220 TTAAATCCTA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
59 48 0.59
60 34 0.41
ACGTcount: A:0.58, C:0.17, G:0.02, T:0.23
Consensus pattern (60 bp):
ACCAAAACCTAAACAAATTTCAACAAATATATAAAAAAAAAAAAACTCAACAAATTGGTA
Found at i:23999246 original size:13 final size:13
Alignment explanation
Indices: 23999228--23999257 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23999218 AATTAAATCC
23999228 TAAACTCAACAAA
1 TAAACTCAACAAA
23999241 TAAACTCAACAAA
1 TAAACTCAACAAA
23999254 -AAAC
1 TAAAC
23999258 AAACATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (13 bp):
TAAACTCAACAAA
Found at i:24001421 original size:15 final size:15
Alignment explanation
Indices: 24001382--24001433 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
24001372 ATTTGAAAAA
* *
24001382 TTTAGAGTTTT-GTT
1 TTTAGGGTTTTGGAT
24001396 TTTAGGG-TTTGGAT
1 TTTAGGGTTTTGGAT
24001410 TTTAGGGTTTTGGAT
1 TTTAGGGTTTTGGAT
*
24001425 TTGAGGGTT
1 TTTAGGGTT
24001434 CGGAAGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
13 3 0.09
14 15 0.45
15 15 0.45
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (15 bp):
TTTAGGGTTTTGGAT
Found at i:24001496 original size:13 final size:13
Alignment explanation
Indices: 24001478--24001502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24001468 GTTCAAAGGG
24001478 TTTAGGGTTTAAT
1 TTTAGGGTTTAAT
24001491 TTTAGGGTTTAA
1 TTTAGGGTTTAA
24001503 AGAAAACGCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
TTTAGGGTTTAAT
Found at i:24001870 original size:23 final size:24
Alignment explanation
Indices: 24001827--24001880 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
24001817 TTTCATTTTT
24001827 ATTATTATTAAAAATAATTAAAAA
1 ATTATTATTAAAAATAATTAAAAA
*
24001851 ATTATT-TTAACAAAT-TTTAAAAA
1 ATTATTATTAA-AAATAATTAAAAA
24001874 ATT-TTAT
1 ATTATTAT
24001881 CATGCATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 15 0.56
24 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTATTATTAAAAATAATTAAAAA
Found at i:24002875 original size:21 final size:20
Alignment explanation
Indices: 24002849--24002894 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
24002839 CTACTTTTTA
* *
24002849 TTTTTTGTTTTCT-CTTATT
1 TTTTTTTTTTTCTACTTAAT
24002868 TCTTTTTTTTTTCTACTTAAT
1 T-TTTTTTTTTTCTACTTAAT
24002889 TTTTTT
1 TTTTTT
24002895 AAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 16 0.70
21 6 0.26
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTTTCTACTTAAT
Found at i:24003283 original size:36 final size:36
Alignment explanation
Indices: 24003182--24003288 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 36
24003172 ACACCGCTAG
**
24003182 TCAAAATTAAAGAATAAATCGGGACAACA-TCGTAAA
1 TCAAAATTAAA-AATCGATCGGGACAACACTCGTAAA
** ** * *
24003218 TTGAAATTAAGAAATCGATCAAGATAACACT-GTGAA
1 TCAAAATTAA-AAATCGATCGGGACAACACTCGTAAA
24003254 TCAAAATTAAATAATCGATCGGGACAACAC-CGTAA
1 TCAAAATTAAA-AATCGATCGGGACAACACTCGTAA
24003289 GTTAAAAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
35 1 0.02
36 50 0.94
37 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (36 bp):
TCAAAATTAAAAATCGATCGGGACAACACTCGTAAA
Found at i:24003426 original size:109 final size:109
Alignment explanation
Indices: 24003266--24004074 Score: 665
Period size: 109 Copynumber: 7.5 Consensus size: 109
24003256 AAAATTAAAT
* * * * **
24003266 AATCGATCGGGACAACACCGTAAGTTAAAAAATAA-GAAATTGA-TCGAGACAACGTCGCGAATC
1 AATCGATTGGGACAACACCGTAAG-TCAAAAATAATG-AATCGATTAG-GACAACACCGCGAATC
* * *
24003329 AAAATTATGCCCGAAAGTTTTAGAAATCATGCCTGGAGGTCTTACAG
63 AAATTTATGCCCGAAGGTCTTAGAAATCATGCCTGGAGGTCTTACAG
* * * * * * *
24003376 AATCGATTGGGACAACACTGTAAGTCGAAAATAATGAATCAATCAGGACAATATCGCGAATCGAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAACACCGCGAATCAAA
* * *
24003441 TTTATGCCCGGAGGTCTT-GAAAATCATATCC-AGAGGTCTTACAG
66 TTTATGCCCGAAGGTCTTAG-AAATCAT-GCCTGGAGGTCTTACAG
** *
24003485 AATCGATTGGGACAACACCGTAAGTTGAAAATAATGAATCGATTAGGACAATACCGCGAATCAAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAACACCGCGAATCAAA
* * * *
24003550 TTTATGCCTGAAAGTCTTAGAAATCATGCTTGAAGGTCTTACAG
66 TTTATGCCCGAAGGTCTTAGAAATCATGCCTGGAGGTCTTACAG
* ** * ** * *
24003594 AATCGACTCAGACAATACCACAAGTCAAAAATAATGAATCGATTGGGACAACACCGCAAATCAAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAACACCGCGAATCAAA
* * * ** *
24003659 TTTATGCTCGGAGGTTTTAGAAATCATGCCCAGAGGTTTTACAG
66 TTTATGCCCGAAGGTCTTAGAAATCATGCCTGGAGGTCTTACAG
* * * * *** **
24003703 AATTGACTGGGACAACACCGTAAGTCAAAAATAATGAATTGATT-GAGATAACACCATAAATTGA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAG-GACAACACCGCGAATCAA
* * * * *
24003767 ATTTATGCTC-AGAGCTCTTAGAAATCAT-ACTCGAAAGTCTTACAG
65 ATTTATGCCCGA-AGGTCTTAGAAATCATGCCT-GGAGGTCTTACAG
* * * * * * * * *
24003812 AATCGACT-AGACAATATCGTAAATCAAAAATAATGAATCGATTGGGATAACATCGTGAATCAAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAACACCGCGAATCAAA
* * * * * *
24003876 TTTATGTCCGGAGGTCTTAGAAATCATACATTGAGGTTTTACAG
66 TTTATGCCCGAAGGTCTTAGAAATCATGCCTGGAGGTCTTACAG
* * * * * * **
24003920 AATTGATTGGGATAACACCGTATGTCAAAAATAATAAATTGATCA-G---A-ACCGTAAATCAAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAACACCGCGAATCAAA
* * * *
24003980 TTTATGCCTGAAGGTTTTAGAAATCATG-CTCGGAGGTCTTATAA
66 TTTATGCCCGAAGGTCTTAGAAATCATGCCT-GGAGGTCTTACAG
* * * * *
24004024 AATCGATTGGGATAACACCGCAAGTCGAAAATAATGAATCAATTGGGACAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAA
24004075 TATCGTAAAT
Statistics
Matches: 555, Mismatches: 126, Indels: 38
0.77 0.18 0.05
Matches are distributed among these distances:
103 1 0.00
104 79 0.14
105 2 0.00
108 87 0.16
109 359 0.65
110 27 0.05
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (109 bp):
AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATCGATTAGGACAACACCGCGAATCAAA
TTTATGCCCGAAGGTCTTAGAAATCATGCCTGGAGGTCTTACAG
Found at i:24003572 original size:218 final size:219
Alignment explanation
Indices: 24003266--24004107 Score: 802
Period size: 218 Copynumber: 3.9 Consensus size: 219
24003256 AAAATTAAAT
* * * ** *
24003266 AATCGATCGGGACAACACCGTAAGTTAAAAAATAA-GAAATTGA-TCGAGACAACGTCGCGAATC
1 AATCGATTGGGACAACACCGTAAG-TCAAAAATAATG-AATTGATTAGAGACAACACCGCAAATC
* * * * * *
24003329 AAAATTATGCCCGAAAGTTTTAGAAATCATGCCT-GGAGGTCTTACAGAATCGATTGGGACAACA
64 AAATTTATGCCTGAAAGTCTTAGAAATCATGCCTCGAAGGTCTTACAGAATCGACTGAGACAACA
* * * ** * * *
24003393 CTGTAAGTCGAAAATAATGAATCAATCAGGACAATATCGCGAATCGAATTTATGCCCGGAGGTCT
129 CCGCAAGTCAAAAATAATGAATCAATTGGGACAACATCGCAAATCAAATTTATGCCCGGAGGTCT
*
24003458 T-GAAAATCATATCCAGAGGTCTTACAG
194 TAG-AAATCATA-CCAGAGGTTTTACAG
** * * *
24003485 AATCGATTGGGACAACACCGTAAGTTGAAAATAATGAATCGATTAG-GACAATACCGCGAATCAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATTGATTAGAGACAACACCGCAAATCAA
* * *
24003549 ATTTATGCCTGAAAGTCTTAGAAATCATG-CTTGAAGGTCTTACAGAATCGACTCAGACAATACC
66 ATTTATGCCTGAAAGTCTTAGAAATCATGCCTCGAAGGTCTTACAGAATCGACTGAGACAACACC
* * * * *
24003613 ACAAGTCAAAAATAATGAATCGATTGGGACAACACCGCAAATCAAATTTATGCTCGGAGGTTTTA
131 GCAAGTCAAAAATAATGAATCAATTGGGACAACATCGCAAATCAAATTTATGCCCGGAGGTCTTA
*
24003678 GAAATCATGCCCAGAGGTTTTACAG
196 GAAATCAT-ACCAGAGGTTTTACAG
* * * ** **
24003703 AATTGACTGGGACAACACCGTAAGTCAAAAATAATGAATTGATT-GAGATAACACCATAAATTGA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATTGATTAGAGACAACACCGCAAATCAA
* * * * * *
24003767 ATTTATG-CTCAGAGCTCTTAGAAATCAT-ACTCGAAAGTCTTACAGAATCGACT-AGACAATAT
66 ATTTATGCCTGAAAG-TCTTAGAAATCATGCCTCGAAGGTCTTACAGAATCGACTGAGACAACAC
* * * * ** *
24003829 CGTAAATCAAAAATAATGAATCGATTGGGATAACATCGTGAATCAAATTTATGTCCGGAGGTCTT
130 CGCAAGTCAAAAATAATGAATCAATTGGGACAACATCGCAAATCAAATTTATGCCCGGAGGTCTT
24003894 AGAAATCATA-CATTGAGGTTTTACAG
195 AGAAATCATACCA--GAGGTTTTACAG
* * * * * *
24003920 AATTGATTGGGATAACACCGTATGTCAAAAATAATAAATTGA-T-CAG---A-ACCGTAAATCAA
1 AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATTGATTAGAGACAACACCGCAAATCAA
* * * * * * * *
24003979 ATTTATGCCTGAAGGTTTTAGAAATCATG-CTCGGAGGTCTTATAAAATCGATTGGGATAACACC
66 ATTTATGCCTGAAAGTCTTAGAAATCATGCCTCGAAGGTCTTACAGAATCGACTGAGACAACACC
* * * * ** *
24004043 GCAAGTCGAAAATAATGAATCAATTGGGACAATATCGTAAATCGAATTTATATCCGGAAGTCTTA
131 GCAAGTCAAAAATAATGAATCAATTGGGACAACATCGCAAATCAAATTTATGCCCGGAGGTCTTA
24004108 CAGAATTAAC
Statistics
Matches: 520, Mismatches: 90, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
212 47 0.09
213 66 0.13
215 2 0.00
216 3 0.01
217 130 0.25
218 245 0.47
219 27 0.05
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (219 bp):
AATCGATTGGGACAACACCGTAAGTCAAAAATAATGAATTGATTAGAGACAACACCGCAAATCAA
ATTTATGCCTGAAAGTCTTAGAAATCATGCCTCGAAGGTCTTACAGAATCGACTGAGACAACACC
GCAAGTCAAAAATAATGAATCAATTGGGACAACATCGCAAATCAAATTTATGCCCGGAGGTCTTA
GAAATCATACCAGAGGTTTTACAG
Found at i:24004133 original size:87 final size:88
Alignment explanation
Indices: 24004031--24004272 Score: 285
Period size: 87 Copynumber: 2.8 Consensus size: 88
24004021 TAAAATCGAT
* * *
24004031 TGGGATAACACCGCAAGTCGAAAATAATGAATCAATTGGGACAATATCGTAAATCGAATTTATAT
1 TGGGATAACACCGCAAGTCAAAAATAATGAATCAATTGGGACAACATCGTAAATCGAATTTATAG
*
24004096 CC-GGAAGTCTTACAGAATTAAC
66 CCTGGAAGTCTTACAGAATCAAC
* * * * * *
24004118 TGGGACAACACCGCAAGTCAAAAATAATGAATCGATCGGGATAACACCGTGAATCGAATTTAT-G
1 TGGGATAACACCGCAAGTCAAAAATAATGAATCAATTGGGACAACATCGTAAATCGAATTTATAG
* *
24004182 CCTGGAGGTCTTACATAATCAAC
66 CCTGGAAGTCTTACAGAATCAAC
* ** * * *
24004205 TAGGATAACACTACAAGTCAAAAATAATGAATTGAA-TGGGACAACATCGTAATTCAAATTTATA
1 TGGGATAACACCGCAAGTCAAAAATAATGAA-TCAATTGGGACAACATCGTAAATCGAATTTATA
24004269 -CCTG
65 GCCTG
24004273 AAGGTTTTAG
Statistics
Matches: 128, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
86 2 0.02
87 124 0.97
88 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (88 bp):
TGGGATAACACCGCAAGTCAAAAATAATGAATCAATTGGGACAACATCGTAAATCGAATTTATAG
CCTGGAAGTCTTACAGAATCAAC
Found at i:24004395 original size:73 final size:73
Alignment explanation
Indices: 24004261--24004402 Score: 203
Period size: 73 Copynumber: 1.9 Consensus size: 73
24004251 TCGTAATTCA
* * ** *
24004261 AATTTATACCTGAAGGTTTTAGAAATCATGCCCAGAAGTCTTACAGAATCGACTGGGACAATACT
1 AATTTATACCTGAAAGTTTTAGAAATCATGCCCAGAAGTCTTACAAAATCGACTGAAACAATACC
24004326 GTAAATTG
66 GTAAATTG
* * * *
24004334 AATTTATGCCTGAAAGTTTTAGAAATCATGCCCGGAGGTCTTACAAAATCGATTGAAACAATACC
1 AATTTATACCTGAAAGTTTTAGAAATCATGCCCAGAAGTCTTACAAAATCGACTGAAACAATACC
24004399 GTAA
66 GTAA
24004403 GTCAAAAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (73 bp):
AATTTATACCTGAAAGTTTTAGAAATCATGCCCAGAAGTCTTACAAAATCGACTGAAACAATACC
GTAAATTG
Found at i:24004514 original size:109 final size:109
Alignment explanation
Indices: 24004334--24004869 Score: 579
Period size: 109 Copynumber: 4.9 Consensus size: 109
24004324 CTGTAAATTG
* * * * ** *
24004334 AATTTATGCCTGAAAGTTTTAGAAATCATGCCCGGAGGTCTTACAAAATCGATTGAAACAATACC
1 AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAACACC
* *
24004399 GTAAGTCAAAAATAATGAATTGATTGGGACAACACCGCAAATCA
66 GTAAGTCAAAAATAATGAATCGATCGGGACAACACCGCAAATCA
* *
24004443 AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAAGATC
1 AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAACACC
* ** * **
24004508 GCAAGTC-AAAATAATGAATCGATCGGGATGACACTGTGAATCA
66 GTAAGTCAAAAATAATGAATCGATCGGGACAACACCGCAAATCA
*** * * * * * * * * * * * *
24004551 AATTTATGTTTGGAGATCTTAGAAATCATGCCCGAAGATTTTATAGAATTGATCGGGATAACATC
1 AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAACACC
* * * *
24004616 GTAAGTCAAAAATAATGAATCAATTGGGACAATACCGTAAATCA
66 GTAAGTCAAAAATAATGAATCGATCGGGACAACACCGCAAATCA
** * * *
24004660 AATTTATGCCCGAAGGTCTTAGAAATCATTATCGGAGATTTTACAAAATCGATTGGGACAATACC
1 AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAACACC
* * * * *
24004725 GTAAGTCAAAAATAATGAATCGATCAGGATAACATCGCGAATCC
66 GTAAGTCAAAAATAATGAATCGATCGGGACAACACCGCAAATCA
* * * * *
24004769 AATTTATGCCCAAAGGTCTTAGAAACCATGCTCGGAGGTCTTAGAGAATCGACTGGGACAACACC
1 AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAACACC
* **
24004834 ATAAGTCAAAAATAATGAATCGATCAAGACAACACC
66 GTAAGTCAAAAATAATGAATCGATCGGGACAACACC
24004870 ATAAGTCAAA
Statistics
Matches: 348, Mismatches: 78, Indels: 2
0.81 0.18 0.00
Matches are distributed among these distances:
108 85 0.24
109 263 0.76
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (109 bp):
AATTTATGCCCGAAGGTCTTAGAAATCATGCTCGGAGGTCTTACAAAATCGATTGGGACAACACC
GTAAGTCAAAAATAATGAATCGATCGGGACAACACCGCAAATCA
Found at i:24004854 original size:36 final size:37
Alignment explanation
Indices: 24004825--24004903 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
24004815 AATCGACTGG
*
24004825 GACAACACCATAAGTC-AAAAATAATGAATCGATCAA
1 GACAACACCATAAGTCAAAAAATAAAGAATCGATCAA
24004861 GACAACACCATAAGTCAAAAAATAAAGAATCGATCAA
1 GACAACACCATAAGTCAAAAAATAAAGAATCGATCAA
*
24004898 GGCAAC
1 GACAAC
24004904 GTCGCGAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 16 0.40
37 24 0.60
ACGTcount: A:0.53, C:0.20, G:0.13, T:0.14
Consensus pattern (37 bp):
GACAACACCATAAGTCAAAAAATAAAGAATCGATCAA
Found at i:24004969 original size:146 final size:145
Alignment explanation
Indices: 24004716--24005014 Score: 397
Period size: 146 Copynumber: 2.1 Consensus size: 145
24004706 AATCGATTGG
* * * * *
24004716 GACAATACCGTAAGTCAAAAATAATGAATCGATCAGGATAACATCGCGAATCCAATTTATGCCCA
1 GACAACACCATAAGTCAAAAATAAAGAATCGATCAGGACAACATCGCGAATCCAAATTATGCCCA
* * *
24004781 AAGGTCTTAGAAACCATGCTCGGAGGTCTTAGAGAATCGACTGGGACAACACCATAAGTCAAAAA
66 AAGGTCTTAGAAACCATGCCCGGAGGTCTTAGAGAATCGACTGAGACAACACCACAAGTCAAAAA
24004846 TAATGAATCGATCAA
131 TAATGAATCGATCAA
* *
24004861 GACAACACCATAAGTCAAAAAATAAAGAATCGATCAAGG-CAACGTCGCGAATCGAAATTATGCC
1 GACAACACCATAAGTC-AAAAATAAAGAATCGATC-AGGACAACATCGCGAATCCAAATTATGCC
* * * * *
24004925 CGAAGGTCTTACG-AATCATGCCCGGAGGTTTTAGAGAATTGACTGAGACAACACCGCAAGTCAA
64 CAAAGGTCTTA-GAAACCATGCCCGGAGGTCTTAGAGAATCGACTGAGACAACACCACAAGTCAA
* *
24004989 AAATAATGAATTGATCAG
128 AAATAATGAATCGATCAA
24005007 GAC-ACACC
1 GACAACACC
24005015 GCGAATCGAA
Statistics
Matches: 134, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
145 19 0.14
146 111 0.83
147 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (145 bp):
GACAACACCATAAGTCAAAAATAAAGAATCGATCAGGACAACATCGCGAATCCAAATTATGCCCA
AAGGTCTTAGAAACCATGCCCGGAGGTCTTAGAGAATCGACTGAGACAACACCACAAGTCAAAAA
TAATGAATCGATCAA
Found at i:24005365 original size:41 final size:41
Alignment explanation
Indices: 24005308--24005393 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
24005298 AGGTTACTTC
*
24005308 TAAACAGAAGCTTTGAAATCTTGATTGAAATTGGTTCCTCT
1 TAAACAGAAGCTTTGAAATCTTGATTGAAAATGGTTCCTCT
* * * *
24005349 TAAACAGAGGTTTTGAAATCTTGATTGAAAATGGTTTCTTT
1 TAAACAGAAGCTTTGAAATCTTGATTGAAAATGGTTCCTCT
24005390 TAAA
1 TAAA
24005394 TAAAGAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (41 bp):
TAAACAGAAGCTTTGAAATCTTGATTGAAAATGGTTCCTCT
Found at i:24007274 original size:19 final size:18
Alignment explanation
Indices: 24007232--24007282 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
24007222 CTTTTTTTTC
24007232 TTTTTCTTTATTTTTAATT
1 TTTTTCTTT-TTTTTAATT
*
24007251 TTTTTCTTTTTGTTTATTT
1 TTTTTCTTTTT-TTTAATT
*
24007270 TTTTTATTTTTTT
1 TTTTTCTTTTTTT
24007283 ATGCCCCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTTCTTTTTTTTAATT
Found at i:24007280 original size:25 final size:25
Alignment explanation
Indices: 24007224--24007271 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
24007214 AAAATGTCCT
24007224 TTTTTTTCTTTTTCTTTATTTTTAA
1 TTTTTTTCTTTTTCTTTATTTTTAA
*
24007249 TTTTTTTCTTTTTGTTTATTTTT
1 TTTTTTTCTTTTTCTTTATTTTT
24007272 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.83
Consensus pattern (25 bp):
TTTTTTTCTTTTTCTTTATTTTTAA
Found at i:24013996 original size:14 final size:14
Alignment explanation
Indices: 24013973--24014040 Score: 57
Period size: 14 Copynumber: 4.8 Consensus size: 14
24013963 GTTTGAAAAA
*
24013973 TTTAGAGTTT-CATT
1 TTTAGGGTTTGCA-T
*
24013987 TTTAGGGTTTGGAT
1 TTTAGGGTTTGCAT
*
24014001 TTTAGGGTTTTGGAT
1 TTTAGGG-TTTGCAT
* *
24014016 TTGAGGGTTTGAAT
1 TTTAGGGTTTGCAT
*
24014030 TTGAGGGTTTG
1 TTTAGGGTTTG
24014041 GAAGTTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
14 34 0.71
15 14 0.29
ACGTcount: A:0.16, C:0.01, G:0.32, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTGCAT
Found at i:24014012 original size:15 final size:14
Alignment explanation
Indices: 24013990--24014042 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
24013980 TTTCATTTTT
*
24013990 AGGGTTTGGATTTT
1 AGGGTTTGGATTTG
24014004 AGGGTTTTGGATTTG
1 AGGG-TTTGGATTTG
*
24014019 AGGGTTTGAATTTG
1 AGGGTTTGGATTTG
24014033 AGGGTTTGGA
1 AGGGTTTGGA
24014043 AGTTTTAAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (14 bp):
AGGGTTTGGATTTG
Found at i:24014086 original size:21 final size:21
Alignment explanation
Indices: 24014045--24014086 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24014035 GGTTTGGAAG
***
24014045 TTTTAAGGTTTAGATTTTTTA
1 TTTTAAGGTTTAGAGGGTTTA
24014066 TTTTAAGGTTTAGAGGGTTTA
1 TTTTAAGGTTTAGAGGGTTTA
24014087 GGGTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (21 bp):
TTTTAAGGTTTAGAGGGTTTA
Found at i:24014229 original size:3 final size:3
Alignment explanation
Indices: 24014223--24014251 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24014213 TTATGAAAAT
24014223 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24014252 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:24015404 original size:20 final size:20
Alignment explanation
Indices: 24015381--24015450 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
24015371 AGGGGTAGGC
24015381 TGTAAGTGGGCTGGGTAAGT
1 TGTAAGTGGGCTGGGTAAGT
* *
24015401 TGTAGAGGGTGGCTGTAGGGGTAGGT
1 TGTA-AGTG-GGC--T--GGGTAAGT
24015427 TGTAAGTGGGCTGGGTAAGT
1 TGTAAGTGGGCTGGGTAAGT
24015447 TGTA
1 TGTA
24015451 GAGGGTGGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 15 0.38
21 3 0.08
22 4 0.10
24 4 0.10
25 3 0.08
26 11 0.28
ACGTcount: A:0.19, C:0.04, G:0.47, T:0.30
Consensus pattern (20 bp):
TGTAAGTGGGCTGGGTAAGT
Found at i:24015420 original size:46 final size:46
Alignment explanation
Indices: 24015360--24015460 Score: 193
Period size: 46 Copynumber: 2.2 Consensus size: 46
24015350 AAGTGGTTGT
24015360 AGGGTGGCTGTAGGGGTAGGCTGTAAGTGGGCTGGGTAAGTTGTAG
1 AGGGTGGCTGTAGGGGTAGGCTGTAAGTGGGCTGGGTAAGTTGTAG
*
24015406 AGGGTGGCTGTAGGGGTAGGTTGTAAGTGGGCTGGGTAAGTTGTAG
1 AGGGTGGCTGTAGGGGTAGGCTGTAAGTGGGCTGGGTAAGTTGTAG
24015452 AGGGTGGCT
1 AGGGTGGCT
24015461 AATCGGGGGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.17, C:0.06, G:0.50, T:0.27
Consensus pattern (46 bp):
AGGGTGGCTGTAGGGGTAGGCTGTAAGTGGGCTGGGTAAGTTGTAG
Found at i:24015555 original size:3 final size:3
Alignment explanation
Indices: 24015549--24015588 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
24015539 TTTAAAAATA
24015549 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24015589 ATTTTAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24016860 original size:2 final size:2
Alignment explanation
Indices: 24016850--24016896 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
24016840 ATATGTTGTA
24016850 AT AT A- AT AT AT AT AT AT AT AT AT A- AT -T AT A- AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
24016887 TT AT AT AT AT
1 AT AT AT AT AT
24016897 GATACGGATC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
1 5 0.13
2 33 0.87
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24018178 original size:128 final size:129
Alignment explanation
Indices: 24017933--24018178 Score: 300
Period size: 128 Copynumber: 1.9 Consensus size: 129
24017923 ATTATTTATT
* ** * * ** * *
24017933 AAATTTTAACATAATATGAAATTAACGTCATGTTAAATTATTAATATGTCCTTGTCATTATTTTA
1 AAATTTTAACATAATATAAAATTAACAACATATTAAATTAGTAATATACCCTTGCCATTACTTTA
* * *
24017998 TAAAAATTTAACTTTTGACACTTTATTTTAAAATTACTATAATACTCCTATTAAATTTCATATA
66 TAAAAATTTAACATGTGACAATTTATTTTAAAATTACTATAATACTCCTATTAAATTTCATATA
* *
24018062 AAATTTTAATATAATATAAAATTAACAACATATTAAATTAGTAA-ATACCCTTGCCATTGCTTTA
1 AAATTTTAACATAATATAAAATTAACAACATATTAAATTAGTAATATACCCTTGCCATTACTTTA
* * *
24018126 TAAATATTTGACATGTGA-AATTTAATTTTAAATTTACTATAATA-TCCTTATTA
66 TAAAAATTTAACATGTGACAATTT-ATTTTAAAATTACTATAATACTCC-TATTA
24018179 TATTACTTAT
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
127 7 0.07
128 53 0.54
129 38 0.39
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (129 bp):
AAATTTTAACATAATATAAAATTAACAACATATTAAATTAGTAATATACCCTTGCCATTACTTTA
TAAAAATTTAACATGTGACAATTTATTTTAAAATTACTATAATACTCCTATTAAATTTCATATA
Found at i:24028339 original size:85 final size:85
Alignment explanation
Indices: 24028196--24028367 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 85
24028186 ATTTTGTCGT
24028196 AGACAATCTCCCCAAACAATTCCGTTGTGGTAATATTTAATGTAGCCAAGCAATATTATATATTC
1 AGACAATCTCCCCAAACAATTCCGTTGTGGTAATATTTAATGTAGCCAAGCAATATTATATATTC
24028261 ATCTCTCTTAAATAAAATCC
66 ATCTCTCTTAAATAAAATCC
*
24028281 AGACAATCTCCCCAAACAATTCCGTTGTTGTAATATTTAATGTAGCCAAGCAATATTATATATTC
1 AGACAATCTCCCCAAACAATTCCGTTGTGGTAATATTTAATGTAGCCAAGCAATATTATATATTC
24028346 ATCTCTCTTAAATAAAATCC
66 ATCTCTCTTAAATAAAATCC
24028366 AG
1 AG
24028368 TTTTGGAATT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (85 bp):
AGACAATCTCCCCAAACAATTCCGTTGTGGTAATATTTAATGTAGCCAAGCAATATTATATATTC
ATCTCTCTTAAATAAAATCC
Found at i:24030597 original size:12 final size:12
Alignment explanation
Indices: 24030577--24030666 Score: 64
Period size: 12 Copynumber: 7.5 Consensus size: 12
24030567 TATTAGCCAT
24030577 TAAAAAAATAAA
1 TAAAAAAATAAA
24030589 TACAAAAATATAAA
1 TA-AAAAA-ATAAA
24030603 T-AAAAAATATAA
1 TAAAAAAATA-AA
* *
24030615 TATATAATATAAA
1 TA-AAAAAATAAA
*
24030628 -AATAAAATAAA
1 TAAAAAAATAAA
*
24030639 TAATAAAAT--A
1 TAAAAAAATAAA
24030649 TAAAATAAAT-AA
1 TAAAA-AAATAAA
24030661 TAAAAA
1 TAAAAA
24030667 TTTTAAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
10 5 0.08
11 17 0.26
12 25 0.38
13 7 0.11
14 12 0.18
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:24030601 original size:14 final size:13
Alignment explanation
Indices: 24030577--24030667 Score: 82
Period size: 13 Copynumber: 7.1 Consensus size: 13
24030567 TATTAGCCAT
24030577 TAAAAAA-ATAAA
1 TAAAAAATATAAA
24030589 TACAAAAATATAAA
1 TA-AAAAATATAAA
24030603 TAAAAAATAT-AA
1 TAAAAAATATAAA
* *
24030615 TATATAATATAAA
1 TAAAAAATATAAA
*
24030628 -AATAAA-ATAAA
1 TAAAAAATATAAA
24030639 TAATAAAATATAAAA
1 TAA-AAAATAT-AAA
* *
24030654 TAAATAATAAAAA
1 TAAAAAATATAAA
24030667 T
1 T
24030668 TTTAAAAAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 13
0.75 0.09 0.15
Matches are distributed among these distances:
11 5 0.08
12 17 0.27
13 22 0.34
14 14 0.22
15 6 0.09
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAAAAATATAAA
Found at i:24030607 original size:25 final size:24
Alignment explanation
Indices: 24030579--24030664 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 24
24030569 TTAGCCATTA
24030579 AAAAAATAAATACAAAAATATAAAT
1 AAAAAATAAATA-AAAAATATAAAT
* *
24030604 AAAAAATATAATATATAATATAAA-
1 AAAAAATA-AATAAAAAATATAAAT
24030628 AATAAAATAAATAATAAAATATAAAAT
1 AA-AAAATAAATAA-AAAATAT-AAAT
*
24030655 AAATAATAAA
1 AAAAAATAAA
24030665 AATTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 6 0.12
25 29 0.57
26 14 0.27
27 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAAAATAAATAAAAAATATAAAT
Found at i:24030628 original size:19 final size:19
Alignment explanation
Indices: 24030598--24030665 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
24030588 ATACAAAAAT
*
24030598 ATAAATAA-AAAATATAAT
1 ATAAATAATAAAATATAAA
24030616 ATATAAT-ATAAAA-ATAAA
1 ATA-AATAATAAAATATAAA
24030634 ATAAATAATAAAATATAAA
1 ATAAATAATAAAATATAAA
24030653 ATAAATAATAAAA
1 ATAAATAATAAAA
24030666 ATTTTAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
17 3 0.07
18 17 0.38
19 25 0.56
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAATAATAAAATATAAA
Found at i:24034114 original size:23 final size:23
Alignment explanation
Indices: 24034084--24034130 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24034074 TTCTGTTTGG
24034084 TACATAGTCACTTTTATTATTCT
1 TACATAGTCACTTTTATTATTCT
*
24034107 TACATAGTCGCTTTTATTATTCT
1 TACATAGTCACTTTTATTATTCT
24034130 T
1 T
24034131 TGCCAACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.53
Consensus pattern (23 bp):
TACATAGTCACTTTTATTATTCT
Found at i:24039554 original size:16 final size:16
Alignment explanation
Indices: 24039535--24039565 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24039525 AGCAATGATC
24039535 TTAGTTTTAAATGGTG
1 TTAGTTTTAAATGGTG
24039551 TTAGTTTTAAATGGT
1 TTAGTTTTAAATGGT
24039566 ACTCCTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (16 bp):
TTAGTTTTAAATGGTG
Found at i:24045450 original size:3 final size:3
Alignment explanation
Indices: 24045444--24045496 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
24045434 TCATTTTTTT
24045444 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24045492 TTA TT
1 TTA TT
24045497 TACGTCTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24045632 original size:67 final size:65
Alignment explanation
Indices: 24045559--24045690 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 65
24045549 TAATTTTCTT
* *
24045559 AAAAAT-AAATTTTCAAAAAAATTTATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 AAAAATAAAATTTT-AAAAAAA--TATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAA
24045623 ATA
63 ATA
* * * *
24045626 AAAAATAAAAATTTTAAAAACATATTTTTAAGGACAAGTTAAAAGTATCAATTTTCCTTGAAAAT
1 AAAAAT-AAAATTTTAAAAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAAT
24045691 CAAATTTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 38 0.67
67 6 0.11
68 6 0.11
69 7 0.12
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.36
Consensus pattern (65 bp):
AAAAATAAAATTTTAAAAAAATATTTTTAAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATA
Found at i:24045758 original size:54 final size:54
Alignment explanation
Indices: 24045653--24045761 Score: 134
Period size: 54 Copynumber: 2.0 Consensus size: 54
24045643 AAACATATTT
*
24045653 TTAAGGACAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAATTTAAAAAAAAA
1 TTAAGGACAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATTTAAAAAAAAA
* *
24045707 TTAAGGGA-AAGTTGAAAA-TATCAATTTTTCTTGAAAA-AAACATTATTAAAAAAAA
1 TTAA-GGACAAGTT-AAAAGTATCAATTTTCCTTGAAAATAAA-ATT-TAAAAAAAAA
24045762 GTTGAAAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 2 0.04
54 30 0.62
55 16 0.33
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.30
Consensus pattern (54 bp):
TTAAGGACAAGTTAAAAGTATCAATTTTCCTTGAAAATAAAATTTAAAAAAAAA
Found at i:24047387 original size:81 final size:81
Alignment explanation
Indices: 24047252--24047405 Score: 245
Period size: 81 Copynumber: 1.9 Consensus size: 81
24047242 CAAAAGAAAA
* * * * *
24047252 GCAATAAAGGAGAATGCTGGCTAACAAGACCATCCCTTACAAGAGAAGGATGACCCATGTACTAT
1 GCAATAAAAGAGAATGCTAGCCAACAAAACCATCACTTACAAGAGAAGGATGACCCATGTACTAT
*
24047317 TTTGGTTTAAGGGAAG
66 TCTGGTTTAAGGGAAG
*
24047333 GCAATAAAAGAGAATGCTAGCCAATAAAACCATCACTTACAAGAGAAGGATGACCCATGTACTAT
1 GCAATAAAAGAGAATGCTAGCCAACAAAACCATCACTTACAAGAGAAGGATGACCCATGTACTAT
24047398 TCTGGTTT
66 TCTGGTTT
24047406 TGGGCCACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (81 bp):
GCAATAAAAGAGAATGCTAGCCAACAAAACCATCACTTACAAGAGAAGGATGACCCATGTACTAT
TCTGGTTTAAGGGAAG
Found at i:24049829 original size:10 final size:10
Alignment explanation
Indices: 24049802--24049898 Score: 107
Period size: 10 Copynumber: 9.9 Consensus size: 10
24049792 TGAAAAGGGA
24049802 AAGAAAAAAT
1 AAGAAAAAAT
*
24049812 GGATGAAAAAAT
1 --AAGAAAAAAT
24049824 AAGAAAAAAT
1 AAGAAAAAAT
24049834 --GAAAAAAT
1 AAGAAAAAAT
24049842 ---AAAAAAT
1 AAGAAAAAAT
24049849 GAA-AAAAAAT
1 -AAGAAAAAAT
24049859 AAGAAAAAAAT
1 AAG-AAAAAAT
24049870 AAGAAAAAAT
1 AAGAAAAAAT
24049880 AAGAAAAAAT
1 AAGAAAAAAT
24049890 AAGAAAAAA
1 AAGAAAAAA
24049899 AAAATAAGGA
Statistics
Matches: 78, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
7 7 0.09
8 8 0.10
9 2 0.03
10 42 0.54
11 10 0.13
12 9 0.12
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.10
Consensus pattern (10 bp):
AAGAAAAAAT
Found at i:24049830 original size:21 final size:20
Alignment explanation
Indices: 24049806--24049887 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 20
24049796 AAGGGAAAGA
24049806 AAAAATGGATGAAAAAATAAG
1 AAAAAT-GATGAAAAAATAAG
24049827 AAAAA--ATGAAAAAAT-A-
1 AAAAATGATGAAAAAATAAG
*
24049843 AAAAATGA-AAAAAAATAAG
1 AAAAATGATGAAAAAATAAG
*
24049862 AAAAAAAT-AAGAAAAAATAAG
1 --AAAAATGATGAAAAAATAAG
24049883 AAAAA
1 AAAAA
24049888 ATAAGAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
16 5 0.10
17 8 0.15
18 12 0.23
19 5 0.10
20 1 0.02
21 21 0.40
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (20 bp):
AAAAATGATGAAAAAATAAG
Found at i:24049837 original size:8 final size:8
Alignment explanation
Indices: 24049814--24049855 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
24049804 GAAAAAATGG
24049814 ATGAAAAA
1 ATGAAAAA
24049822 ATAAGAAAAA
1 AT--GAAAAA
24049832 ATGAAAAA
1 ATGAAAAA
24049840 AT-AAAAA
1 ATGAAAAA
24049847 ATGAAAAA
1 ATGAAAAA
24049855 A
1 A
24049856 AATAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.23
8 16 0.52
10 8 0.26
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (8 bp):
ATGAAAAA
Found at i:24049847 original size:15 final size:15
Alignment explanation
Indices: 24049827--24049855 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24049817 AAAAAATAAG
24049827 AAAAAATGAAAAAAT
1 AAAAAATGAAAAAAT
24049842 AAAAAATGAAAAAA
1 AAAAAATGAAAAAA
24049856 AATAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAATGAAAAAAT
Found at i:24049872 original size:46 final size:45
Alignment explanation
Indices: 24049817--24049917 Score: 134
Period size: 46 Copynumber: 2.2 Consensus size: 45
24049807 AAAATGGATG
24049817 AAAAAATAAGAAAAAAT-GAAAAAATAAAAAATGAAAAAAAATAA-GA
1 AAAAAATAAGAAAAAATAGAAAAAAT-AAAAA--AAAAAAAATAAGGA
*
24049863 AAAAAATAAGAAAAAATAAGAAAAAATAAGAAAAAAAAAATAAGGA
1 AAAAAATAAGAAAAAAT-AGAAAAAATAAAAAAAAAAAAATAAGGA
*
24049909 TAAAAATAA
1 AAAAAATAA
24049918 ATATTCAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
45 11 0.22
46 27 0.54
47 4 0.08
48 8 0.16
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (45 bp):
AAAAAATAAGAAAAAATAGAAAAAATAAAAAAAAAAAAATAAGGA
Found at i:24049899 original size:31 final size:27
Alignment explanation
Indices: 24049817--24049902 Score: 99
Period size: 31 Copynumber: 3.1 Consensus size: 27
24049807 AAAATGGATG
24049817 AAAAAATAAGAAAAAAT--GAAAAAAT
1 AAAAAATAAGAAAAAATAAGAAAAAAT
24049842 AAAAAATGAA-AAAAAATAAGAAAAAAAT
1 AAAAAAT-AAGAAAAAATAAG-AAAAAAT
24049870 AAGAAAAAATAAGAAAAAATAAGAAAAAA-
1 ---AAAAAATAAGAAAAAATAAGAAAAAAT
24049899 AAAA
1 AAAA
24049903 TAAGGATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
25 14 0.26
26 6 0.11
27 1 0.02
28 7 0.13
30 8 0.15
31 17 0.32
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.09
Consensus pattern (27 bp):
AAAAAATAAGAAAAAATAAGAAAAAAT
Found at i:24051047 original size:21 final size:21
Alignment explanation
Indices: 24051023--24051083 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
24051013 TAAGAAATCC
*
24051023 TCAAATGAGAATCTTTGAGTG
1 TCAAATAAGAATCTTTGAGTG
* *
24051044 TCAAATAAGAATCTTTGAATT
1 TCAAATAAGAATCTTTGAGTG
24051065 TCAAATAAGAATCTTTGAG
1 TCAAATAAGAATCTTTGAG
24051084 GTGTGAAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (21 bp):
TCAAATAAGAATCTTTGAGTG
Found at i:24051148 original size:58 final size:58
Alignment explanation
Indices: 24051047--24051199 Score: 198
Period size: 58 Copynumber: 2.6 Consensus size: 58
24051037 TTGAGTGTCA
* * * * * *
24051047 AATAAGAATCTTTGAATTTCAAATAAGAATCTTTGAGGTGTGAAACCTAAAATTTATTG
1 AATATGAATCTTT-AAATTCAAATGAGAATCTTTGAAGAGTGAAACCCAAAATTTATTG
*
24051106 AATATGAATCTTTAAATTCAAATGAGAATCTTTGAAGAGTGAAACCCAAAATTTGTTG
1 AATATGAATCTTTAAATTCAAATGAGAATCTTTGAAGAGTGAAACCCAAAATTTATTG
* * **
24051164 AATGTGAATATTCGAATTCAAATGAGAATCTTTGAA
1 AATATGAATCTTTAAATTCAAATGAGAATCTTTGAA
24051200 TTTCAAATAA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 71 0.86
59 12 0.14
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (58 bp):
AATATGAATCTTTAAATTCAAATGAGAATCTTTGAAGAGTGAAACCCAAAATTTATTG
Found at i:24051192 original size:20 final size:21
Alignment explanation
Indices: 24051164--24051213 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
24051154 AAATTTGTTG
*
24051164 AATGTGAATATTCGAA-TTCA
1 AATGAGAATATTCGAATTTCA
* *
24051184 AATGAGAATCTTTGAATTTCA
1 AATGAGAATATTCGAATTTCA
*
24051205 AATAAGAAT
1 AATGAGAAT
24051214 CTTTGAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (21 bp):
AATGAGAATATTCGAATTTCA
Found at i:24051206 original size:21 final size:21
Alignment explanation
Indices: 24051180--24051221 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24051170 AATATTCGAA
*
24051180 TTCAAATGAGAATCTTTGAAT
1 TTCAAATAAGAATCTTTGAAT
24051201 TTCAAATAAGAATCTTTGAAT
1 TTCAAATAAGAATCTTTGAAT
24051222 GAGAATCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
TTCAAATAAGAATCTTTGAAT
Found at i:24052968 original size:3 final size:3
Alignment explanation
Indices: 24052962--24053020 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
24052952 ATTTATATAT
*
24052962 TTA TTA TTA -TA TTTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24053007 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
24053021 TCTGTCATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24053221 original size:17 final size:17
Alignment explanation
Indices: 24053201--24053239 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24053191 AATTTTTCTT
24053201 GAAAATAAAATT-TTAAG
1 GAAAA-AAAATTGTTAAG
*
24053218 GAAAAAACATTGTTAAG
1 GAAAAAAAATTGTTAAG
24053235 GAAAA
1 GAAAA
24053240 GTTGAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.23
Consensus pattern (17 bp):
GAAAAAAAATTGTTAAG
Found at i:24053241 original size:61 final size:60
Alignment explanation
Indices: 24053073--24053449 Score: 414
Period size: 61 Copynumber: 6.2 Consensus size: 60
24053063 ATTTGTCAAT
* *
24053073 AATTTTT-TT-AAAGATAAAATTTT-AAAAAATATATTTTTAAAGAAAAGTTGAAAGTATC
1 AATTTTTCTTGAAA-ATAAAATTTTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
* * *
24053131 AATTTTCCTTGAAAA-ATAAA-TTT-AAAAAATATATATTTTTAAGGGAAAGTTGAAAATATC
1 AATTTTTCTTGAAAATA-AAATTTTCAAAAAA-A-ATATTTTTAAGGAAAAGTTGAAAGTATC
* *
24053191 AATTTTTCTTGAAAATAAAATTTT-AAGGAAAAAACATTGTTAAGGAAAAGTTGAAAGTATC
1 AATTTTTCTTGAAAATAAAATTTTCAA--AAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
* *
24053252 AATTTTTCTTGAAAATAAAATTTTCAAAAAAAAATTTTTTTAAGGAAAAGTTGAAAATATC
1 AATTTTTCTTGAAAATAAAATTTTC-AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
* *
24053313 AA-TTTTCTTTGAAAA-ATAAATTTTCAATAAAAAAAGATATTTTTGAGAAAAAGTTGAAAGTAT
1 AATTTTTC-TTGAAAATA-AAATTTTC---AAAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTAT
24053376 C
60 C
** *
24053377 -ATTTTTCTTTGAAAATAAAATTTTCAAAAAATGTGTTTTTTTAAGGAAAAGTTGAAAGTATC
1 AATTTTTC-TTGAAAATAAAATTTTCAAAAAA--AATATTTTTAAGGAAAAGTTGAAAGTATC
24053439 AATTTTTCTTG
1 AATTTTTCTTG
24053450 GATAAAGGCA
Statistics
Matches: 274, Mismatches: 24, Indels: 38
0.82 0.07 0.11
Matches are distributed among these distances:
58 16 0.06
59 6 0.02
60 51 0.19
61 106 0.39
62 28 0.10
63 21 0.08
64 45 0.16
65 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (60 bp):
AATTTTTCTTGAAAATAAAATTTTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATC
Found at i:24053336 original size:18 final size:19
Alignment explanation
Indices: 24053302--24053337 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
24053292 TAAGGAAAAG
*
24053302 TTGAAAATATCAATTTTCT
1 TTGAAAATATAAATTTTCT
24053321 TTGAAAA-ATAAATTTTC
1 TTGAAAATATAAATTTTC
24053338 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (19 bp):
TTGAAAATATAAATTTTCT
Found at i:24055546 original size:21 final size:22
Alignment explanation
Indices: 24055521--24055569 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
24055511 AACAAGGATA
24055521 GCAGCAGACTGCTGGTTT-CTT
1 GCAGCAGACTGCTGGTTTCCTT
24055542 GCAGCAGACTGCTGGTTTCCTT
1 GCAGCAGACTGCTGGTTTCCTT
24055564 -CAGCAG
1 GCAGCAG
24055570 GTTTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (22 bp):
GCAGCAGACTGCTGGTTTCCTT
Found at i:24056365 original size:26 final size:29
Alignment explanation
Indices: 24056311--24056392 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
24056301 AATAATTGTG
* *
24056311 TGAATATTACTTT-ATTATTTTTTCATTATT
1 TGAATA-TAATTTAATTATTTATT-ATTATT
*
24056341 TGAATATAATTTTATT-TTTATTTATTATT
1 TGAATATAATTTAATTATTTA-TTATTATT
*
24056370 TTAATATAATTTAATTATTTATT
1 TGAATATAATTTAATTATTTATT
24056393 TTTTATTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 30 0.67
30 15 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TGAATATAATTTAATTATTTATTATTATT
Found at i:24056377 original size:29 final size:30
Alignment explanation
Indices: 24056311--24056399 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
24056301 AATAATTGTG
* *
24056311 TGAATATTACTTTATTATTT-TTTCATTATT
1 TGAATATAATTTTATTATTTATTT-ATTATT
24056341 TGAATATAATTTTATT-TTTATTTATTATT
1 TGAATATAATTTTATTATTTATTTATTATT
* * *
24056370 TTAATATAATTTAATTATTTATTTTTTATT
1 TGAATATAATTTTATTATTTATTTATTATT
24056400 GTTTGGATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 23 0.44
30 29 0.56
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TGAATATAATTTTATTATTTATTTATTATT
Found at i:24056410 original size:33 final size:31
Alignment explanation
Indices: 24056325--24056414 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 31
24056315 TATTACTTTA
*
24056325 TTATTTTTTCATTATTTGAATATAATTTTATTT
1 TTATTTTTT-ATT-TTTGAATATAATTTAATTT
*
24056358 TTATTTATTA-TTTT-AATATAATTTAATTAT
1 TTATTTTTTATTTTTGAATATAATTTAATT-T
*
24056388 TTATTTTTTATTGTTTGGATATAATTT
1 TTATTTTTTATT-TTTGAATATAATTT
24056415 GATCACTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 13 0.27
30 13 0.27
31 2 0.04
32 4 0.08
33 17 0.35
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (31 bp):
TTATTTTTTATTTTTGAATATAATTTAATTT
Found at i:24060091 original size:16 final size:15
Alignment explanation
Indices: 24060051--24060103 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
24060041 TTTTTTTCTC
*
24060051 TTTGTTTTGTACTTT
1 TTTGTTTTTTACTTT
*
24060066 TTGGTTTTTTTTAACTTT
1 TT--TGTTTTTT-ACTTT
*
24060084 TTTGTTTTTTATTTT
1 TTTGTTTTTTACTTT
24060099 TTTGT
1 TTTGT
24060104 CAAAATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 11 0.35
16 7 0.23
17 6 0.19
18 7 0.23
ACGTcount: A:0.08, C:0.04, G:0.11, T:0.77
Consensus pattern (15 bp):
TTTGTTTTTTACTTT
Found at i:24060718 original size:29 final size:29
Alignment explanation
Indices: 24060648--24060720 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
24060638 TGTATCATGA
*
24060648 GCCTCTCATATGGGTTTTTGCATGCAATAG
1 GCCTCACATATGGGTTTTTG-ATGCAATAG
* * *
24060678 GCCTCACTTATGGGTTTTATG-TGTAATGG
1 GCCTCACATATGGGTTTT-TGATGCAATAG
*
24060707 GCTTCACATATGGG
1 GCCTCACATATGGG
24060721 CTATTGTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 18 0.50
30 16 0.44
31 2 0.06
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (29 bp):
GCCTCACATATGGGTTTTTGATGCAATAG
Found at i:24060865 original size:28 final size:28
Alignment explanation
Indices: 24060829--24060887 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
24060819 CATGTAATCT
*
24060829 TTTCTATTTTAGTTTTA-GTATTTTATC
1 TTTCTATTTTAGTTTTACATATTTTATC
24060856 TTTCTTATTTTAGTTTTACATATTTTATC
1 TTTC-TATTTTAGTTTTACATATTTTATC
24060885 TTT
1 TTT
24060888 GGTCAAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.14
28 13 0.45
29 12 0.41
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (28 bp):
TTTCTATTTTAGTTTTACATATTTTATC
Found at i:24060881 original size:15 final size:15
Alignment explanation
Indices: 24060833--24060882 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
24060823 TAATCTTTTC
*
24060833 TATTTTAGTTTTA-G
1 TATTTTAGTTTTACA
*
24060847 TATTTTA-TCTTT-CT
1 TATTTTAGT-TTTACA
24060861 TATTTTAGTTTTACA
1 TATTTTAGTTTTACA
24060876 TATTTTA
1 TATTTTA
24060883 TCTTTGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 1 0.03
14 20 0.67
15 9 0.30
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (15 bp):
TATTTTAGTTTTACA
Found at i:24062285 original size:16 final size:17
Alignment explanation
Indices: 24062264--24062296 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24062254 ATTATGAATA
24062264 TCCTAGA-TTTTCTTTT
1 TCCTAGATTTTTCTTTT
24062280 TCCTAGATTTTTCTTTT
1 TCCTAGATTTTTCTTTT
24062297 ACCTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.64
Consensus pattern (17 bp):
TCCTAGATTTTTCTTTT
Found at i:24063475 original size:19 final size:19
Alignment explanation
Indices: 24063453--24063496 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24063443 TAGGTTTAGA
* *
24063453 TTTAGGGTTTGATTTAGGT
1 TTTAGGGTTTGATATAGGG
*
24063472 TTTAAGGTTTGATATAGGG
1 TTTAGGGTTTGATATAGGG
24063491 TTTAGG
1 TTTAGG
24063497 ATTTAAGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTTGATATAGGG
Found at i:24063508 original size:14 final size:14
Alignment explanation
Indices: 24063465--24063510 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
24063455 TAGGGTTTGA
*
24063465 TTTAGGTTTTAAGG
1 TTTAGGATTTAAGG
* *
24063479 TTT--GATATAGGG
1 TTTAGGATTTAAGG
24063491 TTTAGGATTTAAGG
1 TTTAGGATTTAAGG
24063505 TTTAGG
1 TTTAGG
24063511 GTTTCATGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 9 0.36
14 16 0.64
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TTTAGGATTTAAGG
Found at i:24065431 original size:20 final size:20
Alignment explanation
Indices: 24065408--24065445 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24065398 TTTTGATTTT
24065408 GTTTAACTAAGT-TTGACTAG
1 GTTTAACT-AGTGTTGACTAG
24065428 GTTTAACTAGTGTTGACT
1 GTTTAACTAGTGTTGACT
24065446 TTAAAACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (20 bp):
GTTTAACTAGTGTTGACTAG
Found at i:24065917 original size:18 final size:19
Alignment explanation
Indices: 24065896--24065934 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24065886 TTTTTTTGTT
24065896 TTTTGTCCTT-TTTTTTAA
1 TTTTGTCCTTATTTTTTAA
*
24065914 TTTTGTCTTTATTTTTTAA
1 TTTTGTCCTTATTTTTTAA
24065933 TT
1 TT
24065935 AGATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTGTCCTTATTTTTTAA
Found at i:24065917 original size:19 final size:19
Alignment explanation
Indices: 24065885--24065934 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
24065875 TTATTCTTCA
**
24065885 TTTTTTTTGTTTTTTGTCC
1 TTTTTTTTAATTTTTGTCC
*
24065904 TTTTTTTTAA-TTTTGTCT
1 TTTTTTTTAATTTTTGTCC
24065922 TTATTTTTTAATT
1 TT-TTTTTTAATT
24065935 AGATAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.35
19 16 0.62
20 1 0.04
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTTTTTTAATTTTTGTCC
Found at i:24067499 original size:3 final size:3
Alignment explanation
Indices: 24067491--24067611 Score: 224
Period size: 3 Copynumber: 40.3 Consensus size: 3
24067481 AATATTTTAA
*
24067491 ACT ACT ACT ACC ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
24067539 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
*
24067587 ACT ACT ACT ACA ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT A
24067612 ATAGATCATG
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 114 1.00
ACGTcount: A:0.35, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
ACT
Found at i:24067993 original size:16 final size:18
Alignment explanation
Indices: 24067968--24068014 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
24067958 AATTTGAGGC
*
24067968 TTTTTGGGTTTTTTT-G-
1 TTTTTTGGTTTTTTTGGA
24067984 TTTTTTGGTTTTTTTGGA
1 TTTTTTGGTTTTTTTGGA
*
24068002 TCTTTTGGTTTTT
1 TTTTTTGGTTTTT
24068015 GGATTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 14 0.52
17 1 0.04
18 12 0.44
ACGTcount: A:0.02, C:0.02, G:0.21, T:0.74
Consensus pattern (18 bp):
TTTTTTGGTTTTTTTGGA
Found at i:24067997 original size:25 final size:25
Alignment explanation
Indices: 24067968--24068016 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
24067958 AATTTGAGGC
* * *
24067968 TTTTTGGGTTTTTTTGTTTTTTGGT
1 TTTTTGGGATCTTTTGGTTTTTGGT
*
24067993 TTTTTTGGATCTTTTGGTTTTTGG
1 TTTTTGGGATCTTTTGGTTTTTGG
24068017 ATTAATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.02, C:0.02, G:0.24, T:0.71
Consensus pattern (25 bp):
TTTTTGGGATCTTTTGGTTTTTGGT
Found at i:24067999 original size:9 final size:9
Alignment explanation
Indices: 24067968--24068014 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
24067958 AATTTGAGGC
*
24067968 TTTTTGGGT
1 TTTTTTGGT
24067977 TTTTTT-G-
1 TTTTTTGGT
24067984 TTTTTTGGT
1 TTTTTTGGT
*
24067993 TTTTTTGGA
1 TTTTTTGGT
*
24068002 TCTTTTGGT
1 TTTTTTGGT
24068011 TTTT
1 TTTT
24068015 GGATTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
7 6 0.19
8 2 0.06
9 23 0.74
ACGTcount: A:0.02, C:0.02, G:0.21, T:0.74
Consensus pattern (9 bp):
TTTTTTGGT
Found at i:24068347 original size:19 final size:18
Alignment explanation
Indices: 24068323--24068397 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 18
24068313 ACAAGTATTC
* *
24068323 TTTTTCCATTTTCTTTTTA
1 TTTTTCAATTTT-ATTTTA
24068342 TTTTTCAATTTTATTTTA
1 TTTTTCAATTTTATTTTA
*
24068360 -TTTT--ATTTT-TTTAA
1 TTTTTCAATTTTATTTTA
24068374 TTTTT-AATTTTAATTTTA
1 TTTTTCAATTTT-ATTTTA
24068392 GTTTTT
1 -TTTTT
24068398 TATTTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
14 4 0.09
15 9 0.19
16 5 0.11
17 4 0.09
18 9 0.19
19 16 0.34
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (18 bp):
TTTTTCAATTTTATTTTA
Found at i:24068353 original size:13 final size:12
Alignment explanation
Indices: 24068337--24068418 Score: 62
Period size: 13 Copynumber: 6.7 Consensus size: 12
24068327 TCCATTTTCT
24068337 TTTTATTTTTCAA
1 TTTTATTTTT-AA
24068350 TTTTA-TTTT-A
1 TTTTATTTTTAA
24068360 TTTTATTTTTTTAA
1 TTTTA--TTTTTAA
*
24068374 TTTTTAATTTTAA
1 -TTTTATTTTTAA
*
24068387 TTTTAGTTTTTTA
1 TTTTA-TTTTTAA
*
24068400 -TTTAATTTTAA
1 TTTTATTTTTAA
*
24068411 TATTATTT
1 TTTTATTT
24068419 ATTTATTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
10 6 0.11
11 5 0.09
12 18 0.33
13 20 0.36
14 1 0.02
15 5 0.09
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:24068383 original size:31 final size:30
Alignment explanation
Indices: 24068336--24068426 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 30
24068326 TTCCATTTTC
24068336 TTTTT-ATTTTTCAATTTTATTTTATTTTATT
1 TTTTTAATTTTT-AATTTTATTTTA-TTTATT
24068367 TTTTTAATTTTTAATTTTAATTTTAGTTT-TT
1 TTTTTAATTTTTAATTTT-ATTTTA-TTTATT
* *
24068398 TATTTAA-TTTTAATATTA-TTTATTTATT
1 TTTTTAATTTTTAATTTTATTTTATTTATT
24068426 T
1 T
24068427 ATTTGTATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
27 3 0.06
28 7 0.13
29 1 0.02
30 9 0.17
31 19 0.35
32 15 0.28
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (30 bp):
TTTTTAATTTTTAATTTTATTTTATTTATT
Found at i:24068408 original size:24 final size:23
Alignment explanation
Indices: 24068337--24068427 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 23
24068327 TCCATTTTCT
* *
24068337 TTTTATTTTTCAATTTTATTTT-A
1 TTTTATTTTT-TATTTAATTTTAA
24068360 TTTTATTTTTTTAATTTTTAATTTTAA
1 TTTTA-TTTTTT-A--TTTAATTTTAA
24068387 TTTTAGTTTTTTATTTAATTTTAA
1 TTTTA-TTTTTTATTTAATTTTAA
*
24068411 TATTATTTATTTATTTA
1 TTTTATTT-TTTATTTA
24068428 TTTGTATTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
23 8 0.14
24 29 0.50
26 9 0.16
27 12 0.21
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (23 bp):
TTTTATTTTTTATTTAATTTTAA
Found at i:24069357 original size:25 final size:25
Alignment explanation
Indices: 24069321--24069400 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
24069311 TTTTTTCCTT
24069321 TTCA-TTACTTATACTTGCTTAATTA
1 TTCATTTA-TTATACTTGCTTAATTA
* **
24069346 TTCATTTATTAT--TT-ATTCCTT-
1 TTCATTTATTATACTTGCTTAATTA
**
24069367 TTCATTGCTTATACTTGCTTAATTA
1 TTCATTTATTATACTTGCTTAATTA
24069392 TTCATTTAT
1 TTCATTTAT
24069401 ATTTTTCTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
21 10 0.25
22 4 0.10
23 4 0.10
24 4 0.10
25 15 0.38
26 3 0.08
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.57
Consensus pattern (25 bp):
TTCATTTATTATACTTGCTTAATTA
Found at i:24069367 original size:46 final size:45
Alignment explanation
Indices: 24069312--24069444 Score: 207
Period size: 46 Copynumber: 3.0 Consensus size: 45
24069302 TTGAGATTTT
*
24069312 TTTTTCCTTTTCATTACTTATACTTGCTTAATTATTCATTTATTA
1 TTTTTCCTTTTCATTGCTTATACTTGCTTAATTATTCATTTATTA
24069357 TTTATTCCTTTTCATTGCTTATACTTGCTTAATTATTCATTTA-TA
1 TTT-TTCCTTTTCATTGCTTATACTTGCTTAATTATTCATTTATTA
* * *
24069402 TTTTT-CTTTTCATTGCATATACTTGGTTAATTATTTATTTATT
1 TTTTTCCTTTTCATTGCTTATACTTGCTTAATTATTCATTTATT
24069445 GTATATATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
43 33 0.40
44 3 0.04
45 8 0.10
46 38 0.46
ACGTcount: A:0.22, C:0.14, G:0.05, T:0.60
Consensus pattern (45 bp):
TTTTTCCTTTTCATTGCTTATACTTGCTTAATTATTCATTTATTA
Found at i:24080140 original size:113 final size:113
Alignment explanation
Indices: 24079936--24080142 Score: 297
Period size: 113 Copynumber: 1.8 Consensus size: 113
24079926 TAGTTATTTG
* *
24079936 ATTTCAGCTCAAGCTAGATCATTTTCTTGACTCATGGCATCATTTTAGTCATTTATCTACGACCT
1 ATTTCAGCTCAAGCTAGATCATTTTCTTGACTCATGGCATCACTTTAGTCATTTATCTACAACCT
** * *
24080001 TGACTTGATCTTAGTTGCTTTCAGACTTGCAACATTGTCAGTTATCCA
66 CAACTTGATATTAGTCGCTTTCAGACTTGCAACATTGTCAGTTATCCA
* * *
24080049 ATTTCAGCTCAGGTTAGATCATTTTCTTGACTCATGGCATCACTTTGGTCATTTATCTACAACCT
1 ATTTCAGCTCAAGCTAGATCATTTTCTTGACTCATGGCATCACTTTAGTCATTTATCTACAACCT
* * * *
24080114 CAACTTGGTATTGGTCGTTTTTAGACTTG
66 CAACTTGATATTAGTCGCTTTCAGACTTG
24080143 TGACATCATC
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
113 81 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (113 bp):
ATTTCAGCTCAAGCTAGATCATTTTCTTGACTCATGGCATCACTTTAGTCATTTATCTACAACCT
CAACTTGATATTAGTCGCTTTCAGACTTGCAACATTGTCAGTTATCCA
Found at i:24081097 original size:115 final size:115
Alignment explanation
Indices: 24080896--24081104 Score: 258
Period size: 115 Copynumber: 1.8 Consensus size: 115
24080886 GAATCATTTT
* * * * * *
24080896 GGTCATTCATCTTTGACCTTGACTTGATCTTGGTTGCTTTCAGACTCACGATATCATCGTAGTTA
1 GGTCATTCATCTTTGACCTAGACTTGATCTTGATCGCTTTCAGACTCACGACATCATCCTAGTCA
* **
24080961 TCCAATCTTAACTCAGTCCAAATCATTTTCCTAACTCGCTCTATCATCTC
66 TCCAATCTCAACTCAACCCAAATCATTTTCCTAACTCGCTCTATCATCTC
* * **
24081011 GGTCATTCATCTTTGACCTCAG-CTTGATCTTGATCGCTTTTAGACTTACGACATTGTCCTAGTC
1 GGTCATTCATCTTTGACCT-AGACTTGATCTTGATCGCTTTCAGACTCACGACATCATCCTAGTC
* * *
24081075 ATTCAATCTCGATTCAACCCAAATCATTTT
65 ATCCAATCTCAACTCAACCCAAATCATTTT
24081105 TTCAACTAGC
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
115 76 0.99
116 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (115 bp):
GGTCATTCATCTTTGACCTAGACTTGATCTTGATCGCTTTCAGACTCACGACATCATCCTAGTCA
TCCAATCTCAACTCAACCCAAATCATTTTCCTAACTCGCTCTATCATCTC
Found at i:24081340 original size:13 final size:13
Alignment explanation
Indices: 24081322--24081351 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24081312 TTATAATATG
24081322 TTATAGTATAATA
1 TTATAGTATAATA
*
24081335 TTATAGTATAGTA
1 TTATAGTATAATA
24081348 TTAT
1 TTAT
24081352 TCTTAGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
TTATAGTATAATA
Found at i:24081458 original size:3 final size:3
Alignment explanation
Indices: 24081450--24081506 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
24081440 ATACTAGTAC
* *
24081450 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TATT TAT TTT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT
*
24081497 TAT TTT TAT T
1 TAT TAT TAT T
24081507 TTTTTTCTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 40 0.85
4 7 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TAT
Found at i:24081475 original size:35 final size:35
Alignment explanation
Indices: 24081385--24081476 Score: 84
Period size: 35 Copynumber: 2.7 Consensus size: 35
24081375 AGTATAGCAA
* * *
24081385 ATTA-TATTATATATTGTTA-TATAGTAGTATTATT
1 ATTATTATTAT-TATTATTATTATACTAGTACTATT
* *
24081419 GTTTTTA-TATTA-TAGTATATTATACTAGTACTATT
1 ATTATTATTATTATTA-T-TATTATACTAGTACTATT
24081454 ATTATTATTATTATTATTATTAT
1 ATTATTATTATTATTATTATTAT
24081477 TATTTATTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
32 1 0.02
33 3 0.07
34 7 0.16
35 26 0.58
36 6 0.13
37 2 0.04
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.58
Consensus pattern (35 bp):
ATTATTATTATTATTATTATTATACTAGTACTATT
Found at i:24081517 original size:26 final size:26
Alignment explanation
Indices: 24081450--24081507 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
24081440 ATACTAGTAC
*
24081450 TATTA-TTA-TTATTATTATTATTAT
1 TATTATTTATTTATTTTTATTATTAT
*
24081474 TATTATTTATTTATTTTTATTTTTAT
1 TATTATTTATTTATTTTTATTATTAT
*
24081500 TTTTATTT
1 TATTATTT
24081508 TTTTTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 21 0.72
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (26 bp):
TATTATTTATTTATTTTTATTATTAT
Found at i:24082333 original size:8 final size:7
Alignment explanation
Indices: 24082317--24082395 Score: 61
Period size: 8 Copynumber: 10.3 Consensus size: 7
24082307 TTCCACTTTC
24082317 TTTTTAT
1 TTTTTAT
24082324 TTTTTGAT
1 TTTTT-AT
*
24082332 TTCATT-T
1 TT-TTTAT
24082339 TTTTTATT
1 TTTTTA-T
24082347 TTTTTATT
1 TTTTTA-T
24082355 TTTTTATTT
1 TTTTTA--T
24082364 TTTTTAAT
1 TTTTT-AT
*
24082372 TTTTTAA
1 TTTTTAT
24082379 TTTTTAGT
1 TTTTTA-T
24082387 TTTTTAT
1 TTTTTAT
24082394 TT
1 TT
24082396 AATTTTAATG
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.03
7 18 0.30
8 31 0.51
9 9 0.15
10 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.03, T:0.81
Consensus pattern (7 bp):
TTTTTAT
Found at i:24082334 original size:18 final size:16
Alignment explanation
Indices: 24082317--24082395 Score: 60
Period size: 15 Copynumber: 5.0 Consensus size: 16
24082307 TTCCACTTTC
24082317 TTTTTATTTTTTGA-TT
1 TTTTTATTTTTT-ATTT
**
24082333 TCATT-TTTTTTA-TT
1 TTTTTATTTTTTATTT
24082347 TTTTTATTTTTTTATTT
1 TTTTTA-TTTTTTATTT
*
24082364 TTTTTAATTTTTTA--A
1 TTTTT-ATTTTTTATTT
24082379 TTTTTAGTTTTTTATTT
1 TTTTTA-TTTTTTATTT
24082396 AATTTTAATG
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 7 0.14
15 18 0.36
16 10 0.20
17 14 0.28
18 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTTTATTT
Found at i:24082356 original size:16 final size:16
Alignment explanation
Indices: 24082337--24082395 Score: 75
Period size: 17 Copynumber: 3.7 Consensus size: 16
24082327 TTGATTTCAT
24082337 TTTTTTTATTTTTTTA
1 TTTTTTTATTTTTTTA
24082353 TTTTTTTATTTTTTTTA
1 TTTTTTTA-TTTTTTTA
* *
24082370 ATTTTTTA-ATTTTTA
1 TTTTTTTATTTTTTTA
*
24082385 GTTTTTTATTT
1 TTTTTTTATTT
24082396 AATTTTAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.35
16 9 0.24
17 15 0.41
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTTATTTTTTTA
Found at i:24082363 original size:25 final size:24
Alignment explanation
Indices: 24082317--24082404 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
24082307 TTCCACTTTC
* *
24082317 TTTTTA-TTTTTTGA-TTTCATTT
1 TTTTTATTTTTTTAATTTTTATTT
*
24082339 TTTTTATTTTTTTATTTTTTTATTT
1 TTTTTATTTTTTTA-ATTTTTATTT
* *
24082364 TTTTTAATTTTTTAATTTTTA-GT
1 TTTTTATTTTTTTAATTTTTATTT
24082387 TTTTTATTTAATTTTAAT
1 TTTTTATTT--TTTTAAT
24082405 GGCTTTTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 6 0.11
23 15 0.28
24 6 0.11
25 27 0.50
ACGTcount: A:0.18, C:0.01, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTATTTTTTTAATTTTTATTT
Found at i:24082373 original size:26 final size:27
Alignment explanation
Indices: 24082317--24082401 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 27
24082307 TTCCACTTTC
*
24082317 TTTTTATTTTTTGATTTCATTTTTTTT-AT
1 TTTTTAATTTTT-A-TT-ATTTTTTTTAAT
*
24082346 TTTTTTATTTTT-TTATTTTTTTTAAT
1 TTTTTAATTTTTATTATTTTTTTTAAT
*
24082372 TTTTTAATTTTTAGTT-TTTTATTTAAT
1 TTTTTAATTTTTA-TTATTTTTTTTAAT
24082399 TTT
1 TTT
24082402 AATGGCTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
25 9 0.18
26 15 0.31
27 13 0.27
28 2 0.04
29 10 0.20
ACGTcount: A:0.16, C:0.01, G:0.02, T:0.80
Consensus pattern (27 bp):
TTTTTAATTTTTATTATTTTTTTTAAT
Found at i:24082383 original size:33 final size:33
Alignment explanation
Indices: 24082338--24082404 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 33
24082328 TGATTTCATT
* * *
24082338 TTTTTTATTTTTTTATTTTTTTATTT-TTTTTAA
1 TTTTTTA-ATTTTTAGTTTTTTATTTAATTTTAA
24082371 TTTTTTAATTTTTAGTTTTTTATTTAATTTTAA
1 TTTTTTAATTTTTAGTTTTTTATTTAATTTTAA
24082404 T
1 T
24082405 GGCTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.79
Consensus pattern (33 bp):
TTTTTTAATTTTTAGTTTTTTATTTAATTTTAA
Found at i:24082391 original size:9 final size:8
Alignment explanation
Indices: 24082337--24082395 Score: 75
Period size: 8 Copynumber: 7.4 Consensus size: 8
24082327 TTGATTTCAT
24082337 TTTTTTTA
1 TTTTTTTA
24082345 TTTTTTTA
1 TTTTTTTA
24082353 TTTTTTTA
1 TTTTTTTA
24082361 TTTTTTTTA
1 -TTTTTTTA
*
24082370 ATTTTTTA
1 TTTTTTTA
*
24082378 -ATTTTTA
1 TTTTTTTA
*
24082385 GTTTTTTA
1 TTTTTTTA
24082393 TTT
1 TTT
24082396 AATTTTAATG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.13
8 31 0.69
9 8 0.18
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Done.