Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 56 of 141
Found at i:16716276 original size:11 final size:12
Alignment explanation
Indices: 16716262--16716324 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 12
16716252 TTAAATATGG
16716262 ATTTGAGA-GAA
1 ATTTGAGAGGAA
*
16716273 ATTTGAAAGGAA
1 ATTTGAGAGGAA
16716285 A-TTGAGA--ACA
1 ATTTGAGAGGA-A
16716295 ATTTGAGAGGAA
1 ATTTGAGAGGAA
*
16716307 A-TTGAAAGGAA
1 ATTTGAGAGGAA
16716318 A-TTGAGA
1 ATTTGAGA
16716325 AAGGATTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 1 0.02
10 2 0.05
11 33 0.77
12 6 0.14
13 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.27, T:0.24
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:16716289 original size:22 final size:22
Alignment explanation
Indices: 16716264--16716329 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
16716254 AAATATGGAT
16716264 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
*
16716286 TTGAGA-ACAATTTGAGAGGAAA
1 TTGAGAGA-AATTTGAAAGGAAA
* *
16716308 TTGAAAGGAAATTGAGAAAGGA
1 TTGAGA-GAAATT-TGAAAGGA
16716330 TTAATTTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 24 0.67
23 4 0.11
24 7 0.19
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:16716312 original size:33 final size:33
Alignment explanation
Indices: 16716262--16716325 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
16716252 TTAAATATGG
16716262 ATTTGAGAGAAATTTGAAAGGAAATTGAGAACA
1 ATTTGAGAGAAATTTGAAAGGAAATTGAGAACA
16716295 ATTTGAGAGGAAA-TTGAAAGGAAATTGAGAA
1 ATTTGAGA-GAAATTTGAAAGGAAATTGAGAA
16716326 AGGATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.27, T:0.23
Consensus pattern (33 bp):
ATTTGAGAGAAATTTGAAAGGAAATTGAGAACA
Found at i:16722644 original size:31 final size:30
Alignment explanation
Indices: 16722575--16722647 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
16722565 AAATGATAAT
* *
16722575 GTTAAATGA-TAAAATTGAAAATTTTTATA
1 GTTAAATGATTAAAATTAAAAATTTTTACA
* *
16722604 ATTTAATGATTAAAA-TAAAAATATGTTTACA
1 GTTAAATGATTAAAATTAAAAAT-T-TTTACA
16722635 GTTAAATGATTAA
1 GTTAAATGATTAA
16722648 TTATATAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 13 0.37
30 6 0.17
31 16 0.46
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (30 bp):
GTTAAATGATTAAAATTAAAAATTTTTACA
Found at i:16746208 original size:17 final size:18
Alignment explanation
Indices: 16746186--16746256 Score: 85
Period size: 17 Copynumber: 4.1 Consensus size: 18
16746176 TTTATTTAAT
16746186 ATATAATAATATAAT-TA
1 ATATAATAATATAATATA
16746203 ATATAATTAATATAATATA
1 ATATAA-TAATATAATATA
* *
16746222 ATAT-ATTATATTATATA
1 ATATAATAATATAATATA
*
16746239 ATAAAATAATAT-ATATA
1 ATATAATAATATAATATA
16746256 A
1 A
16746257 AACATAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 25 0.53
18 16 0.34
19 6 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAATAATATAATATA
Found at i:16746209 original size:5 final size:5
Alignment explanation
Indices: 16746182--16746256 Score: 72
Period size: 5 Copynumber: 15.6 Consensus size: 5
16746172 TTAGTTTATT
16746182 TAATA T-ATAA TAATA TAAT- TAATA TAAT- TAATA TAATA TAATA TATTATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA--ATA
*
16746232 TTATA TAATA -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAATA TAATA TAA
16746257 AACATAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
3 1 0.02
4 18 0.31
5 34 0.58
6 2 0.03
7 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:16750410 original size:17 final size:17
Alignment explanation
Indices: 16750388--16750421 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16750378 TCACTTAGTG
16750388 GTAATCCTTCATAGTAA
1 GTAATCCTTCATAGTAA
16750405 GTAATCCTTCATAGTAA
1 GTAATCCTTCATAGTAA
16750422 TTGAATACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
GTAATCCTTCATAGTAA
Found at i:16753764 original size:2 final size:2
Alignment explanation
Indices: 16753757--16753851 Score: 163
Period size: 2 Copynumber: 47.5 Consensus size: 2
16753747 AATCATTAAT
*
16753757 AC AC AC AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* *
16753799 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC AC AC GC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
16753841 AC AC AC AC AC A
1 AC AC AC AC AC A
16753852 TCATCATCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 87 1.00
ACGTcount: A:0.52, C:0.47, G:0.01, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16756495 original size:26 final size:26
Alignment explanation
Indices: 16756466--16756516 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16756456 TATTTTTTAT
*
16756466 ATACTTTATAATTTAT-ATATATATAC
1 ATAC-TTACAATTTATAATATATATAC
*
16756492 ATACTTACATTTTATAATATATATA
1 ATACTTACAATTTATAATATATATA
16756517 TACATATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
ATACTTACAATTTATAATATATATAC
Found at i:16756505 original size:41 final size:38
Alignment explanation
Indices: 16756432--16756507 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 38
16756422 TTATTATAAT
* **
16756432 TTTATATTTTATAATATACTTACTTATTTTTTATATAC
1 TTTATATTTTATAATATACATACTTACATTTTATATAC
16756470 TTTATAATTTATATATATATACATACTTACATTTTATA
1 TTTAT-ATTT-TATA-ATATACATACTTACATTTTATA
16756508 ATATATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 5 0.16
39 4 0.12
40 4 0.12
41 19 0.59
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (38 bp):
TTTATATTTTATAATATACATACTTACATTTTATATAC
Found at i:16756771 original size:35 final size:34
Alignment explanation
Indices: 16756694--16756771 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 34
16756684 CCTTTTTTAT
* *
16756694 ATATATAGTTTTTATATTTTATAATTCGCATATAC
1 ATATATATTTTTTATATTTTACAATTCG-ATATAC
*
16756729 ATGTATATTTTTCGTATATTTTACAATTCG-TATAC
1 ATATATATTTTT--TATATTTTACAATTCGATATAC
16756764 ATATATAT
1 ATATATAT
16756772 ATTAGAGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 22 0.59
37 15 0.41
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.51
Consensus pattern (34 bp):
ATATATATTTTTTATATTTTACAATTCGATATAC
Found at i:16756773 original size:37 final size:35
Alignment explanation
Indices: 16756692--16756774 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
16756682 CCCCTTTTTT
* * *
16756692 ATATATATAGTTTTTATATTTTATAATTCGCATAT
1 ATATATATATTTTTTATATTTTACAATTCGCATAC
* * *
16756727 ACATGTATATTTTTCGTATATTTTACAATTCGTATAC
1 ATATATATATTTTT--TATATTTTACAATTCGCATAC
16756764 ATATATATATT
1 ATATATATATT
16756775 AGAGGTGCCG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 11 0.29
37 27 0.71
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (35 bp):
ATATATATATTTTTTATATTTTACAATTCGCATAC
Found at i:16756979 original size:12 final size:11
Alignment explanation
Indices: 16756952--16757012 Score: 60
Period size: 11 Copynumber: 5.9 Consensus size: 11
16756942 TATTTTTTAA
16756952 TTTTAAAATAT
1 TTTTAAAATAT
16756963 TTTTAAAATACT
1 TTTTAAAATA-T
* *
16756975 TTTTAAAAAAA
1 TTTTAAAATAT
16756986 TTTT---A-A-
1 TTTTAAAATAT
16756992 TTTTAAAATAT
1 TTTTAAAATAT
16757003 TTTTAAAATA
1 TTTTAAAATA
16757013 CGTTTTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 4 0.10
7 1 0.02
8 1 0.02
9 1 0.02
10 1 0.02
11 24 0.57
12 10 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16757040 original size:22 final size:22
Alignment explanation
Indices: 16756999--16757058 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
16756989 TAATTTTAAA
**
16756999 ATATTTTTAAAATACGTTTTTT
1 ATATTTTTAAAATAAATTTTTT
16757021 A-ATTTTTAAAATAAATTTTTT
1 ATATTTTTAAAATAAATTTTTT
16757042 ATATTTATTAAAA-AAAT
1 ATATTT-TTAAAATAAAT
16757059 GGGCAGGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 19 0.56
22 9 0.26
23 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTTTTAAAATAAATTTTTT
Found at i:16757300 original size:8 final size:8
Alignment explanation
Indices: 16757287--16757325 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
16757277 CTCATATATC
16757287 TTTTTATA
1 TTTTTATA
16757295 TTTTTATA
1 TTTTTATA
16757303 TTTTTATA
1 TTTTTATA
16757311 TTTTTATA
1 TTTTTATA
16757319 TTTTTAT
1 TTTTTAT
16757326 TCATTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTATA
Found at i:16757339 original size:13 final size:13
Alignment explanation
Indices: 16757321--16757371 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
16757311 TTTTTATATT
16757321 TTTATTCATTTTC
1 TTTATTCATTTTC
*
16757334 TTTATTCA-TTTA
1 TTTATTCATTTTC
16757346 TTTATTTACATTTTC
1 TTTA-TT-CATTTTC
*
16757361 ATTATT-ATTTT
1 TTTATTCATTTT
16757372 GAGAGAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 12 0.38
13 10 0.31
14 4 0.12
15 6 0.19
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTCATTTTC
Found at i:16757745 original size:74 final size:74
Alignment explanation
Indices: 16757666--16757809 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 74
16757656 TCTTTTCAAA
** *
16757666 CTCAAGTTTTAAACGATCTCGGGAATCAAGAAGAGACCATGTCCTAACTTACTGGACATGATCCC
1 CTCAAGTTTTAAACGATCTCAAGAATCAAGAAAAGACCATGTCCTAACTTACTGGACATGATCCC
16757731 TTTTTTTTT
66 TTTTTTTTT
* *** *
16757740 CTCAAGTTTTAAACGATCTCAAGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCC
1 CTCAAGTTTTAAACGATCTCAAGAATCAAGAAAAGACCATGTCCTAACTTACTGGACATGATCCC
16757805 TTTTT
66 TTTTT
16757810 CAAATCCGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (74 bp):
CTCAAGTTTTAAACGATCTCAAGAATCAAGAAAAGACCATGTCCTAACTTACTGGACATGATCCC
TTTTTTTTT
Found at i:16759747 original size:53 final size:54
Alignment explanation
Indices: 16759664--16759775 Score: 156
Period size: 53 Copynumber: 2.1 Consensus size: 54
16759654 TCTTATGATT
* *
16759664 TTTTTAATTTAAAATTTTTAATCTTGATTAAATGTAGTTATTAAATTCATTAAG
1 TTTTGAATTTAAAATTTTTAATCTTGATTAAATGTAGTTATTAAATTAATTAAG
* * *
16759718 TTTTGAATTTTAAA-TTTTAAT-TATTATTAAATGTAGTTGTTAAATTAATTAAG
1 TTTTGAATTTAAAATTTTTAATCT-TGATTAAATGTAGTTATTAAATTAATTAAG
16759771 TTTTG
1 TTTTG
16759776 TTGTTTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 1 0.02
53 39 0.75
54 12 0.23
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (54 bp):
TTTTGAATTTAAAATTTTTAATCTTGATTAAATGTAGTTATTAAATTAATTAAG
Found at i:16767400 original size:29 final size:30
Alignment explanation
Indices: 16767357--16767417 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
16767347 TTAACAACCC
* **
16767357 AGTGACTTAAATAAAAGCTTTTGCATAGTTT
1 AGTGACTT-AATAAAAACTTTTAAATAGTTT
16767388 AGTGACTT-ATAAAAACTTTTAAATAGTTT
1 AGTGACTTAATAAAAACTTTTAAATAGTTT
16767417 A
1 A
16767418 ATGGCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
31 8 0.30
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (30 bp):
AGTGACTTAATAAAAACTTTTAAATAGTTT
Found at i:16767943 original size:3 final size:3
Alignment explanation
Indices: 16767937--16767983 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
16767927 AAGAAGACAG
* *
16767937 ATA ATA ATA ATA ATA CTA ATA ATA ATA GTA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16767984 GATGATGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16768687 original size:28 final size:28
Alignment explanation
Indices: 16768651--16768725 Score: 134
Period size: 28 Copynumber: 2.7 Consensus size: 28
16768641 TAAAAAAAAA
16768651 ATTTACCAAAATAT-TACAACTTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTTT
16768679 ATTTACCAAAATATATAAACTTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTT
16768707 ATTTACCAAAATATATAAA
1 ATTTACCAAAATATATAAA
16768726 AAAACAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 44 0.96
29 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTACCAAAATATATAAACTTTTTTTT
Found at i:16768806 original size:27 final size:27
Alignment explanation
Indices: 16768767--16768842 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
16768757 TACTGGTCAC
*
16768767 GCCAATGGAATTGGCGGCACCAAAGGT
1 GCCAATGCAATTGGCGGCACCAAAGGT
* *
16768794 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGGCACCAAAGGT
* *
16768821 GCC-ATACTAATTGGTGGCACCA
1 GCCAATGC-AATTGGCGGCACCA
16768843 CTCGTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (27 bp):
GCCAATGCAATTGGCGGCACCAAAGGT
Found at i:16769000 original size:19 final size:21
Alignment explanation
Indices: 16768962--16769000 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
16768952 AATAATTGAT
*
16768962 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
16768983 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
16769001 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:16769079 original size:3 final size:3
Alignment explanation
Indices: 16769073--16769098 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16769063 ATTATTATTA
16769073 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
16769099 AGTATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:16769357 original size:12 final size:12
Alignment explanation
Indices: 16769340--16769370 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16769330 ATAATTTTAG
16769340 TGTGTATTATTT
1 TGTGTATTATTT
16769352 TGTGTATTATTT
1 TGTGTATTATTT
*
16769364 TGAGTAT
1 TGTGTAT
16769371 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (12 bp):
TGTGTATTATTT
Found at i:16769973 original size:18 final size:18
Alignment explanation
Indices: 16769930--16769974 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16769920 TTGACATGGT
*
16769930 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
**
16769948 TGCCGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
16769966 TGGTGGCGA
1 TGGTGGCGA
16769975 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.09, G:0.49, T:0.13
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:16771339 original size:16 final size:16
Alignment explanation
Indices: 16771318--16771353 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16771308 CGGCAAAGAA
16771318 TGACCCGACTTGAGAG
1 TGACCCGACTTGAGAG
16771334 TGACCCGACTTGAGAG
1 TGACCCGACTTGAGAG
16771350 TGAC
1 TGAC
16771354 ATGGAGGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (16 bp):
TGACCCGACTTGAGAG
Found at i:16772475 original size:49 final size:48
Alignment explanation
Indices: 16772418--16772514 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
16772408 ACATGTGAGT
** *
16772418 AACATATAGAAATACCATGTATGTTATGAATATTAGAATAGAAACTTAC
1 AACATATAGAAATACCATGTA-AATACGAATATTAGAATAGAAACTTAC
*
16772467 AACATATAGAAATACCATGTAAATACGGATATTAGAATAGAAACTTAC
1 AACATATAGAAATACCATGTAAATACGAATATTAGAATAGAAACTTAC
16772515 CCCTTCCCGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 23 0.52
49 21 0.48
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.28
Consensus pattern (48 bp):
AACATATAGAAATACCATGTAAATACGAATATTAGAATAGAAACTTAC
Found at i:16773948 original size:144 final size:141
Alignment explanation
Indices: 16773771--16774049 Score: 337
Period size: 144 Copynumber: 2.0 Consensus size: 141
16773761 TAACCCTTAC
16773771 CCCTGCCCTTTGCTCGTATAATTTTCTCAATTTTTATTACTTTAAATAAAAATATATTATTCTCC
1 CCCTGCCCTTTGCTCGTATAATTTTCTCAATTTTTATTACTTTAAATAAAAATATATTATTCTCC
* * * * * *
16773836 TATTTTATTGTTTTAAATTATTTCAGTACATTTTCTTTGAAA-TATTTTGTATTAATTGTTTCTG
66 TATTTTATTATTTTAAATTATTTCACTAAATTTTCTTTCAAATTA-TTTGTATAAATTATTTCTG
16773900 AATTTTAAAAAA
130 AATTTTAAAAAA
* * * * *
16773912 CCCTGCCCTTTGGTCGTATTATTATTTT-TCCGATTTTTATTACTTTCAATAAAACTATATTCTT
1 CCCTGCCCTTTGCTCGTA-TA--ATTTTCT-CAATTTTTATTACTTTAAATAAAAATATATTATT
* ** * * *
16773976 TTTGTATTTTATTATTTTATATTATTTCACTAAATTTTTTTTCCAATTATTTGTATAAATTATTT
62 CTCCTATTTTATTATTTTAAATTATTTCACTAAATTTTCTTTCAAATTATTTGTATAAATTATTT
*
16774041 CTGATTTTT
127 CTGAATTTT
16774050 TTAAAAACAT
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
141 17 0.15
142 2 0.02
143 1 0.01
144 93 0.81
145 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (141 bp):
CCCTGCCCTTTGCTCGTATAATTTTCTCAATTTTTATTACTTTAAATAAAAATATATTATTCTCC
TATTTTATTATTTTAAATTATTTCACTAAATTTTCTTTCAAATTATTTGTATAAATTATTTCTGA
ATTTTAAAAAA
Found at i:16774575 original size:37 final size:38
Alignment explanation
Indices: 16774532--16774729 Score: 121
Period size: 40 Copynumber: 5.2 Consensus size: 38
16774522 CCCCTTTTCT
*
16774532 TCCTTTCTTCCCTCTTCCTTC-TTCTTTTTTTCTCTTC
1 TCCTTTCTTCCTTCTTCCTTCTTTCTTTTTTTCTCTTC
*
16774569 TCCTTTC--CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTC
1 TCCTTTCTTCC-TTC-TTCCTTCTTTCTTT-TTTTCTCTTC
* * *
16774608 T-CTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTC
1 TCCTT-T-C-TTCCTTCTTCCTTCTTTCTTTTTTTCTCTTC
* * * *
16774648 TCCTTTCCTTTCCTT-TTCTTTCCTCTCCTTTCTT-TCTT-
1 TCCTTT-C-TTCCTTCTTCCTT-CTTTCTTTTTTTCTCTTC
* * *
16774686 T-CTTTCTTTCTT-TTCTCTCCTTTCTTTCTTT-TC-TC
1 TCCTTTCTTCCTTCTTC-CTTCTTTCTTTTTTTCTCTTC
16774721 TCCTTTCTT
1 TCCTTTCTT
16774730 TCTTTCCCTC
Statistics
Matches: 131, Mismatches: 16, Indels: 29
0.74 0.09 0.16
Matches are distributed among these distances:
34 1 0.01
35 21 0.16
36 11 0.08
37 18 0.14
38 10 0.08
39 21 0.16
40 30 0.23
41 15 0.11
42 3 0.02
43 1 0.01
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (38 bp):
TCCTTTCTTCCTTCTTCCTTCTTTCTTTTTTTCTCTTC
Found at i:16774592 original size:18 final size:17
Alignment explanation
Indices: 16774571--16774735 Score: 80
Period size: 18 Copynumber: 9.6 Consensus size: 17
16774561 TTCTCTTCTC
16774571 CTTTCCCTTTCTTTCCTT
1 CTTT-CCTTTCTTTCCTT
*
16774589 CTTT-CTTTCTTT-TTT
1 CTTTCCTTTCTTTCCTT
*
16774604 C-TTCTCTTCTCCTTTTCTT
1 CTTTC-CTT-T-CTTTCCTT
16774623 C-TT-CTTTCTTTCCTT
1 CTTTCCTTTCTTTCCTT
*
16774638 -TTT--TCTCTTCTCCTTT
1 CTTTCCTTTCTT-TCC-TT
16774654 CCTTTCCTTTTCTTTCCTCT
1 -CTTTCC-TTTCTTTCCT-T
*
16774674 CCTTT-CTTTCTTTCTTT
1 -CTTTCCTTTCTTTCCTT
* *
16774691 CTTTCTTTTCTCTCCTTT
1 CTTTCCTTTCTTTCC-TT
* *
16774709 CTTTCTTTTCTCTCCTTT
1 CTTTCCTTTCTTTCC-TT
16774727 CTTT-CTTTC
1 CTTTCCTTTC
16774736 CCTCCTTCTG
Statistics
Matches: 121, Mismatches: 10, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
14 7 0.06
15 15 0.12
16 18 0.15
17 16 0.13
18 44 0.36
19 7 0.06
20 9 0.07
21 5 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
CTTTCCTTTCTTTCCTT
Found at i:16774594 original size:4 final size:4
Alignment explanation
Indices: 16774577--16774735 Score: 103
Period size: 4 Copynumber: 37.2 Consensus size: 4
16774567 TCTCCTTTCC
*
16774577 CTTT CTTT CCTT CTTT CTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
*
16774623 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTT CCTTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -CTTT -C-TTT CTTT
* *
16774669 CCTCTC CTTT CTTT CTTT CTTT CTTT CTTTT CTCTC CTTT CTTT CTTTT
1 -CT-TT CTTT CTTT CTTT CTTT CTTT C-TTT CT-TT CTTT CTTT C-TTT
*
16774718 CTCTC CTTT CTTT CTTT C
1 CT-TT CTTT CTTT CTTT C
16774736 CCTCCTTCTG
Statistics
Matches: 127, Mismatches: 10, Indels: 36
0.73 0.06 0.21
Matches are distributed among these distances:
3 12 0.09
4 69 0.54
5 39 0.31
6 7 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:16774644 original size:30 final size:28
Alignment explanation
Indices: 16774571--16774732 Score: 84
Period size: 30 Copynumber: 5.5 Consensus size: 28
16774561 TTCTCTTCTC
*
16774571 CTTTCCCTTTCTTTCCTTCTTTC-TTTCTTT
1 CTTT-CCTTT-TTT-CTCCTTTCTTTTCTTT
*
16774601 -TTT-CTTCTCTTCTCCTTTTCTTCTTCTTT
1 CTTTCCTT-TTTTCTCC-TTTCTT-TTCTTT
*
16774630 CTTTCCTTTTTTCT-CTTCTCCTTTCCTTT
1 CTTTCCTTTTTTCTCCTT-T-CTTTTCTTT
* **
16774659 CCTTTTCTTTCCTCTCCTTTC-TTTCTTT
1 -CTTTCCTTTTTTCTCCTTTCTTTTCTTT
*
16774687 CTTTCTTTCTTTTCTCTCCTTTC-TTTCTTTT
1 CTTTC---CTTTTTTCTCCTTTCTTTTC-TTT
*
16774718 CTCTCCTTTCTTTCT
1 CTTTCCTTT-TTTCT
16774733 TTCCCTCCTT
Statistics
Matches: 105, Mismatches: 12, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
26 3 0.03
27 13 0.12
28 14 0.13
29 21 0.20
30 41 0.39
31 13 0.12
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (28 bp):
CTTTCCTTTTTTCTCCTTTCTTTTCTTT
Found at i:16774650 original size:79 final size:79
Alignment explanation
Indices: 16774527--16774722 Score: 217
Period size: 79 Copynumber: 2.5 Consensus size: 79
16774517 TTTTTCCCCT
* ** * *
16774527 TTTCTTCCTTTCTTCCCTCTTCCTTC-TTCTTTTTTTCTCTTCTCCTTTCCCTTT-C-TTTCCTT
1 TTTCTTTCTTTCTTTTCTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTT-CCTTTCCTTTTCCTT
*
16774589 -CT-TTCTTTCTTT-
65 CCTCTCCTTTCTTTC
16774601 TTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTCCTTTTC
1 TTTCTT-TCTT-T-CTTTTC-TCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTCCTTTTC
*
16774666 TTTCCTCTCCTTTCTTTC
62 CTTCCTCTCCTTTCTTTC
* *
16774684 TTTCTTTCTTTCTTTTCTCTCCTTTCTTT-CTTTTCTCTC
1 TTTCTTTCTTTCTTTTCTCTTCTTTCTTTCCTTTTTTCTC
16774723 CTTTCTTTCT
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
74 6 0.06
75 3 0.03
76 1 0.01
77 4 0.04
78 22 0.21
79 33 0.32
80 12 0.12
81 3 0.03
82 13 0.13
83 6 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (79 bp):
TTTCTTTCTTTCTTTTCTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCCTTC
CTCTCCTTTCTTTC
Found at i:16774651 original size:35 final size:36
Alignment explanation
Indices: 16774537--16774736 Score: 131
Period size: 35 Copynumber: 5.8 Consensus size: 36
16774527 TTTCTTCCTT
* * *
16774537 TCTTC-CCTCTTCCTTCTTCTTT-TTTTCTCTTCTCC
1 TCTTCTCCT-TTCCTTCTTCTTTCTTTCCTTTTCTTC
* *
16774572 T-TTC-CCTTTCTTTCCTTCTTTCTTTCTTTTTTCTTC
1 TCTTCTCCTTTCCTT-CTTCTTTCTTTC-CTTTTCTTC
*
16774608 TCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTT-TTC
1 TCTTCTCCTTTCCTTCTTCTTTCTTTCCTTTTCTTC
* * *
16774643 TCTTCTCCTTTCCTT-TCCTTTTCTTTCCTCTCCTT-
1 TCTTCTCCTTTCCTTCTTC-TTTCTTTCCTTTTCTTC
* *
16774678 TCTT-T-CTTTCTTTCTTTCTTTTCTCTCC-TTTCTT-
1 TCTTCTCCTTTCCTTC-TTC-TTTCTTTCCTTTTCTTC
* *
16774712 TCTT-TTCTCTCC-T-TTCTTTCTTTCC
1 TCTTCTCCTTTCCTTCTTCTTTCTTTCC
16774737 CTCCTTCTGC
Statistics
Matches: 135, Mismatches: 20, Indels: 24
0.75 0.11 0.13
Matches are distributed among these distances:
31 8 0.06
32 3 0.02
33 12 0.09
34 26 0.19
35 51 0.38
36 13 0.10
37 15 0.11
38 7 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (36 bp):
TCTTCTCCTTTCCTTCTTCTTTCTTTCCTTTTCTTC
Found at i:16774727 original size:9 final size:9
Alignment explanation
Indices: 16774687--16774742 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
16774677 TTCTTTCTTT
*
16774687 CTTTCTTTC
1 CTTTCTCTC
*
16774696 TTTTCTCTC
1 CTTTCTCTC
*
16774705 CTTTCTTTC
1 CTTTCTCTC
*
16774714 TTTTCTCTC
1 CTTTCTCTC
*
16774723 CTTTCT-TT
1 CTTTCTCTC
*
16774731 CTTTCCCTC
1 CTTTCTCTC
16774740 CTT
1 CTT
16774743 CTGCCCCCAC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
8 6 0.17
9 30 0.83
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (9 bp):
CTTTCTCTC
Found at i:16774730 original size:22 final size:22
Alignment explanation
Indices: 16774527--16774735 Score: 95
Period size: 22 Copynumber: 9.5 Consensus size: 22
16774517 TTTTTCCCCT
* **
16774527 TTTCTTCCTTTCTTCCCTCTTCC
1 TTTCTTTCTTTCTTTTCTC-TCC
*
16774550 -TTC-TTCTTTTTTTCTCTTCTCC
1 TTTCTTTCTTTCTTT-TC-TCTCC
* *
16774572 TTTCCCTTTCTTTC-CTTCT-TTC
1 TTT--CTTTCTTTCTTTTCTCTCC
*
16774594 TTTCTTT-TTTCTTCTCTTCTCC
1 TTTCTTTCTTTCTTTTC-TCTCC
*
16774616 TTT-TCTTC-TTC-TTTCTTTCC
1 TTTCT-TTCTTTCTTTTCTCTCC
*
16774636 TTT-TTTCTCTTCTCCTTTCCTTTCC
1 TTTCTTTCT-TTCT--TTT-CTCTCC
* * *
16774661 TTTTCTTTCCTCTCCTTTCT-TTC
1 -TTTCTTT-CTTTCTTTTCTCTCC
16774684 TTTCTTTCTTTCTTTTCTCT-C
1 TTTCTTTCTTTCTTTTCTCTCC
16774705 ---CTTTCTTTCTTTTCTCTCC
1 TTTCTTTCTTTCTTTTCTCTCC
16774724 TTTCTTTCTTTC
1 TTTCTTTCTTTC
16774736 CCTCCTTCTG
Statistics
Matches: 144, Mismatches: 17, Indels: 51
0.68 0.08 0.24
Matches are distributed among these distances:
18 17 0.12
19 8 0.06
20 14 0.10
21 25 0.17
22 39 0.27
23 7 0.05
24 7 0.05
25 11 0.08
26 9 0.06
27 5 0.03
28 2 0.01
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTCTTTCTTTCTTTTCTCTCC
Found at i:16774927 original size:28 final size:28
Alignment explanation
Indices: 16774853--16774927 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
16774843 TTTTGGTTTT
*
16774853 TTTATATATTTTGGTAAACAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
16774881 TTTATATATTTTGGTAAATAAAAAAAAG
1 TTTATATATTTTGGTAAATAAAAAAAAG
16774909 TTGTA-ATATTTTGGTAAAT
1 TT-TATATATTTTGGTAAAT
16774928 TTTTATTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 43 0.96
29 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.12, T:0.41
Consensus pattern (28 bp):
TTTATATATTTTGGTAAATAAAAAAAAG
Found at i:16775359 original size:23 final size:25
Alignment explanation
Indices: 16775289--16775481 Score: 123
Period size: 26 Copynumber: 8.1 Consensus size: 25
16775279 CCTTTCTTCC
16775289 CTCTTCTTCTTCTTCTTT-TTTCTCTT
1 CTCTT-TTCTTCTTCTTTCTTTC-CTT
*
16775315 CTCCTTTC--C--CTTTCTTTCCTT
1 CTCTTTTCTTCTTCTTTCTTTCCTT
*
16775336 CT-TTTT-TTCTTTTTTC-TTCTCTT
1 CTCTTTTCTTCTTCTTTCTTTC-CTT
16775359 CTCCTTTTCTTCTTCTTTCTTTCCTT
1 CT-CTTTTCTTCTTCTTTCTTTCCTT
*
16775385 -T-TTTCTCTTCTCCTTTCCTTTCCTT
1 CTCTTT-TCTTCTTCTTT-CTTTCCTT
* * *
16775410 TTC-TTTCCTCTCCTTTCTTT-CTT
1 CTCTTTTCTTCTTCTTTCTTTCCTT
16775433 -TC-TTTC-T-TTCTTTCTTTCC-T
1 CTCTTTTCTTCTTCTTTCTTTCCTT
* *
16775453 CTCCTTTCTTTCTTTCTTTCTTTCTTT
1 CTCTTTTC-TTC-TTCTTTCTTTCCTT
16775480 CT
1 CT
16775482 TTCCCTCCTT
Statistics
Matches: 137, Mismatches: 8, Indels: 43
0.73 0.04 0.23
Matches are distributed among these distances:
20 13 0.09
21 14 0.10
22 17 0.12
23 16 0.12
24 15 0.11
25 26 0.19
26 30 0.22
27 6 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (25 bp):
CTCTTTTCTTCTTCTTTCTTTCCTT
Found at i:16775380 original size:4 final size:4
Alignment explanation
Indices: 16775324--16775484 Score: 125
Period size: 4 Copynumber: 38.2 Consensus size: 4
16775314 TCTCCTTTCC
* *
16775324 CTTT CTTT CCTT CTTT TTTT CTTT -TTT CTTCT CTTCT CCTTT -TCTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T CTT-T -CTTT CT-TT
*
16775370 C-TT CTTT CTTT CCTTT -TTT CTCTT C-TC CTTT CCTTT CCTTTT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CT-TT CTTT CTTT -CTTT -C-TTT CTTT
* *
16775416 CCTCTC CTTT CTTT CTTT CTTT CTTT CTTT CTTT CCTCTC CTTT CTTT
1 -CT-TT CTTT CTTT CTTT CTTT CTTT CTTT CTTT -CT-TT CTTT CTTT
16775464 CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT C
16775485 CCTCCTTCTG
Statistics
Matches: 131, Mismatches: 10, Indels: 32
0.76 0.06 0.18
Matches are distributed among these distances:
3 12 0.09
4 82 0.63
5 29 0.22
6 8 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
CTTT
Found at i:16775398 original size:79 final size:77
Alignment explanation
Indices: 16775290--16775487 Score: 210
Period size: 83 Copynumber: 2.5 Consensus size: 77
16775280 CTTTCTTCCC
*
16775290 TCTTCTTC-TTC-TTCTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCT-T-CTTTTTTTCTTT-TT
1 TCTTCTTCTTTCTTTCTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTCTCCTTTCTTTCTTTCTT
16775350 TCTTCTCTTCTCCTTT
66 TCTT-TCTT-T-C-TT
16775366 TCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCTTTCCTCTCCTTTCTTTC
1 TCTTCTTCTTTCTTT-CTTTTTTCTCTTCTCCTTT-C---CC-TTTCTTTCCTCTCCTTTCTTTC
16775431 TTTCTTTCTTTCTTTCTT
60 TTTCTTTCTTTCTTTCTT
* * *
16775449 TCCTCTCCTTTCTTTCTTTCTTTCT-TTCTTTCTTTCCCT
1 TCTTCTTCTTTCTTTCTTT-TTTCTCTTC-TCCTTTCCCT
16775488 CCTTCTGCCC
Statistics
Matches: 105, Mismatches: 4, Indels: 24
0.79 0.03 0.18
Matches are distributed among these distances:
76 8 0.08
77 3 0.03
78 3 0.03
79 21 0.20
80 1 0.01
82 8 0.08
83 27 0.26
84 11 0.10
85 2 0.02
86 15 0.14
87 6 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (77 bp):
TCTTCTTCTTTCTTTCTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTCTCCTTTCTTTCTTTCTT
TCTTTCTTTCTT
Found at i:16775445 original size:30 final size:30
Alignment explanation
Indices: 16775334--16775480 Score: 133
Period size: 30 Copynumber: 4.8 Consensus size: 30
16775324 CTTTCTTTCC
* *
16775334 TTCTTTTTTTCTTT-TTTCTTCTCTTCTCCTT
1 TTCTTTCTTTCTTTCTTTCTT-TCCTCTCC-T
16775365 TTCTTCTTCTTTCTTTCCTTT-TTTCTCTTCTCCT
1 TTC-T-TTCTTTCTTT-CTTTCTTTC-C-TCTCCT
* * *
16775399 TTCCTTTC-CT-TTTCTTTCCTCTCCT-TTCT
1 TT-CTTTCTTTCTTTCTTT-CTTTCCTCTCCT
16775428 TTCTTTCTTTCTTTCTTTCTTTCCTCTCCT
1 TTCTTTCTTTCTTTCTTTCTTTCCTCTCCT
16775458 TTCTTTCTTTCTTTCTTTCTTTC
1 TTCTTTCTTTCTTTCTTTCTTTC
16775481 TTTCCCTCCT
Statistics
Matches: 96, Mismatches: 8, Indels: 25
0.74 0.06 0.19
Matches are distributed among these distances:
28 5 0.05
29 12 0.12
30 38 0.40
31 7 0.07
32 5 0.05
33 14 0.15
34 6 0.06
35 9 0.09
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (30 bp):
TTCTTTCTTTCTTTCTTTCTTTCCTCTCCT
Found at i:16775452 original size:34 final size:33
Alignment explanation
Indices: 16775371--16775491 Score: 129
Period size: 34 Copynumber: 3.5 Consensus size: 33
16775361 CCTTTTCTTC
**
16775371 TTCTTTCTTTC-CTTTTTTCTCTTC-TCCTTTCCT
1 TTCTTTCTTTCTCTCCTTTCT-TTCTTCCTTT-CT
*
16775404 TTCCTTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCT
1 TT-C-TTTCTTT-CTCTCCTTTCTTTCTTCCTTTCT
*
16775440 TTCTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCT
1 TTCTTTCTTT-CTCTCCTTTCTTTCTTCCTTTCT
*
16775474 TTCTTTCTTTCCCTCCTT
1 TTCTTTCTTTCTCTCCTT
16775492 CTGCCCTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
33 9 0.11
34 42 0.53
35 8 0.10
36 8 0.10
37 12 0.15
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (33 bp):
TTCTTTCTTTCTCTCCTTTCTTTCTTCCTTTCT
Found at i:16775644 original size:27 final size:27
Alignment explanation
Indices: 16775607--16775703 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
16775597 GATTTTTTTG
16775607 ATATATTTTGGTAAATAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAGTTT
16775634 ATATATTTTGGTAAATAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAGTTT
*
16775661 ATATATTTTGGTAAATAAAAAAAATTGT
1 ATATATTTTGGTAAATAAAAAAAGTT-T
16775689 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
16775704 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
27 66 0.97
28 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.41
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAGTTT
Found at i:16775990 original size:782 final size:747
Alignment explanation
Indices: 16774526--16776063 Score: 2421
Period size: 782 Copynumber: 2.0 Consensus size: 747
16774516 TTTTTTCCCC
16774526 TTTTCTTCCTTTCTTCCCTCTTCCTTCTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCT
1 TTTT-TTCCTTTCTTCCCTCTTCCTTCTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCT
16774591 TTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCC
65 TTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCC
16774656 TTTCCTTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCTTTCTTTTCTCTCCTTTCTTTCTTTTCTC
130 TTTCCTTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCTTTCTTTTCTCTCCTTTCTTTCTTTTCTC
16774721 TCCTTTCTTTCTTTCCCTCCTTCTGCCCCCACCACCGACCCCCCCATAATACCAACTGGTGCCCC
195 TCCTTTCTTTCTTTCCCTCCTTCTGCCCCCACCACCGACCCCCCCATAATACCAACTGGTGCCCC
* * *
16774786 AATACCATTGGCGTGACCAGTGAATTGTCACATCGGTCTGATTTTTTTTGCAGGTTTTTTTGGTT
260 AATACCATTGGCGTGACCAGTGAATTGTCACATCGGTCTGATTTTTTTTACAGATTTTTTTGATT
*
16774851 TTTTTATATATTTTGGTAAACAAAAAAAAGTTTATATATTTTGGTAAATAAAAAAAAGTTGTAAT
325 TTTTTATATATTTTGGTAAAAAAAAAAAAGTTTATATATTTTGGTAAATAAAAAAAAGTTGTAAT
16774916 ATTTTGGTAAATTTTTATTTTTTATAATATTTTTGTAAAAAACCCTGAAAATCAATTAAAAACAA
390 ATTTTGGTAAATTTTTATTTTTTATAATATTTTTGTAAAAAACCCTGAAAATCAATTAAAAACAA
*
16774981 AAAAAATAAAAATACTGATTATTCCGTTTATTTTATAAAATAATATTAAAAAATAAAAAATTTAT
455 AAAAAATAAAAATACTGATTATTCCGTTTA-TTTATAAAATAATATTAAAAAAAAAAAAATTTAT
* * *
16775046 AAGATTTAGATTAATTACAAAAATATGTTATTTTTTACCGTGTTTTCGGGTGCTACGAATGTGTC
519 AAGATTTAGATTAATTACAAAAATAGGTTATTTTCTACCGTGTTTTCGGGTGCTACAAATGTGTC
*
16775111 AGGTAGCACCACCCTAAATTTACCCAAAATATCTTACACTGATTTGTTGAAAAAAAATATTTTTT
584 AGGTAGCACCACCCTAAATTTACCCAAAACATCTTACACTGATTTGTTGAAAAAAAATATTTTTT
*
16775176 TAATTGGTGTCGCTTGACAAATTAGTGGCACTAGTATGA-TTTTTTT-AAAATACATATATTTAT
649 TAATTGGTGTCGCTTGACAAATTAGCGGCACTAGTATGATTTTTTTTAAAAATACATATATTTAT
16775239 GAGTTTATATAGCACGAAAATATACGGTACAAAA
714 GAGTTTATATAGCACGAAAATATACGGTACAAAA
16775273 TTTTTTCCTTTCTTCCCTCTT-CTTCTTCTTCTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC
1 TTTTTTCCTTTCTTCCCTCTTCCTTCTTC-T-TTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTC
*
16775337 TTTTTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTC
64 TTTCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTC
16775402 CTTTCCTTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCCTCTCCTTTCTTTC-T
129 CTTTCCTTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCTTTC--T-TTT-CTCTCCTTTCTTTCTT
* *
16775466 TTCT-TTCTTTCTTTCTTTCCCTCCTTCTGCCCTCACCACCGACCCCCCCATAATACCAACTGGT
190 TTCTCTCCTTTCTTTCTTTCCCTCCTTCTGCCCCCACCACCGACCCCCCCATAATACCAACTGGT
16775530 GCCGCCAATACCATTGGCGTGACCAGTGAATTGTCACATCGGTCTGATTTTTTTTACAGATTTTT
255 GCC-CCAATACCATTGGCGTGACCAGTGAATTGTCACATCGGTCTGATTTTTTTTACAGATTTTT
16775595 TTGATTTTTTTGATATATTTTGGTAAATAAAAAAAGTTTATATATTTTGGTAAATAAAAAAAGTT
319 TTGATTTTTTT-ATATATTTT-G------------G----TA-A-------AAA-AAAAAAAGTT
16775660 TATATATTTTGGTAAATAAAAAAAA-TTGTAATATTTTGGTAAATTTTTA-TTTTTATAATATTT
357 TATATATTTTGGTAAATAAAAAAAAGTTGTAATATTTTGGTAAATTTTTATTTTTTATAATATTT
16775723 TTGTAAAAAACCCTGAAAATCAATTAAAAACAAAAAAAATAAAAAAATAAAAAATACTGATTATT
422 TTGTAAAAAACCCTGAAAATCAATTAAAAAC-------A-AAAAAAAT-AAAAATACTGATTATT
16775788 CCG-TTA-TTATAAAATAATATTAAAAAACAAAAAAATTTATAAGATTTAGATTAATTACAAAAA
478 CCGTTTATTTATAAAATAATATTAAAAAA-AAAAAAATTTATAAGATTTAGATTAATTACAAAAA
* *
16775851 TAGGTTATTTTCTACCGTGTTTTCGGGTGCTGCAAATGTGTCAGGTAGCACCACCTTAAATTTAC
542 TAGGTTATTTTCTACCGTGTTTTCGGGTGCTACAAATGTGTCAGGTAGCACCACCCTAAATTTAC
16775916 CCAAAACATCTTACACTGATTTTGTTG-AAAAAAATATTTTTTTAATTGGTGTCGCTTGACAAAT
607 CCAAAACATCTTACACTGA-TTTGTTGAAAAAAAATATTTTTTTAATTGGTGTCGCTTGACAAAT
16775980 TAGCGGCACTAGTATGATTTTTTTTTAAAAATACATATATTTATGAGTTTATATAGCACGAAAAT
671 TAGCGGCACTAGTATGA-TTTTTTTTAAAAATACATATATTTATGAGTTTATATAGCACGAAAAT
* *
16776045 ATACGGTACACAT
735 ATACGGTACAAAA
16776058 TTTTTT
1 TTTTTT
16776064 ACTACCTGAC
Statistics
Matches: 726, Mismatches: 17, Indels: 58
0.91 0.02 0.07
Matches are distributed among these distances:
745 7 0.01
746 18 0.02
747 142 0.20
749 62 0.09
750 77 0.11
751 23 0.03
752 1 0.00
764 1 0.00
768 2 0.00
769 1 0.00
775 45 0.06
776 26 0.04
777 35 0.05
781 21 0.03
782 166 0.23
783 18 0.02
784 26 0.04
785 55 0.08
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (747 bp):
TTTTTTCCTTTCTTCCCTCTTCCTTCTTCTTTTTTTCTCTTCTCCTTTCCCTTTCTTTCCTTCTT
TCTTTCTTTTTTCTTCTCTTCTCCTTTTCTTCTTCTTTCTTTCCTTTTTTCTCTTCTCCTTTCCT
TTCCTTTTCTTTCCTCTCCTTTCTTTCTTTCTTTCTTTCTTTTCTCTCCTTTCTTTCTTTTCTCT
CCTTTCTTTCTTTCCCTCCTTCTGCCCCCACCACCGACCCCCCCATAATACCAACTGGTGCCCCA
ATACCATTGGCGTGACCAGTGAATTGTCACATCGGTCTGATTTTTTTTACAGATTTTTTTGATTT
TTTTATATATTTTGGTAAAAAAAAAAAAGTTTATATATTTTGGTAAATAAAAAAAAGTTGTAATA
TTTTGGTAAATTTTTATTTTTTATAATATTTTTGTAAAAAACCCTGAAAATCAATTAAAAACAAA
AAAAATAAAAATACTGATTATTCCGTTTATTTATAAAATAATATTAAAAAAAAAAAAATTTATAA
GATTTAGATTAATTACAAAAATAGGTTATTTTCTACCGTGTTTTCGGGTGCTACAAATGTGTCAG
GTAGCACCACCCTAAATTTACCCAAAACATCTTACACTGATTTGTTGAAAAAAAATATTTTTTTA
ATTGGTGTCGCTTGACAAATTAGCGGCACTAGTATGATTTTTTTTAAAAATACATATATTTATGA
GTTTATATAGCACGAAAATATACGGTACAAAA
Found at i:16780208 original size:20 final size:20
Alignment explanation
Indices: 16780183--16780223 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16780173 GATCGTTCCT
16780183 TAGTACAACTAGTACTAAAA
1 TAGTACAACTAGTACTAAAA
*
16780203 TAGTACAGCTAGTACTAAAA
1 TAGTACAACTAGTACTAAAA
16780223 T
1 T
16780224 CGACGTTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (20 bp):
TAGTACAACTAGTACTAAAA
Found at i:16783429 original size:13 final size:13
Alignment explanation
Indices: 16783411--16783482 Score: 62
Period size: 13 Copynumber: 5.5 Consensus size: 13
16783401 TTATTTTTGT
16783411 TTTATTATTATTA
1 TTTATTATTATTA
16783424 TTTATTATT-TTA
1 TTTATTATTATTA
16783436 TTTACTTTATTTATTA
1 TTTA--TTA-TTATTA
16783452 CTTTATT-TTA-T-
1 -TTTATTATTATTA
16783463 TTTATTATTTATTA
1 TTTATTA-TTATTA
*
16783477 CTTATT
1 TTTATT
16783483 TGGATATTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 17
0.73 0.01 0.25
Matches are distributed among these distances:
10 6 0.12
12 11 0.22
13 13 0.27
14 8 0.16
15 4 0.08
16 3 0.06
17 4 0.08
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:16783436 original size:21 final size:21
Alignment explanation
Indices: 16783401--16783482 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
16783391 AACCCAATTT
*
16783401 TTATTT-TTGTTTTATTATTA
1 TTATTTATTATTTTATTATTA
*
16783421 TTATTTATTATTTTATTTACT-
1 TTATTTATTATTTTA-TTATTA
*
16783442 TTATTTATTACTTTATT-TTA
1 TTATTTATTATTTTATTATTA
16783462 -T-TTTATTA-TTTATTACTTA
1 TTATTTATTATTTTATTA-TTA
16783481 TT
1 TT
16783483 TGGATATTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
17 6 0.12
18 7 0.13
19 5 0.10
20 9 0.17
21 21 0.40
22 4 0.08
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (21 bp):
TTATTTATTATTTTATTATTA
Found at i:16783470 original size:25 final size:25
Alignment explanation
Indices: 16783410--16783483 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
16783400 TTTATTTTTG
*
16783410 TTTTATTATTATTATTTATTATTTTA
1 TTTTATT-TTATTATTTATTACTTTA
*
16783436 -TTTA--CT-TTATTTATTACTTTA
1 TTTTATTTTATTATTTATTACTTTA
16783457 TTTTATTTTATTATTTATTAC-TTA
1 TTTTATTTTATTATTTATTACTTTA
16783481 TTT
1 TTT
16783484 GGATATTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
21 14 0.34
22 5 0.12
24 7 0.17
25 15 0.37
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTATTTTATTATTTATTACTTTA
Found at i:16783474 original size:17 final size:17
Alignment explanation
Indices: 16783399--16783475 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
16783389 GCAACCCAAT
*
16783399 TTTTATT-TTTGTTTTA
1 TTTTATTATTTATTTTA
16783415 --TTATTA-TTA-TTTA
1 TTTTATTATTTATTTTA
*
16783428 TTATT-TTATTTACTTTA
1 TT-TTATTATTTATTTTA
16783445 -TTTATTACTTTATTTTA
1 TTTTATTA-TTTATTTTA
16783462 TTTTATTATTTATT
1 TTTTATTATTTATT
16783476 ACTTATTTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
13 4 0.08
14 7 0.14
15 5 0.10
16 9 0.18
17 18 0.36
18 7 0.14
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTATTATTTATTTTA
Found at i:16784795 original size:101 final size:101
Alignment explanation
Indices: 16784607--16784793 Score: 243
Period size: 101 Copynumber: 1.8 Consensus size: 101
16784597 GAACATGTTG
* * * *
16784607 GGCTGAGTAACCGAGGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAAGTTCGATCTGTT
1 GGCTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCACATCAAAAAGTTCGATATGTC
*
16784672 CTTAAGAAAAAAATATAATAAATTAGGAGTCTACTA
66 CTAAAGAAAAAAATATAATAAATTAGGAGTCTACTA
* * *
16784708 GGCTGAGTAACCG-GGATGGGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGTTCAGTATAT
1 GGCTGAGTAACCGAGG-TGAGGTGCTTGGCTATCATCTCTCTTCACATCAAAAAGTTC-G-ATAT
16784772 -TCCTAAAGCATAAAAAATATAA
63 GTCCTAAAG-A-AAAAAATATAA
16784794 ATAATAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
100 2 0.03
101 49 0.67
102 7 0.10
103 4 0.05
104 11 0.15
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (101 bp):
GGCTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTCACATCAAAAAGTTCGATATGTC
CTAAAGAAAAAAATATAATAAATTAGGAGTCTACTA
Found at i:16784829 original size:16 final size:15
Alignment explanation
Indices: 16784796--16784844 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
16784786 AAATATAAAT
*
16784796 AATAAATAAAAATCAA
1 AATAAATAAAAA-GAA
16784812 AATAAATAAAAAGGAA
1 AATAAATAAAAA-GAA
* *
16784828 AAAAAAGAAAAAGAA
1 AATAAATAAAAAGAA
16784843 AA
1 AA
16784845 AGAATATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (15 bp):
AATAAATAAAAAGAA
Found at i:16786499 original size:20 final size:20
Alignment explanation
Indices: 16786476--16786529 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
16786466 ATATTATATG
*
16786476 TTTATATTTTATTTTTAATA
1 TTTATATTTTATGTTTAATA
* *
16786496 TTTAGATTTAATGTTTAATA
1 TTTATATTTTATGTTTAATA
16786516 -TTATATTTT-TGTTT
1 TTTATATTTTATGTTT
16786530 GTAAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
20 17 0.59
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (20 bp):
TTTATATTTTATGTTTAATA
Found at i:16790082 original size:39 final size:39
Alignment explanation
Indices: 16789595--16790072 Score: 669
Period size: 39 Copynumber: 12.3 Consensus size: 39
16789585 CGTATTCATT
* * * * *
16789595 TTTAAGCATATATCATATTACACATATAATCGCCTAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
16789634 TTCAAGCATATATCACAATACT-CGTATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
16789673 TTTAAGCATATATAACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
16789712 TTTAAGCATATCTCAAAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
*
16789751 TTTAAGCATATGTCACAATACT-CATATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
16789790 TTTAAGCATATATCACAATATACATATAATCACATAATA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
16789829 TTTAAACATATATCACAATACT-CGTATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
16789868 TTTAAGCATATATCACAATATACATATAATCACATAATA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* * **
16789907 TTTAAACATATATCATAATACT-TGTATAATCACATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
16789946 TTCAAGCATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
* *
16789985 TTTAAGCATATATCACAATACT-CATATAACCAGATAACA
1 TTTAAGCATATATCACAATA-TACATATAATCACATAACA
*
16790024 TTTAAACATATATCACAATATACATATAATCACATAACA
1 TTTAAGCATATATCACAATATACATATAATCACATAACA
16790063 TTTAAGCATA
1 TTTAAGCATA
16790073 AATTGCAATA
Statistics
Matches: 389, Mismatches: 40, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
38 5 0.01
39 380 0.98
40 4 0.01
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATATACATATAATCACATAACA
Found at i:16805168 original size:41 final size:40
Alignment explanation
Indices: 16805093--16805256 Score: 157
Period size: 41 Copynumber: 4.0 Consensus size: 40
16805083 CTTTGAATGT
* * * * * *
16805093 AAGGAGTTGCTAAGTGCAGATTCCGCGAATCATTGATCAAA
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAT-TAA
* *
16805134 AAGGGGTTCCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAA
* * * *
16805174 AAGGTGGTTGTTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGA-T-TAA
* *
16805218 AAGGGGTTGCTATGTGTTGATTCCCCGTACCATTGATTA
1 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTA
16805257 CCGTATCATT
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
40 6 0.06
41 49 0.49
42 21 0.21
43 18 0.18
44 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAA
Found at i:16805266 original size:15 final size:15
Alignment explanation
Indices: 16805242--16805271 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16805232 TGTTGATTCC
16805242 CCGTACCATTGATTA
1 CCGTACCATTGATTA
*
16805257 CCGTATCATTGATTA
1 CCGTACCATTGATTA
16805272 TAAGGTGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (15 bp):
CCGTACCATTGATTA
Found at i:16810218 original size:42 final size:44
Alignment explanation
Indices: 16810127--16810477 Score: 336
Period size: 43 Copynumber: 8.2 Consensus size: 44
16810117 AGAAATAAAT
* * * *
16810127 GCCGCTAAAG-GTCATGACCTTTAGCAGTGCTTTTCCCACAAAC
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* *
16810170 ACCGCTAAAGACT-ATGACCTTTAGCGGCGC-TTTCCTACAATC
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* * *
16810212 GCCGCTAAAGA-TCATGACTTTTAGCGACGC-TTTCCCACAAAC
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCTACAAAC
*
16810254 GCCGCTAAAGACT-ATGACCTTTAGCGGCACTTTTCCTACAAAC
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCTACAAAC
*
16810297 ACCGCTAAAGAC-CATGACCTTTAGCGGCGCTTTTTTCC-ACAAAC
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGC--TTTTCCTACAAAC
* * *
16810341 GCCGCTATAGA-TCAAGACCGTTAGCGGCGCTTTT-CTCACAAAC
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCT-ACAAAC
* * * * ** *
16810384 GCCACTATAGA-TCAAGGCCTTTAGCGGCGCTTTTTGTACAAAT
1 GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCTACAAAC
* * *
16810427 GCCGCTATAGGA--CA-GACCTTTAGTGGCGCTTTTAAC-ACAAAC
1 GCCGCTA-AAGACTCATGACCTTTAGCGGCGCTTTT-CCTACAAAC
16810469 GCCGCTAAA
1 GCCGCTAAA
16810478 AACATATATT
Statistics
Matches: 260, Mismatches: 35, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.01
42 103 0.40
43 113 0.43
44 35 0.13
45 6 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (44 bp):
GCCGCTAAAGACTCATGACCTTTAGCGGCGCTTTTCCTACAAAC
Found at i:16810470 original size:85 final size:86
Alignment explanation
Indices: 16810247--16810471 Score: 226
Period size: 87 Copynumber: 2.6 Consensus size: 86
16810237 GACGCTTTCC
* * * * * * * * *
16810247 CACAAACGCCGCTAAAGA-CTATGACCTTTAGCGGCACTTTT-CCTACAAACACCGCTAAAGACC
1 CACAAACGCCGCTATAGATC-AAGACCGTTAGCGGCGCTTTTAAC-ACAAACGCCACTATAGATC
* *
16810310 ATGACCTTTAGCGGCGCTTTTTT
64 AAGGCCTTTAGCGGCGCTTTTTT
**
16810333 CCACAAACGCCGCTATAGATCAAGACCGTTAGCGGCGCTTTTCTCACAAACGCCACTATAGATCA
1 -CACAAACGCCGCTATAGATCAAGACCGTTAGCGGCGCTTTTAACACAAACGCCACTATAGATCA
16810398 AGGCCTTTAGCGGCGCTTTTTGT
65 AGGCCTTTAGCGGCGCTTTTT-T
* * *
16810421 -ACAAATGCCGCTATAGGA-C-AGACCTTTAGTGGCGCTTTTAACACAAACGCC
1 CACAAACGCCGCTATA-GATCAAGACCGTTAGCGGCGCTTTTAACACAAACGCC
16810472 GCTAAAAACA
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
85 28 0.24
86 15 0.13
87 72 0.61
88 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (86 bp):
CACAAACGCCGCTATAGATCAAGACCGTTAGCGGCGCTTTTAACACAAACGCCACTATAGATCAA
GGCCTTTAGCGGCGCTTTTTT
Found at i:16810807 original size:43 final size:42
Alignment explanation
Indices: 16810742--16810831 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
16810732 CATATGCAAG
* *
16810742 GTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GTAATAAAACATACAATACATTTAT-TTAATCAAGGAAATCTT
* *
16810784 AGTAATAAAAGATATAATACATTTATTTAATCAAGGAAATCTT
1 -GTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
16810827 GTAAT
1 GTAAT
16810832 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 36 0.86
44 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.36
Consensus pattern (42 bp):
GTAATAAAACATACAATACATTTATTTAATCAAGGAAATCTT
Found at i:16814655 original size:21 final size:20
Alignment explanation
Indices: 16814625--16814665 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16814615 TTAAACTCGT
*
16814625 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
16814646 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
16814666 TAATCCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:16814658 original size:290 final size:297
Alignment explanation
Indices: 16814180--16814767 Score: 824
Period size: 290 Copynumber: 2.0 Consensus size: 297
16814170 CAATATATTT
*
16814180 AATTTATTATTATCTCTTTTATAATTATATAAAAACATATTAAAATATAAATTAAAAAAATAATT
1 AATTTATTATTATCTCTTTTACAATTATATAAAAACATATTAAAATATAAATTAAAAAAATAATT
* * ** *
16814245 AATCTAAACCCAAAACCCTAACCCAACCCTTGAATCTTTAAACCCTAAATCCATAACTCTTAACC
66 AATCTAAACCCAAAACCCTAACCCAACCCCTAAATCCCTAAACCCTAAATCCATAACTCCTAACC
*
16814310 CTTAATATCTAACTCCAAAATCCTTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCA
131 CTTAATATCTAACTCCAAAATCCGTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCA
*
16814375 CTAA-AT-TCA-T-A-C-T-CT-TTAAACCTTAAAATA-TGAACTCCTAAACCGGCCTTAAATCT
196 CTAACATATCACTAACCATACTCCTAAACCTTAAAATAGT-AACTCCTAAACCGGCCTTAAATCT
* *
16814431 TAAATTAATCATATACCCTAAACTAAAAACCCTAAACA
260 TAAATAAATCATATACCCTAAACCAAAAACCCTAAACA
*
16814469 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAAT
1 AATTTATTATTATCTCTTTTACAATTATATAAAAACATA-TTAAAATATAAATTAAAAAAATAAT
* *
16814534 TAATCTAAACCCAAAACCCTAACCCGACCCCTAAATCCCTAAACCTTAAATTCC-TAACTCCTAA
65 TAATCTAAACCCAAAACCCTAACCCAACCCCTAAATCCCTAAACCCTAAA-TCCATAACTCCTAA
* *
16814598 -CCTCTAATGTCTAAC-CCTTAAA-CTCGTAACCCCTAAACCTTAAATCCCAACCCTTAAACCAT
129 CCCT-TAATATCTAACTCC-AAAATC-CGTAACCCCTAAACCTTAAATCCCAACCCTTAAACCAT
*
16814660 AATCCCTAATCCATAATCACTAAACCCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCG
191 AATCACTAA--CAT-ATCACT-AA--CCATACT-CCTAAACCTTAAAATAGTAACTCCTAAACCG
16814725 GCCTTAAATCTTAAATAAATCATATACCCTAAACCAAAAACCC
249 GCCTTAAATCTTAAATAAATCATATACCCTAAACCAAAAACCC
16814768 AAAATTATAG
Statistics
Matches: 262, Mismatches: 16, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
289 43 0.16
290 136 0.52
291 3 0.01
293 2 0.01
295 3 0.01
296 1 0.00
298 1 0.00
301 1 0.00
302 1 0.00
303 2 0.01
305 68 0.26
306 1 0.00
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.29
Consensus pattern (297 bp):
AATTTATTATTATCTCTTTTACAATTATATAAAAACATATTAAAATATAAATTAAAAAAATAATT
AATCTAAACCCAAAACCCTAACCCAACCCCTAAATCCCTAAACCCTAAATCCATAACTCCTAACC
CTTAATATCTAACTCCAAAATCCGTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCA
CTAACATATCACTAACCATACTCCTAAACCTTAAAATAGTAACTCCTAAACCGGCCTTAAATCTT
AAATAAATCATATACCCTAAACCAAAAACCCTAAACA
Found at i:16815119 original size:42 final size:41
Alignment explanation
Indices: 16815047--16815242 Score: 198
Period size: 41 Copynumber: 4.8 Consensus size: 41
16815037 TAAAAAGTTT
* * * * * *
16815047 TTAGCGGCGCTTATCCAAAAACACCACTAAAACAATGAGCA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACTGAGCA
* * *
16815088 TTAGTGACGCTTTATTAAAAAAGGCCGCTAAAACACTGAGCA
1 TTAGCGACGCTTT-TTCAAAAACGCCGCTAAAACACTGAGCA
* * * *
16815130 TTAGC-AGCACTTTCTCAAAAATGCAGCTAAAACACTGAGCA
1 TTAGCGA-CGCTTTTTCAAAAACGCCGCTAAAACACTGAGCA
* * *
16815171 TTAGCGGCGCATTTTCAAAAACGCCGCTAAAGC-CTGGAGCA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACT-GAGCA
*
16815212 TTAGCGACGCTTTTCCAAAAACGCCGCTAAA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAA
16815243 GCCTAGAGTT
Statistics
Matches: 126, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.02
41 93 0.74
42 31 0.25
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACTGAGCA
Found at i:16825265 original size:85 final size:85
Alignment explanation
Indices: 16825136--16825314 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
16825126 TTTTTTATTG
*
16825136 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCATTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16825201 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16825221 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16825286 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16825306 CCCATGCTC
1 CCCATGCTC
16825315 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:16829558 original size:9 final size:9
Alignment explanation
Indices: 16829544--16829572 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
16829534 TTCACCTAGC
16829544 TTGTGTAAG
1 TTGTGTAAG
16829553 TTGTGTAAG
1 TTGTGTAAG
16829562 TTGTGTAAG
1 TTGTGTAAG
16829571 TT
1 TT
16829573 ATTGTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (9 bp):
TTGTGTAAG
Found at i:16841987 original size:23 final size:23
Alignment explanation
Indices: 16841957--16842003 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
16841947 TTTAAGTTGG
*
16841957 TTGATTTTTTGTGGTGTTATCAT
1 TTGATTTTTTATGGTGTTATCAT
16841980 TTGATTTTTTATGGTGTTATCAT
1 TTGATTTTTTATGGTGTTATCAT
16842003 T
1 T
16842004 CAGTGTATGA
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:0.15, C:0.04, G:0.19, T:0.62
Consensus pattern (23 bp):
TTGATTTTTTATGGTGTTATCAT
Found at i:16843770 original size:50 final size:50
Alignment explanation
Indices: 16843695--16843812 Score: 209
Period size: 50 Copynumber: 2.4 Consensus size: 50
16843685 GGTAAAGATA
*
16843695 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
16843745 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
**
16843795 TCCCCCGTAAGACCATGT
1 TCCCATGTAAGACCATGT
16843813 TTGGAGAATT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:16847205 original size:36 final size:36
Alignment explanation
Indices: 16847134--16847207 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
16847124 GGACGAGTGC
*
16847134 ATCAGTCAAAATAGATCCAAAAGGCTATTGAACTGA
1 ATCAGTCAAAATAGATCCAAAAGGCTACTGAACTGA
* ** * *
16847170 ATCAGTCAGAATAGATCTGAAAGGCTGCTGGACTGA
1 ATCAGTCAAAATAGATCCAAAAGGCTACTGAACTGA
16847206 AT
1 AT
16847208 AGAGTTTACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (36 bp):
ATCAGTCAAAATAGATCCAAAAGGCTACTGAACTGA
Found at i:16853914 original size:498 final size:497
Alignment explanation
Indices: 16852962--16854281 Score: 2183
Period size: 498 Copynumber: 2.7 Consensus size: 497
16852952 GGATATGATG
* * * * *
16852962 AAATTTACGCGTAACCAACAATAGGCTTATTGGAAATATGTGGAGATTAGCGATAATTCTGTAAG
1 AAATTTATGCATAACCAACAATAGGCTTATTGGAAATATGCGAAGATTAGAGATAATTCTGTAAG
* *
16853027 AAATACTTTTCAAAATATCTTTAACAATTTTGTTCCTGAGTTCCCAGATTATGTCTTCAAGTCAT
66 AAATACTTTTAAAAATATCTTTAACAATTTTGTTCCTGAGTTCCCAGATTATGTCTTCGAGTCAT
*
16853092 GGAAGAAAGATGAGAATACAAGCGAGGATGAAACATCAAAGGAGGAAGACAAGGAGGATAAGTCA
131 GGAAGAAAGATGAGAATACAAGCGAGGATGAAACATCAAAGGAGGAAGACGAGGAGGATAAGTCA
* * * *
16853157 AATAAATAAAATGGGGAAATTTCCTATCTTTAGTTTTTATTTATTTTTAGGTGTTTATTTTTATT
196 AATAAATAAAATGGGGGAATTTCTTGTCTTTAGTTTTTATTTCTTTTTAGGTGTTTATTTTTATT
16853222 TCCTAGTTAGAATTTTTTTTCGCATAATAAAATAGCAAGCATGAATAAATAAGCTCAATGCCTCT
261 TCCTAGTTAGAA-TTTTTTTCGCATAATAAAATAGCAAGCATGAATAAATAAGCTCAATGCCTCT
*
16853287 TCAATAGAAAAAATACAGTGATGTGGTAATGGGAATGAACATGTCTAGGATTGGATTGTTGAGAA
325 TCAATAGAAAAAATAAAGTGATGTGGTAATGGGAATGAACATGTCTAGGATTGGATTGTTGAGAA
* * * * * *
16853352 AGACTTGGTACTTAAGCTGTTTTTATGACTCTCCTCTCTTTTCTTGCAACCTTACCTTGTGTTTA
390 AGACTTGGTACTTAAGCAGTTTTTATGACTCACCTCTCTTTTCTTGAAACCCTACATGGTGTTTA
**
16853417 ATTTTCATTCATTACTTTGTTTTCGCAATGAGGACATATTAAT
455 ATTTTCATTCATTACTTCATTTTCGCAATGAGGACATATTAAT
*
16853460 AAATTTATGCATAACCAACAATAGGCTTATTGGAAATATGCGAAGGTTAGAGATAATTCTGTAAG
1 AAATTTATGCATAACCAACAATAGGCTTATTGGAAATATGCGAAGATTAGAGATAATTCTGTAAG
* *
16853525 AAATACTTTTAAAAATATCCTTAACAATTTTATTCCTGAGTTCCCAGATTATGTCTTCGAGTCAT
66 AAATACTTTTAAAAATATCTTTAACAATTTTGTTCCTGAGTTCCCAGATTATGTCTTCGAGTCAT
* * * * *
16853590 GGAAGAAAGATAAAAATACAAGCGAGGATGAAACGTCAAAGGAGGAAGATGAGGATGATAAGTCA
131 GGAAGAAAGATGAGAATACAAGCGAGGATGAAACATCAAAGGAGGAAGACGAGGAGGATAAGTCA
16853655 AATAAATAAAATGGGGGAATTTCTTGTCTTTAGTTTTTATTTCTTTTTAGGTGTTTATTTTTATT
196 AATAAATAAAATGGGGGAATTTCTTGTCTTTAGTTTTTATTTCTTTTTAGGTGTTTATTTTTATT
*
16853720 TCCTAGTTAGAATTGTTTTTCGCATAATAAAATAGCAAGCATGAATAAATAAGTTCAATGCCTCT
261 TCCTAGTTAGAATT-TTTTTCGCATAATAAAATAGCAAGCATGAATAAATAAGCTCAATGCCTCT
* *
16853785 TCAATAGAAAAACTAAAGTGGTGTGGTAATGGGAATGAACATGTCTAGGATTGGATTGTTGAGAA
325 TCAATAGAAAAAATAAAGTGATGTGGTAATGGGAATGAACATGTCTAGGATTGGATTGTTGAGAA
16853850 AGACTTGGTACTTAAGCAGTTTTTATGACTCACCTCTCTTTTCTTGAAACCCTACATGGTGTTTA
390 AGACTTGGTACTTAAGCAGTTTTTATGACTCACCTCTCTTTTCTTGAAACCCTACATGGTGTTTA
*
16853915 GTTTTCATTCATTACTTCATTTTCGCAATGAGGACATATTAAT
455 ATTTTCATTCATTACTTCATTTTCGCAATGAGGACATATTAAT
* *
16853958 AAATTTATGCATAACCAACAATAGGCTTACTAGAAATATGCGAAGATTAGAGATAATTCTGTAAG
1 AAATTTATGCATAACCAACAATAGGCTTATTGGAAATATGCGAAGATTAGAGATAATTCTGTAAG
*
16854023 AAAT-CGTTTTAAAAATATCTTTAACAATTTTGTTCCTGAGTTCTCAGATTATGTCTTCGAGTCA
66 AAATAC-TTTTAAAAATATCTTTAACAATTTTGTTCCTGAGTTCCCAGATTATGTCTTCGAGTCA
* ** *
16854087 TGGAAGAAACATGAGAATACAAGAAAGGATGAAACATCAAAGGAGGAAGACGAGGAGGATAAATC
130 TGGAAGAAAGATGAGAATACAAGCGAGGATGAAACATCAAAGGAGGAAGACGAGGAGGATAAGTC
*
16854152 AAATAGATAAAATGGGGGAATTTCTTGTCTTTAGTTTTTATTTCTTTTTAGGTGTTTATTTTTAT
195 AAATAAATAAAATGGGGGAATTTCTTGTCTTTAGTTTTTATTTCTTTTTAGGTGTTTATTTTTAT
* * * * * *
16854217 TTCTTAGTTAGAATTTTTTTTGCATAATAAAATAGAAAACATGAATAAATAAACTCAATGTCTCT
260 TTCCTAGTTAGAATTTTTTTCGCATAATAAAATAGCAAGCATGAATAAATAAGCTCAATGCCTCT
16854282 GTAACACCCC
Statistics
Matches: 764, Mismatches: 56, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
497 47 0.06
498 717 0.94
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (497 bp):
AAATTTATGCATAACCAACAATAGGCTTATTGGAAATATGCGAAGATTAGAGATAATTCTGTAAG
AAATACTTTTAAAAATATCTTTAACAATTTTGTTCCTGAGTTCCCAGATTATGTCTTCGAGTCAT
GGAAGAAAGATGAGAATACAAGCGAGGATGAAACATCAAAGGAGGAAGACGAGGAGGATAAGTCA
AATAAATAAAATGGGGGAATTTCTTGTCTTTAGTTTTTATTTCTTTTTAGGTGTTTATTTTTATT
TCCTAGTTAGAATTTTTTTCGCATAATAAAATAGCAAGCATGAATAAATAAGCTCAATGCCTCTT
CAATAGAAAAAATAAAGTGATGTGGTAATGGGAATGAACATGTCTAGGATTGGATTGTTGAGAAA
GACTTGGTACTTAAGCAGTTTTTATGACTCACCTCTCTTTTCTTGAAACCCTACATGGTGTTTAA
TTTTCATTCATTACTTCATTTTCGCAATGAGGACATATTAAT
Found at i:16855862 original size:50 final size:50
Alignment explanation
Indices: 16855732--16855926 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 50
16855722 GAGAATAACA
* * ** * * * *
16855732 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTTCCTGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTATTACGTGGGACCTCTCATATCAG
* * * * * ** *
16855781 TACCAATGTCATATCCCAGATATGGTATTACGTGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTATTACGTGGGACCTCTCATATCAG
* * * * *
16855831 TGCCCATGCCATGTCCCAGACATGGTGTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTATTACGTGGGACCTCTCATATCAG
*
16855881 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTATTACGTGGGACCTCTCATA
16855927 ACCTCAATAA
Statistics
Matches: 116, Mismatches: 29, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
49 36 0.31
50 80 0.69
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTATTACGTGGGACCTCTCATATCAG
Found at i:16864363 original size:6 final size:6
Alignment explanation
Indices: 16864348--16864397 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
16864338 TTGGATTTGG
* * *
16864348 TTCTTGT TTCTTT TTCTTT TTCTTT TTCTTT TTATTT TTATTT TTATTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT
16864397 T
1 T
16864398 CGTATTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:16864424 original size:16 final size:15
Alignment explanation
Indices: 16864376--16864424 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
16864366 TTTCTTTTTC
16864376 TTTTTATTTT--TA-
1 TTTTTATTTTCGTAT
16864388 TTTTTATTTTCGTAT
1 TTTTTATTTTCGTAT
*
16864403 TCTTTTATTTTTGTAT
1 T-TTTTATTTTCGTAT
16864419 GTTTTT
1 -TTTTT
16864425 TTCTTGTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 10 0.32
14 2 0.06
15 1 0.03
16 17 0.55
17 1 0.03
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (15 bp):
TTTTTATTTTCGTAT
Found at i:16864861 original size:298 final size:296
Alignment explanation
Indices: 16864361--16864919 Score: 881
Period size: 298 Copynumber: 1.9 Consensus size: 296
16864351 TTGTTTCTTT
*
16864361 TTCTTTTTCTTTTTCTTTTTATTTTTATTTTTATTTTCGTATTCTTTTATTTTTGTATGTTTTTT
1 TTCTTTTTCTTTTTCTTTTTATTTTTATTTTTATTTTCATATTCTTTTATTTTTGTATGTTTTTT
* * *
16864426 TCTTGTCTATGTAGGTCACCCACTCAAGGATTGTACTATACTTTCGAGCTTTAACAGAGAGGAGG
66 TCTTGTCTATGTAGGCCACCCACTCAAGGATTGTACTACACTTTCGAGCTTTAACAAAGAGGAGG
** * *
16864491 ACTACTTCAATCTACCTCATGTTGCTTCAAGAAAAATGGGGGAGTTTGAAACTTTTAGCTTTACA
131 ACTACTAAAATCTACCTCATGTTGCTGCAAGAAAAATGGGGGAGTTTGAAACTCTTAGCTTTACA
* * * *
16864556 TTGGGAGCACATTAGGGACAATTGATTTGTCGTATTTCTATACGTCAAATTAAGTTCTTTTGATA
196 TTGGGAGCACACTAGGGAAAATTGATCTGTCGTATTTCTATACGTCAAAATAAGTTCTTTTGATA
16864621 CTTAACTGAAAGATACTATGATTATTTTGGATTTGG
261 CTTAACTGAAAGATACTATGATTATTTTGGATTTGG
* *
16864657 TTCTTCTTTCTTTTTC-TTTTATTTTTATTTATTATTTTCATATGT-TTTTATTTTTTTGTGTTT
1 TTCTT-TTTCTTTTTCTTTTTATTTTTATTT-TTATTTTCATAT-TCTTTTATTTTTGTATGTTT
* * *
16864720 GTTTTCTTTTCTATGTAGGCCACCCATTCAAGGATTGTACTACACTTTCGAGCTTTAATAAAGAG
63 -TTTTCTTGTCTATGTAGGCCACCCACTCAAGGATTGTACTACACTTTCGAGCTTTAACAAAGAG
*
16864785 GAGGACTACTAAAATCTACCTCGTGTTGCTGCAAGAAAAATGGGGGAGTTCT-AAACTCTTAGCT
127 GAGGACTACTAAAATCTACCTCATGTTGCTGCAAGAAAAATGGGGGAGTT-TGAAACTCTTAGCT
*
16864849 TTACATTGGGAGCACACTGGGGAAAATTGATCTGTCGTATTTCTATACGTCAAAATAAGTTCTTT
191 TTACATTGGGAGCACACTAGGGAAAATTGATCTGTCGTATTTCTATACGTCAAAATAAGTTCTTT
16864914 TGATAC
256 TGATAC
16864920 CTAAAGAGCT
Statistics
Matches: 239, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
296 19 0.08
297 37 0.15
298 182 0.76
299 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (296 bp):
TTCTTTTTCTTTTTCTTTTTATTTTTATTTTTATTTTCATATTCTTTTATTTTTGTATGTTTTTT
TCTTGTCTATGTAGGCCACCCACTCAAGGATTGTACTACACTTTCGAGCTTTAACAAAGAGGAGG
ACTACTAAAATCTACCTCATGTTGCTGCAAGAAAAATGGGGGAGTTTGAAACTCTTAGCTTTACA
TTGGGAGCACACTAGGGAAAATTGATCTGTCGTATTTCTATACGTCAAAATAAGTTCTTTTGATA
CTTAACTGAAAGATACTATGATTATTTTGGATTTGG
Found at i:16866612 original size:12 final size:12
Alignment explanation
Indices: 16866597--16866622 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16866587 TTAAACCTTT
16866597 CTTTAAGTTTTA
1 CTTTAAGTTTTA
16866609 CTTTAAGTTTTA
1 CTTTAAGTTTTA
16866621 CT
1 CT
16866623 ACATAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (12 bp):
CTTTAAGTTTTA
Found at i:16874607 original size:35 final size:36
Alignment explanation
Indices: 16874568--16874636 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
16874558 TTAAATATAA
16874568 TTTAACAAAATTAATAATAAAT-AATTTAATAATAT
1 TTTAACAAAATTAATAATAAATAAATTTAATAATAT
* * *
16874603 TTTAACATAATTATTATTAAATAAAATTTAATAA
1 TTTAACAAAATTAATAATAAAT-AAATTTAATAA
16874637 AATAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 19 0.66
37 10 0.34
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (36 bp):
TTTAACAAAATTAATAATAAATAAATTTAATAATAT
Found at i:16874655 original size:15 final size:15
Alignment explanation
Indices: 16874576--16874656 Score: 55
Period size: 15 Copynumber: 5.7 Consensus size: 15
16874566 AATTTAACAA
*
16874576 AATT-AATAATAAAT
1 AATTAAATAATATAT
*
16874590 AATTTAATAATAT-T
1 AATTAAATAATATAT
16874604 --TTAACATAAT-TAT
1 AATTAA-ATAATATAT
* * *
16874617 TATTAAATAAAATTT
1 AATTAAATAATATAT
*
16874632 AATAAAATAATATAT
1 AATTAAATAATATAT
*
16874647 AATTTAATAA
1 AATTAAATAA
16874657 CATCTTAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
12 4 0.08
13 6 0.12
14 9 0.18
15 32 0.63
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAAATAATATAT
Found at i:16874673 original size:57 final size:60
Alignment explanation
Indices: 16874548--16874675 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 60
16874538 TAGGTAGATG
* * * *
16874548 ATTATTATTATTAAATATAATTTAACAAAATTAATAATAAATAATTTAATAATATTTTAAC
1 ATTATTATTATTAAATAAAATTTAACAAAATTAATAAT-AATAATTTAATAACATCTTAAA
* *
16874609 ATAATTATTATTAAATAAAATTTAATAAAA-TAAT-AT-ATAATTTAATAACATCTTAAA
1 ATTATTATTATTAAATAAAATTTAACAAAATTAATAATAATAATTTAATAACATCTTAAA
16874666 ATTATTATTA
1 ATTATTATTA
16874676 AAATATGAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
57 27 0.45
59 2 0.03
60 4 0.07
61 27 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (60 bp):
ATTATTATTATTAAATAAAATTTAACAAAATTAATAATAATAATTTAATAACATCTTAAA
Found at i:16874704 original size:57 final size:57
Alignment explanation
Indices: 16874551--16874677 Score: 161
Period size: 61 Copynumber: 2.2 Consensus size: 57
16874541 GTAGATGATT
* * * *
16874551 ATTATTATTAAATATAATTTAACAAAATTAATAATAAATAATTTAATAATATTTTAACATA
1 ATTATTATTAAATAAAATTTAATAAAA-TAAT-AT--ATAATTTAATAACATCTTAACATA
16874612 ATTATTATTAAATAAAATTTAATAAAATAATATATAATTTAATAACATCTT-A-A-A
1 ATTATTATTAAATAAAATTTAATAAAATAATATATAATTTAATAACATCTTAACATA
16874666 ATTATTATTAAA
1 ATTATTATTAAA
16874678 ATATGAATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
54 13 0.21
55 1 0.02
56 1 0.02
57 16 0.26
59 2 0.03
60 4 0.06
61 25 0.40
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
ATTATTATTAAATAAAATTTAATAAAATAATATATAATTTAATAACATCTTAACATA
Found at i:16874705 original size:24 final size:23
Alignment explanation
Indices: 16874678--16874727 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
16874668 TATTATTAAA
*
16874678 ATATGAAT-TAATAAAAATCATGAT
1 ATAT-AATATAATAAAAATAAT-AT
*
16874702 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
16874725 ATA
1 ATA
16874728 ACTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:16880718 original size:18 final size:19
Alignment explanation
Indices: 16880695--16880731 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
16880685 TTTCTTAAGC
16880695 AATAAAAATAATA-ATTAA
1 AATAAAAATAATATATTAA
16880713 AATAAAAATAATATATTAA
1 AATAAAAATAATATATTAA
16880732 GTAAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAAAAATAATATATTAA
Found at i:16887094 original size:35 final size:35
Alignment explanation
Indices: 16886962--16887097 Score: 121
Period size: 35 Copynumber: 3.9 Consensus size: 35
16886952 AACACACTAG
* * * * * *
16886962 ATGCTCATAAGATCCAATCCATC-CAGACACACCA
1 ATGCTCGTAAGAGCTAATCCATCTGAAACACATCA
* * * *
16886996 ATGCTCGTAAGAGGTAATCCCTCTTAAGCACATCA
1 ATGCTCGTAAGAGCTAATCCATCTGAAACACATCA
* * *
16887031 ATGCTCATAAGAGCTAATCCTTCCGAAACACATCA
1 ATGCTCGTAAGAGCTAATCCATCTGAAACACATCA
* * *
16887066 GTGCTCGTAAGAGCTAGTCCAACTGAAACACA
1 ATGCTCGTAAGAGCTAATCCATCTGAAACACA
16887098 CCAAAACATC
Statistics
Matches: 80, Mismatches: 21, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
34 18 0.22
35 62 0.77
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (35 bp):
ATGCTCGTAAGAGCTAATCCATCTGAAACACATCA
Found at i:16901363 original size:25 final size:25
Alignment explanation
Indices: 16901325--16901386 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
16901315 TCCTTTACAT
*
16901325 GTATGCTCATACGAGCTATGAATCA
1 GTATGCTCATACGAGCTATAAATCA
*
16901350 GTATGCT-ATCACGAGCTGTAAATCA
1 GTATGCTCAT-ACGAGCTATAAATCA
* *
16901375 GTAAGCTTATAC
1 GTATGCTCATAC
16901387 AAACTGCACC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.06
25 28 0.88
26 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCA
Found at i:16913859 original size:24 final size:25
Alignment explanation
Indices: 16913832--16913888 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
16913822 TAGCTAAGAG
* *
16913832 GAGCTTACC-ATTTACAGCTCGTAA
1 GAGCATACCGATTCACAGCTCGTAA
* *
16913856 GAGCATACCGATTCAGAGCTCGTAT
1 GAGCATACCGATTCACAGCTCGTAA
16913881 GAGCATAC
1 GAGCATAC
16913889 ATGTACATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCGTAA
Found at i:16924123 original size:3 final size:3
Alignment explanation
Indices: 16924115--16924171 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
16924105 TCCAAGGTCG
16924115 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16924163 GAT GAT GAT
1 GAT GAT GAT
16924172 AAAGAGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:16925073 original size:87 final size:86
Alignment explanation
Indices: 16924917--16925082 Score: 244
Period size: 87 Copynumber: 1.9 Consensus size: 86
16924907 AGTTTAAATT
* * *
16924917 CGGTGAATTATTCAAGTCCGTCTCAATAGGACTACCCAAATTCTAGGATATGAACTCATTAAGAT
1 CGGTGAATTATTCAAGTCCATCTCAATAGGACCACCCAAATTCTAGGATATGAACTCATTAAGAG
*
16924982 TAAGAAACTCAACCTCACATGC
66 TAAG-AACCCAACCTCACATGC
* * *
16925004 CGGTGAATTCA-TCAAGTCCATCTCAATAGGACCACCCAAATTCTGGGATATGAATTCATTAAGG
1 CGGTGAATT-ATTCAAGTCCATCTCAATAGGACCACCCAAATTCTAGGATATGAACTCATTAAGA
16925068 GTAAGAACCCAACCT
65 GTAAGAACCCAACCT
16925083 TATTCGTGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
86 9 0.13
87 61 0.86
88 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (86 bp):
CGGTGAATTATTCAAGTCCATCTCAATAGGACCACCCAAATTCTAGGATATGAACTCATTAAGAG
TAAGAACCCAACCTCACATGC
Found at i:16928363 original size:15 final size:15
Alignment explanation
Indices: 16928310--16928362 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
16928300 ACAACATATG
16928310 TTTCTTTCTCTTTTGT
1 TTTCTTT-TCTTTTGT
*
16928326 TTTGTTTTGC-TTTGT
1 TTTCTTTT-CTTTTGT
*
16928341 TTTCTTTTCTTTTCT
1 TTTCTTTTCTTTTGT
16928356 TTT-TTTT
1 TTTCTTTT
16928363 TTTATGATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 5 0.16
15 20 0.62
16 7 0.22
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (15 bp):
TTTCTTTTCTTTTGT
Found at i:16931646 original size:24 final size:24
Alignment explanation
Indices: 16931614--16931666 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
16931604 ATGTTTTCCG
16931614 TAATGGAGTTTTGTATGCTATCCC
1 TAATGGAGTTTTGTATGCTATCCC
*
16931638 TAATGGAGTTTTGTATGCTATCCG
1 TAATGGAGTTTTGTATGCTATCCC
16931662 TAATG
1 TAATG
16931667 CCCATAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (24 bp):
TAATGGAGTTTTGTATGCTATCCC
Found at i:16936753 original size:16 final size:17
Alignment explanation
Indices: 16936734--16936767 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16936724 AAATACTATG
16936734 AAATAAAAAT-AAACAA
1 AAATAAAAATCAAACAA
*
16936750 AAATAAACATCAAACAA
1 AAATAAAAATCAAACAA
16936767 A
1 A
16936768 CGTCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAATCAAACAA
Found at i:16942271 original size:20 final size:20
Alignment explanation
Indices: 16942223--16942272 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
16942213 TATGGAATGA
* *
16942223 TTATGCAAAAACATGAATCT
1 TTATGCAACAACATGAACCT
* *
16942243 ATATGCAACGACATGAACCT
1 TTATGCAACAACATGAACCT
16942263 TTATGCAACA
1 TTATGCAACA
16942273 CTATTTAGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (20 bp):
TTATGCAACAACATGAACCT
Found at i:16957884 original size:24 final size:25
Alignment explanation
Indices: 16957829--16957890 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
16957819 TGTTATCCTT
* *
16957829 TTCA-AGCTTCCCGTTATATGGTTC
1 TTCAGAGCTTCCCGTTATATAGCTC
16957853 TTGC-GAGCTTCCCGTTA-ATAGCTC
1 TT-CAGAGCTTCCCGTTATATAGCTC
*
16957877 TTCAGAGCATCCCG
1 TTCAGAGCTTCCCG
16957891 ATTGGTTGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 1 0.03
24 18 0.56
25 13 0.41
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (25 bp):
TTCAGAGCTTCCCGTTATATAGCTC
Found at i:16957991 original size:26 final size:26
Alignment explanation
Indices: 16957953--16958010 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
16957943 CCCGATATAT
16957953 GGCTCTTCATGAGCTTCCTGATTAAA
1 GGCTCTTCATGAGCTTCCTGATTAAA
** * *
16957979 GGCTCTTTGTGAGCTTCCTGCTTAAT
1 GGCTCTTCATGAGCTTCCTGATTAAA
16958005 GGCTCT
1 GGCTCT
16958011 CCGGAGCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTGATTAAA
Found at i:16958031 original size:25 final size:25
Alignment explanation
Indices: 16957963--16958073 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
16957953 GGCTCTTCAT
* * **
16957963 GAGCTTCCTGATTAAAGGCTCTTTG
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
16957988 TGAGCTTCCTGCTTAATGGCTCTCCG
1 -GAGCTTCCCGATTAATGGCTCTCCG
*
16958014 GAGCTTCCCGA-TATATGGCTATCCG
1 GAGCTTCCCGATTA-ATGGCTCTCCG
* * * *
16958039 GAGTTTCCTGATTAATGTCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTCCG
*
16958064 GAGCTACCCG
1 GAGCTTCCCG
16958074 TTATTGACTT
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
24 2 0.03
25 43 0.63
26 23 0.34
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCCG
Found at i:16962017 original size:17 final size:17
Alignment explanation
Indices: 16961990--16962031 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
16961980 TTAATATGAC
*
16961990 TATATAAAAAATTTAATAA
1 TATA-AAAAAATATAA-AA
16962009 -ATAAAAAAATATAAAA
1 TATAAAAAAATATAAAA
16962025 TATAAAA
1 TATAAAA
16962032 TTATTAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAAAAAAATATAAAA
Found at i:16978066 original size:18 final size:18
Alignment explanation
Indices: 16978043--16978078 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16978033 TTACCCTTTG
*
16978043 CTTAAAAATAAAATCTAA
1 CTTAAAAATAAAACCTAA
*
16978061 CTTAAAAGTAAAACCTAA
1 CTTAAAAATAAAACCTAA
16978079 TTTTATCTCT
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:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (18 bp):
CTTAAAAATAAAACCTAA
Found at i:16978493 original size:71 final size:71
Alignment explanation
Indices: 16978403--16978545 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
16978393 TTTTACAGCT
**
16978403 TCGCTAATTATTCGGTTAGAATATTTTAAATAATATACATTTTATATTTATATTATGCTATTTTG
1 TCGCTAATTATTCCATTAGAATATTTTAAATAATATACATTTTATATTTATATTATGCTATTTTG
16978468 ATTTCA
66 ATTTCA
*
16978474 TCGCTAATTATTCCATTAGAATTTTTTAAATAATATACATTTTATATTTATATTATGCTATTTTG
1 TCGCTAATTATTCCATTAGAATATTTTAAATAATATACATTTTATATTTATATTATGCTATTTTG
16978539 ATTTCA
66 ATTTCA
16978545 T
1 T
16978546 ATTATAATTA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (71 bp):
TCGCTAATTATTCCATTAGAATATTTTAAATAATATACATTTTATATTTATATTATGCTATTTTG
ATTTCA
Found at i:16979104 original size:20 final size:20
Alignment explanation
Indices: 16979054--16979105 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
16979044 AGTAGCCATG
*
16979054 TGACTAAAAACATGCTGTAA
1 TGACTAAAAACATGCTATAA
16979074 TGAACCTAAAAACATGCTATAA
1 TG-A-CTAAAAACATGCTATAA
16979096 TGACTAAAAA
1 TGACTAAAAA
16979106 TATGAAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 2 0.07
22 18 0.62
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (20 bp):
TGACTAAAAACATGCTATAA
Found at i:16980079 original size:11 final size:12
Alignment explanation
Indices: 16980056--16980085 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
16980046 AAGTAAATAG
16980056 ATATTATATAAA
1 ATATTATATAAA
16980068 ATATTA-ATAAA
1 ATATTATATAAA
16980079 ATATTAT
1 ATATTAT
16980086 TTTTATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATTATATAAA
Found at i:16982367 original size:31 final size:31
Alignment explanation
Indices: 16982329--16982421 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
16982319 AAGCAAATTA
16982329 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
16982360 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
16982391 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
16982422 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:16988030 original size:43 final size:43
Alignment explanation
Indices: 16987963--16988077 Score: 194
Period size: 44 Copynumber: 2.7 Consensus size: 43
16987953 TAGGCAACTT
16987963 TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAAC
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAAC
**
16988006 TCTTTTTTTGCGCTGTTTGCTTTTTTTTTTAGATTTTTCTCAAC
1 T-TTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAAC
*
16988050 TTTTTTTTGCGCTTTTTGCTTTTTTTTA
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTA
16988078 TTAACTAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 26 0.39
44 41 0.61
ACGTcount: A:0.10, C:0.14, G:0.11, T:0.65
Consensus pattern (43 bp):
TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAAC
Found at i:16988651 original size:32 final size:31
Alignment explanation
Indices: 16988589--16988682 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
16988579 AGGAAAATTA
16988589 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
16988620 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
16988652 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
16988683 AAAATTATCT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.50
32 31 0.50
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:17007014 original size:9 final size:9
Alignment explanation
Indices: 17007000--17007029 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
17006990 TGTTTAAAAC
17007000 AATAAAGAA
1 AATAAAGAA
17007009 AATAAAGAA
1 AATAAAGAA
17007018 AATAAAGGAA
1 AATAAA-GAA
17007028 AA
1 AA
17007030 AAAATATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (9 bp):
AATAAAGAA
Found at i:17013599 original size:22 final size:24
Alignment explanation
Indices: 17013574--17013618 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
17013564 AAAGCAGGAA
*
17013574 GCTTGAATCAACA-AT-CTTATTT
1 GCTTCAATCAACACATACTTATTT
*
17013596 GCTTCCATCAACACATACTTATT
1 GCTTCAATCAACACATACTTATT
17013619 AACTTATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (24 bp):
GCTTCAATCAACACATACTTATTT
Found at i:17016092 original size:16 final size:18
Alignment explanation
Indices: 17016066--17016099 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17016056 TTAAGATCGG
17016066 GTTGAGAAAATT-ATTTA
1 GTTGAGAAAATTAATTTA
17016083 GTTG-GAAAATTAATTTA
1 GTTGAGAAAATTAATTTA
17016100 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (18 bp):
GTTGAGAAAATTAATTTA
Found at i:17027637 original size:140 final size:140
Alignment explanation
Indices: 17027385--17027666 Score: 555
Period size: 140 Copynumber: 2.0 Consensus size: 140
17027375 CCCGTGACAG
17027385 TGCCCATGTAACTCACTGACTTGGGTCACACAGCCAAGCCACATGCCCGTTTGCCAGGCCGTGTA
1 TGCCCATGTAACTCACTGACTTGGGTCACACAGCCAAGCCACATGCCCGTTTGCCAGGCCGTGTA
*
17027450 CCCTTTGAAGTAACCCCACACGCCCATGTGCCAGGTCGTGTGCTAGTCCGTGTAACAGCCTGACT
66 CCCTTTGAAGTAACCCCACACGCCCATGTGCCAGGTCGTGTGCTAGTCCATGTAACAGCCTGACT
17027515 TGCAACCCTT
131 TGCAACCCTT
17027525 TGCCCATGTAACTCACTGACTTGGGTCACACAGCCAAGCCACATGCCCGTTTGCCAGGCCGTGTA
1 TGCCCATGTAACTCACTGACTTGGGTCACACAGCCAAGCCACATGCCCGTTTGCCAGGCCGTGTA
17027590 CCCTTTGAAGTAACCCCACACGCCCATGTGCCAGGTCGTGTGCTAGTCCATGTAACAGCCTGACT
66 CCCTTTGAAGTAACCCCACACGCCCATGTGCCAGGTCGTGTGCTAGTCCATGTAACAGCCTGACT
17027655 TGCAACCCTT
131 TGCAACCCTT
17027665 TG
1 TG
17027667 AAAGATACAA
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (140 bp):
TGCCCATGTAACTCACTGACTTGGGTCACACAGCCAAGCCACATGCCCGTTTGCCAGGCCGTGTA
CCCTTTGAAGTAACCCCACACGCCCATGTGCCAGGTCGTGTGCTAGTCCATGTAACAGCCTGACT
TGCAACCCTT
Found at i:17028852 original size:25 final size:24
Alignment explanation
Indices: 17028813--17028904 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 24
17028803 TCATGTATAT
* *
17028813 GTATGCTCATACGAGCTATGAATTG
1 GTATGCTCACACGAGCTAT-AATCG
* *
17028838 GTATGCTCACTCGAGCTGTAGATCG
1 GTATGCTCACACGAGCTATA-ATCG
* *
17028863 GTATGCTCTCACGAGCTATAAATCA
1 GTATGCTCACACGAGCTAT-AATCG
17028888 GTATGCTCACACGAGCT
1 GTATGCTCACACGAGCT
17028905 GTGGGTCGGA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
GTATGCTCACACGAGCTATAATCG
Found at i:17031653 original size:15 final size:16
Alignment explanation
Indices: 17031633--17031662 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17031623 TAATAACTAA
17031633 TATATAAT-TATATTT
1 TATATAATATATATTT
17031648 TATATAATATATATT
1 TATATAATATATATT
17031663 AATTGTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:17035680 original size:20 final size:20
Alignment explanation
Indices: 17035647--17035690 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
17035637 AGCTTAAACA
* *
17035647 AGCTGATTTAAGCTCAAGTG
1 AGCTGATTGAAGCTCAAATG
* *
17035667 AGCTGATTGGAGCTTAAATG
1 AGCTGATTGAAGCTCAAATG
17035687 AGCT
1 AGCT
17035691 TGCGGAGCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (20 bp):
AGCTGATTGAAGCTCAAATG
Found at i:17038606 original size:18 final size:18
Alignment explanation
Indices: 17038594--17038630 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17038584 TTTCTGATTT
17038594 TTTTCACTTTTCTTGTTC
1 TTTTCACTTTTCTTGTTC
17038612 TTTTCAC-TTTCTT-TTC
1 TTTTCACTTTTCTTGTTC
17038628 TTT
1 TTT
17038631 CTTTTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTCACTTTTCTTGTTC
Found at i:17038645 original size:41 final size:40
Alignment explanation
Indices: 17038566--17038655 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 40
17038556 TCGGTTCTAA
17038566 TGTTCTTTTCACTTTCTTTTTCTGATTTTTTTCACTTTTCT
1 TGTTCTTTTCACTTTCTTTTTCT-ATTTTTTTCACTTTTCT
17038607 TGTTCTTTTCACTTTC-TTTTCT-TTCTTTTTCATTCTTTTCT
1 TGTTCTTTTCACTTTCTTTTTCTATT-TTTTTCA--CTTTTCT
*
17038648 TTTTCTTT
1 TGTTCTTT
17038656 CATTTGAGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
38 2 0.04
39 7 0.16
40 6 0.13
41 30 0.67
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.71
Consensus pattern (40 bp):
TGTTCTTTTCACTTTCTTTTTCTATTTTTTTCACTTTTCT
Found at i:17038656 original size:19 final size:19
Alignment explanation
Indices: 17038600--17038659 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 19
17038590 ATTTTTTTCA
*
17038600 CTTTTCTTGTTCTTTTCACTTT
1 CTTTTCTTTTTC-TTTCA--TT
17038622 CTTTTCTTTCTT-TTTCATT
1 CTTTTCTTT-TTCTTTCATT
17038641 CTTTTCTTTTTCTTTCATT
1 CTTTTCTTTTTCTTTCATT
17038660 TGAGTTACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 2 0.06
19 18 0.51
21 5 0.14
22 8 0.23
23 2 0.06
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.72
Consensus pattern (19 bp):
CTTTTCTTTTTCTTTCATT
Found at i:17055176 original size:25 final size:25
Alignment explanation
Indices: 17055110--17055166 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
17055100 TTATGGATAC
* * * *
17055110 TCAGCTCATATGAGCGTACCGTTAT
1 TCAGCTCAAAAGAGCTTACCATTAT
17055135 TCAGCTCAAAAGAGCTTACCATTAT
1 TCAGCTCAAAAGAGCTTACCATTAT
17055160 TCAGCTC
1 TCAGCTC
17055167 GGAGGAGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (25 bp):
TCAGCTCAAAAGAGCTTACCATTAT
Found at i:17072216 original size:13 final size:13
Alignment explanation
Indices: 17072198--17072224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17072188 GCTTGACAAG
17072198 GACACACCCGTGT
1 GACACACCCGTGT
17072211 GACACACCCGTGT
1 GACACACCCGTGT
17072224 G
1 G
17072225 CGATTGCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACACCCGTGT
Found at i:17075957 original size:25 final size:25
Alignment explanation
Indices: 17075880--17075983 Score: 104
Period size: 25 Copynumber: 4.2 Consensus size: 25
17075870 GTTATTAGGG
* *
17075880 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGATACTCAGCTCATATGAGC
* * * *
17075904 TTACCGATACTCATCTCGTATAAGA
1 TTACCGATACTCAGCTCATATGAGC
17075929 TTACCGATACTCAGCTCATATGAGC
1 TTACCGATACTCAGCTCATATGAGC
* * *
17075954 TTACC-ATTATTCAGCTCAGAGGAGC
1 TTACCGA-TACTCAGCTCATATGAGC
17075979 TTACC
1 TTACC
17075984 ATTATGCAGC
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 9 0.14
25 57 0.86
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (25 bp):
TTACCGATACTCAGCTCATATGAGC
Found at i:17075984 original size:25 final size:25
Alignment explanation
Indices: 17075939--17076006 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
17075929 TTACCGATAC
* *
17075939 TCAGCTCATATGAGCTTACCATTAT
1 TCAGCTCAGAGGAGCTTACCATTAT
17075964 TCAGCTCAGAGGAGCTTACCATTAT
1 TCAGCTCAGAGGAGCTTACCATTAT
* *
17075989 GCAGCTCGGAGGAGCTTA
1 TCAGCTCAGAGGAGCTTA
17076007 TCGTTTACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
TCAGCTCAGAGGAGCTTACCATTAT
Found at i:17080683 original size:49 final size:50
Alignment explanation
Indices: 17080571--17080755 Score: 175
Period size: 49 Copynumber: 3.8 Consensus size: 50
17080561 TGTTAATAAC
* * * *
17080571 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGT--TTTCTG
1 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATC-G
* * * * *
17080618 TACTACCAATGTCATATCCCTGATATGGTCTTACATGGGAGCTCTCATATCG
1 -A-TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * *
17080670 GTGCC-ATGCCATATCCCAAACATGGTCTTACAGGGGACCTCTCATCTCG
1 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCG
*
17080719 ATGCCAATGCCATGTCCCAGACATGGT-TTACATGGGA
1 ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGA
17080756 TCTCATCCCC
Statistics
Matches: 110, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 81 0.74
50 22 0.20
51 2 0.02
52 1 0.01
53 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:17085929 original size:45 final size:45
Alignment explanation
Indices: 17085863--17086084 Score: 277
Period size: 45 Copynumber: 5.0 Consensus size: 45
17085853 TACGTGTACT
17085863 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * *
17085908 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCACT
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * * *
17085953 GGGTACCATTGATTATAAAGGTGGTTTCTATGTGCTGACTCCACC
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
** ** * * *
17085998 GAAAATCATTGAAAATAAAGGTGGTTGCTATATGTTGATTCCACT
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* * *
17086043 GAATATAATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCAC
1 GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
17086085 TGTGTAACGG
Statistics
Matches: 151, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 5 0.03
44 11 0.07
45 135 0.89
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (45 bp):
GAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:17086022 original size:90 final size:89
Alignment explanation
Indices: 17085860--17086084 Score: 317
Period size: 90 Copynumber: 2.5 Consensus size: 89
17085850 TACTACGTGT
*** **
17085860 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTATCATTGATTATA
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGA-TCCACCGAAAATCATTGAAAATA
*
17085925 AAGGTGGTTGCTATGTGTTGATTCC
65 AAGGTGGTTGCTATATGTTGATTCC
* * *
17085950 ACTGGGTACCATTGATTATAAAGGTGGTTTCTATGTGCTGACTCCACCGAAAATCATTGAAAATA
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGA-TCCACCGAAAATCATTGAAAATA
17086015 AAGGTGGTTGCTATATGTTGATTCC
65 AAGGTGGTTGCTATATGTTGATTCC
* * *
17086040 ACTGAATATAATTGATTATAAGGGTGG-TGCTATGTGCTGATCCAC
1 ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATCCAC
17086085 TGTGTAACGG
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 5 0.04
89 12 0.10
90 102 0.86
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (89 bp):
ACTGAGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATCCACCGAAAATCATTGAAAATAA
AGGTGGTTGCTATATGTTGATTCC
Found at i:17092120 original size:27 final size:26
Alignment explanation
Indices: 17092036--17092122 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
17092026 ACTATCCCAG
*
17092036 CGGACTA-CCCTTGTTTAACGTCCTAT
1 CGGACTATCCC-TGTTTAATGTCCTAT
*
17092062 CAGACTATCCCTAGTTTAATGT-CTCAT
1 CGGACTATCCCT-GTTTAATGTCCT-AT
17092089 CGGACTATCCCGTGTTTAATGTCCTAT
1 CGGACTATCCC-TGTTTAATGTCCTAT
*
17092116 TGGACTA
1 CGGACTA
17092123 ACTATGATGC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.17
27 40 0.77
28 3 0.06
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (26 bp):
CGGACTATCCCTGTTTAATGTCCTAT
Found at i:17096921 original size:6 final size:6
Alignment explanation
Indices: 17096910--17096937 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
17096900 ATTATATGTA
17096910 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
17096938 TATATAGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:17097422 original size:16 final size:16
Alignment explanation
Indices: 17097397--17097445 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
17097387 CTTTTCTTTC
17097397 ATAA-ATTATTTTTTA
1 ATAATATTATTTTTTA
17097412 ATAATATTATTATTTTAA
1 ATAATATTATT-TTTT-A
* *
17097430 AAAATATTAATTTTTA
1 ATAATATTATTTTTTA
17097446 GAGTGGTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 4 0.14
16 7 0.24
17 8 0.28
18 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATATTATTTTTTA
Found at i:17102745 original size:19 final size:19
Alignment explanation
Indices: 17102721--17102759 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
17102711 TATCATCTCC
*
17102721 ATAATGACTGTATTGGCAA
1 ATAATGACTGTATAGGCAA
17102740 ATAATGACTGTATAGGCAA
1 ATAATGACTGTATAGGCAA
17102759 A
1 A
17102760 ATGTTGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (19 bp):
ATAATGACTGTATAGGCAA
Done.